A large scale analysis of protein-protein interactions in the nitrogen-fixing bacterium Mesorhizobium loti

DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes
Yoshikazu ShimodaShusei Sato

Abstract

Global viewing of protein-protein interactions (PPIs) is a useful way to assign biological roles to large numbers of proteins predicted by complete genome sequence. Here, we systematically analyzed PPIs in the nitrogen-fixing soil bacterium Mesorhizobium loti using a modified high-throughput yeast two-hybrid system. The aims of this study are primarily on the providing functional clues to M. loti proteins that are relevant to symbiotic nitrogen fixation and conserved in other rhizobium species, especially proteins with regulatory functions and unannotated proteins. By the screening of 1542 genes as bait, 3121 independent interactions involving 1804 proteins (24% of the total protein coding genes) were identified and each interaction was evaluated using an interaction generality (IG) measure and the general features of the interacting partners. Most PPIs detected in this study are novel interactions revealing potential functional relationships between genes for symbiotic nitrogen fixation and signal transduction. Furthermore, we have predicted the putative functions of unannotated proteins through their interactions with known proteins. The results described here represent new insight into protein network of M. loti and provide ...Continue Reading

References

Apr 1, 1984·Journal of Bacteriology·K D NoelM A Cevallos
Mar 17, 1999·Proceedings of the National Academy of Sciences of the United States of America·R OverbeekN Maltsev
Sep 4, 1999·Journal of Molecular Evolution·J A Rosinski, W R Atchley
Dec 2, 2000·Nature Biotechnology·B SchwikowskiS Fields
Feb 24, 2001·Nature·J C RainP Legrain
Feb 24, 2001·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·T KanekoS Tabata
Apr 3, 2001·Proceedings of the National Academy of Sciences of the United States of America·T ItoY Sakaki
Oct 10, 2001·Genome Research·H SuzukiY Hayashizaki
Jan 10, 2002·Microbiology·Daniël T VerhammeKlaas J Hellingwerf
Feb 28, 2002·Nucleic Acids Research·Rintaro SaitoYoshihide Hayashizaki
May 2, 2002·Proceedings of the National Academy of Sciences of the United States of America·Berend SnelMartijn A Huynen
Jul 31, 2002·Annual Review of Phytopathology·M A Van SluysA J Simpson
Feb 7, 2003·Applied and Environmental Microbiology·Hélène BergèsFrédéric Ampe
Feb 25, 2003·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Takakazu KanekoSatoshi Tabata
Feb 25, 2003·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Takakazu KanekoSatoshi Tabata
Jun 11, 2003·Molecular Plant-microbe Interactions : MPMI·Michael A DjordjevicUNKNOWN Sinorhizobium DNA Sequencing Consortium
Oct 21, 2003·Proceedings of the National Academy of Sciences of the United States of America·Manoj Pratim Samanta, Shoudan Liang
Nov 8, 2003·Science·L GiotJ M Rothberg
Apr 3, 2004·Journal of Bacteriology·Toshiki UchiumiKiwamu Minamisawa
May 15, 2004·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Daisuke HagiwaraTakeshi Mizuno
Nov 16, 2004·Proceedings of the National Academy of Sciences of the United States of America·Melanie J BarnettSharon R Long
Mar 1, 2006·Proceedings of the National Academy of Sciences of the United States of America·Víctor GonzálezGuillermo Dávila
Apr 12, 2006·Genome Research·Mohammad ArifuzzamanHirotada Mori
Apr 28, 2006·Genome Biology·J Peter W YoungJulian Parkhill
Jul 15, 2006·Molecular Plant-microbe Interactions : MPMI·Monica BodogaiIlona Dusha
Apr 7, 2007·Genome Biology·Jose B Pereira-LealSarah A Teichmann
Jun 2, 2007·Science·Eric GiraudMichael Sadowsky

❮ Previous
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Citations

Dec 23, 2008·Nature Methods·Doron GerberStephen R Quake
Oct 11, 2012·Bioinformatics·Rob Patro, Carl Kingsford
Jan 26, 2013·Bioinformatics·Wayne HayesNataša Pržulj
Jul 29, 2008·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Yoshikazu ShimodaShusei Sato
Sep 16, 2010·Plant & Cell Physiology·Masayoshi Kawaguchi, Kiwamu Minamisawa
Nov 9, 2012·Molecular Plant-microbe Interactions : MPMI·Clarisse BrígidoSolange Oliveira
Dec 26, 2008·Plant Physiology·Xiaodong DingWen-Yuan Song
Jun 12, 2013·Canadian Journal of Microbiology·Judicaël MoukoumiNicolas Bélanger
Nov 14, 2012·Canadian Journal of Microbiology·Roberto Velasco-García, Rocío Vargas-Martínez
Feb 26, 2014·BMC Systems Biology·Qiang HuangXiang-Sun Zhang
Oct 27, 2010·Expert Review of Proteomics·Sam LievensJan Tavernier
Nov 28, 2013·Nucleic Acids Research·Takatomo FujisawaYasukazu Nakamura
Sep 29, 2011·Current Opinion in Microbiology·Lore Cloots, Kathleen Marchal
Dec 17, 2008·Pathologie-biologie·E ChautardS Ricard-Blum
Jun 20, 2012·Proteomics·Pascal Braun, Anne-Claude Gingras
Sep 4, 2015·Journal of the Royal Society, Interface·A AnnibaleN Planell-Morell
Aug 11, 2015·Nature Reviews. Microbiology·Athanasios Typas, Victor Sourjik
Feb 12, 2011·Trends in Biotechnology·Crysten E Blaby-Haas, Valérie de Crécy-Lagard
Mar 15, 2014·Molecular & Cellular Proteomics : MCP·Roman HäuserPeter Uetz
Feb 8, 2018·Molecular & Cellular Proteomics : MCP·Stefan WuchtyPeter Uetz
Jan 12, 2012·Integrative Biology : Quantitative Biosciences From Nano to Macro·Vesna Memišević, Nataša Pržulj
Sep 17, 2010·Journal of Physics A: Mathematical and General·A AnnibaleJ Kleinjung
Jul 12, 2008·FEMS Microbiology Letters·Maarten Fauvart, Jan Michiels
May 29, 2009·FEMS Microbiology Letters·Shin OkazakiMichael Göttfert
Mar 21, 2012·FEMS Microbiology Letters·Cintia SánchezViviana C Lepek
May 7, 2020·Chemical Reviews·Jessica C BowmanLoren Dean Williams

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Datasets Mentioned

BETA
MAFF303099

Methods Mentioned

BETA
targeted gene disruption
two-hybrid
PCR
X-ray

Software Mentioned

BLASTP

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