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Phylogeny of birds

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Old Tuesday 9th October 2012, 11:53   #1
Peter Kovalik
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Phylogeny of birds

John E. McCormack, Michael G. Harvey, Brant C. Faircloth, Nicholas G. Crawford, Travis C. Glenn, Robb T. Brumfield, 2012. A phylogeny of birds based on over 1,500 loci collected by target enrichment and high-throughput sequencing.
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Old Tuesday 9th October 2012, 14:18   #2
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That does contain a couple of fun surprises!

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Old Friday 12th October 2012, 19:38   #3
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In which journal is this published?
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Old Monday 22nd October 2012, 14:59   #4
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David Ringer, 10,000 Birds: Tropicbird-Sunbittern relationship hypothesized in new paper.
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Old Monday 22nd October 2012, 15:12   #5
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"The latest of these, “A phylogeny of birds based on over 1,500 loci collected by target enrichment and high-throughput sequencing” by John E. McCormack et al., isn’t even officially published yet, but its authors made it available this month on a manuscript server called arXiv (a practice which, by the way, is still regarded with some uncertainty but appears to be gaining popularity)."

I was not familiar with arXiv but this manuscript must be accepted for publication I reckon. Systematic Biology or something?
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Old Tuesday 23rd October 2012, 19:41   #6
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TiF

John Boyd (TiF): www.jboyd.net/Taxo/changes.html [23 Oct 2012]
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Old Thursday 31st January 2013, 14:34   #7
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McCormack et al 2013

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Originally Posted by Peter Kovalik View Post
John E. McCormack, Michael G. Harvey, Brant C. Faircloth, Nicholas G. Crawford, Travis C. Glenn, Robb T. Brumfield, 2012. A phylogeny of birds based on over 1,500 loci collected by target enrichment and high-throughput sequencing.
Abstract
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Published 29 Jan 2013...
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Old Tuesday 29th July 2014, 13:05   #8
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The avian phylogenomic project data

Zhang, G; Li,B; Li,C; Gilbert,MTP; Jarvis,E; The Avian Genome Consortium; Wang,J. (2014): The avian phylogenomic project data. GigaScience Database. http://dx.doi.org/10.5524/101000

Phylogenomic analysis of Birds
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Old Tuesday 2nd December 2014, 13:33   #9
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Forthcoming

In press...
  • Jarvis et al. Whole genome analyses resolve the early branches to the Tree of Life of modern birds. Science.

  • Zhang et al. Comparative genomics reveals insights into avian genome evolution and adaptation. Science.
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Old Tuesday 2nd December 2014, 15:07   #10
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In press...
  • Jarvis et al. Whole genome analyses resolve the early branches to the Tree of Life of modern birds. Science.

  • Zhang et al. Comparative genomics reveals insights into avian genome evolution and adaptation. Science.
Wow, when they say 'et al.', they should just say 'et ALL'!
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Old Wednesday 3rd December 2014, 04:28   #11
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Wow, exciting stuff!
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Old Monday 8th December 2014, 08:43   #12
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BirdTree.org

Rubolini, Liker, Garamszegi, Møller & Saino (in press). Using the BirdTree.org website to obtain robust phylogenies for avian comparative studies: A primer. Curr Zool. [pdf]
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Old Thursday 11th December 2014, 18:19   #13
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Bird genome phylogeny published

The phylogeny based on 48 bird genomes was just released:

http://dx.doi.org/10.1126/science.1253451

See the project website for details on all 29(!) papers just released based on these genome sequences:

http://avian.genomics.cn/en
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Old Sunday 21st December 2014, 08:59   #14
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Jarvis et al 2014

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The phylogeny based on 48 bird genomes was just released: dx.doi.org/10.1126/science.1253451
David Ringer, 10,000 Birds, 21 Dec 2014: Here’s the new bird family tree. It’s amazing.
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Old Monday 22nd December 2014, 01:41   #15
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Any one else notice that all the Galloanserae taste delicious?
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Old Monday 22nd December 2014, 16:12   #16
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Any one else notice that all the Galloanserae taste delicious?
You've never had merganser, I see...
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Old Monday 22nd December 2014, 16:24   #17
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Any one else notice that all the Galloanserae taste delicious?
Or Turkey


