Characterization of the leaf microbiome from whole-genome sequencing data of the 3000 rice genomes project
The crop microbial communities are shaped by interactions between the host, microbes and the environment, however, their relative contribution is beginning to be understood. Here, we explore these interactions in the leaf bacterial community across 3,024 rice accessions.Findings: By using unmapped D...
| Autores principales: | , , , , , , , |
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| Formato: | Preprint |
| Lenguaje: | Inglés |
| Publicado: |
Research Square Platform LLC
2020
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| Acceso en línea: | https://hdl.handle.net/10568/164488 |
| _version_ | 1855517803454398464 |
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| author | Roman-Reyna, Veronica Pinili, Dale Borja, Frances Nikki Quibod, Ian Lorenzo Groen, Simon C. Alexandrov, Nikolai Mauleon, Ramil Oliva, Ricardo |
| author_browse | Alexandrov, Nikolai Borja, Frances Nikki Groen, Simon C. Mauleon, Ramil Oliva, Ricardo Pinili, Dale Quibod, Ian Lorenzo Roman-Reyna, Veronica |
| author_facet | Roman-Reyna, Veronica Pinili, Dale Borja, Frances Nikki Quibod, Ian Lorenzo Groen, Simon C. Alexandrov, Nikolai Mauleon, Ramil Oliva, Ricardo |
| author_sort | Roman-Reyna, Veronica |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | The crop microbial communities are shaped by interactions between the host, microbes and the environment, however, their relative contribution is beginning to be understood. Here, we explore these interactions in the leaf bacterial community across 3,024 rice accessions.Findings: By using unmapped DNA sequencing reads as microbial reads, we characterized the structure of the rice bacterial microbiome. We identified central bacteria taxa that emerge as microbial “hubs” and may have an influence on the network of host-microbe interactions. We found regions in the rice genome that might control the assembly of these microbial hubs. To our knowledge this is one of the first studies that uses raw data from plant genome sequencing projects to characterize the leaf bacterial communities. Conclusion: We showed, that the structure of the rice leaf microbiome is modulated by multiple interactions among host, microbes, and environment. Our data provide insight into the factors influencing microbial assemblage in the rice leaf and also opens the door for future initiatives to modulate rice consortia for crop improvement efforts. |
| format | Preprint |
| id | CGSpace164488 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2020 |
| publishDateRange | 2020 |
| publishDateSort | 2020 |
| publisher | Research Square Platform LLC |
| publisherStr | Research Square Platform LLC |
| record_format | dspace |
| spelling | CGSpace1644882024-12-22T05:44:47Z Characterization of the leaf microbiome from whole-genome sequencing data of the 3000 rice genomes project Roman-Reyna, Veronica Pinili, Dale Borja, Frances Nikki Quibod, Ian Lorenzo Groen, Simon C. Alexandrov, Nikolai Mauleon, Ramil Oliva, Ricardo The crop microbial communities are shaped by interactions between the host, microbes and the environment, however, their relative contribution is beginning to be understood. Here, we explore these interactions in the leaf bacterial community across 3,024 rice accessions.Findings: By using unmapped DNA sequencing reads as microbial reads, we characterized the structure of the rice bacterial microbiome. We identified central bacteria taxa that emerge as microbial “hubs” and may have an influence on the network of host-microbe interactions. We found regions in the rice genome that might control the assembly of these microbial hubs. To our knowledge this is one of the first studies that uses raw data from plant genome sequencing projects to characterize the leaf bacterial communities. Conclusion: We showed, that the structure of the rice leaf microbiome is modulated by multiple interactions among host, microbes, and environment. Our data provide insight into the factors influencing microbial assemblage in the rice leaf and also opens the door for future initiatives to modulate rice consortia for crop improvement efforts. 2020-06-17 2024-12-19T12:53:58Z 2024-12-19T12:53:58Z Preprint https://hdl.handle.net/10568/164488 en Open Access Research Square Platform LLC Roman-Reyna, Veronica; Pinili, Dale; Borja, Frances Nikki; Quibod, Ian Lorenzo; Groen, Simon C.; Alexandrov, Nikolai; Mauleon, Ramil and Oliva, Ricardo. 2020. Characterization of the leaf microbiome from whole-genome sequencing data of the 3000 rice genomes project. Research Square, [pre-prints]; 13 pages |
| spellingShingle | Roman-Reyna, Veronica Pinili, Dale Borja, Frances Nikki Quibod, Ian Lorenzo Groen, Simon C. Alexandrov, Nikolai Mauleon, Ramil Oliva, Ricardo Characterization of the leaf microbiome from whole-genome sequencing data of the 3000 rice genomes project |
| title | Characterization of the leaf microbiome from whole-genome sequencing data of the 3000 rice genomes project |
| title_full | Characterization of the leaf microbiome from whole-genome sequencing data of the 3000 rice genomes project |
| title_fullStr | Characterization of the leaf microbiome from whole-genome sequencing data of the 3000 rice genomes project |
| title_full_unstemmed | Characterization of the leaf microbiome from whole-genome sequencing data of the 3000 rice genomes project |
| title_short | Characterization of the leaf microbiome from whole-genome sequencing data of the 3000 rice genomes project |
| title_sort | characterization of the leaf microbiome from whole genome sequencing data of the 3000 rice genomes project |
| url | https://hdl.handle.net/10568/164488 |
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