ACS: Synthetic catalysts, not different, just better

I spent the early part of my first day in the metal-mediated reactions session. I particularly enjoyed a presentation by Andy Thomas from Scott Denmark’s group at UIUC, on rapid-injection NMR studies of Suzuki reaction intermediates.

Immediately after lunch I took a little bit of a trip down memory lane to attend the session on Lewis base catalysed asymmetric transformations and see a presentation by my PhD advisor Alan Spivey. It was genuinely fascinating to see the most recent achievements in areas that I spent a large chunk of my life battling. It’s gratifying to see some of these things really starting to work out. The presentation immediately following this was by Adam Kamlet from Pfizer. He described the use of a chiral DMAP catalyst to effect a dynamic kinetic resolution of a series of tetrazole containing prodrugs. The juxtaposition of these two talks really brings home that these studies are more than just an academic exercise, and I think it’s fair to say that Alan’s talk has inspired some future experiments for Adam.

In the second part of the afternoon I moved to hear Matt Sigman talk on the use of big data in physical organic chemistry. The topic really gets to the heart of what I believe many who work on new reaction methodology would like to do: correlate simple physical parameters of catalysts/ligands to reaction outcomes like rate and selectivity. As Matt pointed out early in his talk it’s all about trying to understand the outliers and all too often these results end up buried in supporting information or ignored altogether. This is of course not the recommended course of action.

Matt was talking in an award symposium (The ACS award for creative work in synthetic organic chemistry) honouring Scott Miller. In his award address, Scott spoke about his development of low molecular weight peptide catalysts for a whole variety of asymmetric reactions. I particularly enjoyed his definition of a complex molecular environment (a widely used term) as “any system in which your current reaction design isn’t working”.

A question Scott posed towards the end of his talk had me thinking for a while. I tried to tweet about this but wasn’t easy to explain in 140 character bursts, so I’ll try again here: In the early 2000s Miller and his group reported peptide catalysts for the phosphorylation of meso myo-inositol-derived triol ($). They were able to identify catalysts for selective functionalization of either the 1- or the 3-hydroxyl groups, a fantastic achievement and my inspiration for the somewhat tongue-in-cheek title of this post (a play on the title of a review article from Nature in 1991).

What they didn’t develop — possibly because they weren’t trying — was a catalyst to phosphorylate the 5-hydoxyl group. This would be a meso-to-meso transformation and thus, Miller suggested, wouldn’t have been considered of interest by the editors of leading journals, despite being possibly the most challenging transformation. I wouldn’t have rejected it of course as I was only a PhD student at the time (notice how I squirmed out of that one?). I do think he’s right though and I agreed with another editor (from a top journal that I won’t name) such a transformation would likely have been rejected without review!

Well, it’s Monday morning here in San Diego, so it’s time to head off to some more sessions – I hope it’s as enjoyable as yesterday.

Steve

Stephen Davey (Chief Editor, Nature Reviews Chemistry)

Journal journeys: Day 2939, end of an era

After almost 8 years, 2785 new manuscripts (of which I’ve ultimately published almost 300) I’m leaving Nature Chemistry.

I wholeheartedly agree with Neil,  when he said (some 3½ years ago) that it’s been a privilege to work on this journal from the start. I’ve travelled all over the world doing it (including spending a little over 7 years living in Boston (living longer there — with the exception of my family home — than anywhere else in my life).

I’ve attended something in the range of 30–40 conferences in that time and met up with many of the authors, reviewers and readers who are at the heart of what we do — thanks to all of them for making the job so interesting and rewarding. Thanks must also go to the rest of the team; though I’ve been about 3500 miles away for most of that time, it wouldn’t have been half as much fun without them. And thankfully, I’m not going to be going too far as I will move just across the street to take up a new role based here at NPG towers — more on that to come, but if you fancy coming to work with me then check out this job ad and get writing.

There’s a decent chance you’ll still find me around here on the blog — I plan to keep you in the loop with what is going on in my new role.

Steve

Stephen Davey (for one last time, Senior Editor, Nature Chemistry)

 

The simple life of an editor

Try explaining what you do for a living using only the 1000 most common words in the English language. This is the basis of the so called ‘Up-Goer Five‘ challenge (handy text editor available using that link) – sparked by an xkcd cartoon that tries to describe the Saturn V rocket in the same way. Several others in the chemistry blogosphere have made attempts so I thought I would try to explain being an editor – here is what I came up with:

Some people do some stuff that they think is new and exciting. They send it to us so we can help tell the world about it. We ask others who do stuff like it to help by telling us if there are any problems and whether they too are excited about the stuff.

