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Application of representational difference analysis to identify genomic differences between Bradyrhizobium elkanii and B. Japonicum species

Bradyrhizobium elkanii is successfully used in the formulation of commercial inoculants and, together with B. japonicum, it fully supplies the plant nitrogen demands. Despite the similarity between B. japonicum and B. elkanii species, several works demonstrated genetic and physiological differences...

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Detalles Bibliográficos
Autores principales: Soares, René Arderius, Passaglia, Luciane Maria Pereira
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Sociedade Brasileira de Microbiologia 2010
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3769751/
https://www.ncbi.nlm.nih.gov/pubmed/24031597
http://dx.doi.org/10.1590/S1517-838220100004000036
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author Soares, René Arderius
Passaglia, Luciane Maria Pereira
author_facet Soares, René Arderius
Passaglia, Luciane Maria Pereira
author_sort Soares, René Arderius
collection PubMed
description Bradyrhizobium elkanii is successfully used in the formulation of commercial inoculants and, together with B. japonicum, it fully supplies the plant nitrogen demands. Despite the similarity between B. japonicum and B. elkanii species, several works demonstrated genetic and physiological differences between them. In this work Representational Difference Analysis (RDA) was used for genomic comparison between B. elkanii SEMIA 587, a crop inoculant strain, and B. japonicum USDA 110, a reference strain. Two hundred sequences were obtained. From these, 46 sequences belonged exclusively to the genome of B. elkanii strain, and 154 showed similarity to sequences from B. japonicum genome. From the 46 sequences with no similarity to sequences from B. japonicum, 39 showed no similarity to sequences in public databases and seven showed similarity to sequences of genes coding for known proteins. These seven sequences were divided in three groups: similar to sequences from other Bradyrhizobium strains, similar to sequences from other nitrogen-fixing bacteria, and similar to sequences from non nitrogen-fixing bacteria. These new sequences could be used as DNA markers in order to investigate the rates of genetic material gain and loss in natural Bradyrhizobium strains.
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spelling pubmed-37697512013-09-12 Application of representational difference analysis to identify genomic differences between Bradyrhizobium elkanii and B. Japonicum species Soares, René Arderius Passaglia, Luciane Maria Pereira Braz J Microbiol Genetics and Molecular Microbiology Bradyrhizobium elkanii is successfully used in the formulation of commercial inoculants and, together with B. japonicum, it fully supplies the plant nitrogen demands. Despite the similarity between B. japonicum and B. elkanii species, several works demonstrated genetic and physiological differences between them. In this work Representational Difference Analysis (RDA) was used for genomic comparison between B. elkanii SEMIA 587, a crop inoculant strain, and B. japonicum USDA 110, a reference strain. Two hundred sequences were obtained. From these, 46 sequences belonged exclusively to the genome of B. elkanii strain, and 154 showed similarity to sequences from B. japonicum genome. From the 46 sequences with no similarity to sequences from B. japonicum, 39 showed no similarity to sequences in public databases and seven showed similarity to sequences of genes coding for known proteins. These seven sequences were divided in three groups: similar to sequences from other Bradyrhizobium strains, similar to sequences from other nitrogen-fixing bacteria, and similar to sequences from non nitrogen-fixing bacteria. These new sequences could be used as DNA markers in order to investigate the rates of genetic material gain and loss in natural Bradyrhizobium strains. Sociedade Brasileira de Microbiologia 2010 2010-12-01 /pmc/articles/PMC3769751/ /pubmed/24031597 http://dx.doi.org/10.1590/S1517-838220100004000036 Text en © Sociedade Brasileira de Microbiologia http://creativecommons.org/licenses/by-nc/3.0/ All the content of the journal, except where otherwise noted, is licensed under a Creative Commons License
spellingShingle Genetics and Molecular Microbiology
Soares, René Arderius
Passaglia, Luciane Maria Pereira
Application of representational difference analysis to identify genomic differences between Bradyrhizobium elkanii and B. Japonicum species
title Application of representational difference analysis to identify genomic differences between Bradyrhizobium elkanii and B. Japonicum species
title_full Application of representational difference analysis to identify genomic differences between Bradyrhizobium elkanii and B. Japonicum species
title_fullStr Application of representational difference analysis to identify genomic differences between Bradyrhizobium elkanii and B. Japonicum species
title_full_unstemmed Application of representational difference analysis to identify genomic differences between Bradyrhizobium elkanii and B. Japonicum species
title_short Application of representational difference analysis to identify genomic differences between Bradyrhizobium elkanii and B. Japonicum species
title_sort application of representational difference analysis to identify genomic differences between bradyrhizobium elkanii and b. japonicum species
topic Genetics and Molecular Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3769751/
https://www.ncbi.nlm.nih.gov/pubmed/24031597
http://dx.doi.org/10.1590/S1517-838220100004000036
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