The mite hunting a dinosaur that could not catch a dog: Interview with Brian Switek

Laelaps was a dog in Greek mythology that always caught its prey and was turned into stone (by Zeus himself!) while hunting the Teumessian fox that could never be caught. Lealaps is also a defunct name for a carnivorous dinosaur. Laelaps is also a mite that parasitizes rats. And Laelaps is the name of a fascinating blog, written by Brian Switek. You can think deep thoughts about the meaning of his blog’s name later. At the Science Blogging Conference three weeks ago, Brian participated on the Student blogging panel–from K to PhD.
Welcome to A Blog Around The Clock. Would you, please, tell my readers a little bit more about yourself? Who are you? What is your scientific background?
It’s a pleasure to be here, Bora. My name is Brian Switek and presently I’m an undergraduate student at Rutgers University. I can’t claim the moniker of “scientist” (being that I haven’t even started graduate studies yet), but in following my interests in natural history I’ve learned quite a bit more than I have in the lecture halls. Most of what I read and write about falls under the general heading of zoology or natural history, but my main interest is in vertebrate paleontology.
What do you want to do/be when you grow up?
I hope to always be a “student of nature,” and even though I’m not sure what I’ll end up studying as I continue my education, I hope to become something of a naturalist. Even though scientific studies presently require some degree of specialization, I most admire the work of researchers who have tried to make sense of seemingly disparate pieces of information in encompassing theories, and I hope to continue that tradition.
Your blog has really skyrocketed from the very recent beginnings all the way to stardom in a very short time – you have been invited to join Scienceblogs.com, you co-moderated a session at the Conference, you have an essay in the Open Laboratory 2008. What’s your secret formula for success? What do you think makes your blog so interesting? Any tips for people who are just starting their science blogs?
Brian%20Switek%20interview%20pic.jpgI’m still a bit shocked that I’m come as far as I have within the past year, and I don’t think it’s quite caught up with me yet. My perspective on blogging has generally been that I will grasp the topic I want to understand more firmly if I’m able to effectively convey what I’m learning to other people; my blog is as much a road map of my intellectual forays as it is an attempt to communicate science. Although I would be hard-pressed to call Laelaps one of the “great” science blogs out there, I think a personal touch is what makes so many good blogs unique. Anyone can summarize papers or something they’ve read, but blogs are at their best when a writer gets to share their excitement (or even frustration) over what they have learned. Scientists are very passionate people, and I think blogs reflect that aspect of a group of people often seen as boring and dispassionate. If I had any advice for people who are just starting to write, it would be to remember that what you write is intensely personal, and that’s a good thing.
What lies in the future of Brian and Laelaps (as far as you are willing to tell)?
Blogging has become something of a compulsion for me (others might call it an addiction), and I intend to keep writing as long as I am physically able to do so. When and if I get to carry out gradute-level studies I may not be able to be so prolific, but for now I have more time to write than I’m likely to have ever again and I intend to make the most of it. I have a few things in the works that I think I’ll have to keep secret for now, but I can say that Laelaps was originally born as a sort of companion project to a book that I’m still working on. About two years ago I decided that I wanted to start writing a book about evolution, but I knew that if I wanted to write such a book there was a lot I was going to have to learn. Laelaps, then, is almost a behind-the-scenes look at what I’ve been thinking about during the process, although it’s become an even more rewarding writing experiment in and of itself. I hope to have the first draft of the book finished by the time I turn 25 later this month, but whether it will ever see the light of day or not is anyone’s guess.
When and how did you discover science blogs? What are some of your favourites? Have you discovered any new cool science blogs while at the Conference?
The first science blog I had ever encountered was Pharyngula, primarily because I was looking for more information about the Discovery Institute. When I was first trying to verse myself on who creationists were and why they had such a problem with evolution in 2006 I picked up a copy of Jonathan Wells’ Icons of Evolution (one of the worst books I’ve ever had the displeasure to read). The book said that Wells belonged to the “Discovery Institute,” a seemingly innocuous sounding group, but I had a feeling there was something more to the story. I did a google search and Pharyngula (as well as The Panda’s Thumb and others) came up and I was hooked on science blogs. Presently some of my favorites include Tetrapod Zoology, Archy, Greg Laden’s blog, Pondering Pikaia, Catalogue of Organisms, and (of course) A Blog Around the Clock, but there are so many bloggers that I admire there would be scarcely space to list them all here. I didn’t meet very many bloggers whose blogs I hadn’t heard of prior to the Conference, but meeting so many other writers in person definitely gave me a greater appreciation for their writing (i.e. Thus Spake Zuska, Adventures in Ethics and Science, The Other 95%, etc.).
Is there anything that happened at the Conference – a session, something someone said or did, a new friendship – that will change the way you think about science communication, or something that you will take with you to your job, blog-reading and blog-writing?
Janet’s session on science blogging ethics was, for me, the most thought-provoking event at the conference. I left with more questions than answers, but that is definitely a good thing. Even though I generally had considered myself to adhere to the ethics followed by the science blogging community, the session definitely made me step back and ask what those ethics were, why they were in place, and what should I be considering before I hit the “publish” button.
The most influential part of the Conference, though, was the “after-hours” communication where I got to sit down and chat with so many other wonderful writers. Over the course of the year I had spent so much time reading the words of people from all over the world with extremely diverse perspectives, but getting to meet the writers in person certainly changed my perspective on who individual science bloggers are and why they spend so much time at their keyboards.
Likewise, the Conference was permeated with the tension between traditional media outlets and science blogs, the gathering serving as a wonderful forum to discuss the “growing pains” of science blogging. Jennifer Ouelette did a wonderful job addressing this topic at the close of the Conference, and I think that the coming year will reveal a growing integration between science bloggers and mainstream media (or at least, I hope it will). If anything, though, the Conference made me proud to be a science blogger, and I was overjoyed to be among so many people who experienced the same passion for writing about science.
It was so nice meeting you in person and thank you for the interview.
============================
Check out all the interviews in this series.

Harvard considers Free Access

In today’s NYTimes: At Harvard, a Proposal to Publish Free on Web:

Faculty members are scheduled to vote on a measure that would permit Harvard to distribute their scholarship online, instead of signing exclusive agreements with scholarly journals that often have tiny readerships and high subscription costs.
Although the outcome of Tuesday’s vote would apply only to Harvard’s arts and sciences faculty, the impact, given the university’s prestige, could be significant for the open-access movement, which seeks to make scientific and scholarly research available to as many people as possible at no cost.
“In place of a closed, privileged and costly system, it will help open up the world of learning to everyone who wants to learn,” said Robert Darnton, director of the university library. “It will be a first step toward freeing scholarship from the stranglehold of commercial publishers by making it freely available on our own university repository.”
Under the proposal Harvard would deposit finished papers in an open-access repository run by the library that would instantly make them available on the Internet. Authors would still retain their copyright and could publish anywhere they pleased — including at a high-priced journal, if the journal would have them.
What distinguishes this plan from current practice, said Stuart Shieber, a professor of computer science who is sponsoring the faculty motion, is that it would create an “opt-out” system: an article would be included unless the author specifically requested it not be. Mr. Shieber was the chairman of a committee set up by Harvard’s provost to investigate scholarly publishing; this proposal grew out of one of the recommendations, he said.

The Debate has a Date

Sheril and Chris have announced that the invitations to the remaining Presidential candidates for the Science Debate 2008 have been sent. The date is April 18th, 2008, just 4 days before the Pennsylvania primary (the last big primary that may decide the nominees unless something really weird happens before). The location – Franklin Institute in Philadelphia.
Read the press release, read the actual text of the invitation and check The Intersection to see how you can help make this actually happen (ignore the Ron Paul idiots in the comments there).

Happy Darwin Day

Olduvai%20George%20-%20Dariwn%20Day.jpg
Thus, from the war of nature, from famine and death, the most exalted object which we are capable of conceiving, namely, the production of the higher animals, directly follows. There is grandeur in this view of life, with its several powers, having been originally breathed into a few forms or into one; and that, whilst this planet has gone cycling on according to the fixed law of gravity, from so simple a beginning endless forms most beautiful and most wonderful have been, and are being, evolved.
– Charles R. Darwin, the closing paragraph of the Origin Of Species, 1st edition, 1859.
Support The Beagle Project
Read the Beagle Project Blog
Buy the Beagle Project swag
Celebrate the Darwin Day
Prepare ahead for the Darwin Bicentennial
Read Darwin for yourself.
..and much, much more
Image, with permission, by Carl Buell (a.k.a.Olduvai George)

New and Exciting in PLoS Medicine and PLoS Biology

The Evolution of Norovirus, the ‘Gastric Flu’ and Mechanisms of GII.4 Norovirus Persistence in Human Populations:

Noroviruses are the leading cause of viral acute gastroenteritis in humans, noted for causing epidemic outbreaks in communities, the military, cruise ships, hospitals, and assisted living communities. The evolutionary mechanisms governing the persistence and emergence of new norovirus strains in human populations are unknown. Primarily organized by sequence homology into two major human genogroups defined by multiple genoclusters, the majority of norovirus outbreaks are caused by viruses from the GII.4 genocluster, which was first recognized as the major epidemic strain in the mid-1990s. Previous studies by our laboratory and others indicate that some noroviruses readily infect individuals who carry a gene encoding a functional alpha-1,2-fucosyltransferase (FUT2) and are designated “secretor-positive” to indicate that they express ABH histo-blood group antigens (HBGAs), a highly heterogeneous group of related carbohydrates on mucosal surfaces. Individuals with defects in the FUT2 gene are termed secretor-negative, do not express the appropriate HBGA necessary for docking, and are resistant to Norwalk infection. These data argue that FUT2 and other genes encoding enzymes that regulate processing of the HBGA carbohydrates function as susceptibility alleles. However, secretor-negative individuals can be infected with other norovirus strains, and reinfection with the GII.4 strains is common in human populations. In this article, we analyze molecular mechanisms governing GII.4 epidemiology, susceptibility, and persistence in human populations.

Can Farmed and Wild Salmon Coexist? and A Global Assessment of Salmon Aquaculture Impacts on Wild Salmonids:

The impact of salmon farming on wild salmon and trout is a hotly debated issue in all countries where salmon farms and wild salmon coexist. Studies have clearly shown that escaped farm salmon breed with wild populations to the detriment of the wild stocks, and that diseases and parasites are passed from farm to wild salmon. An understanding of the importance of these impacts at the population level, however, has been lacking. In this study, we used existing data on salmon populations to compare survival of salmon and trout that swim past salmon farms early in their life cycle with the survival of nearby populations that are not exposed to salmon farms. We have detected a significant decline in survival of populations that are exposed to salmon farms, correlated with the increase in farmed salmon production in five regions. Combining the regional estimates statistically, we find a reduction in survival or abundance of wild populations of more than 50% per generation on average, associated with salmon farming. Many of the salmon populations we investigated are at dramatically reduced abundance, and reducing threats to them is necessary for their survival. Reducing impacts of salmon farming on wild salmon should be a high priority.

