Science as art.

Sometimes while doing science, one is struck by something in the same way that one is affected by beautiful art.

Not that these are the most amazing images ever (they weren’t meant to be artistic, just routine work), but I enjoyed them. They’re from a project on rotifers by one of my undergraduate thesis students. They’re both of Adineta vaga: the first is of the whole animal (the pink spots are the DNA), the second is the musculature on a confocal laser microscope. (Photos by K. Ashforth).

Bonus:

Here are some pictures I took several years ago. A is an ovariole from the ovary of a vinegar fly (Drosophila melanogaster) and B is the same from a flea (Ctenocephalides felis). The huge circles are nurse cells, which are very highly endopolyploid.

Look at it this way…

Todd Oakley reports on a dust-up over at Panda’s Thumb in which a commentator is not convinced that eyes evolved, in large part because the specific details of the early origin of the phototransduction pathway have yet to be worked out. Not surprisingly, responses have pointed out that the gaps are getting smaller and smaller and that a lot is known about how phototransduction may have arisen from precursors in other systems through duplication, co-option, and the various processes discussed in this paper.

I think this debate misses a much larger and more significant point. Darwin suggested that eyes evolved in the Origin, published 150 years ago. This was before even the basics of heredity were generally understood. It was before the discovery of DNA. Before the elucidation of the structure of DNA. Before the rise of molecular biology. Before the advent of phylogenetics. Before evolutionary developmental biology. Before genome sequencing.

And yet, through the emergence of all these major new sources of data, not a single reliable observation in any of these fields has contradicted the general hypothesis that eyes are the product of evolutionary mechanisms. Quite the opposite, as the picture of how this probably occurred in different lineages is become increasingly clear thanks in large part to this rapidly expanding body of knowledge. Gaps remain, of course, which is why it’s an intriguing field of inquiry. But the notion of waiting until every last detail is known before accepting the basic historical reality badly misinterprets the nature of science and scientific evidence.

Calling fellow bloggers!

Calling fellow bio bloggers — help get the word out for the special issue of Evolution: Education and Outreach all about eye evolution. The content is free to access online and the authors include many of the world’s top eye evolution researchers. A handy table of contents with links is provided below for easy copy and paste maneuvers.

Evolution: Education and Outreach
Volume 1 Issue 4

Editorial

351. Editorial by Gregory Eldredge and Niles Eldredge (PDF)

352-354. Introduction by T. Ryan Gregory (PDF)

355-357. Casting an Eye on Complexity by Niles Eldredge (PDF)

Original science / evolution reviews

358-389. The Evolution of Complex Organs by T. Ryan Gregory (PDF)
(Blog: Genomicron)

390-402. Opening the “Black Box”: The Genetic and Biochemical Basis of Eye Evolution by Todd H. Oakley and M. Sabrina Pankey (PDF)
(Blog: Evolutionary Novelties)

403-414. A Genetic Perspective on Eye Evolution: Gene Sharing, Convergence and Parallelism by Joram Piatigorsky (PDF)

415-426. The Origin of the Vertebrate Eye by Trevor D. Lamb, Edward N. Pugh, Jr., and Shaun P. Collin (PDF)

427-438. Early Evolution of the Vertebrate Eye—Fossil Evidence by Gavin C. Young (PDF)

439-447. Charting Evolution’s Trajectory: Using Molluscan Eye Diversity to Understand Parallel and Convergent Evolution by Jeanne M. Serb and Douglas J. Eernisse (PDF)

448-462. Evolution of Insect Eyes: Tales of Ancient Heritage, Deconstruction, Reconstruction, Remodeling, and Recycling by Elke Buschbeck and Markus Friedrich (PDF)

463-475. Exceptional Variation on a Common Theme: The Evolution of Crustacean Compound Eyes by Thomas W. Cronin and Megan L. Porter (PDF)

476-486. The Causes and Consequences of Color Vision by Ellen J. Gerl and Molly R. Morris (PDF)

487-492. The Evolution of Extraordinary Eyes: The Cases of Flatfishes and Stalk-eyed Flies by Carl Zimmer (PDF)
(Blog: The Loom)

493-497. Suboptimal Optics: Vision Problems as Scars of Evolutionary History by Steven Novella (PDF)
(Blog: NeuroLogica)

Curriculum articles

498-504. Bringing Homologies Into Focus by Anastasia Thanukos (PDF)
(Website: Understanding Evolution)

505-508. Misconceptions About the Evolution of Complexity by Andrew J. Petto and Louise S. Mead (PDF)
(Website: NCSE)

509-516. Losing Sight of Regressive Evolution by Monika Espinasa and Luis Espinasa (PDF)

Book reviews

548-551. Jay Hosler, An Evolutionary Novelty: Optical Allusions by Todd H. Oakley (PDF)

All about eye evolution.

