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Items: 1 to 20 of 86

1.

Bacterial genome reduction using the progressive clustering of deletions via yeast sexual cycling.

Suzuki Y, Assad-Garcia N, Kostylev M, Noskov VN, Wise KS, Karas BJ, Stam J, Montague MG, Hanly TJ, Enriquez NJ, Ramon A, Goldgof GM, Richter RA, Vashee S, Chuang RY, Winzeler EA, Hutchison CA 3rd, Gibson DG, Smith HO, Glass JI, Venter JC.

Genome Res. 2015 Mar;25(3):435-44. doi: 10.1101/gr.182477.114. Epub 2015 Feb 5.

2.

TREC-IN: gene knock-in genetic tool for genomes cloned in yeast.

Chandran S, Noskov VN, Segall-Shapiro TH, Ma L, Whiteis C, Lartigue C, Jores J, Vashee S, Chuang RY.

BMC Genomics. 2014 Dec 24;15:1180. doi: 10.1186/1471-2164-15-1180.

3.

Genomic organization underlying deletional robustness in bacterial metabolic systems.

Hosseini SR, Wagner A.

Proc Natl Acad Sci U S A. 2018 Jul 3;115(27):7075-7080. doi: 10.1073/pnas.1717243115. Epub 2018 Jun 18.

4.

Does the Promoter Constitute a Barrier in the Horizontal Transposon Transfer Process? Insight from Bari Transposons.

Palazzo A, Caizzi R, Viggiano L, Marsano RM.

Genome Biol Evol. 2017 Jun 1;9(6):1637-1645. doi: 10.1093/gbe/evx122.

5.

Comparative genomic and proteomic analyses of two Mycoplasma agalactiae strains: clues to the macro- and micro-events that are shaping mycoplasma diversity.

Nouvel LX, Sirand-Pugnet P, Marenda MS, Sagné E, Barbe V, Mangenot S, Schenowitz C, Jacob D, Barré A, Claverol S, Blanchard A, Citti C.

BMC Genomics. 2010 Feb 2;11:86. doi: 10.1186/1471-2164-11-86.

6.

Minimization of the Escherichia coli genome using a Tn5-targeted Cre/loxP excision system.

Yu BJ, Sung BH, Koob MD, Lee CH, Lee JH, Lee WS, Kim MS, Kim SC.

Nat Biotechnol. 2002 Oct;20(10):1018-23. Epub 2002 Sep 16.

PMID:
12244329
7.

Persistence drives gene clustering in bacterial genomes.

Fang G, Rocha EP, Danchin A.

BMC Genomics. 2008 Jan 7;9:4. doi: 10.1186/1471-2164-9-4.

8.

Creating bacterial strains from genomes that have been cloned and engineered in yeast.

Lartigue C, Vashee S, Algire MA, Chuang RY, Benders GA, Ma L, Noskov VN, Denisova EA, Gibson DG, Assad-Garcia N, Alperovich N, Thomas DW, Merryman C, Hutchison CA 3rd, Smith HO, Venter JC, Glass JI.

Science. 2009 Sep 25;325(5948):1693-6. doi: 10.1126/science.1173759. Epub 2009 Aug 20.

9.

In-Yeast Engineering of a Bacterial Genome Using CRISPR/Cas9.

Tsarmpopoulos I, Gourgues G, Blanchard A, Vashee S, Jores J, Lartigue C, Sirand-Pugnet P.

ACS Synth Biol. 2016 Jan 15;5(1):104-9. doi: 10.1021/acssynbio.5b00196. Epub 2015 Dec 7.

PMID:
26592087
10.

Transposable elements and adaptation of host bacteria.

Blot M.

Genetica. 1994;93(1-3):5-12. Review.

PMID:
7813917
11.

Patterns and architecture of genomic islands in marine bacteria.

Fernández-Gómez B, Fernàndez-Guerra A, Casamayor EO, González JM, Pedrós-Alió C, Acinas SG.

BMC Genomics. 2012 Jul 29;13:347. doi: 10.1186/1471-2164-13-347.

12.

Genome sequence of the endosymbiont Rickettsia peacockii and comparison with virulent Rickettsia rickettsii: identification of virulence factors.

Felsheim RF, Kurtti TJ, Munderloh UG.

PLoS One. 2009 Dec 21;4(12):e8361. doi: 10.1371/journal.pone.0008361.

13.

A hidden reservoir of integrative elements is the major source of recently acquired foreign genes and ORFans in archaeal and bacterial genomes.

Cortez D, Forterre P, Gribaldo S.

Genome Biol. 2009;10(6):R65. doi: 10.1186/gb-2009-10-6-r65. Epub 2009 Jun 16.

14.

Comparative genomic analysis of the gut bacterium Bifidobacterium longum reveals loci susceptible to deletion during pure culture growth.

Lee JH, Karamychev VN, Kozyavkin SA, Mills D, Pavlov AR, Pavlova NV, Polouchine NN, Richardson PM, Shakhova VV, Slesarev AI, Weimer B, O'Sullivan DJ.

BMC Genomics. 2008 May 27;9:247. doi: 10.1186/1471-2164-9-247.

15.

Synthetic genome engineering forging new frontiers for wine yeast.

Pretorius IS.

Crit Rev Biotechnol. 2017 Feb;37(1):112-136. Epub 2016 Aug 18. Review.

PMID:
27535766
16.

Random genome deletion methods applicable to prokaryotes.

Suzuki N, Inui M, Yukawa H.

Appl Microbiol Biotechnol. 2008 Jun;79(4):519-26. doi: 10.1007/s00253-008-1512-4. Epub 2008 May 20. Review.

PMID:
18491037
17.

Horizontal gene transfer regulation in bacteria as a "spandrel" of DNA repair mechanisms.

Fall S, Mercier A, Bertolla F, Calteau A, Gueguen L, Perrière G, Vogel TM, Simonet P.

PLoS One. 2007 Oct 24;2(10):e1055.

18.

Evolutionary rewiring and reprogramming of bacterial transcription regulation.

Wang L, Wang FF, Qian W.

J Genet Genomics. 2011 Jul 20;38(7):279-88. doi: 10.1016/j.jgg.2011.06.001. Epub 2011 Jun 17. Review.

PMID:
21777852
19.

Causes of insertion sequences abundance in prokaryotic genomes.

Touchon M, Rocha EP.

Mol Biol Evol. 2007 Apr;24(4):969-81. Epub 2007 Jan 23.

PMID:
17251179
20.

Genomes in turmoil: quantification of genome dynamics in prokaryote supergenomes.

Puigbò P, Lobkovsky AE, Kristensen DM, Wolf YI, Koonin EV.

BMC Biol. 2014 Aug 21;12:66. doi: 10.1186/s12915-014-0066-4.

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