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Results: 1 to 20 of 66

1.

The hybrid nature of the Eukaryota and a consilient view of life on Earth.

McInerney JO, O'Connell MJ, Pisani D.

Nat Rev Microbiol. 2014 Jun;12(6):449-55. doi: 10.1038/nrmicro3271. Epub 2014 May 12.

PMID:
24814066
[PubMed - indexed for MEDLINE]
2.

Population genomics reveal recent speciation and rapid evolutionary adaptation in polar bears.

Liu S, Lorenzen ED, Fumagalli M, Li B, Harris K, Xiong Z, Zhou L, Korneliussen TS, Somel M, Babbitt C, Wray G, Li J, He W, Wang Z, Fu W, Xiang X, Morgan CC, Doherty A, O'Connell MJ, McInerney JO, Born EW, Dalén L, Dietz R, Orlando L, Sonne C, Zhang G, Nielsen R, Willerslev E, Wang J.

Cell. 2014 May 8;157(4):785-94. doi: 10.1016/j.cell.2014.03.054.

PMID:
24813606
[PubMed - indexed for MEDLINE]
3.

A pluralistic account of homology: adapting the models to the data.

Haggerty LS, Jachiet PA, Hanage WP, Fitzpatrick DA, Lopez P, O'Connell MJ, Pisani D, Wilkinson M, Bapteste E, McInerney JO.

Mol Biol Evol. 2014 Mar;31(3):501-16. doi: 10.1093/molbev/mst228. Epub 2013 Nov 22.

PMID:
24273322
[PubMed - in process]
Free PMC Article
4.

Integration of two ancestral chaperone systems into one: the evolution of eukaryotic molecular chaperones in light of eukaryogenesis.

Bogumil D, Alvarez-Ponce D, Landan G, McInerney JO, Dagan T.

Mol Biol Evol. 2014 Feb;31(2):410-8. doi: 10.1093/molbev/mst212. Epub 2013 Nov 4.

PMID:
24188869
[PubMed - in process]
Free PMC Article
5.

More than tree dimensions: inter-lineage evolution's ecological importance.

McInerney JO.

Trends Ecol Evol. 2013 Nov;28(11):624-5. doi: 10.1016/j.tree.2013.09.002. Epub 2013 Sep 12.

PMID:
24035465
[PubMed - indexed for MEDLINE]
6.

Translational selection frequently overcomes genetic drift in shaping synonymous codon usage patterns in vertebrates.

Doherty A, McInerney JO.

Mol Biol Evol. 2013 Oct;30(10):2263-7. doi: 10.1093/molbev/mst128. Epub 2013 Jul 24.

PMID:
23883522
[PubMed - indexed for MEDLINE]
7.

EGN: a wizard for construction of gene and genome similarity networks.

Halary S, McInerney JO, Lopez P, Bapteste E.

BMC Evol Biol. 2013 Jul 11;13:146. doi: 10.1186/1471-2148-13-146.

PMID:
23841456
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Heterogeneous models place the root of the placental mammal phylogeny.

Morgan CC, Foster PG, Webb AE, Pisani D, McInerney JO, O'Connell MJ.

Mol Biol Evol. 2013 Sep;30(9):2145-56. doi: 10.1093/molbev/mst117. Epub 2013 Jun 29.

PMID:
23813979
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Networks: expanding evolutionary thinking.

Bapteste E, van Iersel L, Janke A, Kelchner S, Kelk S, McInerney JO, Morrison DA, Nakhleh L, Steel M, Stougie L, Whitfield J.

Trends Genet. 2013 Aug;29(8):439-41. doi: 10.1016/j.tig.2013.05.007. Epub 2013 Jun 11.

PMID:
23764187
[PubMed - indexed for MEDLINE]
10.

Gene similarity networks provide tools for understanding eukaryote origins and evolution.

Alvarez-Ponce D, Lopez P, Bapteste E, McInerney JO.

Proc Natl Acad Sci U S A. 2013 Apr 23;110(17):E1594-603. doi: 10.1073/pnas.1211371110. Epub 2013 Apr 1.

PMID:
23576716
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

New approaches for unravelling reassortment pathways.

Svinti V, Cotton JA, McInerney JO.

BMC Evol Biol. 2013 Jan 1;13:1. doi: 10.1186/1471-2148-13-1.

PMID:
23279962
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Acquisition of 1,000 eubacterial genes physiologically transformed a methanogen at the origin of Haloarchaea.

Nelson-Sathi S, Dagan T, Landan G, Janssen A, Steel M, McInerney JO, Deppenmeier U, Martin WF.

Proc Natl Acad Sci U S A. 2012 Dec 11;109(50):20537-42. doi: 10.1073/pnas.1209119109. Epub 2012 Nov 26.

PMID:
23184964
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Metazoan opsin evolution reveals a simple route to animal vision.

Feuda R, Hamilton SC, McInerney JO, Pisani D.

Proc Natl Acad Sci U S A. 2012 Nov 13;109(46):18868-72. doi: 10.1073/pnas.1204609109. Epub 2012 Oct 29.

PMID:
23112152
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Evolutionary analyses of non-genealogical bonds produced by introgressive descent.

Bapteste E, Lopez P, Bouchard F, Baquero F, McInerney JO, Burian RM.

Proc Natl Acad Sci U S A. 2012 Nov 6;109(45):18266-72. doi: 10.1073/pnas.1206541109. Epub 2012 Oct 22.

PMID:
23090996
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Increased genome sampling reveals a dynamic relationship between gene duplicability and the structure of the primate protein-protein interaction network.

Doherty A, Alvarez-Ponce D, McInerney JO.

Mol Biol Evol. 2012 Nov;29(11):3563-73. doi: 10.1093/molbev/mss165. Epub 2012 Jun 21.

PMID:
22723304
[PubMed - indexed for MEDLINE]
Free Article
16.

The Public Goods Hypothesis for the evolution of life on Earth.

McInerney JO, Pisani D, Bapteste E, O'Connell MJ.

Biol Direct. 2011 Aug 23;6:41. doi: 10.1186/1745-6150-6-41.

PMID:
21861918
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Planctomycetes and eukaryotes: a case of analogy not homology.

McInerney JO, Martin WF, Koonin EV, Allen JF, Galperin MY, Lane N, Archibald JM, Embley TM.

Bioessays. 2011 Nov;33(11):810-7. doi: 10.1002/bies.201100045. Epub 2011 Aug 22.

PMID:
21858844
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

A method for inferring the rate of evolution of homologous characters that can potentially improve phylogenetic inference, resolve deep divergence and correct systematic biases.

Cummins CA, McInerney JO.

Syst Biol. 2011 Dec;60(6):833-44. doi: 10.1093/sysbio/syr064. Epub 2011 Jul 29.

PMID:
21804093
[PubMed - indexed for MEDLINE]
19.

The human genome retains relics of its prokaryotic ancestry: human genes of archaebacterial and eubacterial origin exhibit remarkable differences.

Alvarez-Ponce D, McInerney JO.

Genome Biol Evol. 2011;3:782-90. doi: 10.1093/gbe/evr073. Epub 2011 Jul 27.

PMID:
21795752
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Eukaryotic genes of archaebacterial origin are more important than the more numerous eubacterial genes, irrespective of function.

Cotton JA, McInerney JO.

Proc Natl Acad Sci U S A. 2010 Oct 5;107(40):17252-5. doi: 10.1073/pnas.1000265107. Epub 2010 Sep 17.

PMID:
20852068
[PubMed - indexed for MEDLINE]
Free PMC Article

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