The most recent issue of Evolution: Education and Outreach is now available free online. This is a special issue devoted to the evolution of eyes. Enjoy.

Evolution: Education and Outreach
Volume 1 Issue 4
The evolution of eyes
Edited by T. Ryan Gregory

Editorial

351. Editorial by Gregory Eldredge and Niles Eldredge (PDF)

352-354. Introduction by T. Ryan Gregory (PDF)

355-357. Casting an Eye on Complexity by Niles Eldredge (PDF)

Original science / evolution reviews

358-389. The Evolution of Complex Organs by T. Ryan Gregory (PDF)
(Blog: Genomicron)

390-402. Opening the “Black Box”: The Genetic and Biochemical Basis of Eye Evolution by Todd H. Oakley and M. Sabrina Pankey (PDF)
(Blog: Evolutionary Novelties)

403-414. A Genetic Perspective on Eye Evolution: Gene Sharing, Convergence and Parallelism by Joram Piatigorsky (PDF)

415-426. The Origin of the Vertebrate Eye by Trevor D. Lamb, Edward N. Pugh, Jr., and Shaun P. Collin (PDF)

427-438. Early Evolution of the Vertebrate Eye—Fossil Evidence by Gavin C. Young (PDF)

439-447. Charting Evolution’s Trajectory: Using Molluscan Eye Diversity to Understand Parallel and Convergent Evolution by Jeanne M. Serb and Douglas J. Eernisse (PDF)

448-462. Evolution of Insect Eyes: Tales of Ancient Heritage, Deconstruction, Reconstruction, Remodeling, and Recycling by Elke Buschbeck and Markus Friedrich (PDF)

463-475. Exceptional Variation on a Common Theme: The Evolution of Crustacean Compound Eyes by Thomas W. Cronin and Megan L. Porter (PDF)

476-486. The Causes and Consequences of Color Vision by Ellen J. Gerl and Molly R. Morris (PDF)

487-492. The Evolution of Extraordinary Eyes: The Cases of Flatfishes and Stalk-eyed Flies by Carl Zimmer (PDF)
(Blog: The Loom)

493-497. Suboptimal Optics: Vision Problems as Scars of Evolutionary History by Steven Novella (PDF)
(Blog: NeuroLogica)

Curriculum articles

498-504. Bringing Homologies Into Focus by Anastasia Thanukos (PDF)
(Website: Understanding Evolution)

505-508. Misconceptions About the Evolution of Complexity by Andrew J. Petto and Louise S. Mead (PDF)
(Website: NCSE)

509-516. Losing Sight of Regressive Evolution by Monika Espinasa and Luis Espinasa (PDF)

Book reviews

548-551. Jay Hosler, An Evolutionary Novelty: Optical Allusions by Todd H. Oakley (PDF)

More election data.

As indicated by the popular vote totals, there is little support for the claim that a coalition government between the Liberal and NDP parties in Canada would be undemocratic. However, this represents a very rough analysis because the Canadian system, like many others, is a first-past-the-post process in which the candidate with the most votes is elected regardless of the margin.

In order to reveal the desire of the electorate more realistically, it is necessary to consider the total votes in each riding rather than at the national scale. I decided to see what would have happened in the latest election had the Liberal and NDP candidates run jointly in each riding from the outset by summing their respective votes on a riding by riding level. I compared only the major parties, meaning that I did not include any votes from the Green Party, independents, or fringe parties in the new totals. Data were acquired from Elections Canada and only verified final results were analyzed.

The actual election results were (number of seats):

  • Conservative: 143
  • Liberal: 77
  • Bloc Qubecois: 49
  • NDP: 37
  • Independent: 2

Now, taking each riding individually and adding the Liberal and NDP votes received, we note the following changes:

  • Conservatives would have lost 30 ridings to Liberal+NDP and retained 113.
  • Bloc Quebecois would have lost 9 ridings to Liberal+NDP and retained 40.

The new election results, if we count each riding by itself but combine the voters who chose either Liberal or NDP, are then:

  • Liberal+NDP: 153
  • Conservative: 113
  • Bloc Quebecois: 40
  • Independent: 2

We can’t assume that the election would have turned out exactly like this with combined parties (it would depend on the candidate, party leader, etc.). Nevertheless, this gives a reasonable estimate of what voters wanted in terms of representation. In other words, the election results, whether analyzed by popular vote nationally or riding by riding, clearly refute the claim that a coalition of the Liberal and NDP would contradict the expressed will of voters.

