Giving girls…and science…their due

Respecting both is key to bringing girls into the sciences.

By Susan E. Matthews

When deciding what college to attend, I wouldn’t even consider an all-girls school, despite my mother’s encouragement. I refused to believe that my life had been even a little bit different because I was a girl — though years later as a woman in science, I’ve rethought that assumption.

I knew that my mom had to do gymnastics while the boys in her elementary PE classes had played basketball. I also knew that in her first job, as a computer scientist for a small company, she had been asked to answer the phones when they were between secretaries because she was the only woman in the office. As far as I was concerned, this sort of discrimination was a thing of the past, not something affecting my life. I felt like I was in the clear.

But we are not quite in the clear. We may value girls more, but there are still gaps. One of those gaps exists in the sciences — itself an area that we do not value nearly enough. While I did go to a co-ed school, studied science, and worked in a biogeochemistry lab, I’m in the minority. In 2009–2010, women represented less than a quarter of all students in secondary or post-secondary education studying STEM (science, technology, engineering, and math) topics nationally. This disparity has led to great debate over the reasons for the discrepancy. In early February, in a piece addressing the validity of recent findings, two researchers wrote in the Guardian that to resolve this issue, we could continue to insist that young women make up the difference themselves, by finding their own mentors and paving their own way. But beyond individual industry, we can change our institutions. As Chris Chambers and Kate Clancy argue:

The broader societal constraints that lead so few girls to consider themselves “science people” by middle school derive not from whether we push them into science, but what we value in girls as a culture Continue reading

Dating research update

Yes. Dating research is a thing.

by Chris Gunter, science education editor

In the course of writing a paper on women and STEM, I came across articles in the Journal of Sex Research, as one does. [The “related papers” button on PubMed is one of the best ways ever to let a whole day get away from you.] Given that I have just moved to a new area and may dip toes into the dating pool, and I’m a scientist, of course I had to investigate the latest research on dating, sex, and loooooove.

Let’s start with Langeslag, S. J. E., Muris, P., & Franken, I. H. A. (2012). Measuring Romantic Love: Psychometric Properties of the Infatuation and Attachment Scales. Journal of Sex Research, 1–9. doi:10.1080/00224499.2012.714011. After all, as the authors say, “The high prevalence of romantic love and its extensive effects on people’s lives demand a thorough scientific investigation of this intriguing phenomenon.”

Nerd_needed One approach (credit Chris Gunter) Continue reading

Sesame Street helps unlock the secrets to the brain during children’s learning

By Tara Haelle, Health Editor
[This post appeared previously at Red Wine and Apple Sauce.]

Looking to let go of a little “mommy guilt” for using the television now and then to give yourself a breather? There may be plenty of evidence that leaving children to watch too much television is a bad idea, but there is something to the idea that educational TV is, well, educational. We have the brain scans to prove it!

A study published in PLOS Biology used functional MRI scans to check out the brains of 26 children and 20 adults while they watched 20 minutes of Sesame Street. The actual purpose of the study wasn’t to find out if Sesame Street was educational per se. Rather, it was to observe the neural processes in the brain while a child is learning “naturalistically” and then see whether what they saw could predict how well the children would perform on standardized IQ tests.

Often, participants in studies receive fMRI scans while they are doing some sort of task that is supposed to simulate learning and/or stimulate certain neural processes. For example, a study subject might be asked to put together a three-dimensional puzzle on a computer (so their head remains still enough for the scan) to see how the brain interprets spatial relations.

However, these sorts of oversimplified “lab” tasks are not always representative of real-world activities, so it’s not clear whether what the researchers see on the brain images during these tasks is necessarily indicative of what REAL-life spatial relations thinking looks like. Are the neural processes seen in an fMRI scan while putting together blocks on a computer screen the same as what’s seen in the brain while a person builds a treehouse?

In this study, the researchers found a partial answer to exactly that kind of question, and the answer is no.

The children in study, ranging in age from 4 to 11 and all typically developing, watched the same 20-minute montage of short clips with Big Bird, Cookie Monster, the Count, Oscar and the rest of the gang teaching numbers and letters, shapes and colors, planets and countries, and so on. Meanwhile, the fMRI was taking a snapshot of their brain every two seconds.

