© 2000 by Kazusa DNA Research Institute
Complete Genome Structure of the Nitrogen-fixing Symbiotic Bacterium Mesorhizobium loti
Kazusa DNA Research Institute 1532-3 Yana, Kisarazu, Chiba 292-0812, Japan
* To whom correspondence should be addressed. Tel. +81-438-52-3933, Fax. +81-438-52-3934
The complete nucleotide sequence of the genome of a symbiotic bacterium Mesorhizobium loti strain MAFF303099 was determined. The genome of M. loti consisted of a single chromosome (7, 036, 071 bp) and two plasmids, designated as pMLa (351, 911 bp) and pMLb (208, 315 bp). The chromosome comprises 6752 potential protein-coding genes, two sets of rRNA genes and 50 tRNA genes representing 47 tRNA species. Fifty-four percent of the potential protein genes showed sequence similarity to genes of known function, 21% to hypothetical genes, and the remaining 25% hadno apparent similarity to reported genes. A 611-kb DNA segment, a highly probable candidate of a symbiotic island, was identified, and 30 genes for nitrogen fixation and 24 genes for nodulation were assigned in this region. Codon usage analysis suggested that the symbiotic islandas well as the plasmids originated andw ere transmittedfrom other genetic systems. The genomes of two plasmids, pMLa and pMLb, contained 320 and 209 potential protein-coding genes, respectively, for a variety of biological functions. These include genes for the ABC-transporter system, phosphate assimilation, two-component system, DNA replication and conjugation, but only one gene for nodulation was identified.
Key words: Mesorhizobium loti strain MAFF303099; genome sequencing; symbiosis; nodulation; nitrogen fixation; plasmid
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K. Itoh, Y. Tashiro, K. Uobe, Y. Kamagata, K. Suyama, and H. Yamamoto Root Nodule Bradyrhizobium spp. Harbor tfdA{alpha} and cadA, Homologous with Genes Encoding 2,4-Dichlorophenoxyacetic Acid-Degrading Proteins Appl. Envir. Microbiol., April 1, 2004; 70(4): 2110 - 2118. [Abstract] [Full Text] [PDF]
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H. Yun, S. Lim, B.-K. Cho, and B.-G. Kim {omega}-Amino Acid:Pyruvate Transaminase from Alcaligenes denitrificans Y2k-2: a New Catalyst for Kinetic Resolution of {beta}-Amino Acids and Amines Appl. Envir. Microbiol., April 1, 2004; 70(4): 2529 - 2534. [Abstract] [Full Text] [PDF]
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M. Moris, B. Dombrecht, C. Xi, J. Vanderleyden, and J. Michiels Regulatory Role of Rhizobium etli CNPAF512 fnrN during Symbiosis Appl. Envir. Microbiol., March 1, 2004; 70(3): 1287 - 1296. [Abstract] [Full Text] [PDF]
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M. Yoshimura, K. Asai, Y. Sadaie, and H. Yoshikawa Interaction of Bacillus subtilis extracytoplasmic function (ECF) sigma factors with the N-terminal regions of their potential anti-sigma factors Microbiology, March 1, 2004; 150(3): 591 - 599. [Abstract] [Full Text] [PDF]
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W. T. Jones, T. Al-Samarrai, J. M. Reeves, G. B. Ryan, C. A. Kirk, E. Vincze, D. Harvey, M. McCambridge, D. Greenwood, and P. H. S. Reynolds The trans-Acting Protein Interacting with the DNA Motif Proximal to the Transcriptional Start Site of Plant L-Asparaginase Is Bacterial Sarcosine Oxidase J. Bacteriol., February 1, 2004; 186(3): 811 - 817. [Abstract] [Full Text] [PDF]
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E. Lodwig, S. Kumar, D. Allaway, A. Bourdes, J. Prell, U. Priefer, and P. Poole Regulation of L-Alanine Dehydrogenase in Rhizobium leguminosarum bv. viciae and Its Role in Pea Nodules J. Bacteriol., February 1, 2004; 186(3): 842 - 849. [Abstract] [Full Text] [PDF]