If they are then we try to make it possible for lots of others to understand and explain to them why the stuff is important and why they should care.

And as a secondary challenge, if you don’t want to try writing your own, why not try to guess what other people do based only on their simple description.

Steve

Stephen Davey (Senior Editor, Nature Chemistry)

ACS: Rewind

Perhaps the biggest difficulty with ACS meetings is the size. There’s a vast amount of good chemistry on show here, and it can be extremely difficult to choose where to go. I’ll tell you a little about what I’ve seen in the last couple of days in a later post, but first I thought I’d talk a little about my strategy for selecting sessions. I think it works quite well – but I’d be interested to hear about other strategies in the comments.

The ACS helpfully provides a planner that allows you to create a schedule of talks you want to attend. You select the talks, and it will alert you if there are conflicts. What it doesn’t (and to be fair probably can’t do) is tell you that you’ll never be able to go to talk X and then move on to talk Y (scheduled to start immediately after the end of X) because they are approximately a 0.5 miles apart – that’s as the crow flies — and in different hotels. So you have to be a little more selective. Add to that the fact that whichever talk you select, a later conversation with friends will invariably start with ‘Did you see the talk by Prof. Bigshot? It was amazing/terrible/I can’t believe he said….’. To cut a long story short, you will have missed that talk, because you were 0.5 miles away in a…you get the picture.

So, I’ve started using a slightly more random approach to selecting which talks to attend. I pick a talk that I’ve seen before and enjoyed — there is always a chance that there will be some updates on progress — then I’ll stick with that session. So I use the scheduler to select around 3 talks a day but get to see plenty that I wouldn’t necessarily have selected otherwise.

And, come the next big multi-session meeting, I will hopefully have some new choices to ‘rewind’ and act as the seed for my discovery of some new chemistry.

Steve

Stephen Davey (Senior Editor, Nature Chemistry)

The perfect peer

[This post is an abridged version of the editorial in the November 2011 issue — the full text can be accessed here, available for free to all registered users. We welcome feedback on our editorials in the comments section below.]

What makes the ideal referee report?

There is no simple answer to this question. An author probably hopes for a quick report that is positive, or at least constructively critical. An editor will most appreciate a report that provides insightful comments and helps to inform a decision. The perfect report for a reviewer is more difficult to define; perhaps one that is not misinterpreted, and ultimately improves a manuscript.

Reports simply stating that a manuscript should be accepted or rejected, without providing any justification are rarely useful. It is, for example, unlikely that two brief reports that say a manuscript is ‘great’ and recommend publication without any compelling reasons to back up these statements will outweigh a thoughtful and well-supported report that highlights lots of technical flaws.

Based on our experience of the process — taken together with feedback from our authors and referees — we suggest the following guidelines that try to satisfy the needs of everyone involved.

Reports should begin with a short summary of the work in question. This serves to focus the review, clearly stating how the work is viewed by the referee and highlighting differences between how the authors and readers will interpret the work.

Reviewers should state upfront if there are parts of a paper that they are uncomfortable evaluating. They are, however, welcome to provide opinion on areas outside their own expertise as such information can be valuable in judging general appeal of the work. Authors should keep in mind that an individual reviewer may have been chosen to represent a particular point of view.

The summary should be followed with a discussion of what has gone before, in an attempt to define the advance that has been reported. These comments are most valuable when backed by references. Following this, a summary of both the merits and problems of the research is useful. This can be far more instructive than writing a report with a particular outcome (accept/reject/revise) in mind.

A good report should clearly distinguish between the claims made and their importance versus the evidence presented in support of those claims. This brings us to another issue frequently raised in criticisms of peer review: the need for additional work. Although requests for additional experiments are regarded by some as a ‘tyranny’, such requests are often quite reasonable.

With this in mind, it may be useful to divide suggestions into different groups. First, and most important, is work that is considered necessary to support the specific claims of the paper: omitted control experiments or requests for complete characterization. Second are those that may allow broader conclusions and improve the appeal to a general audience. Third are those experiments that are not essential, but might provide interesting avenues for future studies.

Proofreading is not the role of referees. However, the writing should be as clear as possible, and reviewers are encouraged to point out areas where language is too specialized and could be improved without detriment to the scientific content of an article.

We realize that reviewing places a heavy burden on a researcher’s time, so we are extremely grateful to the reviewers without whom Nature Chemistry could not function.

You can read full the editorial here (registration is free).

