Comparative genomic hybridisation and ultrafast pyrosequencing revealed remarkable differences between the Sinorhizobium meliloti genomes of the model strain Rm1021 and the field isolate SM11

Stiens M, Becker A, Bekel T, Gödde V, Goesmann A, Niehaus K, Schneiker-Bekel S, Selbitschka W, Weidner S, Schlüter A, Pühler A (2008)
Journal of Biotechnology 136(1-2): 31-37.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
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DOI
Autor*in
Stiens, Michael; Becker, Anke; Bekel, ThomasUniBi; Gödde, VictoriaUniBi; Goesmann, AlexanderUniBi ; Niehaus, KarstenUniBi; Schneiker-Bekel, SusanneUniBi; Selbitschka, WernerUniBi; Weidner, StefanUniBi; Schlüter, AndreasUniBi ; Pühler, AlfredUniBi
Einrichtung
Centrum für Biotechnologie > Institut für Bioinformatik
Centrum für Biotechnologie > Arbeitsgruppe K. Niehaus
Centrum für Biotechnologie > Arbeitsgruppe A. Pühler
Centrum für Biotechnologie > Institut für Genomforschung und Systembiologie
Centrum für Biotechnologie > Technologieplattformen > Bioinformatics Resource Facility
Fakultät für Biologie > Proteom- und Metabolomforschung
Technische Fakultät > Computational Genomics
Centrum für Biotechnologie > Arbeitsgruppe A. Goesmann
Stichworte
genomic hybridisation; megaplasmid; nitrogen fixation; nodulation; comparative; bacterial genome; microarray hybridisation; symbiosis; evolution
Erscheinungsjahr
2008
Zeitschriftentitel
Journal of Biotechnology
Band
136
Ausgabe
1-2
Seite(n)
31-37
ISSN
0168-1656
Page URI
https://pub.uni-bielefeld.de/record/1585956

Zitieren

Stiens M, Becker A, Bekel T, et al. Comparative genomic hybridisation and ultrafast pyrosequencing revealed remarkable differences between the Sinorhizobium meliloti genomes of the model strain Rm1021 and the field isolate SM11. Journal of Biotechnology. 2008;136(1-2):31-37.
Stiens, M., Becker, A., Bekel, T., Gödde, V., Goesmann, A., Niehaus, K., Schneiker-Bekel, S., et al. (2008). Comparative genomic hybridisation and ultrafast pyrosequencing revealed remarkable differences between the Sinorhizobium meliloti genomes of the model strain Rm1021 and the field isolate SM11. Journal of Biotechnology, 136(1-2), 31-37. https://doi.org/10.1016/j.jbiotec.2008.04.014
Stiens, Michael, Becker, Anke, Bekel, Thomas, Gödde, Victoria, Goesmann, Alexander, Niehaus, Karsten, Schneiker-Bekel, Susanne, et al. 2008. “Comparative genomic hybridisation and ultrafast pyrosequencing revealed remarkable differences between the Sinorhizobium meliloti genomes of the model strain Rm1021 and the field isolate SM11”. Journal of Biotechnology 136 (1-2): 31-37.
Stiens, M., Becker, A., Bekel, T., Gödde, V., Goesmann, A., Niehaus, K., Schneiker-Bekel, S., Selbitschka, W., Weidner, S., Schlüter, A., et al. (2008). Comparative genomic hybridisation and ultrafast pyrosequencing revealed remarkable differences between the Sinorhizobium meliloti genomes of the model strain Rm1021 and the field isolate SM11. Journal of Biotechnology 136, 31-37.
Stiens, M., et al., 2008. Comparative genomic hybridisation and ultrafast pyrosequencing revealed remarkable differences between the Sinorhizobium meliloti genomes of the model strain Rm1021 and the field isolate SM11. Journal of Biotechnology, 136(1-2), p 31-37.
M. Stiens, et al., “Comparative genomic hybridisation and ultrafast pyrosequencing revealed remarkable differences between the Sinorhizobium meliloti genomes of the model strain Rm1021 and the field isolate SM11”, Journal of Biotechnology, vol. 136, 2008, pp. 31-37.
Stiens, M., Becker, A., Bekel, T., Gödde, V., Goesmann, A., Niehaus, K., Schneiker-Bekel, S., Selbitschka, W., Weidner, S., Schlüter, A., Pühler, A.: Comparative genomic hybridisation and ultrafast pyrosequencing revealed remarkable differences between the Sinorhizobium meliloti genomes of the model strain Rm1021 and the field isolate SM11. Journal of Biotechnology. 136, 31-37 (2008).
Stiens, Michael, Becker, Anke, Bekel, Thomas, Gödde, Victoria, Goesmann, Alexander, Niehaus, Karsten, Schneiker-Bekel, Susanne, Selbitschka, Werner, Weidner, Stefan, Schlüter, Andreas, and Pühler, Alfred. “Comparative genomic hybridisation and ultrafast pyrosequencing revealed remarkable differences between the Sinorhizobium meliloti genomes of the model strain Rm1021 and the field isolate SM11”. Journal of Biotechnology 136.1-2 (2008): 31-37.