No Place for Predators?:

Time and again, advancing civilization has set people against large carnivores. On the front lines of Washington State, wildlife biologists hope that knowledge can trump fear, and ultimately lead to detente.

Seymour Benzer 1921-2007 The Man Who Took Us from Genes to Behaviour:

Seymour Benzer died suddenly in December 2007. William Harris pays tribute to Benzer’s pioneering work in solid state physics, molecular biology, and neurogenetics.

My picks from ScienceDaily

Fast Learning Bumblebees Reap Greater Nectar Rewards:

The speed with which bees learn affects their ability to collect food from flowers, according to a new study from Queen Mary, University of London. As nectar levels in flowers change from minute-to-minute, faster learning bees are more likely to keep track of which blooms are most rewarding, and thrive as a result.

Living On ‘The Red Edge’: Rare Form Of Chlorophyll Discovered In Newly Sequenced Bacterium:

Researchers at Washington University in St. Louis and Arizona State University have sequenced the genome of a rare bacterium that harvests light energy by making an even rarer form of chlorophyll, chlorophyll d. Chlorophyll d absorbs “red edge,” near infrared, long wave length light, invisible to the naked eye.

The Way A Protein Is Folded Affects The Molecular Dance Of Water:

Scientists from Bochum, Illinois, and Nevada were able to prove with terahertz (THz) spectroscopy that proteins do modify water molecules in their environment to a long range extent: The water molecules, which generally move around like disco dancers in their collective network motions behave more like in a neat minuet under protein influence.

Quality Schooling Has Little Impact On Teenage Sexual Activity; Socioeconomic Status Does:

A report shows that socio-economic situation and the local high school catchment area have a more powerful influence on reported sexual experience among 15 and 16 year olds than classroom discipline or the quality of relationships within schools.

How Did Huge Dinosaurs Find Enough Food? Did Bacteria Aid Their Digestion?:

Scientists from the University of Bonn are researching which plants giant dinosaurs could have lived off more than 100 million years ago. They want to find out how the dinosaurs were able to become as large as they did. In fact such gigantic animals should not have existed according to general rules of ecology.

Our Seed Overlord: Interview with Virginia Hughes

When you hear SciBlings mention “our Seed Overlords”, they are talking about Ginny, our new Commander-in-Chief and Royal Cat-herder. At the Science Blogging Conference three weeks ago, she herded (almost) 20 of us in Real Life to take the famous group photo.
Welcome to A Blog Around The Clock. Would you, please, tell my readers a little bit more about yourself? Who are you? What is your background? What is your Real Life job?
Ginny%20interview%20pic.jpgI’m Ginny, a 20-something NYC science writer, low-traffic blogger, and the new Community Manager at ScienceBlogs. I did neuroscience research in college, decided–after a six-month stint studying art history in Paris–that the lab life wasn’t for me, and got my Master’s in science writing. I wish astrobiology and science missions in general were higher priorities at NASA. I’m recently obsessed with home decorating. (Last night I installed bookshelves on my wall–by myself!) I grew up with two shetland sheepdogs, and miss having a dog around.
When and how did you discover science blogs? What are some of your favourites? Have you discovered any new cool science blogs while at
the Conference?

I was a web news intern at Seed Magazine, and fell in love with a few of the bloggers at ScienceBlogs.com (it probably wouldn’t be appropriate to name names here…). Luckily, anybody who strokes the sciblings’ egos enough is allowed into the clan. Since the conference, I’ve been reading The Other 95%, Inverse Square, and Confessions of a Science Librarian.
There is a rumor that you have read every post and every comment ever posted on Scienceblogs.com. Is that true? Humanely posible? I don’t even read my own posts half of the time (and it shows, I’m sure). Hmmmmm, where was I going with this question….dunno, but you can answer something impressionistic!
Bora, you know that you’re the only one who actually reads all of the blogs. (Actually, a little bird told me at the conference that you monitor more than 1,500 (!!) blogs. Are you human?) I do read almost all of the ScienceBlogs.com posts, so that I know what’s new and super in the world. I must confess, though, I usually skip over your ClockQuotes and Picks From Science Daily.
When a journalist starts writing a blog, the tone is often different than when a scientist writes one. What are the pros and cons of journalistic background when one enters the blogosphere?
I think journalists tend to do more fact-checking. That’s a plus. And they’re usually more on-topic because they’re used to the proverbial editor’s chop. But I don’t think most journalists understand that a blog post is not just a sloppier news article. It’s rare to find a blogger-journalist who keeps up with the blogosphere “conversations”–the comments, the back-and-forth linking, etc.–that make the genre truly new. John Tierney at the NYT does it well, as does ScienceBlogs’ own Carl Zimmer.
Is there anything that happened at the Conference – a session, something someone said or did or wrote – that will change the way you think about science communication, or something that you will take with you to your job, blog-reading and blog-writing?
A couple of researchers from The Beagle Project were there, and hearing about that huge, smart, creative science project made me go, “Whoa.” Yet another example of the expanding field of “alternative science careers.” I was blown away, too, by the poise and courage of the young panelists of the Student Science Blogging session. Blogging is the future, man!
It was so nice to see you again and thank you for the interview.
============================
Check out all the interviews in this series.

Darwin Quotes

Charles_Darwin.jpgNothing before had ever made me thoroughly realise, though I had read various scientific books, that science consists in grouping facts so that general laws or conclusions may be drawn from them.
– Charles R. Darwin
Support The Beagle Project
Read the Beagle Project Blog
Buy the Beagle Project swag
Celebrate Darwin Day
Prepare ahead for the Darwin Bicentennial
Read Darwin for yourself.
..and much, much more

The Island Project

As I promised the other day, I went to Carrboro Century Center this afternoon (right after meeting with Anton around the corner) to see the Island Projects designed by the Chapel Hill High School students of Rob Greenberg.
I did not see all of them – they were doing this in “shifts” throughout the afternoon and I could only stay for an hour – but I saw several of the projects and talked to a number of students (and to Rob himself). I have to say I was really, truly impressed with their work, as well as with their enthusiasm as they explained the details of their projects to me and other visitors. They really did their homework!
Their assignment was to design an island – this means inventing an island that does not really exist but is very geologically similar to the islands that truly exist in the same geographical location. They had to do the research on this – what kind of soil is there, what are the sources of water, energy, what kind of climate is there throughout the year, etc.
Then, they had to design a human habitation on the island in such a way as to leave the least intrusive environmental foot-stamp, i.e., to make the island economy as self-sustained and energy-independent as possible. Not surprisingly, most of the students picked the tropics, for two obvious reasons: lots of sunshine (so they could load their buildings with solar panels and have no expenditure on heating) and the possibility of (eco)tourism as a source of island income.
Some of the groups also had some wind-power sources, though they readily admitted this was supplemental as there is not going to be much wind on such islands except during typhoon seasons (during which they hope the wind-turbines will not get broken).
One group located their island in the Ryukyu archipelago south of Japan and nicely incorporated Buddhist and Shinto religion and martial arts into their tourist offerings, paying attention to the local culture (karate was invented there).
In order to keep the environmental stamp low, the off-season population has to bee quite small, e.g., 500-1000 people, doubling or tripling when the tourists are on the island as well. The food production was probably the most difficult obstacle for them, with only some of the islands having fertile enough soil for tilling instead of letting it just grow a forest.
I have to admit I gave several groups a “third degree”, but they handled it quite well. I would start by asking about the size of the island. The smallest I saw was only about 3 miles in diameter. The largest was about 14 miles from tip to tip of a horseshoe shape. This was my starting point for the questioning about transportation (especially for the tourists): a tiny island can be walked, but what about a bigger island? Bicycles, monorail and electrical cars/buses were the most frequent solutions they offered. But then, the next question: where does the electricity for electric buses come from? Sun and wind, mostly, as well as some garbage incineration.
Interestingly, not a single group thought of horses as a means of transportation for tourists! No pony-crazed kids in that bunch, I guess. Horses may not be good for the smallest of these islands, but for bigger ones they would be an excellent alternative. Bikes need pre-built bike-trails. Horses beat their own trails in a matter of a few months (and those trails are smart, as horses will find the most efficient ways to negotiate the landscape). Trail-ride horses need very little in terms of space and food. Most people who see horses only on TV have this idea that horses need vast expanses of space to run around and enormous quantities of food. But a horse that works several hours a day carrying tourists around (walk, occasional slow trot) prefers to sleep in a stall – protected from heat, insects, snakes, predators, and bullying by other horses. A few small paddocks can be rotated in the off-season. Such a horse also needs only some grass, hay and a handful of grain (which can be raised by using horse droppings as a fertilizer and horsepower for ploughing) – this is not a racehorse or an Olympic showjumper with huge energy requirements – trail riding takes surprisingly little effort from the horses and overfeeding them (which some people do) makes them nervous, dangerous and unhappy. And those super-modern tourists who are afraid of horses can use golf-carts, I guess, and stick to the less wild parts of the island.
I know it is impossible for the school to organize such a trip for all the students, but perhaps they can, on their own, make an appointment to visit the Smart House at Duke and get additional ideas about the ways to make buildings environmentally friendly and energy-efficient.
In any case, I was really impressed by the students and the quality of their work. They have learned a lot about the way to do research, about the Earth, and about the trade-offs one needs to deal with when designing environmentally friendly human habitats – something that, I hope, many of them will bring to their lives and careers later on. Kudos to their teacher, Rob Greenberg, for pulling this off – what a great example of science education that is really meaningful for the students’ lives.
I hope that some of their projects will be made available online as well, so other teachers around the world can use Rob’s experience and replicate this in some manner in the future.
Some pictures under the fold…

Continue reading

Obligatory Readings of the Day

Mythbusting Canadian Health Care — Part I by Sara Robinson.
Constitutional Originalism, Natural Law, and The Ninth Amendment by PhysioProf.

So, shall we see you again next year?

Of course! Anton and I met earlier today and started planning the third Science Blogging Conference. We analyzed the responses we got so far from you, in person, by e-mail, on your blogs, on the interviews and via the feedback form (if you have not done it yet, please give us your feedback here, it’s not too late) and made the first steps to make the next meeting even better.
So, watch this space! There will be news revealed, one item at a time, over the next few days and weeks. First, in a couple of days, we will announce the date and the venue for the third meeting. The other news about it (and about the Anthology) – later, be patient.