The fMRI (which uses a giant magnet, not radiation, to peek into the brain) works by dividing the brain into a 3-D grid so that it can measure the intensity of the brain signals in each little section (about 40,000 of them, called voxels). The researchers collected a total of 609 images of each participant’s brain, which they could then use to map out the neural processes of the participants while they were watching.

They also had the children (23 of them), in a separate fMRI scanning period, perform a one of those lab-only fMRI tasks. In this case, the kids matched isolated pairs of faces, numbers, words and shapes on the computer (they pressed a button if the two images shown matched) while the fMRI images of their brains were created.

Finally, the children (19 of them) took IQ tests that primarily tested their math and verbal skills. Then the researchers analyzed the maps of neural processes in the children and their comparisons with the adults.

They found a couple of interesting things. First, the kids whose neural “maps” were most similar to the adults also performed the best on the IQ tests. This means kids’ brain structure matures in a predictable way, which the researchers called “neural maturity.”

“Broadly speaking, the children showed group-level similarity to adults in cortical regions associated with vision (occipital cortex), auditory processing (lateral temporal cortex), language (frontal and temporal cortex), visuo-spatial processing and calculation (intraparietal cortex), and several other functions,” the authors wrote.

The fMRI scan on the left represents correlations in neural activity between children and adults, in the middle between children and other children, and on the right between adults and other adults. Such neural maps, says University of Rochester cognitive scientist Jessica Cantlon, reveal how the brain’€™s neural structure develops along predictable pathways as we mature.

Second, the brain maps created during the Sesame Street viewing accurately predicted how the children performed on the IQ tests. Kids who did better on the verbal tasks showed more mature neural patterns in a part of the brain that handles speech and language, called the Broca area. Meanwhile, the kids whose math scores were highest had more neural maturity in a part of the brain that processes numbers, called intraparietal sulcus.

But the researchers’ other finding was that those areas of neural maturity seen during Sesame Street viewing — the ones that matched up with the children’s scores on the IQ test — were not seen during the fMRI task of matching faces, numbers, words and shapes. Basically, the “let’s try to simulate what learning looks like in the brain” task designed specifically for fMRI scans didn’t help much. But the more naturalistic, organic learning that takes places while watching Sesame Street did work.

Researchers now know they can use activities like viewing educational TV to scan children’s brains and learn more about how they learn — and it’s more accurate and helpful than invented computer tasks. It’s possible this technology and research could be applied to understanding better what’s going on with certain learning disabilities.

But a nice additional finding is that, hey, Sesame Street really IS educational! Of course, my son’s favorite show is a different PBS production — Dinosaur Train (which I admit I enjoy too) — so I also feel a better that little D spends a half hour or two, several days a week, learning from Buddy the Tyrannosaurus Rex, Tiny the Pteranodon, Mr. Conductor and Dr. Scott the Paleontologist about dinosaurs, carnivores, herbivores and how to test a hypothesis. All aboard!

Cottoning on to genome duplications

Cotton, courtesy of the USDA.
What do electrons have to do with our ability to spin this into yarn?
Image via Wikimedia Commons.
 
by Chris Gunter, Science Education Editor, DXS

 

Plants are hard. Not in the physical way, but in the genomics way: It’s been estimated that 75% of domesticated plant genomes are polyploid, meaning they have up to 12 sets of each chromosome in every cell. This makes genome sequencing crazily difficult: Each gene segment is represented multiple times, and each one has changes between them, since these organisms multiplied their chromosomes millions of years ago.
Photo of one of the institutions involved, the HudsonAlpha Institute
for Biotechnology (and my employer), through our backyard cotton field.
Credit: Holly Ralston
 
Every genome sequence has errors produced along the way; it’s just a factor of the technology and the scale involved. When you are trying to read the genome of a plant and you see a nucleotide position with multiple bases supposedly reported by the sequencer at that position, how do you know what’s real and what’s error?
 
Enter comparative genomics. Scientists around the world are attacking this problem by sequencing as many different plants as possible and comparing the genomes to each other across evolutionary time. This week, the plant in the spotlight is cotton, or the Gossypium genus. Scientists from 10 countries collaborated to produce a draft genome sequence for Gossypium raimondii, which produces a non-spinnable variety of cotton fiber.
 