10 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

Genomic characterization of Sinorhizobium meliloti AK21, a wild isolate from the Aral Sea Region.
Molina-Sánchez MD, López-Contreras JA, Toro N, Fernández-López M., Springerplus 4(), 2015
PMID: 26090306
The tRNAarg gene and engA are essential genes on the 1.7-Mb pSymB megaplasmid of Sinorhizobium meliloti and were translocated together from the chromosome in an ancestral strain.
diCenzo G, Milunovic B, Cheng J, Finan TM., J Bacteriol 195(2), 2013
PMID: 23123907
6-10× pyrosequencing is a practical approach for whole prokaryote genome studies.
Li J, Jiang J, Leung FC., Gene 494(1), 2012
PMID: 22192914
Movement of DNA sequence recognition domains between non-orthologous proteins.
Furuta Y, Kobayashi I., Nucleic Acids Res 40(18), 2012
PMID: 22821560
Genome comparison and context analysis reveals putative mobile forms of restriction-modification systems and related rearrangements.
Furuta Y, Abe K, Kobayashi I., Nucleic Acids Res 38(7), 2010
PMID: 20071371
A putative mobile genetic element carrying a novel type IIF restriction-modification system (PluTI).
Khan F, Furuta Y, Kawai M, Kaminska KH, Ishikawa K, Bujnicki JM, Kobayashi I., Nucleic Acids Res 38(9), 2010
PMID: 20071747
Pan-genome sequence analysis using Panseq: an online tool for the rapid analysis of core and accessory genomic regions.
Laing C, Buchanan C, Taboada EN, Zhang Y, Kropinski A, Villegas A, Thomas JE, Gannon VP., BMC Bioinformatics 11(), 2010
PMID: 20843356
Application of 'next-generation' sequencing technologies to microbial genetics.
MacLean D, Jones JD, Studholme DJ., Nat Rev Microbiol 7(4), 2009
PMID: 19287448
Detection of 140 clinically relevant antibiotic-resistance genes in the plasmid metagenome of wastewater treatment plant bacteria showing reduced susceptibility to selected antibiotics.
Szczepanowski R, Linke B, Krahn I, Gartemann KH, Gützkow T, Eichler W, Pühler A, Schlüter A., Microbiology 155(pt 7), 2009
PMID: 19389756
Genome variation in the symbiotic nitrogen-fixing bacterium Sinorhizobium meliloti.
Guo H, Sun S, Eardly B, Finan T, Xu J., Genome 52(10), 2009
PMID: 19935910

25 References

Daten bereitgestellt von Europe PubMed Central.