Blogrolling for Today

Dyre Portents


A natural history of Runswick Bay


Northstate Science


Ancient World Bloggers Group


Blog Interupted…


Biology (Magrin 07)


Extreme Biology

FairerScience in an Unfair World: Interview with Patricia Campbell

Patricia B. Campbell, PhD is a tireless fighter for science education and for gender equality in science. She runs the FairerScience website and the FairerScience blog. At the Science Blogging Conference three weeks ago, Pat was on the panel on Gender and Race in Science: online and offline.
Welcome to A Blog Around The Clock. Would you, please, tell my readers a little bit more about yourself? Who are you? What is your background? What is your Real Life job?
Hmmm who am I? Good question–well professionally I was a college professor of Research Measurement and Statistics at Georgia State University and I quit the day I got tenure (apparently that doesn’t happen very often). I’ve always had a goal of changing the world and for me the best way to do that seemed to be through setting up a small company doing educational research and evaluation with a focus on issues of gender and race/ethnicity. So that’s what I did and the company, Campbell-Kibler Associates, Inc is 30 years old this year. It’s named after daughter Kathryn Campbell-Kibler, who at the age of four months, sued the state of Georgia to have her birth certificate issued in a hyphenated last name (she won).
Pat%20Campbell%20interview%20pic.jpgTo have real life job of changing the world and breaking down stereotypes is incredibly fun. I’ve gotten to co-author the AAUW Report: How Schools Shortchange Girls (got some hate press on that one), be an expert witness in the Citadel sex discrimination case and work with educational researchers in Uganda and South Africa. And husband Tom Kibler and I have been the oldest, fastest straightest couple on AIDS bike rides between Boston and New York and San Francisco and Los Angeles (we broke down a lot of stereotypes on those).
What do you want(ed) to do/be when you grow up?
A feminist mathematician. Then one semester I took a topology course and a stat course at the same time and decided that being a feminist educational researcher was a much better choice.
You run the FairerScience project. Can you tell my readers what is it about, what are your goals and what are your methods?
I call it my “thank you Larry Summers” project. I wrote this when we set up the website two years ago and it still is a good description:

In earlier ages, it was believed that women could not pursue
mathematics because their heads were too small, their nervous systems
too delicate or their reasoning capacities insufficient. Such an eminent
educational theorist as Rousseau believed that women were not qualified
for research in abstract areas such as mathematics and science because
their brains were unfit. Recent comments from sources ranging from the
President of Harvard University to reporters in the Financial Times
indicate that these inaccurate, antiquated notions are still with us.
Researchers and advocates for women in science, technology, engineering
and mathematics (STEM) have not been effectively communicating their
findings in ways that allow the public including policy makers,
educators and parents to understand and evaluate these findings and,
where appropriate, make decisions based on them. FairerScience is committed to
changing that.

So we have some multimedia analysis of why it is so hard to get the media and others to get beyond the “math gene” + “biology is destiny” stuff and some ideas of ways researchers and others can help, including how to better communicate with the media. We also have some powerpoints that people are welcome to use in their own presentations.
Since the stats on gender and race/ethnicity in science change so quickly instead of constantly updating the most current statistics, we developed a tool so people could get the data themselves. That wasn’t the most popular part of the website, so I’ll be adding something on the current statistics pretty soon. Also coming soon are short user-friendly summaries of the research on topics like single sex education and science; what actually makes a difference in encouraging girls in science.
We’ve started working on ways to use women in science blogs to encourage girls in science. Some blogs like On Being a Scientist and a Woman are great ways to show girls the kinds of personal and professional lives women in science and engineering. Other blogs like Antarctic Journal show everyone how really cool science can be.
There’s lots on the FairerScience website and we try to have at least some fun with it. I would love it if folks would let me know other resources they might like.
How do you see your blog and other science blogs (both by male and female authors) as a part of the armamentarium in changing the culture of academia?
Good question and I’m not sure what the answer is. Certainly the blogesphere is reducing isolation – especially when it comes to women in science. Folks are learning the problems aren’t just about them–they are structural, pervasive and hurt men as well. The exchange of sympathy and congratulations, advice and support helps a lot. Will it grow to a critical mass with the potential to change the academic culture? Well I’ve seen a lot of change in academia in the past 30 years, but those changes don’t seem to have had much impact on the culture. Still I have hope and there is something to be said for critical mass…
When and how did you discover science blogs? What are some of your favourites? Have you discovered any new cool science blogs while at
the Conference?

You know I don’t remember, but I think I stumbled on to Cocktail Party Physics and was hooked. Thanks to the conference I’m now reading Karen Ventii’s Science to Life and, oh yes, there is this blog that I’m embarrassed to say I didn’t know about prior to the conference. It’s called A Blog Around the Clock . I like it a lot.
Some of my other favorites are:
Language Log
Rants of a Feminist Engineer
Adventures in Ethics and Science
Thus Spake Zuska
A K8, A Cat, A Mission
and
Scientiae Carnival which is a really good source of blogs on women and science
Oh, and Go Fug Yourself; that counts as a science blog doesn’t it?
Is there anything that happened at the Conference – a session, something someone said or did or wrote – that will change the way you think about science communication, or something that you will take with you to your job, blog-reading and blog-writing?
There are several things. This was my first experience with an unconference and I loved it. I’ve started making notes about what can encourage and discourage unconferencing (i.e. room set up, expectations, time keeping). I’m moderating a session at AAAS this year, Blogs, Boards, and Bonding, and am planning to make it as much of an unsession as possible.
Probably the most powerful thing that came out of the conference for me, as you and Anton know, was the reinforcement that just inviting people who haven’t been/been allowed at the table to participate isn’t enough. There needs to be active outreach, an effort to build trust, to let people know that they are welcome and they will be respected. When that is done, people respond. It happened at the Conference and made for a great conference. I’m hoping that others will pick up on that message as well. I’m doing my part to spread the idea.
It was so nice meeting you at the Conference and thank you for the interview. I hope to see you again next year.
============================
Check out all the interviews in this series.

Zoo School – perhaps you can help

If you read my blog you must be aware how enchanted I am with the ZooSchool in Asheboro, NC. Unfortunately, at the last moment something came up, so the delegation of two teachers and six students could not make it to the Conference three weeks ago. I intend to go and visit there some time soon and I hope they can make it to the Conference next year.
But in the meantime, they need something that WE can help with – some lab coats. They have placed a proposal on DonorsChoose (read it carefully to understand why they need these) and I hope you feel generous today and help them get funded. I just did.

Darwin Quotes

Charles_Darwin.jpgIgnorance more frequently begets confidence than does knowledge: it is those who know little, not those who know much, who so positively assert that this or that problem will never be solved by science.
– Charles R. Darwin
Support The Beagle Project
Read the Beagle Project Blog
Buy the Beagle Project swag
Celebrate Darwin Day
Prepare ahead for the Darwin Bicentennial
Read Darwin for yourself.
..and much, much more

My picks from ScienceDaily

Birds, Bats And Insects Hold Secrets For Aerospace Engineers:

Natural flyers like birds, bats and insects outperform man-made aircraft in aerobatics and efficiency. University of Michigan engineers are studying these animals as a step toward designing flapping-wing planes with wingspans smaller than a deck of playing cards.

Intersex Fish Linked To Population And Agriculture In Potomac River Watershed:

For several years, scientists have been working to determine why so many male smallmouth bass in the Potomac River basin have immature female egg cells in their testes – a form of intersex. They are closer to finding an answer.

Quick Feather Test Determines Sex Of Chicks:

Scientists in Germany are reporting development of test that can answer one of the most frustrating questions in the animal kingdom: Is that bird a boy or a girl? Their study is a potential boon to poultry farmers and bird breeders.

Neural Basis Of ‘Number Sense’ In Young Infants:

Behavioral experiments indicate that infants aged 4½ months or older possess an early “number sense” that allows them to detect changes in the number of objects. However, the neural basis of this ability was previously unknown.

Nurses As ‘Soft Targets’ Of Drug Company Promotion:

Nursing education fails to prepare graduates to deal with the pharmaceutical industry’s promotional tactics, and many nurses appear to accept promotional materials uncritically, according to an analysis of the nursing literature recently published.

Military Sonar Testing

Obligatory Readings of the Day: Jennifer Ouelette and Chris Clarke explain everything you need to know.

Darwin Day in the Guardian

Karen is excited this morning, reading the enormous Guardian edition full of good Darwiny goodness, chockful of articles by Dawkins and many others, as well as extracts from Darwin’s works.
The only part I find a little too narrow is The best Darwinian sites on the web which mentions only a small handfull of such sites, e.g., Darwin Online, Darwin Correspondence Project, Darwin Day Celebration, AboutDarwin.com and Darwin Today (the last one yet to launch next month). I know, I know, these are the biggest and bestest, but there are so many others that I feel are snubbed by being left out – they should at least have been linked from a sidebar or a box. How about Talk Origins, Panda’s Thumb, The Dispersal of Darwin, The Beagle Project and The Beagle Project Blog, The Friends of Charles Darwin, or hundreds of other links you can find, for instance, here?