The cotton genome produced is much larger than other plants that have been sequenced – poplar, rice, and grapevines – and in this case 61% of its genome size comes from repetitive elements, which are also quite hard to incorporate into a genome sequence. It’s a little like putting together a multi-million piece jigsaw puzzle where over half the picture is blue sky. In the unique parts of the genome are over 37,000 genes, which is at least 10,000 more than humans.
 
By comparing this more complete genome sequence to other plants, the researchers can conclude that what we now know as cotton has gone through multiple transformations. At least 60 million years ago, its ancestors diverged from other plants and went through an abrupt chromosome multiplication, to have the five or six sets of chromosomes we still see today.
 
Then, about 5-10 million years ago, fibers with a structure that allowed them to be spinnable into yarn evolved in some cotton subgroups and not others. To investigate what makes spinnable cotton, the researchers produced some genome sequence for a number of representatives of these subgroups. Intriguingly, they saw linkage between fiber quality and a block of mitochondrial genes that had transported to the nucleus of some cotton strains. Mitochondria are the structures in the cell that take nutrient energy and package it into molecules that cells can use as an energy source.
 
In the case of cotton, the co-opted mitochondrial genes relate to the way cells like ours and those of plants generate those energy-containing molecules, by transport of electrons through certain enzymes (like NADH dehydrogenase for you aficionados). There is no obvious connection between the observations about electrons and the spinnability of cotton, though, leaving open the question: Can this passage of electrons from protein to protein really be involved in allowing our own ancestors to start making clothes from cotton? Now that these genome data have been released, anyone can study them for an answer.
 
The paper is freely available on the website of the journal Nature and is entitled “Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.”

Why being a Nature editor is like riding the Knight Bus

 
Have you seen a picture of our science education editor, Chris Gunter (above)? She looks kinda nice, doesn’t she? Would it surprise you to learn that once upon a time, she was viewed along the lines of the love child between a rock goddess and Darth Vader? Perhaps picture Grace Slick in a long black cape, glaring at you. Like this:
 
Via Wikimedia Commons.
Why was Chris such a badass? Because she was an editor at Nature, science’s toppest-tier journal, for almost seven years, dealing with submissions in the genetics/genomics side of things. You might be surprised to learn, as Chris relates in telling about her experiences at Story Collider, which features compelling stories about science, that what sounds like an intensely precise and technical field generated “mountains of drama.” In telling her tale, Chris likens her experience to riding the Knight Bus in Harry Potter, in which you’re never quite sure who your seat mate will be. She writes,

People ask me all the time what the job was like. The best analogy I’ve I found is riding the Knight Bus in Harry Potter. The Knight Bus is the magical transport full of crazy people and events, both amazingly good and scarily over the top. Similarly, I felt like I was on this magical transport that went to the wildest places, and every week I’d think, “There is absolutely no way we will get to our destination” of putting out a magazine. Yet, thanks in part to the skillful drivers on the editorial and production teams, every week we did arrive at the publication of an issue, and it was an exhilarating ride.

For more about Chris and her experiences on the Knight Bus … er, at Nature … read on over at Story Collider, where her story has been filed under “Stress.” For good reason.

 

The 2013 Flame Challenge Question: What is time?

By Biology Editor Jeanne Garbarino

Last year, Alan Alda presented scientists all over the globe with a challenge: explain what a flame is to an 11 year old. This was born out of his personal experience when, at age 11, he asked his teacher what a flame was and was given a one word, and completely incomprehensible answer, “oxidation.”

As a founding member of Stony Brook University’s Center for Communicating Science, Alda is committed to promoting better science communication from scientists. In an effort to enhance the dialogue between scientists and the general public in a fun and meaningful way, Alda initiated the first ever The Flame Challenge competition. Much to everyone’s surprise, this creative competition was a big hit, and over 800 entries were submitted (including mine!). Each entry was vetted for accuracy and then judged by entire classrooms of 11-year-olds located all over the world. The winner of the first Flame Challenge was a graduate student and father, Ben Ames, who presented the public with an incredible story and original music that thoroughly explained the concept of a flame.

Because of the success of last year’s Flame Challenge, Alda has set out to do it again. However, instead of asking the question himself, he crowdsourced the question from — you guessed it — actual 11-year-olds. “Last year’s contest question came from a real 11-year-old: me,” Alda said. “But when I asked what a flame was at the age of 11, I was probably younger in some ways than most 11-year-olds are now. They’re asking a very deep question this year. It’s going to be fun to see how scientists around the world answer  that one in everyday language.”