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Old Tuesday 23rd December 2014, 04:03   #18
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From the perspective in Science: "At BGI, the genomes of about 200 more birds are done and waiting to be analyzed, with thousands more planned." Pretty cool.
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Old Tuesday 23rd December 2014, 06:17   #19
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Quote:
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From the perspective in Science: "At BGI, the genomes of about 200 more birds are done and waiting to be analyzed, with thousands more planned." Pretty cool.
its actually 10000 birds genome project. in incoming years they will sequence whole genome of all living species of birds and put it available to all public and scientist all around globe. by the way regards from serbia, I was on your presentation few years ago :)
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Old Tuesday 23rd December 2014, 12:33   #20
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The one that went horribly wrong? ;-)
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Old Tuesday 23rd December 2014, 22:14   #21
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The one that went horribly wrong? ;-)
the one without at least half of your presentation
I was that annoying guy who asked lots of things about hybrid zone movements
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Old Saturday 27th December 2014, 22:05   #22
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Burleigh et al

Burleigh, Kimball & Braun (in press). Building the avian tree of life using a large-scale, sparse supermatrix. Mol Phylogenet Evol. [abstract] [fig]

Last edited by Richard Klim : Saturday 27th December 2014 at 22:08. Reason: fig.
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Old Tuesday 10th February 2015, 09:29   #23
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A quantum leap in avian biology

A quantum leap in avian biology by Leo Joseph and Katherine L. Buchanan

Emu 115(1) 1-5 http://dx.doi.org/10.1071/MUv115n1_ED
Published: 9 February 2015
Friday 12 December 2014 was a red-letter day in the history of ornithology. It saw simultaneous publication of some 27 papers in eight journals, based on a singularly far-reaching and exciting avian dataset: genomic data from 48 species of birds from 32 of the 35 recently proposed avian orders, chosen to span the evolutionary diversity of the class Aves (Zhang et al. 2014a, 2014b, 2014c; Jarvis et al. 2014a, 2014b). The body of work, representing output from more than 200 researchers working in 80 laboratories in 20 countries, reaches almost every corner of ornithology. A flagship paper (Jarvis et al. 2014a) stands on the shoulders of earlier and contemporary work (Hackett et al. 2008; Burleigh et al. 2015) to achieve a nearly complete understanding of relationships among the world’s major avian groups and the timing of the major events in their evolution...
Available at http://www.publish.csiro.au/?act=vie...Uv115n1_ED.pdf
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Old Tuesday 10th February 2015, 10:33   #24
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A quantum leap in avian biology by Leo Joseph and Katherine L. Buchanan

Emu 115(1) 1-5 http://dx.doi.org/10.1071/MUv115n1_ED
Published: 9 February 2015
Friday 12 December 2014 was a red-letter day in the history of ornithology. It saw simultaneous publication of some 27 papers in eight journals, based on a singularly far-reaching and exciting avian dataset: genomic data from 48 species of birds from 32 of the 35 recently proposed avian orders, chosen to span the evolutionary diversity of the class Aves (Zhang et al. 2014a, 2014b, 2014c; Jarvis et al. 2014a, 2014b). The body of work, representing output from more than 200 researchers working in 80 laboratories in 20 countries, reaches almost every corner of ornithology. A flagship paper (Jarvis et al. 2014a) stands on the shoulders of earlier and contemporary work (Hackett et al. 2008; Burleigh et al. 2015) to achieve a nearly complete understanding of relationships among the world’s major avian groups and the timing of the major events in their evolution...
Available at http://www.publish.csiro.au/?act=vie...Uv115n1_ED.pdf
Thank you, Murray!
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Old Monday 30th March 2015, 06:12   #25
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Juan C. Opazo, Federico G. Hoffmann, Chandrasekhar Natarajan, Christopher C. Witt, Michael Berenbrink, and Jay F. Storz. Gene Turnover in the Avian Globin Gene Families and Evolutionary Changes in Hemoglobin Isoform Expression. Mol Biol Evol first published online December 9, 2014 doi:10.1093/molbev/msu341

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