Openness is Essential Freedom: Interview with Vedran Vucic

Vedran Vucic (voo-tcheech) is a Linux afficionado in Serbia. He and his organization have gone all around Serbia, wired up the schools, taught the teachers and students how to use Linux, taught the teachers and students how to use various online educational resources ranging from blogs to ATutor, etc. Vedran also gives technical support to about 30 Serbian bloggers whose work he also aggregates. He is now putting a lot of energy into persuading scientists, especially the young, not-yet-entrenched ones, to go online and to promote Open Access. It is an uphill battle, but he is persistent! At the Science Blogging Conference three weeks ago, Vedran led a session on Overcoming obstacles to Open Science in the developing world.
Welcome to A Blog Around The Clock. Would you, please, tell my readers a little bit more about yourself? Who are you? What is your background? What is your Real Life job?
I am working in the Linux Center. Linux Center is non-profit organization dedicated to promotion of free software in Serbia. It is very logical for us that we support free access to information and knowledge. We see open access repositories, free software, science and education blogs and open hardware, web accessibility as milestones for the development of Serbia. I am involved in a variety of ways in implementation of free software in the last 13 years in media, NGOs, culture, arts, schools, support to people with disabilities.
What do you want to do/be when you grow up?
Although I am 43, it seems to me that I will never grow up. I think that I will always have general trust in people, community, support, solidarity without frontiers. Some people think that it is childish. So, if that it is really childish I hope that I will be always a happy child.
How did you get interested in promoting everything Open: Open Source, Open Classroom, Open Science?
I really think free software, open access, open classroom, open science, web accessibility, open hardware are very important milestones for our planet. There is still too much poverty, unjust activities, violence in the world. I think that citizens themselves can contribute a lot to promote knowledge, the development, education, freedom. Phenomena as free software, open science etc. are not just scientific and technological terms. They are very powerful social, political tools too. Contemporary politicians should understand that and give up the traditional political tools such as economic conditioning, military influence, sluggish support, creation of dependent communities. Instead, they should promote horizontal diplomacy which is based on freedom of sharing, support, fostering solidarity and treating others as assets rather than as customers and/or clients.
When and how did you discover science blogs? What are some of your favourites? Have you discovered any new cool science blogs while at the Conference? Are there any science blogs in Serbia that you recommend?
I really like the idea of blogs. Actually, internet belongs to people and people should use it to communicate and share experience, knowledge, opinion. Besides many interesting personal blogs that connected many people, I think that it is enormously important that scientific community is going to be open too. Science and technology may become, if not communicative and open, an ideology of unscrupulous elites that may have detrimental effects on security, economic development, gap between countries. Thus, openness of science is not only a manner of good will, it is essential freedom exercised to foster mutual development.
I see there are more and more bloggers in Serbia, but they tend not to use the platforms common in the West (Blogspot, Typepad, WordPress) and I do not see them (even when they write in English) well integrated into European and global blogosphere. Any thoughts on why that may be the case?
Vedran%20interview%20pic.jpgI think that there are more and more wordpress, nucleus and other platforms that people tend to use. While writing this reply to you I am helping a group of NGOs to set up their portal and blog about inclusive education. We use Nucleus 🙂
There is an aggregator on http://planeta.moj-blog.org that aggregates posts from approx. 30 blogs based on wordpress and many science blogs worldwide. In two weeks there will be another aggregator of blogs that will be focused on information related with disabilities, web accessibility, human rights of people with disabilities etc.
However, I would like to see much more such projects. On the other side, Internet is not so developed in Serbia and people are not yet used to Internet and computer keyboards as usual way of communication. In some cases professors on faculties and even some departments of hospitals do not have computers at all.
Albeit, this is not excuse, it is a fact. But, we have to do more in order to overcome that fact and promote more openness. Seminars, conferences, mirror servers, mutual visits and other events may be very helpful in promoting cooperation in the field of science blogging.
You have gone around Serbia and wired schools to the Internet, installed Linux and taught teachers and students how to use it. Can you tell us a little more about that entire project?
We have visited so far tens of schools and presented to them what free software may do and how it can be used in schools. Specialized distributions such as Explora, Edubuntu, VigyaanCD, Quantian, CAE Linux, GNU/Musix, DyneBolic etc. may be very important educational tool in schools. It is not enough to teach, localize and install free software. In addition, it is very important to write proper documentation. We are finishing, these days, a manual for teachers of computer science for music schools so they can use free software and learn about sound, music, databases, web applications, openoffice, image editing, burning CDs, streaming audio. Detailed documentation will help teachers and the students too to use it properly and get really full control over their computers and operating systems.
We paid special attention to help teachers to learn more about web accessibility and using accessible learning tools so the kids with disabilities may have access to learning materials. In Serbia, many disabled kids do not complete secondary schools and just a few complete faculties [university]. Thus, we recommend ATutor as a tool to store, publish, manage educational activities since ATutor is created with accessibility guidelines in mind.
At the Conference, you led a session on The Obstacles to Open Science in the Developing World. Can you summarize here briefly, what are those obstacles? Are they primarily structural (e.g., lack of electricity, computer or Internet access) or is the social fear of openness (perhaps protection of power structure, nepotism, etc.) a bigger obstacle for the spread of Open Access Publishing, science blogs, etc.?
Obstacles are sometimes very big, but also, in many cases, big obstacles may be overcome by many small efforts. Many activities related with improvement of the educational system, health care, culture, transfer of knowledge and technologies may be done by using science and education blogs. For example, Serbia and Albania have the highest rates of infectious diseases in their populations. Many women in Serbia die because of cervical cancer which is not so hard to prevent. Thus, access to information related to health, education, teenage pregnancy, AIDS, human rights, work with people with disabilities, environment may be helpful in solving hard issues that keep people in misery, bad health, uneducated and potentially prone to destructive political movements.
I think that media can do a lot in promoting openness and that access points to scientific and educational materials may be set up. Thus, small kiosks, computer classrooms and tele-centres with access to information and knowledge may be very helpful in overcoming existing fear from openness.
Is there anything that happened at the Conference – a session, something someone said or did or wrote – that will change the way you think about science communication, or something that you will take with you to your job, blog-reading and blog-writing?
Oh, I liked the people there. It was very encouraging to me to see such a great number of scientists that are so concerned with social responsibility. The whole conference for me was that “particular session”. As I emphasized in the session that I moderated:”Blogs are not just places with scientific information. They do have mobilizing effect and they are very important social phenomena”.
It was great and inspiring to be part of the conference and be sure that science blogging movement is growing.
It was so nice to finally meet you, thank you for bringing the package from my Mom all across the ocean, and thank you for the interview.
Thanks.
============================
Check out all the interviews in this series.

Floral Clock

Washington Post has an article on how to plant your own floral clock, just like the one built by Linnaeus.

Welcome the newest SciBling!

Go say Hello to Alice Pawley, the new co-blogger on On Being a Scientist and a Woman. Post a comment on her inaugural post.

Today’s carnivals

Linnaeus’ Legacy #4: Darwin Month Extravaganza! is up on The Other 95%
Friday Ark #177 is up on Modulator
International Carnival of Pozitivities 2.9. is up on NotPerfectAtAll

Darwin Quotes

Charles_Darwin.jpgI have steadily endeavored to keep my mind free so as to give up any hypothesis, however much beloved (and I cannot resist forming one on every subject), as soon as the facts are shown to be opposed to it.
– Charles R. Darwin
Support The Beagle Project
Read the Beagle Project Blog
Buy the Beagle Project swag
Celebrate Darwin Day
Prepare ahead for the Darwin Bicentennial
Read Darwin for yourself.

The Island Project

I mentioned before that Carrboro Citizen is my favourite newspaper, the only one I read in hardcopy. Perhaps I like it because it is hyperlocal. Perhaps that is why I have this mindset that those who live in Carrboro already read it and those who don’t will have no interest. So, I rarely blog about their articles. But sometimes something jumps at me as worthy of mention as interesting to anyone anywhere. This week’s edition has one such article – School project an atypical lesson in problem solving – which describes a science project led by Chapel Hill High School Earth and environmental science teacher Rob Greenberg:

The assignment was to pick a location anywhere in the world and create an ancient island there — during pre-human times. The location would predicate the topography, climate and ecology of the island, which would all be included in a map and key the students were to draw of the island they would name.
The second part of the assignment was to draw a map of the island today, including infrastructure designed to leave the smallest footprint, paying attention to all elements of human existence, including dealing with their water, energy and waste requirements within a 10-square-mile area with a population of 1,000 to 2,000. They were also to design a community building — be it a school or recreation or town center.

You can see more details of the project on Greenberg’s website and if you are in the area, please come to the Carrboro Century Center from 2 to 6 p.m. this Sunday to see what the students have done.
What a great way to teach creative thinking and problem solving!

Neglected Research Findings in Family Planning and Reproductive Health

Many important research findings never make it into the actual practice when it comes to reproductive health services. Rose of The INFO Project Blog has posted an interesting and good survey which needs to be spread around the blogosphere more in order to get a bigger number of responses:

To improve service delivery and policies, research should be put into practice. However, some important research findings that could improve reproductive health services have not been incorporated widely into policies and programs.
For example, the World Health Organization advises that family planning clients using oral contraceptives receive up to one year’s supply of pills (13 cycles), or as many pill packs as feasible, at the first visit. Research has found that women given a full year’s supply of pills are more likely to use the method effectively, without interruption, than women given only one to three pill packs at a time. This practice is rare in many countries, however.
Neglected research findings such as the one above will be discussed in the forthcoming Population Reports issue, “New Findings on Contraceptives.” We welcome you to share your opinions with us to help us decide which neglected findings we should discuss in the report.

Do the survey and comment on the post. And put this on your blog and ask your readers to do this survey as well.

From the trenches of Open Access: Interview with Hemai Parthasarathy

Hemai Parthasarathy spent about five years as an editor at Nature before joining PLoS where she was the Managing Editor of PLoS Biology from its very beginning, through about five years of it until just a few months ago. When I got the job with PLoS and spent my first month in San Francisco, Hemai was my tutor in a sense, teaching me the lore of the inner sanctum of the publishing world – how it works, who is who, why Open Access, and other useful stuff. So she was a natural choice for me to invite to lead a session on Open Science: how the Web is changing the way science is done, written and published (see the videos here) at the Science Blogging Conference two weeks ago.
Welcome to A Blog Around The Clock. Would you, please, tell my readers a little bit more about yourself? Who are you? What is your background? What is your Real Life job?
Well, of most relevance to your readers, I am a biophysicist and neuroscientist by training, an editor by profession, and a consultant (at the moment) by circumstance. Of me, personally, I could say that I am an Alaskan by birth, an Indian by ancestry, and a California girl by choice (and possibly temperament).
What do you want to do/be when you grow up?
Do I have to? I’d like to have a dog when I’m grown up. But, if I ever have a sofa, I’ll know that I am too grown-up.
I have a children’s book about a mule at home. Sound familiar? Anything to say about it? No? OK.
You are a cruel man, Bora, to bring up my childhood traumas on a public blog. Yes, I used to spell my name “Hemi” (which is how it is pronounced) and yes, I do have one namesake in the children’s literature, Hemi: A mule.
When, how and why did you become a believer in Open Access publishing?
I find that phrase kind of odd – like being a “believer” in evolution. I’m not sure open access is something to believe in. Its just logical, inevitable… it basically falls out of thinking about scientific communication + the internet. So, I’d say I “believed” from my first exposure, which was the open signature campaign that launched the Public Library of Science (PLoS). The question of how to make it work given the legacy of the subscription-based system, was less clear when I joined PLoS, but the last five years have seen a lot of change towards that goal.
How is a scientific paper going to look like in 50 years?
No Idea. Didn’t you write about that? I don’t even know what science is going to look like in 50 years. Science has always been written about in multiple forms, from the conference abstract to the clinical trial to the dissertation. Already the classical form of the research paper does not fit many disciplines (“high throughput” systems biology springs to mind). I hope it will have multiple forms as it does now, but that it will be much more integrated with the data it represents and the steps that come before/after it.
Hemai%20Interview%20picture.jpg
When and how did you discover science blogs? What are some of your favourites? Have you discovered any new cool science blogs while at the Conference?
I don’t think I’d ever read a blog, let alone a science blog, until Chris [Surridge, editor of PLoS ONE, ed.] started posting regularly on the PLoS blog. For all my support of the internet revolution in communication, I still like my information in large well-digested chunks that I can interact with tactilely as well as visually (aka paper). So, I probably discovered science blogs through you! The only science blog I now read regularly is The Tree of Life, mainly because I am so impressed by Jonathan Eisen’s brain. Since the conference, I’ve also been reading Science and Religion, which is a theme I have taken a recent interest in; and, Aardvarcheology hooked me with Martin’s visit to the Amazing Randi, of whom I remember stories from my days at Nature and the infamous water memory paper.
How do science blogs fit in the entire ecosystem of scientific publishing, communication and education?
I’m not sure I’m the best person to answer that. Blogs are clearly an integral part of all publishing, not just scientific publishing, It seems to me that the quality of science blogs is quite high compared to the average blog, but that may just be my sampling bias. I hope they encourage people who are on the outside of the elite research process to promote scientific discourse within society.
What are your plans for the future (at least what you are willing to disclose) in your life and work?
I’m not sure. I had thought about doing something completely different (e.g. culinary school), but in the end, I value too much the experience I have gained in scientific evaluation and communication; and still feel that I have something to contribute in this arena. I am currently working as a consultant in the drug discovery world, which may turn into something very relevant to open science and open access. Stay tuned!
Would you consider trying your hand at blogging?
… its tempting, as I love to write. But, I’d need to be convinced that I could contribute to the signal, rather than the noise; and so far, I am not convinced.
Is there anything that happened at the Conference – a session, something someone said or did or wrote – that will change the way you think about science communication, or something that you will take with you to your job, blog-reading and blog-writing?
Well, this will sound entirely self-serving, but I was moved when Bill Hooker asked the audience in the open access session how many of the publishing scientists would aspire to publish in PLoS Biology. I didn’t expect such a large response (of course, they might have been humoring me!), and in general, I didn’t expect quite as much enthusiasm for PLoS. I guess I’m used to trying to convince the skeptics, so it really brought home to me the successes we have had. A lesson, then, is what I take away: That it’s easy to forget how many allies you have, when you’re deep in the trenches. Of course, that is one way that the blogosphere empowers people – you don’t actually have to meet face-to-face to be with like-minded people. Is the corollary, then, that I should have been reading more blogs when I was at PLoS?
It was so nice to see you again and thank you for the interview.
Thanks, Bora, for inviting me to participate in your conference. It was a wonderful experience.
============================
Check out all the interviews in this series.