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K. L. Farmer and M. S. Thomas Isolation and Characterization of Burkholderia cenocepacia Mutants Deficient in Pyochelin Production: Pyochelin Biosynthesis Is Sensitive to Sulfur Availability J. Bacteriol., January 15, 2004; 186(2): 270 - 277. [Abstract] [Full Text] [PDF]
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L. S. Forsberg, K. D. Noel, J. Box, and R. W. Carlson Genetic Locus and Structural Characterization of the Biochemical Defect in the O-Antigenic Polysaccharide of the Symbiotically Deficient Rhizobium etli Mutant, CE166: REPLACEMENT OF N-ACETYLQUINOVOSAMINE WITH ITS HEXOSYL-4-ULOSE PRECURSOR J. Biol. Chem., December 19, 2003; 278(51): 51347 - 51359. [Abstract] [Full Text] [PDF]
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F. Martinez-Morales, M. Schobert, I. M. Lopez-Lara, and O. Geiger Pathways for phosphatidylcholine biosynthesis in bacteria Microbiology, December 1, 2003; 149(12): 3461 - 3471. [Abstract] [Full Text] [PDF]
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K. Tsuge, K. Matsui, and M. Itaya One step assembly of multiple DNA fragments with a designed order and orientation in Bacillus subtilis plasmid Nucleic Acids Res., November 1, 2003; 31(21): e133 - e133. [Abstract] [Full Text] [PDF]
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M. J. Karbarz, S. R. Kalb, R. J. Cotter, and C. R. H. Raetz Expression Cloning and Biochemical Characterization of a Rhizobium leguminosarum Lipid A 1-Phosphatase J. Biol. Chem., October 10, 2003; 278(41): 39269 - 39279. [Abstract] [Full Text] [PDF]
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K. Pfluger, S. Baumann, G. Gottschalk, W. Lin, H. Santos, and V. Muller Lysine-2,3-Aminomutase and {beta}-Lysine Acetyltransferase Genes of Methanogenic Archaea Are Salt Induced and Are Essential for the Biosynthesis of N{varepsilon}-Acetyl-{beta}-Lysine and Growth at High Salinity Appl. Envir. Microbiol., October 1, 2003; 69(10): 6047 - 6055. [Abstract] [Full Text] [PDF]
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G. P. Stafford, J. Scanlan, I. R. McDonald, and J. C. Murrell rpoN, mmoR and mmoG, genes involved in regulating the expression of soluble methane monooxygenase in Methylosinus trichosporium OB3b Microbiology, July 1, 2003; 149(7): 1771 - 1784. [Abstract] [Full Text] [PDF]
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S. Karlin, M. J. Barnett, A. M. Campbell, R. F. Fisher, and J. Mrazek Predicting gene expression levels from codon biases in {alpha}-proteobacterial genomes PNAS, June 10, 2003; 100(12): 7313 - 7318. [Abstract] [Full Text] [PDF]
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M. del Carmen Vargas, S. Encarnacion, A. Davalos, A. Reyes-Perez, Y. Mora, A. Garcia-de los Santos, S. Brom, and J. Mora Only one catalase, katG, is detectable in Rhizobium etli, and is encoded along with the regulator OxyR on a plasmid replicon Microbiology, May 1, 2003; 149(5): 1165 - 1176. [Abstract] [Full Text] [PDF]
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M. I. Kanipes, A. A. Ribeiro, S. Lin, R. J. Cotter, and C. R. H. Raetz A Mannosyl Transferase Required for Lipopolysaccharide Inner Core Assembly in Rhizobium leguminosarum. PURIFICATION, SUBSTRATE SPECIFICITY, AND EXPRESSION IN SALMONELLA waaC MUTANTS J. Biol. Chem., April 25, 2003; 278(18): 16356 - 16364. [Abstract] [Full Text] [PDF]
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V. Daubin and G. Perriere G+C3 Structuring Along the Genome: A Common Feature in Prokaryotes Mol. Biol. Evol., April 1, 2003; 20(4): 471 - 483. [Abstract] [Full Text] [PDF]