Steve

Stephen Davey (Associate Editor, Nature Chemistry)

ACS: The magic of the movies

A session that will stand out in my memory from this year’s ACS spring meeting was the presidential symposium on “Hollywood chemistry”. I attended both the early press conference which is well worth viewing, and the full event later in the day.

This event was perfectly themed for the location of the meeting, and also ties in nicely with the many International Year of Chemistry public outreach events. If you don’t work in or study science, then TV shows and movies might be the only place that you are exposed to science, so how realistic is it? And how do they achieve this?

The ACS gathered together Moira Walley-Beckett, writer-producer for the TV show Breaking Bad; Kath Lingenfelter writer-producer for House MD; Jaime Paglia writer-producer of Eureka. Also present were science advisors: Kevin Gazier, Donna Nelson, and Sidney Perkowitz. Finally Mark Griep who uses movie clips in his teaching and is author of the book Reaction: Chemistry in the movies which was reviewed in Nature Chemistry here (subscription required).

The common theme in all the TV shows mentioned is that without science, there would be no story but the shows discussed do span a broad range from factual shows through medical procedural drama to science fiction. Even in science fiction, Perkowitz notes, there may be one big suspension of disbelief, but beyond that, the science is as accurate as is possible within the confines of writing an interesting story. Paglia points out that the big difference is that “this is science fiction and not magic” – illustrating this with the difference between Harry Potter’s invisibility cloak and the cloaking device used by Klingon warships in Star Trek – one just works, and the other diverts electromagnetic radiation around the ship.

Breaking Bad is a show that I haven’t yet watched, but plan to having been at this meeting. The misguided hero is a high school chemistry teacher, who turns his skills to illegal drug manufacture in order to provide for his family when he is diagnosed with terminal lung cancer. While we might disapprove of what he chooses to do, it’s hard not to like a character that throughout the series uses his chemistry knowledge to get himself out of one fix or another. I wonder, however, what the British Home office would make of the character though and would like to remind them that this is fiction. I also note that the science in Breaking Bad is taken so seriously that the show’s writers have, in the past, been advised by the Drug Enforcement Administration. Not surprisingly, when the show does describe illicit drug synthesis there are some key steps left out.

Beyond their descriptions of the shows, and revealing just how much they do rely on their science advisors, a wealth of fascinating stories and anecdotes were on offer. It’s tough to do them justice in a blog post – but I’ll leave you with this one – Kath Lingenfelter gave up her ambition to be a medic because she “just didn’t get organic chemistry” – she won’t be the only person out there to feel like that, but she is now involved in some of the most widely watched science related TV….

Steve.

Stephen Davey (Associate Editor, Nature Chemistry)

ACS: All in good taste

My first highlight of the meeting was Eric Anslyn’s talk ’ Mimicking the mammalian chemical senses using supramolecular chemistry’. Here I learned that, like me, Anslyn is a Coca-Cola man…by which I mean that he doesn’t like the taste of the diet version – I presume this applies to other soda brands as well. It’s not just him though, his chemistry can tell the difference too.

Anslyn and co-workers use arrays of supramolecular receptors to discriminate between analytes. The idea is that while no one member of the array binds selectively to a particular analyte, each analyte will bind to each receptor slightly differently and it is the overall pattern that discriminates. This is similar to the way in which we taste, as flavours are not like a lock and key with a single receptor for a single flavour, but a combination of the sweet, salt, sour, bitter and umami.

So it all comes down to pattern recognition, and Anslyn and co-workers have used similar systems to identify terpene molecules in “cheap” perfume (presumably the research grant doesn’t run to Chanel No.5!), detecting the type of artificial sweetener used in a cup of tea, and most recently to detecting the grape variety used in a wine.

It’s no Oz Clarke yet, but this latest research allowed them to develop a pattern recognition that could test red wine and identify the grape by the pattern of recognition in an array of peptides, you can read more about it here (subscription required). Interestingly, of the wines tested there was one outlier – a Zinfandel which in the pattern recognition fell more in the region of a Pinot noir. The punchline?…the winery called Anslyn the other day to explain that that particular wine did contain a lot of Pinot in the blend!

Steve

Stephen Davey (Associate Editor, Nature Chemistry)

PS. It’s my birthday, so I’m planning to identify some wine varietals of my own later.

ACS:…and Villains?

So the theme of my meeting continues.

Yesterday, I spent much of the day in the Robert Burns Woodward (RBW) memorial symposium. The talks were from those who have previously worked with RBW with a particular emphasis on how his philosophy has affected their own research. It’s tough to imagine what modern organic chemistry would be without him.