Open Notebook Science – session transcript

On top of screencasts, podcasts and PPT files that are already available, you can now also read the full transcript of the session on Public Scientific Data from the Science Blogging Conference. And much more here….

Darwin Quotes

Charles_Darwin.jpgThe plough is one of the most ancient and most valuable of mans inventions; but long before he existed the land was in fact regularly ploughed, and still continues to be thus ploughed by earth-worms. It may be doubted whether there are many other animals which have played so important a part in the history of the world, as have these lowly organised creatures.
– Charles R. Darwin
Support The Beagle Project
Read the Beagle Project Blog
Buy the Beagle Project swag
Celebrate Darwin Day
Prepare ahead for the Darwin Bicentennial
Read Darwin for yourself.
Thanks Michael Barton for today’s quote.

My picks from ScienceDaily

Transparent Adult Zebra Fish Will Make Human Biology Even Clearer:

Zebrafish are genetically similar to humans and are good models for human biology and disease. Now, researchers at Children’s Hospital Boston have created a zebrafish that is transparent throughout its life. The new fish allows scientists to directly view its internal organs, and observe processes like tumor metastasis and blood production after bone-marrow transplant in a living organism.

Oldest Horseshoe Crab Fossil Found, 100 Million Years Old:

Few modern animals are as deserving of the title “living fossil” as the lowly horseshoe crab. Seemingly unchanged since before the Age of Dinosaurs, these venerable sea creatures can now claim a history that reaches back almost half-a billion years.

Coral Reefs May Be Protected By Natural Ocean Thermostat:

Natural processes may prevent oceans from warming beyond a certain point, helping protect some coral reefs from the impacts of climate change, new research finds. The study, by scientists at the National Center for Atmospheric Research (NCAR) and Australian Institute of Marine Science (AIMS), finds evidence that an ocean “thermostat” appears to be helping to regulate sea-surface temperatures in a biologically diverse region of the western Pacific.

Did Birds Originate When Dinosaurs Went Extinct, Or Have They Been Around Far Longer?:

Did modern birds originate around the time of the dinosaurs’ demise, or have they been around far longer? The question is at the center of a sometimes contentious “rocks versus clocks” debate between paleontologists, whose estimates are based on the fossil record, and scientists who use “molecular clock” methods to study evolutionary history.

Beaked Whales Actually Hear Through Their Throats:

Researchers from San Diego State University and the University of California have been using computer models to mimic the effects of underwater noise on an unusual whale species and have discovered a new pathway for sound entering the head and ears.

Pygmy Dinosaur Inhabited Tropical Islands In Britain’s Prehistoric Past:

The celebrated Bristol Dinosaur, Thecodontosaurus, has now been shown to live on subtropical islands around Bristol, instead of in a desert on the mainland as previously thought.

New and Exciting in PLoS Community Journals

There are some interesting articles published in PLoS Genetics, Computational Biology, Pathogens and Neglected Tropical Diseases and these got my attention at the first glance – you look around for stuff you may be interested in:
Comparing Patterns of Natural Selection across Species Using Selective Signatures:

Natural selection promotes the survival of the fittest individuals within a species. Over many generations, this may result in the maintenance of ancestral traits (conservation through purifying selection), or the emergence of newly beneficial traits (adaptation through positive selection). At the genetic level, long-term purifying or positive selection can cause genes to evolve more slowly, or more rapidly, providing a way to identify these evolutionary forces. While some genes are subject to consistent purifying or positive selection in most species, other genes show unexpected levels of selection in a particular species or group of species–a pattern we refer to as the “selective signature” of the gene. In this work, we demonstrate that these patterns of natural selection can be mined for information about gene function and species ecology. In the future, this method could be applied to any set of related species with fully sequenced genomes to better understand the genetic basis of ecological divergence.

Evolution of Complex Modular Biological Networks:

The modular organization of cells is not immediately obvious from the network of interacting genes, proteins, and molecules. A new window into cellular modularity is opened up by genetic data that identifies pairs of genes that interact either directly or indirectly to provide robustness to cellular function. Such pairs can map out the modular nature of a network if we understand how they relate to established mathematical clustering methods applied to networks to identify putative modules. We can test the relationship between genetically interacting pairs and modules on artificial data: large networks of interacting proteins and molecules that were evolved within an artificial chemistry and genetics, and that pass the standard tests for biological networks. Modularity evolves in these networks in order to deal with a multitude of functional goals, with a degree depending on environmental variability. Relationships between genetically interacting pairs and modules similar to those displayed by the artificial gene networks are found in the protein-protein interaction network of baker’s yeast. The evolution of complex functional biological networks in silico provides an opportunity to develop and test new methods and tools to understand the complexity of biological systems at the network level.

Social Exclusion Modifies Climate and Deforestation Impacts on a Vector-Borne Disease:

American Cutaneous Leishmaniasis emergence has been associated with changes in the interaction between people and forests. The association between outbreaks and forest clearance, higher risk for populations living close to forests, and the absence of this disease from urban settings has led to the proposal that it will disappear with the destruction of primary forests. This view ignores the complex nature of deforestation as a product of socioeconomic inequities. Our study shows that such inequities, as measured by a marginalization index, may ultimately determine risk within the country, with socially excluded populations most affected by the disease. Contrary to the established view, living close to the forest edge can diminish the risk provided other factors are taken into account. Additionally, differences in vulnerability to climatic variability appear to interact with forest cover to influence risk across counties where the disease has its largest burden. Incidence exacerbation associated with El Niño Southern Oscillation is observed in counties with larger proportions of deforestation. Our study calls for control efforts targeted to socially excluded populations and for more localized ecological studies of transmission in vectors and reservoirs in order to understand the role of biodiversity changes in driving the emergence of this disease.

Visualize This! Interview with Moshe Pritsker

Moshe Pritsker and I first met at Scifoo, then shared a panel at the Harvard Millennium Confreence and finally met again at the Science Blogging Conference two weeks ago. Moshe is the Editor-in-Chief of Journal of Visualized Experiments, the innovative online journals that publishes videos demonstrating laboratory techniques.
Welcome to A Blog Around The Clock. Would you, please, tell my readers a little bit more about yourself? Who are you? What is your background? What is your Real Life job?
I am a co-founder and Editor-in-Chief of Journal of Visualized Experiments (JoVE). It is my full-time job, as JoVE is a start-up company that requires full attention from me and a few other people.
Moshe%20Interview%20picture.jpgI was born in the North West of Russia, in the city named Petrozavodsk. In 1990, at age 16, together with my parents and sister, I immigrated to Israel, in the big wave of Russian-Jewish immigration. I went to study chemistry at the Hebrew University of Jerusalem, and then continued for a master degree at the Weizmann Institute of Science where I got into biochemistry and bioinformatics.
After the army service (mandatory for every Israeli citizen), I decided to see the world and got into the Ph.D. program at Princeton. There I was working on a variety of projects in computational and experimental biology. My favorite and the most difficult project was the development of a method for large-scale genetic screens in embryonic stem cells. A post-doc in Boston was a logical next step. But after one year of post-doc, I decided to implement the idea of a video-publication for biology, which I was carrying in my head for a few years.
You founded the Journal of Visualized Experiments. Can you tell us a little bit more about it. Where did the idea come from, where is it now and what are the plans for the future?
First time, I came with the idea of a video-publication for biological research in the middle of my Ph.D. studies at Princeton. As any other experimental biologist, I was suffering from the low reproducibility of experiments described in the scientific literature. This phenomenon is due to many reasons including poor descriptions of complex experimental procedures by authors, wrong interpretations of technical details by readers, variations in terminology, lack of standardization, and other factors. To deal with this problem, scientists often look for colleagues who are experienced with particular experimental approaches and can show them how to do the experiment. However, often such help is not available, and the scientists find themselves in the never ending process of reinventing the wheel, when they spend years of their life trying to repeat experiments previously done and published by others. On the personal level, this is very frustrating. On the global level, this is a systemic “black hole” that consumes more than 50% of time and money that are given to biological and biomedical research (to remind, only the NIH year budget is $29 billion dollars).
As a possible solution, I began to think about a large online repository of videos on experimental procedures. Video can mimic the traditional “show me” process adopted in the biological labs, and therefore would increase reproducibility, efficiency and standardization in biological sciences. Then I was lucky to meet Nikita Bernstein, a computer programmer who became my partner. Nikita took care of the IT part in JoVE, and introduced me into the social networks and other advanced aspects of the today Web. Another partner, Klaus Korak, is a Vienna-trained medical doctor, with experience in neurosurgery and neuroscience research. He has ensured funding from a group of private investors, and currently takes care of the business development in JoVE. After the first few months, we met Aaron Kolski-Andreaco, who was a graduate student at UC Irvine and also thought about scientific video as a method of training. He joined us to lead the production of experimental videos. This is how JoVE was initially built.
We develop JoVE as a free access research publication (journal), with a review process, selection and the Editorial Board including 20 professors from Harvard, Princeton, NIH and other good places. So, JoVE can be viewed as a journal of a new type, a video-journal. After the first year of its existence, JoVE has published about 200 video-articles produced in the research labs at the leading scientific institutions. They cover a variety of advanced experimental procedures in neuroscience, stem cell biology, cancer, bioengineering and other “hot” areas of today biological research.
Very early we understood that it is very difficult for scientists to make high-quality videos on their own experiments. An average experiment requires 2-3 hours of filming and extensive editing. Scientists typically do not have professional cameras and editing software, and, more importantly, do not have time to learn the necessary skills. Therefore, to enable production of video-protocols at research labs, we have established a distributed network of professional film-makers, which covers about 30 large cities, centers of biological research, in USA, Canada, Europe and Japan.
How do you envision a scientific paper of the future? Will it have an embedded video as a rule? A completely different format than today?
Currently, a scientific paper, especially in biology, has two main functions. First it is a report. Second, it is a “currency” of science serving as a measure of individual scientist’s achievements. These are important functions, but it also has to become a productivity tool, something that helps scientists to do their job faster and more efficiently. Due to the problems described above, a lot remains to be done in this area. I envision that tools enabling a more efficient knowledge transfer (e.g. video) will become an important factor. The rest is difficult to predict. It will depend on the next technology developments on the Web and their relevance to the current problems of biological research.
What are some of your favorite science blogs?
The Tree of Life by Jonathan Eisen
Microarray Blog by Albin Paul
Blog around the Clock by Bora Zivkovic
PIMM by Attila Csordas
Is there anything that happened at the Conference – a session, something someone said or did or wrote – that will change the way you
think about science communication, or something that you will take with you to your job, blog-reading and blog-writing?

