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Evolution of mosaic operons by horizontal gene transfer and gene displacement in situ
Marina V Omelchenko, Kira S Makarova, Yuri I Wolf, Igor B Rogozin, Eugene V Koonin
Genome Biol. 2003; 4(9): R55. Published online 2003 August 29.
PMCID:
PMC193655
Abstract Full Text PDF–1.7M Supplementary Material

Is Cited by the Following 31 Articles in this Archive:

Distribution and Properties of the Genes Encoding the Biosynthesis of the Bacterial Cofactor, Pyrroloquinoline Quinone
Yao-Qing Shen, Florence Bonnot, Erin M. Imsand, Jordan M. RoseFigura, Kimmen Sjölander, Judith P. Klinman
Biochemistry. Author manuscript; available in PMC 2013 March 20.
Published in final edited form as: Biochemistry. 2012 March 20; 51(11): 2265–2275. Published online 2012 March 9. doi: 10.1021/bi201763d
PMCID:
PMC3334298
Free in PMC on 2013/03/20
Parallel evolution of transcriptome architecture during genome reorganization
Sung Ho Yoon, David J. Reiss, J. Christopher Bare, Dan Tenenbaum, Min Pan, Joseph Slagel, Robert L. Moritz, Sujung Lim, Murray Hackett, Angeli Lal Menon, Michael W.W. Adams, Adam Barnebey, Steven M. Yannone, John A. Leigh, Nitin S. Baliga
Genome Res. 2011 November; 21(11): 1892–1904. doi: 10.1101/gr.122218.111
PMCID:
PMC3205574
Abstract Full Text PDF–1.9M
Expression of phosphofructokinase in Neisseria meningitidis
Gino J. E. Baart, Marc Langenhof, Bas van de Waterbeemd, Hendrik-Jan Hamstra, Bert Zomer, Leo A. van der Pol, E. C. Beuvery, Johannes Tramper, Dirk E. Martens
Microbiology. 2010 February; 156(Pt 2): 530–542. doi: 10.1099/mic.0.031641-0
PMCID:
PMC2890083
Abstract Full Text PDF–322K Supplementary Material
Comparison of phylogenetic trees through alignment of embedded evolutionary distances
Kwangbom Choi, Shawn M Gomez
BMC Bioinformatics. 2009; 10: 423. Published online 2009 December 15. doi: 10.1186/1471-2105-10-423
PMCID:
PMC3087345
Abstract Full Text PDF–2.2M Supplementary Material
Horizontal gene transfer and diverse functional constrains within a common replication-partitioning system in Alphaproteobacteria: the repABC operon
Santiago Castillo-Ramírez, Jorge F Vázquez-Castellanos, Víctor González, Miguel A Cevallos
BMC Genomics. 2009; 10: 536. Published online 2009 November 18. doi: 10.1186/1471-2164-10-536
PMCID:
PMC2783167
Abstract Full Text PDF–436K Supplementary Material
Lateral Transfer of Genes and Gene Fragments in Prokaryotes
Cheong Xin Chan, Robert G. Beiko, Aaron E. Darling, Mark A. Ragan
Genome Biol Evol. 2009; 1: 429–438. Published online 2009 November 4. doi: 10.1093/gbe/evp044
PMCID:
PMC2817436
Abstract Full Text PDF–482K Supplementary Material
Evolutionary constraints permeate large metabolic networks
Andreas Wagner
BMC Evol Biol. 2009; 9: 231. Published online 2009 September 11. doi: 10.1186/1471-2148-9-231
PMCID:
PMC2753571
Abstract Full Text PDF–1.9M
Operons
Anne E. Osbourn, Ben Field
Cell Mol Life Sci. 2009 December; 66(23): 3755–3775. Published online 2009 August 7. doi: 10.1007/s00018-009-0114-3
PMCID:
PMC2776167
Abstract Full Text PDF–644K
Does Gene Translocation Accelerate the Evolution of Laterally Transferred Genes?
