Novel genes related to nodulation, secretion systems, and surface structures revealed by a genome draft of Rhizobium tropici strain PRF 81 |
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Authors: | Fabiana G. S. Pinto Ligia M. O. Chueire Ana Tereza R. Vasconcelos Marisa F. Nicolás Luiz G. P. Almeida Rangel C. Souza Pâmela Menna Fernando G. Barcellos Manuel Megías Mariangela Hungria |
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Affiliation: | 1. Embrapa Soja, Cx. Postal 231, CEP 86001-970, Londrina, Paraná, Brazil 2. Department of Microbiology, Universidade Estadual de Londrina, Londrina, Brazil 3. Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq-MCT), Brasilia, Brazil 7. Universidade Estadual do Oeste do Paraná, Campus Cascavel, CEP 85819-110, Cascavel, Paraná, Brazil 4. Laboratório Nacional de Computa??o Científica, Rua Getúlio Vargas 333, CEP 25651-071, Petrópolis, Rio de Janeiro, Brazil 5. Coordena??o de Aperfei?oamento de Pessoal de Nível Superior (CAPES), Brasilia, Brazil 6. Facultad de Farmacia, Univ. Sevilla, Apdo. Postal 874, 41080, Sevilla, Spain
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Abstract: | Rhizobium tropici is representative of the diversity of tropical rhizobia, besides comprising strains very effective in fixing N2 in symbiosis with the common bean (Phaseolus vulgaris L.). The genome of a Brazilian commercial inoculant R. tropici strain (PRF 81, =SEMIA 4088), estimated at 7.85 Mb, was analyzed through a total of 9,026 shotgun reads, assembled in 1,668 phrap contigs, and covering ≈30% of the genome. Annotation identified 2,135 coding DNA sequences (CDS), and only 57.2% have possible functions. The genome comprises a mosaic of genes, with CDS showing the highest similarities with 134 microorganisms, none of which represents more than 19% of the CDS with putative known functions. The high saprophytic capacity of PRF 81 may reside in a variety of genes related to transport, biodegradation of xenobiotics, defense, and secretion proteins, many of which were reported for the first time in the present study. Novelty was also found in nodulation (nodG, a double nodIJ system, nodT, nolF, nolG) and capsular polysaccharide genes, showing stronger similarities with Sinorhizobium (=Ensifer) than with the main symbionts of the common bean—R. etli and R. leguminosarum—suggesting that the original host of R. tropici might be another tropical legume or emphasizing the highly promiscuous nature of this rhizobial species. |
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Keywords: | Biological nitrogen fixation Genome Nodulation Phaseolus vulgaris Rhizobium tropici Symbiosis |
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