Shifts in the diversity of root endophytic microorganisms across the life cycle of the ratooning rice Jiafuzhan
The diversity of root endophytic microorganisms, which is closely related to plant life activities, is known to vary with the plant growth stage. This study on the ratooning rice Jiafuzhan explored the diversity of the root endophytic bacteria and fungi and their dynamics during the plant life cycle...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2023-06-01
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| Series: | Frontiers in Microbiology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fmicb.2023.1161263/full |
| _version_ | 1797791083888902144 |
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| author | Meng Dong Longqing Shi Zhenxing Xie Ling Lian Junian Zhang Zhaowei Jiang Chunzhu Wu |
| author_facet | Meng Dong Longqing Shi Zhenxing Xie Ling Lian Junian Zhang Zhaowei Jiang Chunzhu Wu |
| author_sort | Meng Dong |
| collection | DOAJ |
| description | The diversity of root endophytic microorganisms, which is closely related to plant life activities, is known to vary with the plant growth stage. This study on the ratooning rice Jiafuzhan explored the diversity of the root endophytic bacteria and fungi and their dynamics during the plant life cycle. By sequencing the 16S ribosomal ribonucleic acid (16S rRNA) and internal transcribed spacer (ITS) genes, 12,154 operational taxonomic units (OTUs) and 497 amplicon sequence variants (ASVs) were obtained, respectively. The root endophytic microorganisms of rice in the seedling, tillering, jointing, heading, and mature stages of the first crop and at 13, 25, and 60 days after regeneration (at the heading, full heading, and mature stages of the second crop, respectively) were analyzed using diversity and correlation analyses. There were significant differences in the α-diversity and β-diversity of root endophytic bacteria and fungi in the growth stage. Additionally, linear discriminant analysis (LDA) effect size (LEfSe) analysis revealed biomarker bacteria for each growth stage, but biomarker fungi did not exist in every stage. Moreover, the correlation analysis showed that the bacterial and fungal biomarkers interacted with each other. Furthermore, the nitrogen-fixing genus Bradyrhizobium existed in all growth stages. These findings indicate the pattern of root endophytic microorganisms of ratooning rice at different growth stages, and they provide new insights into the high yield of the second crop of ratooning rice (in light of the abundance of various bacteria and fungi). |
| first_indexed | 2024-03-13T02:14:44Z |
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| id | doaj.art-28d8b1c019a64bb282e7f9de3164b212 |
| institution | Directory Open Access Journal |
| issn | 1664-302X |
| language | English |
| last_indexed | 2024-03-13T02:14:44Z |
| publishDate | 2023-06-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Microbiology |
| spelling | doaj.art-28d8b1c019a64bb282e7f9de3164b2122023-06-30T17:51:03ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2023-06-011410.3389/fmicb.2023.11612631161263Shifts in the diversity of root endophytic microorganisms across the life cycle of the ratooning rice JiafuzhanMeng DongLongqing ShiZhenxing XieLing LianJunian ZhangZhaowei JiangChunzhu WuThe diversity of root endophytic microorganisms, which is closely related to plant life activities, is known to vary with the plant growth stage. This study on the ratooning rice Jiafuzhan explored the diversity of the root endophytic bacteria and fungi and their dynamics during the plant life cycle. By sequencing the 16S ribosomal ribonucleic acid (16S rRNA) and internal transcribed spacer (ITS) genes, 12,154 operational taxonomic units (OTUs) and 497 amplicon sequence variants (ASVs) were obtained, respectively. The root endophytic microorganisms of rice in the seedling, tillering, jointing, heading, and mature stages of the first crop and at 13, 25, and 60 days after regeneration (at the heading, full heading, and mature stages of the second crop, respectively) were analyzed using diversity and correlation analyses. There were significant differences in the α-diversity and β-diversity of root endophytic bacteria and fungi in the growth stage. Additionally, linear discriminant analysis (LDA) effect size (LEfSe) analysis revealed biomarker bacteria for each growth stage, but biomarker fungi did not exist in every stage. Moreover, the correlation analysis showed that the bacterial and fungal biomarkers interacted with each other. Furthermore, the nitrogen-fixing genus Bradyrhizobium existed in all growth stages. These findings indicate the pattern of root endophytic microorganisms of ratooning rice at different growth stages, and they provide new insights into the high yield of the second crop of ratooning rice (in light of the abundance of various bacteria and fungi).https://www.frontiersin.org/articles/10.3389/fmicb.2023.1161263/full16S rRNAITSrice root microbiotaendophytic microorganismsBradyrhizobium |
| spellingShingle | Meng Dong Longqing Shi Zhenxing Xie Ling Lian Junian Zhang Zhaowei Jiang Chunzhu Wu Shifts in the diversity of root endophytic microorganisms across the life cycle of the ratooning rice Jiafuzhan Frontiers in Microbiology 16S rRNA ITS rice root microbiota endophytic microorganisms Bradyrhizobium |
| title | Shifts in the diversity of root endophytic microorganisms across the life cycle of the ratooning rice Jiafuzhan |
| title_full | Shifts in the diversity of root endophytic microorganisms across the life cycle of the ratooning rice Jiafuzhan |
| title_fullStr | Shifts in the diversity of root endophytic microorganisms across the life cycle of the ratooning rice Jiafuzhan |
| title_full_unstemmed | Shifts in the diversity of root endophytic microorganisms across the life cycle of the ratooning rice Jiafuzhan |
| title_short | Shifts in the diversity of root endophytic microorganisms across the life cycle of the ratooning rice Jiafuzhan |
| title_sort | shifts in the diversity of root endophytic microorganisms across the life cycle of the ratooning rice jiafuzhan |
| topic | 16S rRNA ITS rice root microbiota endophytic microorganisms Bradyrhizobium |
| url | https://www.frontiersin.org/articles/10.3389/fmicb.2023.1161263/full |
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