Weilong Hao, G. Brian Golding
Genetics. 2009 August; 182(4): 1365–1375. doi: 10.1534/genetics.109.104216
PMCID:
PMC2728873
Abstract Full Text PDF–1.1M
Horizontal gene transfer of zinc and non-zinc forms of bacterial ribosomal protein S4
Ke Chen, Elijah Roberts, Zaida Luthey-Schulten
BMC Evol Biol. 2009; 9: 179. Published online 2009 July 29. doi: 10.1186/1471-2148-9-179
PMCID:
PMC3087516
Abstract Full Text PDF–2.2M Supplementary Material
Stochasticity in Protein Levels Drives Colinearity of Gene Order in Metabolic Operons of Escherichia coli
Károly Kovács, Laurence D. Hurst, Balázs Papp
PLoS Biol. 2009 May; 7(5): e1000115. Published online 2009 May 26. doi: 10.1371/journal.pbio.1000115
PMCID:
PMC2684527
Abstract Full Text PDF–307K Supplementary Material
Insights into the evolution of sialic acid catabolism among bacteria
Salvador Almagro-Moreno, E Fidelma Boyd
BMC Evol Biol. 2009; 9: 118. Published online 2009 May 26. doi: 10.1186/1471-2148-9-118
PMCID:
PMC2693436
Abstract Full Text PDF–525K Supplementary Material
GO4genome: A Prokaryotic Phylogeny Based on Genome Organization
Rainer Merkl, Arnim Wiezer
J Mol Evol. 2009 May; 68(5): 550–562. Published online 2009 May 13. doi: 10.1007/s00239-009-9233-6
PMCID:
PMC3085772
Abstract Full Text PDF–449K Supplementary Material
Are Protein Domains Modules of Lateral Genetic Transfer?
Cheong Xin Chan, Aaron E. Darling, Robert G. Beiko, Mark A. Ragan
PLoS ONE. 2009; 4(2): e4524. Published online 2009 February 20. doi: 10.1371/journal.pone.0004524
PMCID:
PMC2639706
Abstract Full Text PDF–520K Supplementary Material
Recurring cluster and operon assembly for Phenylacetate degradation genes
Fergal J Martin, James O McInerney
BMC Evol Biol. 2009; 9: 36. Published online 2009 February 10. doi: 10.1186/1471-2148-9-36
PMCID:
PMC2653477
Abstract Full Text PDF–933K
Comparative genomic analysis of T-box regulatory systems in bacteria
Alexey G. Vitreschak, Andrei A. Mironov, Vassily A. Lyubetsky, Mikhail S. Gelfand
RNA. 2008 April; 14(4): 717–735. doi: 10.1261/rna.819308
PMCID:
PMC2271356
Abstract Full Text PDF–1.6M
The impact of horizontal gene transfer in shaping operons and protein interaction networks – direct evidence of preferential attachment
Wagied Davids, Zhaolei Zhang
BMC Evol Biol. 2008; 8: 23. Published online 2008 January 24. doi: 10.1186/1471-2148-8-23
PMCID:
PMC2259305
Abstract Full Text PDF–436K Supplementary Material
Being Pathogenic, Plastic, and Sexual while Living with a Nearly Minimal Bacterial Genome
Pascal Sirand-Pugnet, Carole Lartigue, Marc Marenda, Daniel Jacob, Aurélien Barré, Valérie Barbe, Chantal Schenowitz, Sophie Mangenot, Arnaud Couloux, Beatrice Segurens, Antoine de Daruvar, Alain Blanchard, Christine Citti
PLoS Genet. 2007 May; 3(5): e75. Published online 2007 May 18. doi: 10.1371/journal.pgen.0030075
PMCID:
PMC1868952
Abstract Full Text PDF–652K Supplementary Material
Modelling the evolution of the archeal tryptophan synthase
Rainer Merkl
BMC Evol Biol. 2007; 7: 59. Published online 2007 April 10. doi: 10.1186/1471-2148-7-59
PMCID:
PMC1854888
Abstract Full Text PDF–576K
The power of phylogenetic approaches to detect horizontally transferred genes
Maria S Poptsova, J Peter Gogarten
BMC Evol Biol. 2007; 7: 45. Published online 2007 March 21. doi: 10.1186/1471-2148-7-45
PMCID:
PMC1847511
Abstract Full Text PDF–2.6M Supplementary Material
Positional Homology in Bacterial Genomes
Ingrid J. Burgetz, Salimah Shariff, Andy Pang, Elisabeth R. M. Tillier
Evol Bioinform Online. 2006; 2: 77–90. Published online 2007 January 14.
