Changes in the potato rhizosphere microbiota richness and diversity occur in a growth stage-dependent manner
Abstract Plant root and soil-associated microbiomes are influenced by niches, including bulk and rhizosphere soil. In this work, we collected bulk and rhizosphere soil samples at four potato developmental stages (leaf growth, flowering, tuber elongation and harvest) to identify whether rhizosphere m...
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Nature Portfolio
2025-01-01
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| Online Access: | https://doi.org/10.1038/s41598-025-86944-6 |
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| author | Gye-Ryeong Bak Kiseok Keith Lee Ian M. Clark Tim H. Mauchline Vanessa Nessner Kavamura Samnyu Jee Jeong-Tae Lee Hyun Kim Yong-Hwan Lee |
| author_facet | Gye-Ryeong Bak Kiseok Keith Lee Ian M. Clark Tim H. Mauchline Vanessa Nessner Kavamura Samnyu Jee Jeong-Tae Lee Hyun Kim Yong-Hwan Lee |
| author_sort | Gye-Ryeong Bak |
| collection | DOAJ |
| description | Abstract Plant root and soil-associated microbiomes are influenced by niches, including bulk and rhizosphere soil. In this work, we collected bulk and rhizosphere soil samples at four potato developmental stages (leaf growth, flowering, tuber elongation and harvest) to identify whether rhizosphere microbiota are structured in a growth stage-dependent manner. The bacterial and fungal microbiota showed significant temporal differences in the rhizosphere and bulk soil. Rhizobacteria were most diverse at the tuber elongation stage, and dominant ASVs identified as Sphingomonas, Rhodanobacter, Sphingobium, Hyphomicrobium, and Solirubrobacter spp. In contrast, rhizosphere fungal diversity peaked at flowering stage, with Lecanicillium spp. being prominent. Furthermore, the abundance of saprophytic fungal genera, including Colletotrichum and Fusarium, and Alternaria, sharply increased at harvest stage, likely contributing to plant residue decomposition. Indicator taxa analysis highlighted the dominance of these genera at harvest. Network analysis revealed increased microbial complexity during the later growth stage, with 721 edges compared to 521 edges in the early growth stage. This increase included positive correlations between bacteria and negative correlations between bacteria and fungi. These changes suggest that microbial interactions become more interconnected and complex as potato plants mature. Our findings highlight the potential role of saprophytic fungi in shaping microbial dynamics during the later growth stage in rhizosphere soil. |
| format | Article |
| id | doaj-art-4468469f4120495baaecd468db63ffd0 |
| institution | OA Journals |
| issn | 2045-2322 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Nature Portfolio |
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| series | Scientific Reports |
| spelling | doaj-art-4468469f4120495baaecd468db63ffd02025-08-20T02:15:00ZengNature PortfolioScientific Reports2045-23222025-01-0115111510.1038/s41598-025-86944-6Changes in the potato rhizosphere microbiota richness and diversity occur in a growth stage-dependent mannerGye-Ryeong Bak0Kiseok Keith Lee1Ian M. Clark2Tim H. Mauchline3Vanessa Nessner Kavamura4Samnyu Jee5Jeong-Tae Lee6Hyun Kim7Yong-Hwan Lee8Highland Agriculture Research Institute, National Institute of Crop Science, Rural Development AdministrationDepartment of Ecology and Evolution, The University of ChicagoSustainable Soils and Crops, Rothamsted ResearchSustainable Soils and Crops, Rothamsted ResearchSustainable Soils and Crops, Rothamsted ResearchHighland Agriculture Research Institute, National Institute of Crop Science, Rural Development AdministrationHighland Agriculture Research Institute, National Institute of Crop Science, Rural Development AdministrationDepartment of Agricultural Biotechnology, Seoul National UniversityDepartment of Agricultural Biotechnology, Seoul National UniversityAbstract Plant root and soil-associated microbiomes are influenced by niches, including bulk and rhizosphere soil. In this work, we collected bulk and rhizosphere soil samples at four potato developmental stages (leaf growth, flowering, tuber elongation and harvest) to identify whether rhizosphere microbiota are structured in a growth stage-dependent manner. The bacterial and fungal microbiota showed significant temporal differences in the rhizosphere and bulk soil. Rhizobacteria were most diverse at the tuber elongation stage, and dominant ASVs identified as Sphingomonas, Rhodanobacter, Sphingobium, Hyphomicrobium, and Solirubrobacter spp. In contrast, rhizosphere fungal diversity peaked at flowering stage, with Lecanicillium spp. being prominent. Furthermore, the abundance of saprophytic fungal genera, including Colletotrichum and Fusarium, and Alternaria, sharply increased at harvest stage, likely contributing to plant residue decomposition. Indicator taxa analysis highlighted the dominance of these genera at harvest. Network analysis revealed increased microbial complexity during the later growth stage, with 721 edges compared to 521 edges in the early growth stage. This increase included positive correlations between bacteria and negative correlations between bacteria and fungi. These changes suggest that microbial interactions become more interconnected and complex as potato plants mature. Our findings highlight the potential role of saprophytic fungi in shaping microbial dynamics during the later growth stage in rhizosphere soil.https://doi.org/10.1038/s41598-025-86944-6Potato rhizosphere microbiotaDevelopmental stageBacteriaFungi |
| spellingShingle | Gye-Ryeong Bak Kiseok Keith Lee Ian M. Clark Tim H. Mauchline Vanessa Nessner Kavamura Samnyu Jee Jeong-Tae Lee Hyun Kim Yong-Hwan Lee Changes in the potato rhizosphere microbiota richness and diversity occur in a growth stage-dependent manner Scientific Reports Potato rhizosphere microbiota Developmental stage Bacteria Fungi |
| title | Changes in the potato rhizosphere microbiota richness and diversity occur in a growth stage-dependent manner |
| title_full | Changes in the potato rhizosphere microbiota richness and diversity occur in a growth stage-dependent manner |
| title_fullStr | Changes in the potato rhizosphere microbiota richness and diversity occur in a growth stage-dependent manner |
| title_full_unstemmed | Changes in the potato rhizosphere microbiota richness and diversity occur in a growth stage-dependent manner |
| title_short | Changes in the potato rhizosphere microbiota richness and diversity occur in a growth stage-dependent manner |
| title_sort | changes in the potato rhizosphere microbiota richness and diversity occur in a growth stage dependent manner |
| topic | Potato rhizosphere microbiota Developmental stage Bacteria Fungi |
| url | https://doi.org/10.1038/s41598-025-86944-6 |
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