September 15, 2015
Ten years ago today — on 15 September 2005 — my first palaeo paper was published: Taylor and Naish (2005) on the phylogenetic nomenclature of diplodocoids. It’s strange to think how fast the time has gone, but I hope you’ll forgive me if I get a bit self-indulgent and nostalgic.
I’d applied to join Portsmouth University on a Masters course back in April 2004 — not because I had any great desire to earn a Masters but because back in the bad old days, being affiliated to a university was about the only way to get hold of copies of academic papers. My research proposal, hilariously, was all about the ways the DinoMorph results are misleading — something that I am still working on eleven years later.
In May of that year, I started a Dinosaur Mailing List thread on the names and definitions of the various diplodocoid clades. As that discussion progressed, it became clear that there was a lot of ambiguity, and for my own reference I started to make notes. I got into an off-list email discussion about this with Darren Naish (who was then finishing up his Ph.D at Portsmouth). By June we thought it might be worth making this into a little paper, so that others wouldn’t need to do the same literature trawl we’d done.
In September of 2004, I committed to the Portsmouth course, sending my tuition fees in a letter that ended:
On the way to SVPCA that year, in Leicester, I met Darren on the train, and together we worked through a printed copy of the in-progress manuscript that I’d brought with me. He was pretty happy with it, which meant a lot to me. It was the first time I’d had a legitimate palaeontologist critique my work.
At one of the evening events of that SVPCA, I fell into conversation with micro-vertebrate screening wizard Steve Sweetman, then on the Portsmouth Ph.D course, and he persuaded me to switch to the Ph.D. (It was my second SVPCA, and the first one where I gave a talk.) Hilariously, the heart of the Ph.D project was to be a description of the Archbishop, something that I have still not got done a decade later, but definitely will this year. Definitely.
On 7th October 2004, we submitted the manuscript to the Journal of Paleontology, and got an acknowledge of receipt<sarcasm>after just 18 short days</sarcasm>. But three months later (21st January 2005) it was rejected on the advice of two reviewers. As I summarised the verdict to Darren at the time:
It’s a rejection. Both reviewers (an anonymous one and [redacted]) say that the science is pretty much fine, but that there just isn’t that much to say to make the paper worthwhile. [The handling editor] concurs in quite a nice covering letter […] Although I think the bit about “I respect both of you a great deal” is another case of Wrong Mike Taylor Syndrome :-)
At this point, Darren and I spent a while discussing what to do: revise and resubmit (though one of the reviewers said not to)? Try to subsume the paper into another more substantial one (as one reviewer suggested)? Invite the reviewers to collaborate with us on an improved version (as the editor suggested)? Or just revise according to the reviewers’ more helpful recommendations and send it elsewhere? I discussed this with Matt as well. The upshot was that on 20th February Darren and I decided to send the revised version to PaleoBios, the journal of the University of California Museum of Paleontology (UCMP) — partly because Matt had had good experiences there with two of his earlier papers.
[Side-note: I am delighted to see that, since I last checked, PaleoBios has now made the leap to open access, though as of yet it says nothing about the licence it uses.]
Anyway, we submitted the revised manuscript on 26th May; and we got back an Accept With Minor Revisions six weeks later, having received genuinely useful reviews from Jerry Harris and Matt. (This of course was long before I’d co-authored anything with Matt. No handling editor would assign him to review one of my papers now.) It took us two days to turn the manuscript around with the necessary minor changes made, and another nine days of back and forth with the editor before we reached acceptance. A week later I got the proof PDF to check.
Back in 2005, publication was a very different process, because it involved paper. I remember the thrill of several distinct phases in the publication process — particularly sharp the first time:
- Seeing the page proof — evidence that I really had written a legitimate scholarly paper. It looked real.
- The moment of being told that the paper was published: “The issue just went to the printer, so I will send the new reprints […] when I get them, probably sometime next week.”
- Getting my copy of the final PDF.
- The day that the physical reprints arrived — funny to think that they used to be a thing. (They’re so Ten Years Ago now that even the SVPCA auction didn’t have many available for bid.)
- The tedious but somehow exhilarating process of sending out physical reprints to 30 or 40 people.
- Getting a physical copy of the relevant issue of the journal — in this case, PaleoBios 25(2).
I suppose it’s one of the sadder side-effect of ubiquitous open access that many of these stages don’t happen any more. Now you get your proof, then the paper appears online, and that’s it. Bam, done.
I’m kind of glad to have lived through the tail end of the old days, even though the new days are better.