I met a few people with whom I had interesting discussions about science communication: Jean-Claude Bradley, Liz Allen, James Hrynyshyn, Aaron Rowe, Deepak Singh and others. For example, I really like the Jean-Claude’s project on lab wiki, and it was very useful to meet him in person. Aaron Rowe gave me an interesting idea on distribution of the JoVE video-articles in the developing countries. I hope something practical will come out from these discussions. In general, the conference was a very useful and interesting event.
It was so nice to see you again and thank you for the interview.
============================
Check out all the interviews in this series.

Today’s carnivals

I and the Bird #68 – Winter Doldrum Edition – is up on Biological Ramblings
The new edition of Change of Shift if up at Nursing Voices.
And something a little meta: Re-thinking the Blog Carnival

danah boyd on Open Access publishing

Apophenia, danah boyd’s blog, is one of the first blogs I ever discovered back in the depths of Time, certainly the first non-political blog, even before I found any science blogs. We finally got to meet last year at the ASIS&T meeting in Wisconsin. She just published a paper and, in her last post wows never to publish in Closed Access again. Then she gives a list of bullet points about what to do – see if you recognize yourself in one of them.

Welcome the newest SciBling!

Go say Hi to Jessica Palmer of Bioephemera!

Darwin Quotes

Charles_Darwin.jpgIt has been a bitter mortification for me to digest the conclusion that the ‘race is for the strong’ and that I shall probably do little more but be content to admire the strides others made in science.
– Charles R. Darwin
Support The Beagle Project
Read the Beagle Project Blog
Buy the Beagle Project swag
Celebrate Darwin Day
Prepare ahead for the Darwin Bicentennial
Read Darwin for yourself.

My picks from ScienceDaily

Gene Variants May Help To Distribute The Work Of Evolution Between Men And Women:

Scientists from deCODE genetics have discovered two common, single-letter variants in the sequence of the human genome (SNPs) that regulate one of the principle motors of evolution.

Key ‘Impact Hunters’ Catalyze Hunting Among Male Chimpanzees:

While hunting among chimpanzees is a group effort, key males, known as “impact hunters” are highly influential within the group. They are more likely to initiate a hunt, and hunts rarely occur in their absence, according to a new study. The findings shed light on how and why some animals cooperate to hunt for food, and how individual variation among chimpanzees contributes to collective predation.

Globetrotting Black Rat Genes Reveal Spread Of Humans And Diseases:

DNA of the common Black Rat has shed light on the ancient spread of rats, people and diseases around the globe. Studying the mitochondrial DNA of 165 Black Rat specimens from 32 countries around the world, an international team of scientists has identified six distinct lineages in the Black Rat’s family tree, each originating from a different part of Asia.

Baboon Dads Have Surprising Influence On Daughters’ Fitness:

Polygamous baboon fathers get more grandchildren if they spend a little time with their children during their juvenile years, according to research directed by scientists at Duke and Princeton universities.

Gotta Have Heart: Crocodilians Bypass Their Lungs To Improve Digestion:

As perhaps confirmed by their ubiquity on nature cable channels, crocodiles are among nature’s most fearsome predators. When the opportunity arises, crocodilians will gorge, voluntarily consuming meals weighing 23% of their own body weight. This is analogous to a 130 -pound woman eating, at one sitting, a hamburger weighing 30 pounds. But what to do with all of that food? If they do not digest their meal quickly, crocodilians risk death from within, or if they are young, by predators.

Barnacles Go To Great Lengths To Mate:

Compelled to mate, yet firmly attached to the rock, barnacles have evolved the longest penis of any animal for their size – up to 8 times their body length – so they can find and fertilize distant neighbours.

Broiler Chickens Bred For Fast Growth Are Having Difficulty Walking:

The huge increase in growth rates of broiler chickens means more than a quarter of these intensively-reared birds have difficulty walking, according to a comprehensive survey carried out by the University of Bristol. The study identifies a range of management factors that could be altered to reduce leg health problems but warns that implementation of these changes would be likely to reduce growth rate and production.

New on….

….Scienceblogs.com
Busy today. What are the others writing about?
Abel Pharmboy and DrugMonkey discuss the causes of death of Heath Ledger.
Nature had some articles about ScienceDebate 2008 and got it all wrong. I agree with what John Lynch wrote.
PhysioProf explains the brave new world of NIH Grants – not what I remember from the times of plentiful funding.
Angry Toxicologist on animal testing.
Obligatory Reading of the Day: Janet on the project of being a grown-up scientist.
The awesomest movie of a gigantic shark.
Shelley and Steve are Of Two Minds…

A Different Kind of Handshake: Interview with Vanessa Woods

Vanessa Woods is a researcher with the Hominoid Psychology Research Group which recently moved to Duke University – just in time for her to be able to attend the Science Blogging Conference two weeks ago. Vanessa is the author of four books (three of those are for kids, the latest one, It’s every monkey for themselves just got translated into Hebrew, and is aimed at adult audience). She is a feature writer for the Discovery Channel and she documents her research on her blog Bonobo Handshake (and what it means? Check the blog!)
Welcome to A Blog Around The Clock. Would you, please, tell my readers a little bit more about yourself? Who are you? What is your background? What is your Real Life job?
I’m mostly a writer, I’ve written several books for kids and recently a salacious non fiction about a bunch of monkey researchers in the Costa Rican jungle (banned in America for legal reasons, but you can get it online http://www.vanessawoods.net). For a few months a year I also travel to Congo to study our cousins, bonobos and chimpanzees. We work in sanctuaries for orphans, instead of in biomedical laboratories and basically play games with them all day to find out how
they think.
What do you want to do/be when you grow up?
JK Rowling
Can you tell us a little bit more about your research and about bonobos?
We’re trying to find out what it is that makes us human. At the moment, we have a very chimpanzee-centric model of society (male dominated, aggressive, murder, war, females get beaten, infants get killed) but we have another cousin, equally closely related to us (98.7% DNA), who is female dominated and lives in a much more peaceful society. We want to find out how much of us is bonobo, how much of us is chimpanzee and how much of us is uniquely human.
Vanessa%20Woods%20interview%20pic.jpg
When and how did you discover science blogs? What are some of your favourites? Have you discovered any new cool science blogs while following the Conference?
Well of course I love the Intersection. Sheril is so cool…
Most bloggers post every day on a variety of topics and go on like that for years. Your approach is different. Your blog, Bonobo Handshake, was focused on your research trip to Congo. Once the trip was over and you wrote your conclusions, you did not continue updating every day. Yet, your blog really hit a note with a lot of people and your traffic soared. How do you explain it? What are the pros and cons of this blogging strategy?
I think people got really involved in the bonobo drama. Bonobos came in, nearly died, and recovered, and people became emotionally attached. Plus the bonobos are so crazy, i think people started showing up regularly just to see what would happen next.
What is next? Extension of Bonobo Handshake, a new blog, a new trip that begs to be blogged about?
We’ll be going back to Congo in June this year, so Bonobo Handshake will be up again.
Is there anything that happened at the Conference – a session, something someone said or did or wrote – that will change the way you
think about science communication, or something that you will take with you to your job, blog-reading and blog-writing?

I really enjoyed the ‘blogging for the 3rd world’ session. It raised some interesting questions about our role in bringing information into these countries. Most of my blogging function is to take the stories I see in Congo and bring them out. But I am interested in exploring how what I do can benefit them.
It was so nice to see you again and thank you for the interview.
Likewise Bora – see you again soon!
============================
Check out all the interviews in this series.

Palaeontologists needed!

Can you help identify this fossil? The experts are baffled.

Today’s carnivals

Carnival of the Blue #9: Make 2008 a Blue Year! is up on The Other 95%.
Tangled Bank #98 is up on Quintessence of Dust
Carnival of Education — Valentine’s Edition — is up on The Colossus of Rhodey
The 110th Carnival of Homeschooling – Acrostic Edition – is up on About:Homeschooling

Darwin Quotes

Charles_Darwin.jpgHere, poor Forbes made a continent to N. America & another (or the same) to the Gulf of
weed. – Hooker makes one from New Zealand to S. America & round the world to
Kerguelen Land. Here is Wollaston speaking of Madeira & P. Santo “as the sure &
certain witnesses” of a former continent. Here is Woodward writes to me if you grant a
continent over 200 or 300 miles of ocean-depths (as if that was nothing) why not extend a
continent to every island in the Pacific & Atlantic oceans! And all this within the
existence of recent species! If you do not stop this, if there be a lower region for the
punishment of geologists, I believe, my great master, you will go there. Why your
disciples in a slow & creeping manner beat all the old catastrophists who ever lived. –
You will live to be the great chief of the catastrophists!

– Charles R. Darwin, in a letter to Lyell (1856),
Support The Beagle Project
Read the Beagle Project Blog
Buy the Beagle Project swag
Celebrate Darwin Day
Prepare ahead for the Darwin Bicentennial
Read Darwin for yourself.

New and Exciting in PLoS ONE

Tons of new stuff in PLoS ONE this week. Some titles that caught my eye:
Comparative Bacterial Proteomics: Analysis of the Core Genome Concept:

While comparative bacterial genomic studies commonly predict a set of genes indicative of common ancestry, experimental validation of the existence of this core genome requires extensive measurement and is typically not undertaken. Enabled by an extensive proteome database developed over six years, we have experimentally verified the expression of proteins predicted from genomic ortholog comparisons among 17 environmental and pathogenic bacteria. More exclusive relationships were observed among the expressed protein content of phenotypically related bacteria, which is indicative of the specific lifestyles associated with these organisms. Although genomic studies can establish relative orthologous relationships among a set of bacteria and propose a set of ancestral genes, our proteomics study establishes expressed lifestyle differences among conserved genes and proposes a set of expressed ancestral traits.