Denitrification genes regulate Brucella virulence in mice.
Baek SH, Rajashekara G, Splitter GA, Shapleigh JP., J. Bacteriol. 186(18), 2004
PMID: 15342571
Nucleotide sequence and predicted functions of the entire Sinorhizobium meliloti pSymA megaplasmid.
Barnett MJ, Fisher RF, Jones T, Komp C, Abola AP, Barloy-Hubler F, Bowser L, Capela D, Galibert F, Gouzy J, Gurjal M, Hong A, Huizar L, Hyman RW, Kahn D, Kahn ML, Kalman S, Keating DH, Palm C, Peck MC, Surzycki R, Wells DH, Yeh KC, Davis RW, Federspiel NA, Long SR., Proc. Natl. Acad. Sci. U.S.A. 98(17), 2001
PMID: 11481432
Global changes in gene expression in Sinorhizobium meliloti 1021 under microoxic and symbiotic conditions.
Becker A, Berges H, Krol E, Bruand C, Ruberg S, Capela D, Lauber E, Meilhoc E, Ampe F, de Bruijn FJ, Fourment J, Francez-Charlot A, Kahn D, Kuster H, Liebe C, Puhler A, Weidner S, Batut J., Mol. Plant Microbe Interact. 17(3), 2004
PMID: 15000396
Analysis of the chromosome sequence of the legume symbiont Sinorhizobium meliloti strain 1021.
Capela D, Barloy-Hubler F, Gouzy J, Bothe G, Ampe F, Batut J, Boistard P, Becker A, Boutry M, Cadieu E, Dreano S, Gloux S, Godrie T, Goffeau A, Kahn D, Kiss E, Lelaure V, Masuy D, Pohl T, Portetelle D, Puhler A, Purnelle B, Ramsperger U, Renard C, Thebault P, Vandenbol M, Weidner S, Galibert F., Proc. Natl. Acad. Sci. U.S.A. 98(17), 2001
PMID: 11481430
Experimental evidence for plasmid-borne nor-nir genes in Sinorhizobium meliloti JJ1c10.
Chan YK, McCormick WA., Can. J. Microbiol. 50(9), 2004
PMID: 15644918
Analysis of a 1600-kilobase Rhizobium meliloti megaplasmid using defined deletions generated in vivo.
Charles TC, Finan TM., Genetics 127(1), 1991
PMID: 1849856
Mutational analysis of the nor gene cluster which encodes nitric-oxide reductase from Paracoccus denitrificans.
de Boer AP, van der Oost J, Reijnders WN, Westerhoff HV, Stouthamer AH, van Spanning RJ., Eur. J. Biochem. 242(3), 1996
PMID: 9022686
EMMA: a platform for consistent storage and efficient analysis of microarray data.
Dondrup M, Goesmann A, Bartels D, Kalinowski J, Krause L, Linke B, Rupp O, Sczyrba A, Puhler A, Meyer F., J. Biotechnol. 106(2-3), 2003
PMID: 14651856
The complete sequence of the 1,683-kb pSymB megaplasmid from the N2-fixing endosymbiont Sinorhizobium meliloti.
Finan TM, Weidner S, Wong K, Buhrmester J, Chain P, Vorholter FJ, Hernandez-Lucas I, Becker A, Cowie A, Gouzy J, Golding B, Puhler A., Proc. Natl. Acad. Sci. U.S.A. 98(17), 2001
PMID: 11481431
The composite genome of the legume symbiont Sinorhizobium meliloti.
Galibert F, Finan TM, Long SR, Puhler A, Abola P, Ampe F, Barloy-Hubler F, Barnett MJ, Becker A, Boistard P, Bothe G, Boutry M, Bowser L, Buhrmester J, Cadieu E, Capela D, Chain P, Cowie A, Davis RW, Dreano S, Federspiel NA, Fisher RF, Gloux S, Godrie T, Goffeau A, Golding B, Gouzy J, Gurjal M, Hernandez-Lucas I, Hong A, Huizar L, Hyman RW, Jones T, Kahn D, Kahn ML, Kalman S, Keating DH, Kiss E, Komp C, Lelaure V, Masuy D, Palm C, Peck MC, Pohl TM, Portetelle D, Purnelle B, Ramsperger U, Surzycki R, Thebault P, Vandenbol M, Vorholter FJ, Weidner S, Wells DH, Wong K, Yeh KC, Batut J., Science 293(5530), 2001
PMID: 11474104
Large-scale genetic variation of the symbiosis-required megaplasmid pSymA revealed by comparative genomic analysis of Sinorhizobium meliloti natural strains.
Giuntini E, Mengoni A, De Filippo C, Cavalieri D, Aubin-Horth N, Landry CR, Becker A, Bazzicalupo M., BMC Genomics 6(), 2005
PMID: 16283928
Novel DNA sequences from natural strains of the nitrogen-fixing symbiotic bacterium Sinorhizobium meliloti.
Guo H, Sun S, Finan TM, Xu J., Appl. Environ. Microbiol. 71(11), 2005
PMID: 16269751