To finish, there’s a nice little happy ending for this paper. Despite being in a relatively unregarded journal, it’s turned out to be among my most cited works. According to Google Scholar, this humble little taxonomic note has racked up 28 citations: only two fewer than the Xenoposeidon description. It’s handily outperforming other papers that I’d have considered much more substantial, and which appeared in more recognised journals. It just goes to show, you can never tell what papers will do well in the citation game, and which will sink without trace.
September 10, 2015
Wouldn’t it be great if, after a meeting like the 2015 SVPCA, there was a published set of proceedings? A special issue of a journal, perhaps, that collected papers that emerge from the work presented there.
Of course the problem with special issues, and edited volumes in general, is that they take forever to come out. After the Dinosaurs: A Historical Perspective conference on 6 May 2008, I got my talk on the history of sauropod research written up and submitted on 7 August, just over three months later. It took another five and a half months to make it through peer-review to acceptance. And then … nothing. It sat in limbo for a year and nine months before it was finally published, because of course the book couldn’t be finalised until the slowest of the 50 or so authors, editors and reviewers had done their jobs.
There has to be a better way, doesn’t there?
Rhetorical question, there. There is a better way, and unsurprisingly to regular readers, it’s PeerJ that has pioneered it. In PeerJ Collections, papers can be added at any time, and each one is published as it’s ready. Better still, the whole lifecycle of the paper can (if the authors wish) be visible from the collection. You can start by posting the talk abstract, then replace it with a preprint of the complete manuscript when it’s ready, and finally replace that with the published version of the paper once it’s been through peer-review.
Take a look, for example, at the collection for the 3rd International Whale Shark Conference (which by the way was held at the Georgia Aquarium, Atlanta, which has awesome whale sharks on view.)
As you can see from the collection (at the time of writing), only one of the constituent papers — Laser photogrammetry improves size and demographic estimates for whale sharks — has actually been published so far. But a dozen other papers exist in preprint form. That means that the people who attended the conference, saw the talks and want to refer to them in their work have something to cite.
The hot news is that Mark Young and the other SVPCA 2015 organisers have arranged for PeerJ to set up an SPPC/SVPCA 2015 Collection. I think this is just marvellous — the best possible way to make a permanent record of an important event.
The collection is very new: at the time of writing, it hosts only five abstracts (one of them ours). We’re looking forward to seeing others added. Some of the abstracts (including ours) have the slides of the talk attached as supplementary information.
Although I’m lead author on the talk (because I prepared the slides and delivered the presentation), this project is really Matt’s baby. There is a Wedel et al. manuscript in prep already, so we hope that within a month or two we’ll be able to replace the abstract with a complete manuscript. Then of course we’ll put it through peer-review.
I hope plenty of other SVPCA 2015 speakers will do the same. Even those who, for whatever reason, don’t want to publish their work in PeerJ, can use the collection as a home for their abstracts and preprints, then go off and submit the final manuscript elsewhere.
Well, who knew? There I was posting images of “Pelorosaurus” becklesi‘s humerus, radius and ulna, and skin impression. There I was saying that this beast is due a proper description, and warrants its own generic name. And what should come out today but a new paper by Paul Upchurch, Phil Mannion and, oh yes, me, which does exactly that.
The headline news is the long-overdue establishment of a new genus name for this species — something that we’ve known was needed at least since Upchurch’s (1993) dissertation. Paul and Phil came up with the name Haestasaurus, from “Haesta”, the name of the putative pre-Roman chieftain whose people apparently settled the area of Hastings and gave the town its name. It’s nice that I can finally stop typing the scare-quotes around the no-longer-relevant old genus name “Pelorosaurus“!
(As you can see, the photography is rather better than in my own illustrations, which I made independently some years ago.)
Of course Paul has had an eye on this work, on and off, since the early 1990s. Then in the late 2000s, when I was working on Xenoposeidon and other Wealden sauropods, I started work independently on a redescription — which of course is why I prepared the figures that have appeared in the last few posts. But that work petered out as I started working more on other specimens and on the problems of the sauropod neck. More recently, Paul and Phil hunkered down and got the nitty-gritty descriptive work done.
Once they had a complete draft manuscript, they very graciously invited me onto the authorship — not something they had to do, but they chose to based on my previous interest in the specimen. My contribution was minor: I provided two of the illustrations, tidied up the early versions of several others, and did an editing pass on the text.
(This map is one of the two illustrations that I provided; the other is the multi-view photograph of the Pelorosaurus conbeari humerus.)