Leg Disorders in Broiler Chickens: Prevalence, Risk Factors and Prevention:

Broiler (meat) chickens have been subjected to intense genetic selection. In the past 50 years, broiler growth rates have increased by over 300% (from 25 g per day to 100 g per day). There is growing societal concern that many broiler chickens have impaired locomotion or are even unable to walk. Here we present the results of a comprehensive survey of commercial flocks which quantifies the risk factors for poor locomotion in broiler chickens. We assessed the walking ability of 51,000 birds, representing 4.8 million birds within 176 flocks. We also obtained information on approximately 150 different management factors associated with each flock. At a mean age of 40 days, over 27.6% of birds in our study showed poor locomotion and 3.3% were almost unable to walk. The high prevalence of poor locomotion occurred despite culling policies designed to remove severely lame birds from flocks. We show that the primary risk factors associated with impaired locomotion and poor leg health are those specifically associated with rate of growth. Factors significantly associated with high gait score included the age of the bird (older birds), visit (second visit to same flock), bird genotype, not feeding whole wheat, a shorter dark period during the day, higher stocking density at the time of assessment, no use of antibiotic, and the use of intact feed pellets. The welfare implications are profound. Worldwide approximately 2×1010 broilers are reared within similar husbandry systems. We identify a range of management factors that could be altered to reduce leg health problems, but implementation of these changes would be likely to reduce growth rate and production. A debate on the sustainability of current practice in the production of this important food source is required.

Reverse Genetics in Ecological Research:

By precisely manipulating the expression of individual genetic elements thought to be important for ecological performance, reverse genetics has the potential to revolutionize plant ecology. However, untested concerns about possible side-effects of the transformation technique, caused by Agrobacterium infection and tissue culture, on plant performance have stymied research by requiring onerous sample sizes. We compare 5 independently transformed Nicotiana attenuata lines harboring empty vector control (EVC) T-DNA lacking silencing information with isogenic wild types (WT), and measured a battery of ecologically relevant traits, known to be important in plant-herbivore interactions: phytohormones, secondary metabolites, growth and fitness parameters under stringent competitive conditions, and transcriptional regulation with microarrays. As a positive control, we included a line silenced in trypsin proteinase inhibitor gene (TPI) expression, a potent anti-herbivore defense known to exact fitness costs in its expression, in the analysis. The experiment was conducted twice, with 10 and 20 biological replicates per genotype. For all parameters, we detected no difference between any EVC and WT lines, but could readily detect a fitness benefit of silencing TPI production. A statistical power analyses revealed that the minimum sample sizes required for detecting significant fitness differences between EVC and WT was 2-3 orders of magnitude larger than the 10 replicates required to detect a fitness effect of TPI silencing. We conclude that possible side-effects of transformation are far too low to obfuscate the study of ecologically relevant phenotypes.

Self-Consistent Estimation of Mislocated Fixations during Reading:

During reading, we generate saccadic eye movements to move words into the center of the visual field for word processing. However, due to systematic and random errors in the oculomotor system, distributions of within-word landing positions are rather broad and show overlapping tails, which suggests that a fraction of fixations is mislocated and falls on words to the left or right of the selected target word. Here we propose a new procedure for the self-consistent estimation of the likelihood of mislocated fixations in normal reading. Our approach is based on iterative computation of the proportions of several types of oculomotor errors, the underlying probabilities for word-targeting, and corrected distributions of landing positions. We found that the average fraction of mislocated fixations ranges from about 10% to more than 30% depending on word length. These results show that fixation probabilities are strongly affected by oculomotor errors.

An Update on MyoD Evolution in Teleosts and a Proposed Consensus Nomenclature to Accommodate the Tetraploidization of Different Vertebrate Genomes:

MyoD is a muscle specific transcription factor that is essential for vertebrate myogenesis. In several teleost species, including representatives of the Salmonidae and Acanthopterygii, but not zebrafish, two or more MyoD paralogues are conserved that are thought to have arisen from distinct, possibly lineage-specific duplication events. Additionally, two MyoD paralogues have been characterised in the allotetraploid frog, Xenopus laevis. This has lead to a confusing nomenclature since MyoD paralogues have been named outside of an appropriate phylogenetic framework. Here we initially show that directly depicting the evolutionary relationships of teleost MyoD orthologues and paralogues is hindered by the asymmetric evolutionary rate of Acanthopterygian MyoD2 relative to other MyoD proteins. Thus our aim was to confidently position the event from which teleost paralogues arose in different lineages by a comparative investigation of genes neighbouring myod across the vertebrates. To this end, we show that genes on the single myod-containing chromosome of mammals and birds are retained in both zebrafish and Acanthopterygian teleosts in a striking pattern of double conserved synteny. Further, phylogenetic reconstruction of these neighbouring genes using Bayesian and maximum likelihood methods supported a common origin for teleost paralogues following the split of the Actinopterygii and Sarcopterygii. Our results strongly suggest that myod was duplicated during the basal teleost whole genome duplication event, but was subsequently lost in the Ostariophysi (zebrafish) and Protacanthopterygii lineages. We propose a sensible consensus nomenclature for vertebrate myod genes that accommodates polyploidization events in teleost and tetrapod lineages and is justified from a phylogenetic perspective.

A Proposed Mechanism for the Interaction of the Segmentation Clock and the Determination Front in Somitogenesis:

Recent discoveries in the field of somitogenesis have confirmed, for the most part, the feasibility of the clock and wavefront model. There are good candidates for both the clock (various genes expressed cyclically in the tail bud of vertebrate embryos have been discovered) and the wavefront (there are at least three different substances, whose expression levels vary along the presomitic mesoderm [PSM], that have important effects on the formation of somites). Nevertheless, the mechanisms through which the wavefront interacts with the clock to arrest the oscillations and induce somite formation have not yet been fully elucidated. In this work, we propose a gene regulatory network which is consistent with all known experimental facts in embryonic mice, and whose dynamic behaviour provides a potential explanation for the periodic aggregation of PSM cells into blocks: the first step leading to the formation of somites. To our knowledge, this is the first proposed mechanism that fully explains how a block of PSM cells can stop oscillating simultaneously, and how this process is repeated periodically, via the interaction of the segmentation clock and the determination front.

The Citius End: World Records Progression Announces the Completion of a Brief Ultra-Physiological Quest:

World records (WR) in sports illustrate the ultimate expression of human integrated muscle biology, through speed or strength performances. Analysis and prediction of man’s physiological boundaries in sports and impact of external (historical or environmental) conditions on WR occurrence are subject to scientific controversy. Based on the analysis of 3263 WR established for all quantifiable official contests since the first Olympic Games, we show here that WR progression rate follows a piecewise exponential decaying pattern with very high accuracy (mean adjusted r2 values = 0.91±0.08 (s.d.)). Starting at 75% of their estimated asymptotic values in 1896, WR have now reached 99%, and, present conditions prevailing, half of all WR will not be improved by more than 0,05% in 2027. Our model, which may be used to compare future athletic performances or assess the impact of international antidoping policies, forecasts that human species’ physiological frontiers will be reached in one generation. This will have an impact on the future conditions of athlete training and on the organization of competitions. It may also alter the Olympic motto and spirit.

Science+Art+Technology+Media – meetings around the World

There were already two Science Foo Camps (in summers of 2006 and 2007) and two Science Blogging Conferences (in winters of 2007 and 2008).
But the hunger for such meetings is far from satiated. So, if you have time and money and can travel, you can choose to attend the SciBarCamp on March 15-16, 2008, where Eva is one of the organizers and Larry will be there.
Or you can go to the International Science Media Fair in Trieste on April 16-20, 2008. I’ll be there, on two panels, one about Open Access, another on Science Blogging.
Or, a little later, you can attend the World Science Festival in NYC on May 28 – June 1, 2008.
Northeast US, Southeast US, California, Canada, Europe – not bad for geographic distribution for now, don’t you think?

Everything you ever wanted to know about Wikipedia and Facebook but were too shy to ask

Two books – Facebook: The Missing Manual and Wikipedia: The Missing Manual arrived in my mailbox today. How did I get them? By being on Facebook, getting a message from the O’Reilly Facebook group and being one of the first 20 to respond. The first glance at the books and the tables of contents suggests both books will be useful references and I will try to use them in the near future as I plan how to take over the world!

Say ‘Hi’ if you see him running – Interview with Dave Munger

Dave Munger is part of the numerous North Carolinian contingent here at Scienceblogs.com. He writes the Cognitive Daily blog and runs the ResearchBlogging.org blog aggregator. At the Science Blogging Conference two weeks ago, Dave led a session on Building interactivity into your blog.
Welcome to A Blog Around The Clock. Would you, please, tell my readers a little bit more about yourself? Who are you? What is your background? What is your Real Life job?
Hi, I’m Dave Munger. My background is in writing, editing, and publishing. I’ve written several textbooks, most notably, Researching Online, and I have had a blog of some sort since about 2002. I also have a degree in Science Education and taught high school chemistry and biology for a short time. My real life job is creating a new non-profit organization called ResearchBlogging.org. All your readers should go visit and sign up. And if any of your readers happen to represent grant-making organizations, they should send me an email.
What do you want to do/be when you grow up?
I’m pretty much doing it. It would be nice to make a little more money at it, though!
When and how did you discover science blogs? What are some of your favourites? Have you discovered any new cool science blogs while following the Conference?
The first science blog I discovered was Chad Orzel’s Uncertain Principles. I’m still a huge fan. I can’t tell you how I discovered it — probably via the litblogging community, since Chad’s just as likely to write about fiction as science. I was a litblogger before I was a science blogger (and still am, sort of, on wordmunger.com). It’s hard to identify particular favorite science blogs — I do most of my reading via aggregators (I’ll refrain from plugging my own) like ScienceBlogs.com. I know there are lots of great blogs out there, I’m just not very good about reading all of them. I can say that I am especially impressed with the many blogs devoted to combating pseudoscience, from Orac’s Respectful Insolence, to Panda’s Thumb, to Pharyngula. Their patience in explaining science, over and over, to people who never quite seem to get it, is inspiring.
Your wife, Greta, and you write Cognitive Daily together. How does that work?
It works great! She’s the expert, so she finds new journal articles about cognitive psychology, and I write about whatever she finds. We meet once a week for coffee to discuss plans for the blog. It might seem a bit strange to have to set up a regular meeting with your spouse, but it’s an absolutely essential part of the blogging process. Otherwise the blog would get lost in the day-to-day craziness of raising two teenagers.
Your blog is famous for its series of Friday “experiments” where you ask your readers to participate. Can you explain how this works? Do you have a good example where it provided some really interesting and useful data?
We use this to answer fun questions that we haven’t seen addressed in the literature (it doesn’t mean they haven’t been addressed — we just haven’t seen them). The first one, for example, addressed the question of who says “hi” to you when you’re out exercising (http://scienceblogs.com/cognitivedaily/2006/01/do_we_tell_the_truth_about_how.php). I’m a runner, and I had noticed that other runners seemed to say hi to me much more often than walkers. We were able to confirm this hunch, as well as come up with a potential explanation. Is it useful? Maybe not, but it’s interesting and fun. As the feature has gotten more popular, readers have come to start criticizing our research methods. This is a little unfair, since we never claim our results are scientifically valid, but I think even this criticism serves an important purpose: readers learn what it takes to run a scientific study of behavior.
You are the power behind ResearchBlogging.org (formerly known as BPR3). Can you explain what it is about and how it differs from Postgenomic, for instance?
Dave%20and%20Greta%20and%20SteveSteve.jpg
Dave and Greta with Professor Steve Steve
ResearchBlogging.org is a site that collects blog posts about peer-reviewed research in one place. Most science bloggers will write about more than just research — they might discuss politics, or their hobbies, or rant about the latest Britney Spears fiasco. We wanted to create a place where people could find all the serious, thoughtful posts from scientists and others interested in scholarly research.
When they’ve written a post that meets our guidelines, they fill out a form on our site (usually just one line), and paste the code we provide back into their blog. This creates a properly formatted formal research citation for them and alerts our indexing system to add their post into our database.
This is different from other aggregators like PostGenomic because our site only includes thoughtful posts about peer-reviewed research. Most other aggregators collect any link to a journal article — but most of these posts turn out to be just lists of references, or cut-and-paste versions of the abstract. That can be extremely useful too — and we plan on working with PostGenomic in the future — but it serves a different purpose from our site.
Is there anything that happened at the Conference – a session, something someone said or did or wrote – that will change the way you
think about science communication, or something that you will take with you to your job, blog-reading and blog-writing?

