Moving on Up the Academic Food Chain!

Allright, folk! The final documents have been signed, sealed, and delivered. Looks like I’ll be starting a position as an Assistant Professor in the Department of Biology at UMass Boston in the fall. That’s right, soon the Byrnes Lab is going to become a reality. Get ready, Science, because this is going to be an adventure!



GO BEACONS!

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Beware of the teeny tiny crabs. They will cut you!

Happy Friday, everyone. To celebrate the end of the week, I leave you with what is hands down my favorite #SciFund video from round 2. And I don’t just say this because it was made by a collaborator of mine of the #SciFund paper that we happen to be editing right this very moment (or, in half an hour or so). I say this because it is a beautiful example of the fusion of (silly) Art and Science. That it is my favorite from a sea of awesome videos also says a lot about how my brain works, but more of that another time.

The project is called Beach of the Goliath Crabs by the ever amazing Dr. Zen Faulkes. The project itself is pretty awesome – looking at environmental and evolutionary drivers of gigantism in the teeny tiny Lepidopa benedicti . It’s a great project with a GREAT video channeling Godzilla and other classic Japanese monster movies. Definitely worth kicking in a few bucks to make this research happen (and it won’t even take very many of those bucks to hit Zen’s goal!)

Awesome, yes? Worth funding just for the video. And you get hot Science to boot!

Also, that finger image makes a kickass meme.

So, what are you waiting for, go over and check out Zen’s full Beach of the Goliath Crab proposal. And if you feel inspired, check out a few other projects to crowdfund (or view ‘em broken down into categories). There’s a lot of amazing science there, and some wonderful science communication videos. Enjoy, and Happy Friday!

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Spring is sproinging earlier than we thought

ResearchBlogging.orgClimate change is speeding up the timing of plants growing & flowering. It’s an old trope we’re all used to hearing by now. Spring warms up earlier, and plants shift their timing – their phenology. This shift in phenology is going to have big consequences for things like agricultural production, the ability for wildlife to find food, the ski season, etc. Important, right? Something we might want to predict. So, we’ve been running experiments for years, looking at climate change scenarios, and finding out how much earlier plants will do their thing, and we’ve gotten some pretty good results.

Or have we.

New work published online in Nature by Lizzie Wolkovich and colleagues (go-go NCEAS working group headed by a former postdoc!) shows that…ah, hell, I think I can summarize it with their figure 2.

Results from a meta-analysis showing sensitivity to warming in experiments and what we've observed. Panel a shows all plant species, b is just those that are in both the observed and experimental data sets.

Basically, after collecting an enormous database of changes in leafing and flowering times in both experiments and what has been observed out in the world, we’ve found that experiments UNDERPREDICT how sensitive plants are to climate change.

That’s right. Something has moved these plants to leaf and flower ever EARLIER than predicted. Climate change’s effects on plans are even STRONGER than we’d predict from simple warming experiments.

To me, this suggests a whole lot of interesting directions – why are things moving even earlier? What indirect effects is warming having on the Natural world that might speed up plant timing? What crazy interactions are there that we’re missing when we try and isolate out just one signal of climate change?

It’s a little disheartening – we canot predict climate impacts on Life on Earth from changes in one or two simple variables – and a little scary – we have only begun to understand the impacts of climate change. But I think it’s fascinating in that it suggests we really need to understand the how the complex system of nature is going to be affected by climate change to alter even the most basic properties of the world around us.

Wolkovich, E., Cook, B., Allen, J., Crimmins, T., Betancourt, J., Travers, S., Pau, S., Regetz, J., Davies, T., Kraft, N., Ault, T., Bolmgren, K., Mazer, S., McCabe, G., McGill, B., Parmesan, C., Salamin, N., Schwartz, M., & Cleland, E. (2012). Warming experiments underpredict plant phenological responses to climate change Nature DOI: 10.1038/nature11014

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Diversity Loss v. Environmental Change: The Story of the Paper

ResearchBlogging.orgJust over a year and a half ago, I was lucky enough to be in a room with some of the world’s top authorities on the consequences of species loss at the National Center for Ecological Analysis and Synthesis. We were worried. When Brad Cardinale asked, “So, where does diversity loss rank? As important as climate change? Rampant nutrient runoff from agriculture? I mean, come on, how important is it, really?”, none of us knew the answer.

But now we do.

As our group has just published in Nature, species loss matters quite a bit – as much as many of the major drivers of environmental change.

Will losing one or more of these algae matter as much as the rapid rise in global temperature?