I’m grateful to Paul and Phil, both for inviting me onto this project, and for taking into account my strong preference for an open-access venue. It’s largely because of the latter that the paper now appears in PLOS ONE, where the glorious colour illustrations appear at full resolution and may be re-used for any purpose subject to attribution.
So: what actually is Haestasaurus? Is it the early titanosaur that we’ve all been assuming? The unexciting answer is: we don’t really know. Our paper contains three phylogenetic hypotheses (all of them Paul and Phil’s work, I can’t take any credit). These results are from adding Haestasaurus to the Carballido and Sander (2014) matrix, to the Mannion et al. (2013) standard discrete matrix and to the Mannion et al. (2013) continuous-and-discrete matrix. Only the last of these recovers Haestasaurus as a titanosaur — as sister to Diamantinasaurus and then Malawisaurus, making it a lithostrotian well down inside Titanosauria.
Both both of the other analyses find Haestasaurus as a very basal macronarian — outside of Titanosauriformes. Here is the result of the analysis based on Carballido and Sander’s Europasaurus matrix:As you can see, Haestasaurus is here a camarasaurid, making it (along with Camarasaurus itself) the most basal of all macronarians. In the second analysis — the one using discrete characters only from Mannion et al.’s Lusotitan paper — Haestasaurus is again in the most basal macronarian clade, but this time as sister to Janenschia and then Tehuelchesaurus. (In this topology, Camarasaurus is the next most basal macronarian after that three-taxon clade.)
So it looks like Haestasaurus is either a very basal macronarian or a pretty derived titanosaur. We don’t know which.
But, hey, at least it has a proper name now!
It’s Matt’s birthday today. I’d like to dedicate a sauropod to him, but I don’t have the authority to do that. So instead, I dedicate this blog-post to him, and declare it the Mathew J. Wedel Memorial Blog Post.
- Carballido, Jose L., and P. Martin Sander. 2013. Postcranial axial skeleton of Europasaurus holgeri (Dinosauria, Sauropoda) from the Upper Jurassic of Germany: implications for sauropod ontogeny and phylogenetic relationships of basal Macronaria. Journal of Systematic Palaeontology 12(3):335-387. doi:10.1080/14772019.2013.764935
- Mannion, Philip D., Paul Upchurch, Rosie N. Barnes and Octávio Mateus. 2013. Osteology of the Late Jurassic Portuguese sauropod dinosaur Lusotitan atalaiensis (Macronaria) and the evolutionary history of basal titanosauriforms. Zoological Journal of the Linnean Society 168(1):98–206. doi:10.1111/zoj.12029
- Upchurch, Paul, Philip D. Mannion and Micahel P Taylor. 2015. The Anatomy and Phylogenetic Relationships of “Pelorosaurus” becklesii (Neosauropoda, Macronaria) from the Early Cretaceous of England. PLoS ONE 10(6):e0125819. doi:10.1371/journal.pone.0125819
December 23, 2014
Arriving as an early Christmas present, and coming in just a week before the end of what would otherwise have been a barren 2014, my paper Quantifying the effect of intervertebral cartilage on neutral posture in the necks of sauropod dinosaurs is out! You can read it on PeerJ (or download the PDF).
Yes, that posture is ludicrous — but the best data we currently have says that something like this would have been neutral for Diplodocus once cartilage is taken into account. (Remember of course that animals do not hold their necks in neutral posture.)
The great news here is that PeerJ moved quickly. In fact here’s how the time breaks down since I submitted the manuscript (and made it available as a preprint) on 4 November:
28 days from submission to first decision
3 days to revise and resubmit
3 days to accept
15 days to publication
TOTAL 49 days
Which of course is how it ought to be! Great work here from handling editor Chris Noto and all three reviewers: Matt Bonnan, Heinrich Mallison and Eric Snively. They all elected not to be anonymous, and all gave really useful feedback — as you can see for yourself in the published peer-review history. When editors and reviewers do a job this good, they deserve credit, and it’s great that PeerJ’s (optional) open review lets the world see what they contributed. Note that you can cite, or link to, individual reviews. The reviews themselves are now first-class objects, as they should be.
At the time of writing, my paper is top of the PeerJ home-page — presumably just because it’s the most recent published paper, but it’s a nice feeling anyway!
A little further down the front-page there’s some great stuff about limb function in ratites — a whole slew of papers.
Well, I’m off to relax over Christmas. Have a good one, y’all!