Genomic diversity and distribution of Mesorhizobium nodulating chickpea (Cicer arietinum L.) from low pH soils of Ethiopia |
| |
| Affiliation: | 1. Department of Microbial, Cellular and Molecular Biology, Addis Ababa University, P.O. Box 1176, Addis Ababa, Ethiopia;2. Institutes of Biotechnology, Addis Ababa University, P.O Box 1176, Addis Ababa, Ethiopia;3. Ethiopian Biotechnology Institute, Addis Ababa, Ethiopia;4. Department of Plant Pathology, University of California Davis, One Shields Ave, Davis, CA, United States;1. Laboratory of Legumes and Sustainable Agroecosystems, Centre of Biotechnology of Borj-Cédria, BP 901 Hammam-lif 2050, Tunisia;2. Agriculture and Agri-Food Canada, 4902 Victoria Avenue North, Vineland Station, Ontario L0R 2E0, Canada;3. Faculty of Sciences, Centre de Biotechnologies Végétale et Microbienne, Biodiversité et Environnement, Mohammed V University, Rabat, Morocco;4. Agriculture and Agri-Food Canada, 960 Carling Avenue, Ottawa, Ontario K1A 0C6, Canada;5. Agroécologie, Institut Agro Dijon, CNRS, Univ. Bourgogne, INRAE, Univ. Bourgogne Franche-Comté, F-21000 Dijon, France;6. Laboratory of Rhizobia Biotechnology and Plant Breeding, University Oran1, Es Senia 31000, Algeria;1. Department of Microbiology, Faculty of Agriculture, University of Zagreb, Zagreb, Croatia;2. Instituto de Recursos Naturales y Agrobiología, IRNASA-CSIC, Salamanca, Spain;3. Unidad Asociada Grupo de Interacción planta-microorganismo (Universidad de Salamanca-IRNASA-CSIC), Salamanca, Spain;4. Departmento de Microbiología y Genética, Universidad de Salamanca, Salamanca, Spain;5. Instituto de Investigación en Agrobiotecnología, Salamanca, Spain;1. Laboratory of Legumes and Sustainable Agroecosystems, Centre of Biotechnology of Borj-Cédria, BP 901, Hammam-lif 2050, Tunisia;2. Agriculture and Agri-Food Canada, Vineland Station, Ontario L0R 2E0, Canada;3. Phytobacteriology Laboratory, Plant Protection Research Unit, CRRA Marrakesh, National Institute for Agronomical Research, Marrakesh 40000, Morocco;4. Research Support and Technology Transfer Unity, Centre of Biotechnology of Borj-Cédria, BP 901, Hammam-lif 2050, Tunisia;5. Laboratory of Microbial Biotechnologies, Agrosciences and Environment, Faculty of Science Semlalia, Cadi Ayyad University, Marrakesh 40000, Morocco;6. Agriculture and Agri-Food Canada, Ottawa, Ontario K1A 0C6, Canada;1. Department of Crop Sciences, Tshwane University of Technology, Pretoria, South Africa;2. Department of Chemistry, Tshwane University of Technology, Arcadia Campus Pretoria, South Africa;3. CSIR-Savanna Agric Research Institute, Tamale, Ghana;4. Department of Crop Science, University for Development Studies, Tamale, Ghana;5. Department of Sustainable Agriculture, Tamale Technical University, Tamale, Ghana;1. Departamento de Bioquímica, Microbiología, Biología Celular y Genética, Universidad de La Laguna, Tenerife, Spain;2. CICS-UBI–Health Sciences Research Centre, University of Beira Interior, Covilhã, Portugal;3. Departamento de Microbiología y Genética, Universidad de Salamanca, Salamanca, Spain;4. IRNASA-CSIC, Salamanca, Spain;5. Unidad Asociada Grupo de Interacción Planta-Microorganismo, Universidad de Salamanca-IRNASA-CSIC, Salamanca, Spain;6. Instituto Hispanoluso de Investigaciones Agrarias (CIALE), Universidad de Salamanca, Salamanca, Spain |
| |
| Abstract: | Chickpea is the third most important grain legume worldwide. This is due in part to its high protein content that results from its ability to acquire bioavailable nitrogen when colonized by diverse, nitrogen fixing Mesorhizobium species. However, the diversity and distribution of mesorhizobia communities may depend on their adaptation to soil conditions. Therefore, this study was initiated in order to isolate and investigate the diversity and taxonomic identities of chickpea-nodulating Mesorhizobium species from low pH soils of Ethiopia. A total of 81 rhizobia strains were isolated from chickpea nodules harvested from low pH soils throughout Ethiopia, and their genomes were sequenced and assembled. Considering a representative set of the best-sequenced 81 genomes, the average sequence depth was 30X, with estimated average genome sizes of approximately 7 Mbp. Annotation of the assembled genome predicted an average of 7,453 protein-coding genes. Concatenation of 400 universal PhyloPhlAn conserved genes present in the genomes of all 81 strains allowed detailed phylogenetic analysis, from which eight well-supported species were identified, including M.opportunistum, M.australicum, Mesorhizobium sp. LSJC280BOO, M.wenxiniae, M.amorphae, M.loti and M.plurifarium, as well as a novel species. Phylogenetic reconstructions based on the symbiosis-related (nodC and nifH) genes were different from the core genes and consistent with horizontal transfer of the symbiotic island. The two major genomic groups, M.plurifarium and M.loti, were widely distributed in almost all the sites. The geographic pattern of genomic diversity indicated there was no relationship between geographic and genetic distance (r = 0.01, p > 0.01). In conclusion, low pH soils in Ethiopia harbored a diverse group of Mesorhizobium species, several of which were not previously known to nodulate chickpea. |
| |
| Keywords: | Genome Phylogenetic PhyloPhlAn conserved genes Symbiotic genes |
| 本文献已被 ScienceDirect 等数据库收录！ |
|