According to the press release, the Center for Communicating Science collected about 300 questions from children, ranging from “Does the universe have a known end?” and “How does the brain store all that information?” to “Why are Shetland ponies so small?” But, once the votes were counted, there was one question that reigned supreme: What is time?

 










Scientists will have until March 1, 2013, to submit their answer, and this year, there will be winners selected from two categories: written and video/graphics. Once submitted, the explanations of time will be scrutinized by over 5,000 11-year-olds worldwide. The winning scientists will be rewarded with a trip to New York City and honored at a World Science Festival event on June 1, 2013.

For more information on entering or judging the contest, or to see last year’s top entries, please visit www.FlameChallenge.org.


If you are planning to enter, best of luck! I can’t say that this is an easy question, and I look forward to seeing all the wonderful answers come spring. Happy sciencing!

Ben Ames award winning explanation of a flame:

 

Crowdfunding on the Brain: Finding Biomarkers for Early Autism Diagnosis

By Biology Editor, Jeanne Garbarino


If a child is diagnosed with autism spectrum disorder (ASD), it is because they have gone through a number of rigorous behavioral tests, often over a period of time, and never straightforward. Of course, this time can be a stressful for parents or caregivers, and sometimes the answers can lead to even more questions. One solution to the waiting and uncertainty would be to have a medical test that could more easily diagnose ASD. However, no one has been able to identify biomarkers – molecules in the body that can help define a specific medical condition – for the condition. Without this type of information, it is not possible to create a diagnostic test for autism.


Having been through this process with their son, who is on the autism spectrum, Clarkson University scientists Costel Darie and Alisa Woods have decided to work together to help address this issue. An interdisciplinary laboratory that combines hardcore proteomics (the study of the proteins we make) with cognitive neuroscience is probably not what you think of when it comes to running a family business. But for Darie and Woods, “marriage” has many meanings. This husband and wife team has combined their brainpower to embark on a scientific journey toward understanding some of the biochemistry behind autism, and they are walking on an increasingly popular path to help finance their work: crowdfunding.


A major goal of the Darie Lab is to identify biomarkers that are associated with autism and then to create a medical test to help alleviate some of the frustrations that come with the ASD diagnostic process. Using a technology called high-definition mass spectrometry, the Darie Lab has outlined a project to figure out the types of proteins that are in the saliva or blood of children with ASD and compare these protein profiles to the saliva or blood from children who are not on the autism spectrum. If the Darie Lab is successful, they might be able to help create a diagnostic test for early autism detection, which would undoubtedly fill a giant void in the field of autism research and treatment.


Here is how the experiment will work: The members of the Darie Lab will collect saliva (and/or blood) samples from children, half of whom are on the autism spectrum and half of whom are not. The researchers will prepare the saliva or blood and collect the proteins. Each protein will be analyzed by a high definition mass spectrometer, which is basically a small scale for measuring the weight and charge of a protein. The high definition mass spectrometer will transfer information about the proteins to a computer, with special software allowing the Darie Lab investigators to figure out the exact makeup of proteins in each sample.


The bottleneck when it comes to these experiments is not getting samples (saliva and blood are easy to collect), and it isn’t the high-tech high-definition mass spectrometer because they have access to one. Rather, the bottleneck comes from the very high cost of the analytical software they need. Because this software was not included in their annual laboratory budget but is critical to conducting this experiment, the Darie Lab is raising money through crowdfunding.


Why I think a contribution is worth the investment: Technology is always advancing, especially when it comes to protein biochemistry. The high-definition mass spectrometer is a recent technology, and according to the Darie Lab, they have been able to identify over 700 proteins in the saliva alone. This is quite an incredible step up from traditional mass spectrometers, which could detect only around 100 proteins in saliva. Just because we haven’t been able to identify biomarkers for autism in the past doesn’t mean we can’t do it now.

In addition to the use of this new technology, the Darie Lab presents some compelling preliminary evidence for a difference in protein profiles between those with ASD and those who do not have ASD. While they’ve examined only three autistic people and compared them to three non-ASD individuals, the two groups were clearly distinct in their saliva protein profiles. If this pattern holds up with an increased number of study participants, the implications could be quite significant for autism research.
 