Let me back up. As species continue to go extinct across the globe, one has to ask – will there be any consequences? We’ve spent the last 15 years answering this question, and it is, yes. Losing species, at the bare minimum, reduces the ability of fields of plants or algae to most efficiently turn sunlight and nutrients into new production. Losing some of the myriad of species responsible for munching their way through dead detrital material will slow that whole process down. More questions remain, but diversity loss seems to be altering a wide variety of ecosystem properties.

But how important is that loss, really? In the grand scheme of climate change, pollution, and other forms of environmental change, is losing species important? Or is it just the icing on the cake of environmental degradation?

What would results from experiments like this one with flumes full of many different combinations of algae tel us about how diversity and the environment both shape primary production?

Realizing that there was no good answer to this, we sat down, rolled up our digital sleeves, and got to work. Led by the ever steady Dave Hooper and always insightful Carol Adair, we began to dig into the literature – to see what information was out there about the impacts of these different forms of environmental change. We were armed with the hugely revised and updated version of Brad’s monster database (in no small part due to the Epic efforts of the unflappable Kristin Matulich at UC Irvine) documenting nearly every experiment that has measured the consequences of diversity loss ever conducted. Most of the data was from experiments describing changes to plant or algal productivity & decomposition. So we had a starting point.

How will diversity loss compare to the plethora of other forms of environmental change in altering these basic processes?

The answer came from what we called the Meta-Meta. (Come on, say it 10 times fast). We assembled a huge database of meta-analyses – statistical summaries of previous experimental results much like our own diversity set – that examined the effect of, say, nutrient addition or warming on plant productivity and decomposition. Carol then did some statistical wizardry, calculating bootstrapped effect sizes of each from these previous meta-analyses. Hence, we had Meta-Meta-Analytic results that we could compare with our own meta-analytic results. There was a lot of meta.

But we had a problem. The measurements in our diversity experiment database looked at the consequences of having 1 species versus many species in a plot for productivity. That number of ‘many’ species varied from experiment to experiment. And, besides, what’s the right diversity loss scenario to compare to climate change. 10% species loss? 50%? 95%? Only 1 last species left, clinging tenaciously to the earth?

We actually argued about this for a long time as only scientists can when they want to get something dead-on right. But the solution ended up being delightfully elegant.

Why not look at the whole range of species loss scenarios. Bruce Hungate, Carol, Dave and I figured out a way to look at slices of the data that simulate some relevant range of species loss and applied a nonlinear model shown to fit species loss data quite well to generate a loss-productivity curve. The curve showed that, if you lose a few species, meh! Some productivity is lost, but no big whoop. But as you start losing more and more, the problem of species loss starts to compound. Like the interest rate from hell, more species lost means exponentially more plant production lost.

We still struggled with visualization (hey, infographics people, any ideas), but the figure that we ended up producing I think gets the point across nicely.

Figure 1 from the paper

Changes in primary production as a function of per cent local species loss or the application of an environmental change treatment. The line with the confidence interval around it shows the effect of diversity loss. The think no-CI curve is its mirror image so that we can easily compare effect magnitude to types of environmental change that differ in the sign of their effect. Anything in red is a negative effect on productivity. E.g., drought and diversity loss both have negative effects. Anything in blue is a positive effect. E.g., if you add nitrogen and phosphorous, you boost productivity by quite a bit. Y-axis is in units of log response ratios. Any designers in the house with an even slicker way of presenting this, email me!

So, now you can compare the effect of some environmental change to some percentage of species loss. For example, ~50% species loss has an equivalent impact to dousing a plot in acid rain.

Of all of the types of environmental change out there, a lot of them are roughly equivalent to between 30-70% species loss for production and decomposition. And, some additional review work we did showed that predictions of local extinctions (i.e., within a plot) range pretty widely, but, the upper end of that range is ~41-60% – so, right in our range of observations.

“Oh-ho!”, I hear some of you saying (and some in the group said – I’m looking at you, Lars). “Aren’t the effects of environmental change in your Meta-Meta actually including any loss of species in experiments? I want a cleaner result!”

Well, we thought of that.

Kristin, Dave, and I did some data-sorting kung-fu on the diversity experiment data set, and turned up several studies that not only manipulated species number, but also crossed that with a manipulation of some form of environmental change – things like drought, nutrient enrichment, and more. This was a much smaller set of data, and a smaller set of environmental change manipulations. But, the results are compelling, and show that we’ve got the story right.

Figure S4 from the supplement. All is as it was before in the above figure, but, this data is from experiments that cross changes in number of species with one or more other forms of environmental change.