Hopwood, 1985
Behavior of restriction-modification systems as selfish mobile elements and their impact on genome evolution.
Kobayashi I., Nucleic Acids Res. 29(18), 2001
PMID: 11557807
Prevalence of pSmeSM11a-like plasmids in indigenous Sinorhizobium meliloti strains isolated in the course of a field release experiment with genetically modified S. meliloti strains.
Kuhn S, Stiens M, Puhler A, Schluter A., FEMS Microbiol. Ecol. 63(1), 2007
PMID: 18034835
Analysis of the role of the nnrR gene product in the response of Rhodobacter sphaeroides 2.4.1 to exogenous nitric oxide.
Kwiatkowski AV, Laratta WP, Toffanin A, Shapleigh JP., J. Bacteriol. 179(17), 1997
PMID: 9287025
Genetic organization of the region encoding regulation, biosynthesis, and transport of rhizobactin 1021, a siderophore produced by Sinorhizobium meliloti.
Lynch D, O'Brien J, Welch T, Clarke P, Cuiv PO, Crosa JH, O'Connell M., J. Bacteriol. 183(8), 2001
PMID: 11274118
Genome sequencing in microfabricated high-density picolitre reactors.
Margulies M, Egholm M, Altman WE, Attiya S, Bader JS, Bemben LA, Berka J, Braverman MS, Chen YJ, Chen Z, Dewell SB, Du L, Fierro JM, Gomes XV, Godwin BC, He W, Helgesen S, Ho CH, Ho CH, Irzyk GP, Jando SC, Alenquer ML, Jarvie TP, Jirage KB, Kim JB, Knight JR, Lanza JR, Leamon JH, Lefkowitz SM, Lei M, Li J, Lohman KL, Lu H, Makhijani VB, McDade KE, McKenna MP, Myers EW, Nickerson E, Nobile JR, Plant R, Puc BP, Ronan MT, Roth GT, Sarkis GJ, Simons JF, Simpson JW, Srinivasan M, Tartaro KR, Tomasz A, Vogt KA, Volkmer GA, Wang SH, Wang Y, Weiner MP, Yu P, Begley RF, Rothberg JM., Nature 437(7057), 2005
PMID: 16056220
GenDB--an open source genome annotation system for prokaryote genomes.
Meyer F, Goesmann A, McHardy AC, Bartels D, Bekel T, Clausen J, Kalinowski J, Linke B, Rupp O, Giegerich R, Puhler A., Nucleic Acids Res. 31(8), 2003
PMID: 12682369
Type I restriction systems: sophisticated molecular machines (a legacy of Bertani and Weigle).
Murray NE., Microbiol. Mol. Biol. Rev. 64(2), 2000
PMID: 10839821
Megaplasmid pRme2011a of Sinorhizobium meliloti is not required for viability.
Oresnik IJ, Liu SL, Yost CK, Hynes MF., J. Bacteriol. 182(12), 2000
PMID: 10852892
Long-term field release of bioluminescent Sinorhizobium meliloti strains to assess the influence of a recA mutation on the strains' survival.
Selbitschka W, Keller M, Miethling-Graff R, Dresing U, Schwieger F, Krahn I, Homann I, Dammann-Kalinowski T, Puhler A, Tebbe CC., Microb. Ecol. 52(3), 2006
PMID: 16924432
Sequence analysis of the 181-kb accessory plasmid pSmeSM11b, isolated from a dominant Sinorhizobium meliloti strain identified during a long-term field release experiment.
Stiens M, Schneiker S, Puhler A, Schluter A., FEMS Microbiol. Lett. 271(2), 2007
PMID: 17466030
Sequence analysis of the 144-kilobase accessory plasmid pSmeSM11a, isolated from a dominant Sinorhizobium meliloti strain identified during a long-term field release experiment.
Stiens M, Schneiker S, Keller M, Kuhn S, Puhler A, Schluter A., Appl. Environ. Microbiol. 72(5), 2006
PMID: 16672515
Cell biology and molecular basis of denitrification.
Zumft WG., Microbiol. Mol. Biol. Rev. 61(4), 1997
PMID: 9409151
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