One talk in particular stood out and – from the number of attendees – not just for me either: Jeffrey Seeman’s ‘Was plagiarism involved in the development of the Woodward-Hoffmann rules?’. It’s not hard to imagine why…as Seeman pointed out, this is probably the first time the word plagiarism has appeared in the title of a talk at the ACS!

A little background for the uninitiated. The Woodward-Hoffmann rules explain the stereoselectivity of electrocyclisation reactions. The name of the rules is derived from the two chemists who first explained the observed reactivity patterns in the literature. Hoffmann received a share of the 1981 Nobel prize in Chemistry (Woodward would likely have received a second Nobel prize but had died two years previously). But, in 2004 Elias Corey – also by that time a Nobel laureate – claimed that he had provided RBW with the initial idea.

The presentation was fascinating – Seeman has analyzed personal letters and notebooks from Woodward, Hoffmann and Corey, and spoken at some length with Roald Hoffmann. I simply cannot provide the full details here so anyone interested should look out for Seeman’s (future) publication of this analysis – he says he’d like it to be an article but it will probably be a book – either way it should make excellent reading.

The main conclusion, however, was that we can’t know for sure what happened. Only two people really know, and one of them is no longer with us. Seeman says that he feels Corey is recalling the events exactly as he remembers them. Hoffmann for his part had asked Woodward at the time if Corey was involved and the answer was a very clear ‘No’. From a man known for meticulously assigning credit in his other work, it seems unlikely that he acted differently here.

The more important point to take away from this session though is to be very careful when assigning credit. It’s certainly an very emotional issue – even for three people who will remain as heroes of chemistry whatever the truth in this particular case.

Steve

Stephen Davey (Associate Editor, Nature Chemistry)

ACS: Heroes…

I don’t attend too many press conferences at the ACS meeting – because they are aimed at a much more general audience than a chemistry journal editor (that’s not a bad thing – read on). On Sunday, however, I attended a press conference with the intriguing title of ‘New Heroes of Chemistry’. I really had no idea what this was about as I didn’t read the press release in advance.

From the ACS Portal:

Since 1996, the ACS Heroes of Chemistry program has recognized chemical scientists whose work in various fields of chemistry and chemical engineering has led to the successful innovation and development of commercial products based on chemistry. The Heroes of Chemistry program highlights the vital role of industrial chemical scientists and their companies in improving human welfare through successful commercial innovations and products. It presents an ideal opportunity to enhance the public image of the chemical and allied industries.

During the press conference, the ACS announced the induction of five new ‘Heroes of Chemistry’. Jotham Coe and Brian O’Neill (Pfizer) were involved in the development of a smoking cessation drug – Chantix (varenicline)– Joseph Armstrong III, Ann Weber and Nancy Thornberry (Merck) worked on a Diabetes drug – Januvia (sitagliptin).

The passion of these chemists for their work was clear to see – not least when Coe described how he had seen several close family members suffer and ultimately die from smoking related diseases. As we discussed in our September editorial, chemistry needs a few more champions (or heroes) and I really hope this kind of thing can help. And the best thing is that with this ‘hall of fame’ I don’t think there is any danger of the members later being accused of taking steroids to help get them there!

Incidentally, if you’re at the ACS meeting and want to read our September editorial – and the rest of the issue for that matter – why not pick up a complimentary copy from the expo (Booth 609).

Steve

Stephen Davey (Associate Editor, Nature Chemistry)

Organic chemistry for the YouTube generation

Spoof music videos offer the chance for ageing chemistry geeks such as myself to relive both their chemical and musical past. This video in particular was the cause of much hilarity within the Nature Chemistry team. This video is great – although one of the early lyrics ‘in the lab, working alone’ is a cause for concern – so let’s hope that it is there for artistic reasons rather than anything else. But can such videos serve any useful purpose?

Well, this would be a fairly boring blog post if the answer was “No”, so I was delighted this weekend to hear from Neil Garg at UCLA about a small video project set as part of the sophomore organic chemistry course. For a small extra credit, Garg asked his class to make music videos highlighting aspects of the course.

No less than 140 out of 240 enrolled students took part and made a total of 61 videos – I’ll be interested to hear from Neil when the exam results are in! Although the videos are worth very little in the final score, it’s hard to believe that the students failed to learn something useful in the way of organic chemistry from making them.

Steve

Stephen Davey (Associate Editor, Nature Chemistry)