PMCID:
PMC2674667
Abstract Full Text PDF–460K
Carotenoid Biosynthesis in Cyanobacteria: Structural and Evolutionary Scenarios Based on Comparative Genomics
Chengwei Liang, Fangqing Zhao, Wei Wei, Zhangxiao Wen, Song Qin
Int J Biol Sci. 2006; 2(4): 197–207. Published online 2006 August 18.
PMCID:
PMC1560406
Abstract Full Text PDF–530K
The Life-Cycle of Operons
Morgan N Price, Adam P Arkin, Eric J Alm
PLoS Genet. 2006 June; 2(6): e96. Published online 2006 June 23. doi: 10.1371/journal.pgen.0020096
Correction in:
PLoS Genet. 2006 July; 2(7): e126.
PMCID:
PMC1480536
Abstract Full Text PDF–536K Supplementary Material Correction
Genome-wide detection and analysis of homologous recombination among sequenced strains of Escherichia coli
Bob Mau, Jeremy D Glasner, Aaron E Darling, Nicole T Perna
Genome Biol. 2006; 7(5): R44. Published online 2006 May 31. doi: 10.1186/gb-2006-7-5-r44
PMCID:
PMC1779527
Abstract Full Text PDF–890K Supplementary Material
Post-genomics of the model haloarchaeon Halobacterium sp. NRC-1
Shiladitya DasSarma, Brian R Berquist, James A Coker, Priya DasSarma, Jochen A Müller
Saline Systems. 2006; 2: 3. Published online 2006 March 16. doi: 10.1186/1746-1448-2-3
PMCID:
PMC1447603
Abstract Full Text PDF–1.0M
Reconstruction and Regulation of the Central Catabolic Pathway in the Thermophilic Propionate-Oxidizing Syntroph Pelotomaculum thermopropionicum
Tomoyuki Kosaka, Taku Uchiyama, Shun-ichi Ishii, Miho Enoki, Hiroyuki Imachi, Yoichi Kamagata, Akiyoshi Ohashi, Hideki Harada, Hiroshi Ikenaga, Kazuya Watanabe
J Bacteriol. 2006 January; 188(1): 202–210. doi: 10.1128/JB.188.1.202-210.2006
PMCID:
PMC1317604
Abstract Full Text PDF–237K
Comparative genomics of Thermus thermophilus and Deinococcus radiodurans: divergent routes of adaptation to thermophily and radiation resistance
Marina V Omelchenko, Yuri I Wolf, Elena K Gaidamakova, Vera Y Matrosova, Alexander Vasilenko, Min Zhai, Michael J Daly, Eugene V Koonin, Kira S Makarova
BMC Evol Biol. 2005; 5: 57. Published online 2005 October 20. doi: 10.1186/1471-2148-5-57
PMCID:
PMC1274311
Abstract Full Text PDF–504K Supplementary Material
Clustered Genes Related to Sulfate Respiration in Uncultured Prokaryotes Support the Theory of Their Concomitant Horizontal Transfer
Marc Mussmann, Michael Richter, Thierry Lombardot, Anke Meyerdierks, Jan Kuever, Michael Kube, Frank Oliver Glöckner, Rudolf Amann
J Bacteriol. 2005 October; 187(20): 7126–7137. doi: 10.1128/JB.187.20.7126-7137.2005
PMCID:
PMC1251608
Abstract Full Text PDF–799K Supplementary Material
Operon formation is driven by co-regulation and not by horizontal gene transfer
Morgan N. Price, Katherine H. Huang, Adam P. Arkin, Eric J. Alm
Genome Res. 2005 June; 15(6): 809–819. doi: 10.1101/gr.3368805
PMCID:
PMC1142471
Abstract Full Text PDF–202K
Genome sequence of Haloarcula marismortui: A halophilic archaeon from the Dead Sea
Nitin S. Baliga, Richard Bonneau, Marc T. Facciotti, Min Pan, Gustavo Glusman, Eric W. Deutsch, Paul Shannon, Yulun Chiu, Rueyhung Sting Weng, Rueichi Richie Gan, Pingliang Hung, Shailesh V. Date, Edward Marcotte, Leroy Hood, Wailap Victor Ng
Genome Res. 2004 November; 14(11): 2221–2234. doi: 10.1101/gr.2700304
Correction in:
Genome Res. 2004 December; 14(12): 2510.
PMCID:
PMC525680
Abstract Full Text PDF–472K Correction
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