Those careful factorial crossed experiments show that once the diversity signal is taken out, the size of many of those environmental effects gets smaller relative to diversity. For example, the average effect of a CO2 increase is of the same magnitude as 20% species loss (although opposite in sign). The effect of drought, one of the biggest from the Meta-Meta, drops waaaay back as well – although for both of these, the confidence intervals overlap 0 due to low sample sizes (and the 2 or the three drought datapoints come from mosses, so, more factorial experiments are needed!). Still, it’s pretty darned suggestive that there are some interesting indirect effects hidden in the meta-meta.

At the very least, the experimental data pretty clearly backs up the conclusion that loss of species appears to have effects on primary productivity that is similar to other sources of environmental change. And more intriguingly, it suggests that if environmental change ALSO causes loss of species, ecosystem functions like productivity are going to get hit with a 1-2 punch.

The team noted a few caveats and open questions to this. When multiple kinds of environmental change were present – say, multiple kinds of fertilizers – the effects are way stronger than diversity loss. But we don’t have a great handle on those kinds of synergistic effects overall. We also don’t know how they’ll affect diversity and then indirectly alter function. Also, because we were working with meta-analyses, we don’t have, say, the ability to compare 30% species loss to a 30% increase in temperature, or something comparable. It would be awesome to be able to compare two continuous curves, but we’re not there yet. Our results (deep inside the supplement) also show that composition – which species go extinct – can matter a great deal. But that was ancillary to our overall question of diversity loss. And there’s all sorts of ancillary questions about scaling and interaction between diversity loss and environmental change – but that’s work that Andy Gonzalez and Mary O’Connor are following up on in a massive multilevel modeling extravaganza.

Overall, we felt like this told a pretty tight story. Sure, as we came up with question after question, we accumulated a lot of figures and explanatory materials that made their way into the supplementary material, but the big story was pretty clear and compelling. In working group meeting 3, we really shaped this sucker, and then bounced revisions back and forth, wrenching the text back and forth. I’ve never been part of such a large collaboration (save for our earlier first paper), so it was an inspiring process to see big ideas hashed out, thrown aside, revised, and made into clearer cleanly crafted pieces all on the screen of my word processor.

I’m pretty psyched that the paper is now out, and I hope you all enjoy it as well. There’s more to come from the working group, so stay tuned!

The working group at our first meeting.

(Oh, and, final note – to anyone who wants to look at this data, or for R-nerds who want to see how we created these awesome figures, it’s all available here.)

References
Cardinale, Bradley J.; Matulich, Kristin L.; Hooper, David U.; Byrnes, Jarrett E.; Duffy, Emmett; Gamfeldt, Lars; Balvanera, Patricia; O’Connor, Mary I.; Gonzalez, Andrew. 2011. The functional role of producer diversity in ecosystems. American Journal of Botany. 98:572-592. 10.3732/ajb.1000364

Hooper, David U., Adair, E. Carol, Cardinale, Bradley J., Byrnes, Jarrett E.K., Hungate, Bruce A., Matulich, Kristin L., Gonzalez, Andrew, Duffy, J.E., Gamfeldt, Lars, O’Connor, Mary I. 2012. Biodiversity loss ranks as a major driver of ecosystem change. Nature. 10.1038/nature11118

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#SciFund 2 has launched!

Woohoo! #SciFund 2 is off to the races! I am in awe of the nearly 70 scientists who have put their work up for your enjoyment. I’ll be featuring a few marine projects in the next few days, but, for now, get on over there, check it out, and help us crowdfund some amazing science!

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Tuba Pteropod? The Deep by PES

I’m not sure why, but something really caught me about this piece…

by PES

What would your favorite found-object sea-creature be?

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A Watermelon for the Aquanauts

I just saw this video from the Pawlik lab doing work done in the Aquarius habitat in the Caribbean. I just adore it. There’s something about the lighthearted sense of fund and enjoyment behind the soundtrack that syncs up with the work that’s being done that captures some of the essence of what subtidal work can be (even for those of us in colder temperate climes). Enjoy this research pastiche!


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Does Synthesis Ecology Exist as a Scientific Discipline?

Does Synthesis Ecology exist? Is it a discipline? If so, what is it? If not, why not?

As a part of the Trends in Ecological Analysis and Synthesis symposium here at NCEAS, several postdocs past and present organized by Jennifer “Firestarter” Balch got together and sent this survey to the last 15 years of NCEAS postdocs. The survey asks what current and former NCEAS postdocs thought were the most important contributions in Synthesis Ecology and what they thought were the most exciting future directions in Synthesis Ecology.

And then a small storm erupted.

