July 2012 archive

Jul 31

A test for heterotachy using multiple pairs of sequences.

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A test for heterotachy using multiple pairs of sequences.
Mol Biol Evol. 2011 May;28(5):1661-73
Authors: Wu J, Susko E
Abstract
Heterotachy is a general term to describe positions that evolve…

Jul 31

Newly identified and diverse plastid-bearing branch on the eukaryotic tree of life.

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Newly identified and diverse plastid-bearing branch on the eukaryotic tree of life.
Proc Natl Acad Sci U S A. 2011 Jan 25;108(4):1496-500
Authors: Kim E, Harrison JW, Sudek S, Jones MD, Wilcox HM, Richards…

Jul 31

Coral-mucus-associated Vibrio integrons in the Great Barrier Reef: genomic hotspots for environmental adaptation.

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Coral-mucus-associated Vibrio integrons in the Great Barrier Reef: genomic hotspots for environmental adaptation.
ISME J. 2011 Jun;5(6):962-72
Authors: Koenig JE, Bourne DG, Curtis B, Dlutek M, Stokes HW, D…

Jul 31

Eukaryotic pyruvate formate lyase and its activating enzyme were acquired laterally from a Firmicute.

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Eukaryotic pyruvate formate lyase and its activating enzyme were acquired laterally from a Firmicute.
Mol Biol Evol. 2011 Jul;28(7):2087-99
Authors: Stairs CW, Roger AJ, Hampl V
Abstract
Most…

Jul 31

A bacterial proteorhodopsin proton pump in marine eukaryotes.

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A bacterial proteorhodopsin proton pump in marine eukaryotes.
Nat Commun. 2011;2:183
Authors: Slamovits CH, Okamoto N, Burri L, James ER, Keeling PJ
Abstract
Proteorhodopsins are light-driven…

Jul 31

Fast statistical tests for detecting heterotachy in protein evolution.

Related Articles
Fast statistical tests for detecting heterotachy in protein evolution.
Mol Biol Evol. 2011 Aug;28(8):2305-15
Authors: Wang HC, Susko E, Roger AJ
Abstract
The w statistic introduced by Lockhar…

Jul 31

The ultrastructure of Ancyromonas, a eukaryote without supergroup affinities.

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The ultrastructure of Ancyromonas, a eukaryote without supergroup affinities.
Protist. 2011 Jul;162(3):373-93
Authors: Heiss AA, Walker G, Simpson AG
Abstract
The small heterotrophic flagella…

Jul 31

The parameters of the Barry and Hartigan general Markov model are statistically nonidentifiable.

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The parameters of the Barry and Hartigan general Markov model are statistically nonidentifiable.
Syst Biol. 2011 Dec;60(6):872-5
Authors: Zou L, Susko E, Field C, Roger AJ
PMID: 21471307 [PubMed – in…

Jul 31

Improved least squares topology testing and estimation.

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Improved least squares topology testing and estimation.
Syst Biol. 2011 Oct;60(5):668-75
Authors: Susko E
Abstract
Generalized least squares (GLS) methods provide a relatively fast means of c…

Jul 31

Comment on "Does constructive neutral evolution play an important role in the origin of cellular complexity?" DOI 10.1002/bies.201100010.

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Comment on “Does constructive neutral evolution play an important role in the origin of cellular complexity?” DOI 10.1002/bies.201100010.
Bioessays. 2011 Jun;33(6):427-9
Authors: Doolittle WF, Lukeš J, Arch…