Parliamentary politics.

Ok, so Canada elected a conservative government again, meaning that the Conservative Party of Canada (a merger of the former right-centre Progressive Conservative Party and far-right Canadian Alliance) won more seats than the other parties. However, they did not win more than all other parties combined, which means that they have a minority government. In such a parliamentary system, the Prime Minister is the leader of the party who won the most seats, although his party may still be a minority in parliament.

There is now talk of a coalition government between the left-centre Liberal Party and the left New Democratic Party. Together, these two parties still would not have more seats than the Conservative Party, but with the support of the Quebec-only Bloc Québécois, they could be given the chance to govern.

There is some talk on the news and on forums that such a move would be undemocratic since the Conservative Party was elected and has a clear mandate from the people. What do Canadians want? Here are the data from the recent election (via Wikipedia).

Party Orientation Seats Votes Popular %
Conservative Party of Canada Right 143 5,208,796 37.65%
Liberal Party of Canada Left-centre 77 3,633,185 26.26%
Bloc Québécois Left-centre 49 1,379,991 9.98%
New Democratic Party Left 37 2,515,561 18.18%
Green Party Far left 0 937,613 6.78%





Conservative Right 143 5,208,796 37.65%
Liberal + NDP + Green Left 114 7,086,359 51.22%

This week’s paradigm shift: a single-celled organism can also leave tracks.


My displeasure with media stories continues today with another over-the-top, speculative, and tailor-made-for-quote-mining article from Discovery News. The gist of it is that some people saw a very large, single-celled organism leaving tracks in the sand. Therefore, we need to “revolutionize” the way we think about evolution because maybe this is the sort of creature that left trace fossils in the Cambrian.

The choice bits:

Single-Celled Giant Upends Early Evolution

Slowly rolling across the ocean floor, a humble single-celled creature is poised to revolutionize our understanding of how complex life evolved on Earth.

The finding could overturn conventional thinking on a mysterious time in the evolution of early life known as the Cambrian Explosion. Until about 550 million years ago, there were very few animals leaving trails behind. Then, within ten million years an unprecedented blossoming of life swarmed across the planet, filling every niche with hard-bodied, complex creatures.

“It wasn’t a gradual development of complexity,” Matz said. “Instead these things suddenly seemed to burst out of a magic box.”

Improving the science in science fiction.

There is an interesting story in New Scientist about The Science & Entertainment Exchange, a program initiated by the National Academy of Sciences to improve the science in movies and TV [New project aims to unite science and Hollywood]. It would be hard to make it worse, so this strikes me as a very positive development!

The project is described thus:

The Science & Entertainment Exchange is a program of the National Academy of Sciences that provides entertainment industry professionals with access to top scientists and engineers to help bring the reality of cutting-edge science to creative and engaging storylines.

The portrayal of science – its practitioners, its methods, its effects – has often posed a challenge to the entertainment community. Though it has inspired some of the most intelligent and compelling storylines, science’s many complexities have confounded even the most talented writer, director, or producer, time and again pitting creative license against scientific authenticity and clarity.

Likewise, the scientific community has struggled to find an effective conduit through which it can communicate its story accurately and effectively. Though many of the world’s biggest problems require scientific solutions, finding a way to translate and depict scientific findings so that reach a wide audience has required a sounding board that has often been missing.

The Science & Entertainment Exchange bridges this gap and addresses the mutual need of the two communities by providing the credibility and the verisimilitude upon which quality entertainment depends – and which audiences have come to expect. Drawing on the deep knowledge of the scientific community, we can collaborate on narrative and visual solutions to a variety of problems while contributing directly to the creativity of the content in fresh and unexpected ways.

Especially cool is this, from the report:

…the Exchange organised a symposium, sponsored in part by New Scientist, in which scientists and entertainers were to discuss hot topics in science like climate change and genomics.


Generic genome sequence press release (by Andy).

This comment by Andy was too good not to repost.

Generic press release for genome sequencing

Scientists map genome of (insert name).

A team of researchers from (insert university/institute/lockup garage) has completed mapping the genome of (animal/plant/squashy deep-sea thing).

“We were amazed how (strike one) similar/dissimilar it is to the human genome,” said (insert name of lead scientist/grad student/custodian who happened to answer the phone).

The discovery should help scientists (strike all but one) cure cancer/end world hunger/prevent hair loss).