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J. R. R. Cussiol, S. V. Alves, M. Antonio de Oliveira, and L. E. S. Netto Organic Hydroperoxide Resistance Gene Encodes a Thiol-dependent Peroxidase J. Biol. Chem., March 21, 2003; 278(13): 11570 - 11578. [Abstract] [Full Text] [PDF]
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Y. Hattori, H. Omori, M. Hanyu, N. Kaseda, E. Mishima, T. Kaneko, S. Tabata, and K. Saeki Ordered Cosmid Library of the Mesorhizobium loti MAFF303099 Genome for Systematic Gene Disruption and Complementation Analysis Plant Cell Physiol., December 15, 2002; 43(12): 1542 - 1557. [Abstract] [Full Text] [PDF]
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C. Goffin and J.-M. Ghuysen Biochemistry and Comparative Genomics of SxxK Superfamily Acyltransferases Offer a Clue to the Mycobacterial Paradox: Presence of Penicillin-Susceptible Target Proteins versus Lack of Efficiency of Penicillin as Therapeutic Agent Microbiol. Mol. Biol. Rev., December 1, 2002; 66(4): 702 - 738. [Abstract] [Full Text] [PDF]
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T. Uchiumi, Y. Shimoda, T. Tsuruta, Y. Mukoyoshi, A. Suzuki, K. Senoo, S. Sato, T. Kato, S. Tabata, S. Higashi, et al. Expression of Symbiotic and Nonsymbiotic Globin Genes Responding to Microsymbionts on Lotus japonicus Plant Cell Physiol., November 15, 2002; 43(11): 1351 - 1358. [Abstract] [Full Text] [PDF]
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A. Tibor, V. Wansard, V. Bielartz, R.-M. Delrue, I. Danese, P. Michel, K. Walravens, J. Godfroid, and J.-J. Letesson Effect of omp10 or omp19 Deletion on Brucella abortus Outer Membrane Properties and Virulence in Mice Infect. Immun., October 1, 2002; 70(10): 5540 - 5546. [Abstract] [Full Text] [PDF]
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A. H. F. Hosie, D. Allaway, and P. S. Poole A Monocarboxylate Permease of Rhizobium leguminosarum Is the First Member of a New Subfamily of Transporters J. Bacteriol., October 1, 2002; 184(19): 5436 - 5448. [Abstract] [Full Text] [PDF]
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I. T. Paulsen, R. Seshadri, K. E. Nelson, J. A. Eisen, J. F. Heidelberg, T. D. Read, R. J. Dodson, L. Umayam, L. M. Brinkac, M. J. Beanan, et al. The Brucellasuis genome reveals fundamental similarities between animal and plant pathogens and symbionts PNAS, October 1, 2002; 99(20): 13148 - 13153. [Abstract] [Full Text] [PDF]
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S. S. Basu, M. J. Karbarz, and C. R. H. Raetz Expression Cloning and Characterization of the C28 Acyltransferase of Lipid A Biosynthesis in Rhizobium leguminosarum J. Biol. Chem., August 2, 2002; 277(32): 28959 - 28971. [Abstract] [Full Text] [PDF]
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A. Jesenska, M. Bartos, V. Czernekova, I. Rychlik, I. Pavlik, and J. Damborsky Cloning and Expression of the Haloalkane Dehalogenase Gene dhmA from Mycobacterium avium N85 and Preliminary Characterization of DhmA Appl. Envir. Microbiol., August 1, 2002; 68(8): 3724 - 3730. [Abstract] [Full Text] [PDF]
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A. H. F. Hosie, D. Allaway, C. S. Galloway, H. A. Dunsby, and P. S. Poole Rhizobium leguminosarum Has a Second General Amino Acid Permease with Unusually Broad Substrate Specificity and High Similarity to Branched-Chain Amino Acid Transporters (Bra/LIV) of the ABC Family J. Bacteriol., August 1, 2002; 184(15): 4071 - 4080. [Abstract] [Full Text] [PDF]
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