Preliminary data from the Darie Lab shows that there are saliva proteins showing a 20X or greater
difference between ASD (ovals) versus sibling non-ASD controls (rectangles).

If you decide to kick in some funds, your good deed will not go unrewarded. As a thank-you for contributing, the Darie Lab has offered up a few cool perks, including high-quality prints of microscopic images in the brain.



If you are looking for a good cause, look no further. I am excited to see how the Darie Lab crowdfund experience goes, and I wish them all the best in their quest, both as professionals and as parents. To find out more, or to make a donation, visit the Darie Lab RocketHub page.

Fluorescent images of the brain, available to those donating $100 or more.
The opinions expressed in this post do not necessarily agree or conflict with those of the DXS editorial team and contributors.

What’s on your wishlist?

Digi-bling cufflinks

It’s that time of year again, the shopping season winding through the holidays. We have prepared a plethora of gift ideas (for yourself or another science and tech connoisseur on your gift list.)

  

Attire yourself in science! Double X Science gear is always fashionable. Our store has infant wear, mugs, and t-shirts, all decked out with our logo and motto. Add some Helix Pantyhose and you are dressed for science success. Once dressed, add eye-catching red circuit board cufflinks ($16) from Digibling. Digibling highlights electronics components jewelry. SurlyRamics is stuff full of science necklaces and earrings. Declare your love of science ($18, pictured) or the scientific method ($18, pictured). Maybe Feynman diagrams ($22, pictured), amonites ($22, pictured), or chemical formulas are more your style ($18, pictured).

 



Molecular Muse Resveratrol
Looking for more molecules? Made with molecules by Raven Hanna has beautiful chemical compound jewelry and ornaments made of sterling silver (from $25). Resveratrol ($130, pictured) or a couple of DNA bases ($50, pictured) may be more your style.
Artologica Petri Dish Ornaments


Once dressed and ready to go, dress up your home. Thinkgeek offers a periodic table shower curtain ($30). Artologica recently revealed her petri dish ornaments ($15). She is well known for her science paintings (from $35), also available in the Etsy shop.

   

There are many a headphone user and many nighttime music listeners. Bedphones ($30) are perfect for the sleeper who needs to listen to music that a sleeping partner may not wish to hear, and they turn off when the listener falls asleep. Nifty! To wake up the next morning, use this water powered clock ($12) available at Thinkgeek.
In the market for books? There are many science books for the scientists and science interested. Start with the Open Laboratory series (from $7.50) highlighting the best of science writing online. Maybe you have a cook who is interested in the chemistry of cooking. They might want to check out Cooking for Geeks or Modern Cuisine: The Art and Science of Cooking.

Do you love gadgets? Do you have the newest smartphone or tablet? Perhaps you’ve already checked out the Nexus 10 tablet from Google (from $399) which arrived last month. The Nexxus has arrived to generally good reviews to compete with the standard iPad (from $399) tablet size. Google and Apple have also gone “mini” with the Nexus 7 (from $199) and the iPad mini (from $329), respectively.

Looking for a small, transportable “normal” size keyboard for that iPad or iPhone? Look no further than the Cube Laser Digital Keyboard ($180).

 

 

What about other great gadgets? The DOTKLOK (from $150) is an open-source and hackable digital clock. It also consumes 2W for power! Runners and cyclists who love their gadgets may like the Garmin Forerunner 610 GPS watch ($320). Track your workouts, train like a pro, and analyze all the data this watch feeds to you for the height of fitness.

 


If DNA is your thing then artwork of your personal DNA is the way to go. Get a kit from DNA 11  and have your personal DNA run on a gel and transfered to a beautiful piece of art (from $199). Perhaps the ultimate in science and technology applied to a single person is having your personal genome sequenced. 23andme ($299) offers a kit to have your DNA genotyped or visit Knome ($4998) for full genome sequencing. There are a number of companies available for personal genotyping and genome sequencing for a range of cost. Another option is to join the Personal Genome Project, and for full disclosure and sharing of your genome with others for scientific purposes, you can have your genome sequenced as a donation to the organization.


 
Human Genome By Silky M
by Adrienne Roehrich, Chemistry Editor