While Jennifer modified a definition of Synthesis Ecology from the NCEAS mission statement (“Synthesis Ecology is the integration and analysis of existing data, concepts, or theories to find emergent patterns and principles that address major fundamental questions in ecology and allied fields. “), even amongst the postdocs, no one could agree whether or not Synthesis Ecology existed as a Thing. Was it a discipline? Was it a technique? Would you feel comfortable calling yourself a Synthesis Ecologist? What is it?

Even amongst the authors on the analysis of the survey, there was little agreement. We sat down one morning, a group of current and former NCEAS postdocs, and tried to hash this issue out. Amusingly, the room was divided, largely along generational lines, as to whether it was or was not a field. We argued it around for a while, posing different definitions and finding little agreement.

Really, there are more questions and points of reflection than answers. Here are some relevant points that I pulled from our conversation. They’re what I latched on to, and are even argued amongst the participants in the group, so, no answers here.

  • What is a Field Of Science? The definition I threw out that everyone seemed comfortable with was that a field is a unique way of asking and answering questions about the world. The confluence of Asking and Answering is key. A methodology is just a way of answering.
  • Does a Field need to have a unique theory associated with it? Or not?
  • By analogy, how is Genomics a field? Why is Genomics not just a technique or methodology within Genetics? Similarly, Geography has had this debate about Geographic Information Science and, indeed, has emerged as its own field. Also on the same line, Molecular Biology – a field we are all well familiar with has gone through the same set of questioning.
  • One objection was that Synthesis Ecology doesn’t have a single field system – it is a collection of techniques that answer larger questions. And yet, is that not similar to Theoretical Ecology? How is one a discipline and the other not?
  • If it is a field, a defining emergent characteristic MUST be the crossing of disciplinary boundaries – either within ecology or outside of ecology

So, I wish I could say I had an answer for you.

OK, that’s a cop-out – I do have my own answer (Not reflective of the group! In fact, I hope they have some pointed answers and counterpoints to this!). Yes, I do think Synthesis Ecology is a field. Synthesis Ecology is the field in ecology defined by the combination heterogeneous streams of data & concepts to ask and answer questions underpinned by either ecological theory and/or application that cannot be addressed by any single investigation or dataset.

OK, after pondering THAT and the above points and thinking about the pieces you’ve read over the last 15 years, I open this discussion to you: Is Synthesis Ecology in and of itself a field? And please, be polite!

Update: See also Karen McLeod’s excellent post, Beyond crunching data: The power of ideas

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How to prepare for #SciFund – by crowdfunding science!

Are you excited about seeing the 125 hot science projects that got submitted to #SciFund2? Can’t wait the additional month for those projects to post themselves online? Want to fund some awesome science right now? Maybe you signed up and want to earn some pre-#SciFund karma?

Well fear not! The Science tag on Rockethub has been taking off! A few folk were so excited about crowdfunding their work that they couldn’t wait for #SciFund 2! So why not swing over and look at these three projects and warm up your crowd-funding chops before #SciFund 2.

First up we have a project studying stress response in baby kestrels. BABY ANIMALS! (stressed out!) It’s a great simple video with KESTREL CHICKS. Awwww. I admit, I am a sucker for baby animals. Why do you think I like trochophores so much?


Next up we have a project on oyster acidification research. For those in the -omics crowd, this project is going to look at the transcriptome of oysters exposed to acidification. Field science, experiments, global change. Pretty awesome.

Lastly, we have one that just caught my eye on Chameleon color change. It’s for a PhD student working with undergrads to look at how hormone expression relates to color change ability. It’s got a great slick video showing chameleon color change, behavior, and giving you an introduction to the researchers.

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Marine Biology James Bond?

I’ve been pretty stoked about the This is What a Scientist Looks Like project on tumblr. So much so that I felt compelled to submit an (old) photo of me doing field work. I mean, when one things science, they often think labcoats and microscopes. When one thinks ecology, they often think hiking in a forest or working out on a sunny grassland. (note: these are impressions I’ve gotten to people when I say these words – not what I think myself, natch.)

So, why not throw in something of what a marine ecologist at work looks like. So here’s my shot:

Yeah, I admit, it’s kind of a marine ecology beefcake shot, and definitely falls into the ¿Quien es el mas macho? school of marine ecology, but I kinda love it (and thanks to Kristin Hultgren for taking it on our wacky marine ecology roadtrip).

But I was not prepared for what was to happen next. Namely, a good friend of mine getting hold of it and showing the picture for what it really is – me making my James Bond escape after blowing up the Evil Villan’s lair.

This is totally going to be the photo on the door of my lab one day.

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