Evolution of gene order conservation in prokaryotes.

Tamames J.

Genome Biol. 2001;2(6):RESEARCH0020. Epub 2001 Jun 1.

PMID: 11423009 [PubMed - indexed for MEDLINE]

Related Articles Free article in PMC

Genome alignment, evolution of prokaryotic genome organization, and prediction of gene function using genomic context.

Wolf YI, Rogozin IB, Kondrashov AS, Koonin EV.

Genome Res. 2001 Mar;11(3):356-72.

PMID: 11230160 [PubMed - indexed for MEDLINE]

Related Articles

Genome trees constructed using five different approaches suggest new major bacterial clades.

Wolf YI, Rogozin IB, Grishin NV, Tatusov RL, Koonin EV.

BMC Evol Biol. 2001 Oct 20;1:8.

PMID: 11734060 [PubMed - indexed for MEDLINE]

Related Articles Free article in PMC

Ancient origin of the tryptophan operon and the dynamics of evolutionary change.

Xie G, Keyhani NO, Bonner CA, Jensen RA.

Microbiol Mol Biol Rev. 2003 Sep;67(3):303-42, table of contents. Review.

PMID: 12966138 [PubMed - indexed for MEDLINE]

Related Articles Free article in PMC

Computational approaches for the analysis of gene neighbourhoods in prokaryotic genomes.

Rogozin IB, Makarova KS, Wolf YI, Koonin EV.

Brief Bioinform. 2004 Jun;5(2):131-49.

PMID: 15260894 [PubMed - indexed for MEDLINE]

Related Articles

Algorithms for computing parsimonious evolutionary scenarios for genome evolution, the last universal common ancestor and dominance of horizontal gene transfer in the evolution of prokaryotes.

Mirkin BG, Fenner TI, Galperin MY, Koonin EV.

BMC Evol Biol. 2003 Jan 6;3:2. Epub 2003 Jan 6.

PMID: 12515582 [PubMed - indexed for MEDLINE]

Related Articles Free article in PMC

Inferring functional relationships from conservation of gene order.

Moreno-Hagelsieb G.

Methods Mol Biol. 2008;453:181-99.

PMID: 18712303 [PubMed - indexed for MEDLINE]

Related Articles

Evolutionary, structural and functional relationships revealed by comparative analysis of syntenic genes in Rhizobiales.

Guerrero G, Peralta H, Aguilar A, Díaz R, Villalobos MA, Medrano-Soto A, Mora J.

BMC Evol Biol. 2005 Oct 17;5:55.

PMID: 16229745 [PubMed - indexed for MEDLINE]

Related Articles Free article in PMC

Prokaryotic genomes: the emerging paradigm of genome-based microbiology.

Koonin EV, Galperin MY.

Curr Opin Genet Dev. 1997 Dec;7(6):757-63. Review.

PMID: 9468784 [PubMed - indexed for MEDLINE]

Related Articles

Operon conservation from the point of view of Escherichia coli, and inference of functional interdependence of gene products from genome context.

Moreno-Hagelsieb G, Collado-Vides J.

In Silico Biol. 2002;2(2):87-95.

PMID: 12066843 [PubMed - indexed for MEDLINE]

Related Articles

Proceedings of the SMBE Tri-National Young Investigators' Workshop 2005. Positional conservation of clusters of overlapping promoter-like sequences in enterobacterial genomes.

Huerta AM, Collado-Vides J, Francino MP; SMBE Tri-National Young Investigators.

Mol Biol Evol. 2006 May;23(5):997-1010. Epub 2006 Mar 17.

PMID: 16547149 [PubMed - indexed for MEDLINE]

Related Articles

Gene context conservation of a higher order than operons.

Lathe WC 3rd, Snel B, Bork P.

Trends Biochem Sci. 2000 Oct;25(10):474-9. Review.

PMID: 11050428 [PubMed - indexed for MEDLINE]

Related Articles

Organisation of the S10, spc and alpha ribosomal protein gene clusters in prokaryotic genomes.

Coenye T, Vandamme P.

FEMS Microbiol Lett. 2005 Jan 1;242(1):117-26.

PMID: 15621428 [PubMed - indexed for MEDLINE]

Related Articles

Evolutionary analyses of the small subunit of glutamate synthase: gene order conservation, gene fusions, and prokaryote-to-eukaryote lateral gene transfers.

Andersson JO, Roger AJ.

Eukaryot Cell. 2002 Apr;1(2):304-10.

PMID: 12455964 [PubMed - indexed for MEDLINE]

Related Articles Free article in PMC

Genomic and phylogenetic perspectives on the evolution of prokaryotes.

Brown JR.

Syst Biol. 2001 Aug;50(4):497-512. Review.

PMID: 12116649 [PubMed - indexed for MEDLINE]

Related Articles

Two C or not two C: recurrent disruption of Zn-ribbons, gene duplication, lineage-specific gene loss, and horizontal gene transfer in evolution of bacterial ribosomal proteins.

Makarova KS, Ponomarev VA, Koonin EV.

Genome Biol. 2001;2(9):RESEARCH 0033. Epub 2001 Aug 30.

PMID: 11574053 [PubMed - indexed for MEDLINE]

Related Articles

A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes.

Koonin EV, Fedorova ND, Jackson JD, Jacobs AR, Krylov DM, Makarova KS, Mazumder R, Mekhedov SL, Nikolskaya AN, Rao BS, Rogozin IB, Smirnov S, Sorokin AV, Sverdlov AV, Vasudevan S, Wolf YI, Yin JJ, Natale DA.

Genome Biol. 2004;5(2):R7. Epub 2004 Jan 15.

PMID: 14759257 [PubMed - indexed for MEDLINE]

Related Articles Free article in PMC

A phylogenetic analysis of the pSymB replicon from the Sinorhizobium meliloti genome reveals a complex evolutionary history.

Wong K, Golding GB.

Can J Microbiol. 2003 Apr;49(4):269-80.

PMID: 12897836 [PubMed - indexed for MEDLINE]

Related Articles

The balance of driving forces during genome evolution in prokaryotes.

Kunin V, Ouzounis CA.

Genome Res. 2003 Jul;13(7):1589-94.

PMID: 12840037 [PubMed - indexed for MEDLINE]

Related Articles Free article in PMC

Pervasiveness of gene conservation and persistence of duplicates in cellular genomes.

Tekaia F, Dujon B.

J Mol Evol. 1999 Nov;49(5):591-600.

PMID: 10552040 [PubMed - indexed for MEDLINE]

Related Articles