I think I was most impressed in my conversations with Jennifer Jacquet, who’s behind the Shifting Baselines blog and who’s passionate about conservation in the world’s oceans. I will certainly think a lot harder about the impact I make when I eat a fish. And I might start eating more sardines, which I love, and which Jennifer says is one of only ten species that aren’t currently threatened by overfishing. I’m not sure I’ll bring that to my blog, because it has such a narrow focus. Though maybe we could do a Casual Friday about seafood eating behavior….
It was so nice to see you again and thank you for the interview. Say Hi to Greta – we missed her this year!
You’re welcome. And thank you for the wonderful job you’ve done with the conference, this blog, PLoS ONE, and the science blogging anthology!
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Check out all the interviews in this series.

Today’s carnivals

Grand Rounds, Vol. 4, No. 20: The Health 2.0 Explosion – are up on Diabetes Mine

Open Students

Open Students is a new blog for students about open access to research. It is run by Gavin Baker (who also recently joined Peter Suber at Open Access News – Congratulations!) and sponsored by SPARC, the Scholarly Publishing and Academic Resources Coalition, as part of its student outreach activities.
The blog will cover the issues of Open Science as it affects the college students and will have frequent guest-bloggers (students, librarians, researchers, publishers…) – of which you can be one if you contact Gavin.

Darwin Quotes

Charles_Darwin.jpgA man who dares to waste one hour of time has not discovered the value of life.
– Charles R. Darwin,
Support The Beagle Project
Read the Beagle Project Blog
Buy the Beagle Project swag
Celebrate Darwin Day
Prepare ahead for the Darwin Bicentennial
Read Darwin for yourself.

New and Exciting in PLoS Biology and PLoS Medicine

There’s some cool new stuff in PLoS Biology and PLoS Medicine this week. Here are my picks and you look around and see what you are interested in….
The Evolutionary and Developmental Foundations of Mathematics:

Understanding the evolutionary precursors of human mathematical ability is a highly active area of research in psychology and biology with a rich and interesting history. At one time, numerical abilities, like language, tool use, and culture, were thought to be uniquely human. However, at the turn of the 20th century, scientists showed more interest in the numerical abilities of animals. The earliest research was focused on whether animals could count in any way that approximated the counting skills of humans [1,2], though many early studies lacked the necessary scientific controls to truly prove numerical abilities in animals. In addition, both the public and many in the scientific community too readily accepted cases of “genius” animals, including those that performed amazing mathematical feats. One such animal still lends its name to the phenomenon of inadvertent cuing of animals by humans: Clever Hans. Hans was a horse that seemed to calculate solutions to all types of numerical problems. In reality, the horse was highly attuned to the subtle and inadvertent bodily movements that people would make when Hans had reached the correct answer (by tapping his hoof) and should have stopped responding [3]. One consequence of this embarrassing realization was a backlash for the better part of the 20th century against the idea that animals could grasp numerical concepts. The second, more positive consequence, however, was that future researchers would include appropriate controls to account for such cues.

Fish Invasions in the World’s River Systems: When Natural Processes Are Blurred by Human Activities:

As one of the major threats to biodiversity, the detrimental consequences of biological invasions are widely recognised. Despite this, a global view of invasion patterns and their determinants is still lacking in aquatic ecosystems, reducing our ability to initiate practical actions. Here we report the global patterns of freshwater fish invasion in 1,055 river basins covering more than 80% of Earth’s continental surface. This allows us to identify six major invasion hotspots where non-native species represent more than a quarter of the total number of species. According to the World Conservation Union, these areas are also characterised by the highest proportion of threatened fish species. We also show that the natural factors controlling global biodiversity do not influence the number of non-native species in a given river basin. Instead, human activity-related factors, and particularly economic activity, explain why some river basins host more non-native species. In view of our findings, we fear massive invasions in developing countries with a growing economy as already experienced in developed countries. This constitutes a serious threat to global biodiversity.

Human Activity, not Ecosystem Characters, Drives Potential Species Invasions:

From the Asian tiger mosquito in the American South, to the Eurasian zebra mussel in the Great Lakes, to European quackgrass throughout the United States, invasions of non-native species can disrupt ecosystems, cause havoc with local economies, and even threaten health. A new study shows that, at least for freshwater fishes, the major driver of successful invasion is human development, not intrinsic ecological factors, suggesting that in the future, many more newcomers will be making their homes in foreign lands.
Competing hypotheses have been proposed to account for the establishment of non-native species. Human activities, from disrupting ecosystems to transporting exotic species, have clearly contributed to many invasions. But do ecosystems themselves play a part? The “biotic resistance” hypothesis suggests that species-rich environments can deter newcomers, while the “biotic acceptance” hypothesis suggests the opposite, that if it’s good for the locals, it’s good for the invaders.

Does Preventing Obesity Lead to Reduced Health-Care Costs:

In a study in this issue of PLoS Medicine, Pieter van Baal and colleagues used data from The Netherlands to simulate the annual and lifetime medical costs attributable to obesity [1]. They also compared these costs to those attributable to smoking as well as to the medical costs associated with healthy, living persons (defined as non-smokers with a body mass index in the range of 18.5 to less than 25 kg/m2). The researchers explored the question of whether reducing obesity would lead to reduced or increased health-care costs

Lifetime Medical Costs of Obesity: Prevention No Cure for Increasing Health Expenditure:

Background.
Since the mid 1970s, the proportion of people who are obese (people who have an unhealthy amount of body fat) has increased sharply in many countries. One-third of all US adults, for example, are now classified as obese, and recent forecasts suggest that by 2025 half of US adults will be obese. A person is overweight if their body mass index (BMI, calculated by dividing their weight in kilograms by their height in meters squared) is between 25 and 30, and obese if BMI is greater than 30. Compared to people with a healthy weight (a BMI between 18.5 and 25), overweight and obese individuals have an increased risk of developing many diseases, such as diabetes, coronary heart disease and stroke, and tend to die younger. People become unhealthily fat by consuming food and drink that contains more energy than they need for their daily activities. In these circumstances, the body converts the excess energy into fat for use at a later date. Obesity can be prevented, therefore, by having a healthy diet and exercising regularly.
Why Was This Study Done?
Because obesity causes so much illness and premature death, many governments have public-health policies that aim to prevent obesity. Clearly, the improvement in health associated with the prevention of obesity is a worthwhile goal in itself but the prevention of obesity might also reduce national spending on medical care. It would do this, the argument goes, by reducing the amount of money spent on treating the diseases for which obesity is a risk factor. However, some experts have suggested that these short-term savings might be offset by spending on treating the diseases that would occur during the extra lifespan experienced by non-obese individuals. In this study, therefore, the researchers have used a computer model to calculate yearly and lifetime medical costs associated with obesity in The Netherlands.
What Did the Researchers Do and Find?
The researchers used their model to estimate the number of surviving individuals and the occurrence of various diseases for three hypothetical groups of men and women, examining data from the age of 20 until the time when the model predicted that everyone had died. The “obese” group consisted of never-smoking people with a BMI of more than 30; the “healthy-living” group consisted of never-smoking people with a healthy weight; the “smoking” group consisted of lifetime smokers with a healthy weight. Data from the Netherlands on the costs of illness were fed into the model to calculate the yearly and lifetime health-care costs of all three groups. The model predicted that until the age of 56, yearly health costs were highest for obese people and lowest for healthy-living people. At older ages, the highest yearly costs were incurred by the smoking group. However, because of differences in life expectancy (life expectancy at age 20 was 5 years less for the obese group, and 8 years less for the smoking group, compared to the healthy-living group), total lifetime health spending was greatest for the healthy-living people, lowest for the smokers, and intermediate for the obese people.
What Do These Findings Mean?
As with all mathematical models such as this, the accuracy of these findings depend on how well the model reflects real life and the data fed into it. In this case, the model does not take into account varying degrees of obesity, which are likely to affect lifetime health-care costs, nor indirect costs of obesity such as reduced productivity. Nevertheless, these findings suggest that although effective obesity prevention reduces the costs of obesity-related diseases, this reduction is offset by the increased costs of diseases unrelated to obesity that occur during the extra years of life gained by slimming down.

Soft Targets: Nurses and the Pharmaceutical Industry:

The nursing literature has yet to pay much attention to the expansive reach of the pharmaceutical industry into the nursing profession. In this article, we examine some of the key literature on the influence of drug companies upon nurses, consider the limitations of this literature, and define a strategy for heightening awareness and strengthening the skills of nurses to manage the impact of commercial interests.

National Academies sponsor the Science Debate 2008

Chris and Sheril report that the 600lb gorilla is in the room – the Science Debate 2008 just signed on probably its most powerful sponsor to date: The National Academy of Sciences, National Academy of Engineering, and Institute of Medicine, making the possibility of the debate happening even more realistic. Now read what Josh has to say about it. I agree.