July 11, 2018

Paleobiology

Recent Papers 




Synthesis
Matthew A. Campbell, Austen R. D. Ganley, Toni Gabaldón, and Murray P. Cox

Anieke Brombacher, Paul A. Wilson, Ian Bailey, and Thomas H. G. Ezard

Douglas W. Schemske and Gary G. Mittelbach

Julie A. Meachen and Trina E. Roberts


Adam Kane, Kevin Healy, Graeme D. Ruxton, and Andrew L. Jackson


April 7, 2018

Methods papers in The American Naturalist

We Editors often hear prospective authors say things like “but AmNat doesn’t publish ______”  (fill in whatever the author does in the blank space). Most often, I’ve heard that The American Naturalist does not publish Methods Papers, or does not publish genomics. 
 I’m here to say that in general, those statements are incorrect. I can’t think of subject areas in organismal biology that we exclude a priori.  Quite the contrary, a key goal of this journal is to attract a diverse readership. To do that, we like to publish on diverse topics. Or better yet, to publish papers that bring together multiple topics. 
So what DO we publish? Simple: we like to publish conceptually innovative papers (data, theory, or both), which make our readers think differently about a far-reaching topic. These could be in genomics, ecosystem, ecology, ecoimmunology, or neuroethology, as long as they push us to see an idea in a new light. This can be done by proposing a new idea (and following through to support it), or by providing the best-available evidence for a long-standing but poorly supported idea. Some papers put an innovative new twist on a classic concept. There are papers I call “Reese’s Pieces” science, after the candy made from peanut butter wrapped in chocolate. The advertisements for this candy used to make a big deal out of taking two great but familiar things and putting them together to make something new. Lastly, there are Methods papers.
It is true that The American Naturalist does not often publish purely methodological papers. Partly that’s because we don’t get many submissions. Partly it is because we keep a high bar for conceptual innovation. Often, methods papers provide new tools to solve known problems in a new way, maybe with greater precision. That’s a very useful and important service, but does not necessarily lead us to think about a subject in a new way, or to think about an entirely new subject. But sometimes Methods papers do just that. Joe Felsenstein’s 1985 paper on Independent Contrasts was fundamentally built around a new point of view, that launched the field of phylogenetic comparative methods. Masatoshi Nei proposed his famous Nei’s D in our pages, which launched a new way of thinking about molecular evolution.
What made these Methods papers so effective is that they gave us a tool to solve a problem we didn’t even know we had. By introducing their methods, they made us think differently about old problems, or revealed new questions. Not that we expect all methods submissions to compete with Felsenstein 1985.  But, we do believe there are actually many methods papers out there that fit this criteria of pointing us towards substantially new questions. These may present software or new technology or new protocols. But what should bind these together is an emphasis on opening up new questions, and providing tools to get answers that we couldn’t previously ask, maybe hadn’t even thought to ask, and which expand our conceptual horizons. 

So, Yes, we publish Methods Papers.  To use an analogy: we aren't so interested in tools for their own sake, but rather for what they can help us build. If the tool helps us build a sufficiently interesting new edifice, we might be interested in publishing it. Keep in mind that a paper describing a new method (e.g., a mathematical proof of an equation used in inference), may be most helpful to readers when accompanied by software, or a worked example to illustrate its utility. These are not strict requirements, but do tend to help the audience relate to the method. Conversely, papers describing new software for existing methods will not likely fare well because they are not advancing new kinds of questions, so much as enabling existing questions (which is important of course, but not what we look for).

 If you aren’t sure whether your Methods paper measures up, email the journal office or Editor (daniel.bolnick@uconn.edu) with a succinct pre-submission inquiry. 

February 22, 2018

Changing Landscape of Science Publishing

I was asked to provide some background for a class on Ethics in the Darwinian Sciences on the topic of the Changing Landscape of Science Publishing. Here's the list of resources I thought made a starting point into the ethical questions and changes going on.--Trish

Essentials

To sort out thorny issues (e.g., authorship disputes, accusations of plagiarism, retractions): Committee on Publication Ethics [COPE]: https://publicationethics.org/

To cover the basic responsibilities and ethics of each role in publishing: Council of Science Editors [CSE]: https://www.councilscienceeditors.org/

To get an overview on copyright, publication agreements, and creative commons licenses: https://dynamicecology.wordpress.com/2018/02/07/intellectual-property-law-101-for-academics/

Guides on how to

Authorship

Solve the questions of authorship BEFORE you write the paper

Peer Review


Open Science

Learn what your funders require--Gold OA, Green OA, self-archiving, opening the paywall, APCs, licenses. Read anything you sign.

Arguments for Open Science at all project stages

Preprints

Early sharing, green open access, disrupting traditional publishing

Evaluation Metrics


Science Social Media

 

Blog by Publishers on the Changing Landscape