Cladistics

Merriam-Webster on cladistics

Thursday, June 3rd, 2010 | Cladistics, Education | 2 Comments

Google indexed this page today from the online version of Merriam-Webster dictionary:

Main Entry: cla·dis·tics
Pronunciation: \kl?-?dis-tiks, kla-\
Function: noun plural but singular in construction
Date: 1965

: a system of biological taxonomy that defines taxa uniquely by shared characteristics not found in ancestral groups and uses inferred evolutionary relationships to arrange taxa in a branching hierarchy such that all members of a given taxon have the same ancestors

cla·dist \?kla-dist, ?kl?-\ noun
cla·dis·tic \kl?-?dis-tik, kla-\ adjective
cla·dis·ti·cal·ly \-ti-k(?-)l?\ adverb

I don’t know when was this entry actually added to the dictionary, but it is nicely defined.

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phyloseminar.org – February 24th, 1pm (PST)

Tuesday, February 23rd, 2010 | Cladistics, Education, Science, Theory | Comments Off

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Do not forget to tune in to tomorrow’s phyloseminar where Noah Rosenberg will be speaking about consistency properties of species tree inference algorithms under the multispecies coalescent. February 24th at 1pm PST.

You can watch him live from the comfort of your computer, but you may want to take some minutes before the seminar to set up your computer and microwave some popcorn.

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The Pewter Leprechaun Awards Ceremony

Tuesday, December 15th, 2009 | Cladistics, History of Science, Humor | 1 Comment
Haeckel

E. Haeckel

You may not fancy public humiliation of scientific papers (ah come on, who doesn’t?), but the Pewter Leprechaun Awards Ceremony is a fun read. If you want to know what is this all about look here.

You really need to know well your history on systematics and biogeography to fully enjoy the piece, but if you don’t you will do well in putting Google to a good use and run some searches on those names. On a side note, I do think Brazeau’s paper didn’t deserved the nomination, specially among the other contestants.

I hope they do send a pewter leprechaun to the winner (and blog about it).

Phylogenetics through videoconferencing

Tuesday, December 8th, 2009 | Cladistics, Education, Theory | 4 Comments

phyloseminar1Last night I attended a talk in Lisbon given by Ward Wheeler at the AMNH in New York City and moderated by Frederick Matsen from his home institution in Berkeley, California. The talk was the second on a series of talks in phylogenetics held via videoconferencing.

The idea behind phyloseminar.org is to hold regular live online seminars in phylogenetic methodology open to anyone around the globe. This is a challenge given the time zone differences of the possible participants, but it does makes the whole event fun: I watched it after dinner at 9:00pm; the presenter gave it at his 4:00pm; while the moderator was there after lunch at his 1:00pm. I saw at least one person among the audience that watched it from the future after breakfast in New Zealand the next day at 10:00am. › Continue reading

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Patenting cladistics

Friday, August 14th, 2009 | Cladistics | 2 Comments

Every once in a while someone comes and tries to file a patent on some of the very basic algorithms we all use to infer phylogenetic trees.
This time is a very “special” someone. The image to the left may give you a clue. Read more at Myrmecos blog.

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Chris Humphries, botanist and founding fellow of the Willi Hennig Society, died on July 31st, aged 62

Wednesday, August 5th, 2009 | Cladistics, Personalities | 1 Comment
© The Systematic Association

Photograph courtesy of Malte C. Ebach (http://urhomology.blogspot.com/)

It is our sad task to record the death of Professor Chris Humphries, merit researcher in the Botany Department until his retirement in 2007, on Friday 31st July. Chris was a leading figure in the cladistic revolution in systematics and biogeography. Without his tireless efforts, systematic botany – perhaps systematic biology – would be a very different beast.

Chris joined the Botany Department in 1972 as an assistant curator, a nearly-finished PhD student, coming directly from Vernon Heywood’s Botany Department in Reading University. With the exception of three sabbaticals – two of them at the University of Melbourne (1979-80, 1986) and a six month stay as a fellow at the Wissenschaftskolleg zu Berlin (Institute for Advanced Study, Berlin) in 1994 – Chris spent his entire career in the Museum.
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Bigger is better: the largest phylogenetic tree reconstructed.

ResearchBlogging.orgGenBank, the standard database for genetic information maintained by National Center for Biotechnology Information, has been accumulating DNA sequences for some three decades now. Since its creation in the late 1980s, it has become the de facto repository for genetic information– genetic data must now be submitted to GenBank for a paper to be accepted for publication. Most sequence data accumulated are the result of the sum of many “local” taxonomic studies that have targeted a particular group of organism for a relatively small, but well-known collection of genes. It contents now span over hundreds of genes across all of life’s domains. So, what would happen if you were to take all the sequence information contained in GenBank and analyze it phylogenetically all together in a single, one-step study? Well, that is what Pablo A. Goloboff and coworkers just did, the results of which were published in last week’s online early edition of Cladistics, the international journal of the Willi Hennig Society.

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Cladistics wars 2.0

Wednesday, April 22nd, 2009 | Cladistics, Education, Metablogging, Science | 2 Comments

There is a skirmish going on at Dechronization blog right now1. This is a coauthored blog about phylogenetics. I like used to like this blog (its was right there on my blogroll —->2). There are surprisingly very few blogs about phylogenetic methods these days, despite the wide use that phylogenies currently have  in evolutionary biology and beyond (e.g., linguistics). I will complain that, for nine authors, they post little, sometimes not a single post during a month.

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  1. 1. Update 12:00pm GMT, April 22nd, 2009. Original post on Dechronization deleted.

    1.2. Update, May 2nd, 2009. It seems that the original poster did not agree with the removal of his posts and reposted the Dechronization announcement of the Cladistics Workshop here.

  2. Update April 23nd, 2009. I took the link out of my blogroll to show a dear friend that I care more about him than a silly blog.

The evolution of the web

Friday, April 3rd, 2009 | Cladistics, Phylogeny | Comments Off

ResearchBlogging.orgSpider web, that is.

This is an excellent example of the way systematic papers should be. In the latest issue of the Proceedings of the National Academy of Sciences (USA), Blackledge and coworkers assembled a comprehensive data set for cladistic analysis of orb web spiders that includes six different molecular loci, 143 morphological characters and behavior in the form of characters derived from web architecture.

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