Microbiome analysis and biocontrol bacteria isolation from rhizosphere soils associated with different sugarcane root rot severity
To explore the causal pathogen and the correlated rhizosphere soil microecology of sugarcane root rot, we sampled the sugarcane root materials displaying different disease severity, and the corresponding rhizosphere soil, for systematic root phenotype and microbial population analyses. We found that...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-12-01
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| Series: | Frontiers in Bioengineering and Biotechnology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fbioe.2022.1062351/full |
| _version_ | 1811184383748472832 |
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| author | Xinyang Li Yue Liu Yue Liu Ziting Wang Chenglong Yang Runzhi Zhang Yibao Luo Yuming Ma Yizhen Deng |
| author_facet | Xinyang Li Yue Liu Yue Liu Ziting Wang Chenglong Yang Runzhi Zhang Yibao Luo Yuming Ma Yizhen Deng |
| author_sort | Xinyang Li |
| collection | DOAJ |
| description | To explore the causal pathogen and the correlated rhizosphere soil microecology of sugarcane root rot, we sampled the sugarcane root materials displaying different disease severity, and the corresponding rhizosphere soil, for systematic root phenotype and microbial population analyses. We found that with increased level of disease severity reflected by above-ground parts of sugarcane, the total root length, total root surface area and total volume were significantly reduced, accompanied with changes in the microbial population diversity and structure in rhizosphere soil. Fungal community richness was significantly lower in the rhizosphere soil samples from mildly diseased plant than that from either healthy plant, or severely diseased plant. Particularly, we noticed that a peculiar decrease of potential pathogenic fungi in rhizosphere soil, including genera Fusarium, Talaromyces and Neocosmospora, with increased level of disease severity. As for bacterial community, Firmicutes was found to be of the highest level, while Acidobacteria and Chloroflexi of the lowest level, in rhizosphere soil from healthy plant compared to that from diseased plant of different severity. FUNGuild prediction showed that the proportion of saprophytic fungi was higher in the rhizosphere soil of healthy plants, while the proportion of pathogenic fungi was higher in the rhizosphere soil of diseased plants. By co-occurrence network analysis we demonstrated the Bacillus and Burkholderia were in a strong interaction with Fusarium pathogen(s). Consistently, the biocontrol and/or growth-promoting bacteria isolated from the rhizosphere soil were mostly (6 out of 7) belonging to Bacillus and Burkholderia species. By confrontation culture and pot experiments, we verified the biocontrol and/or growth-promoting property of the isolated bacterial strains. Overall, we demonstrated a clear correlation between sugarcane root rot severity and rhizosphere soil microbiome composition and function, and identified several promising biocontrol bacteria strains with strong disease suppression effect and growth-promoting properties. |
| first_indexed | 2024-04-11T13:11:20Z |
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| id | doaj.art-2f37bab7caaa4a74b63add296898224d |
| institution | Directory Open Access Journal |
| issn | 2296-4185 |
| language | English |
| last_indexed | 2024-04-11T13:11:20Z |
| publishDate | 2022-12-01 |
| publisher | Frontiers Media S.A. |
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| series | Frontiers in Bioengineering and Biotechnology |
| spelling | doaj.art-2f37bab7caaa4a74b63add296898224d2022-12-22T04:22:34ZengFrontiers Media S.A.Frontiers in Bioengineering and Biotechnology2296-41852022-12-011010.3389/fbioe.2022.10623511062351Microbiome analysis and biocontrol bacteria isolation from rhizosphere soils associated with different sugarcane root rot severityXinyang Li0Yue Liu1Yue Liu2Ziting Wang3Chenglong Yang4Runzhi Zhang5Yibao Luo6Yuming Ma7Yizhen Deng8State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresource, Guangxi Key Laboratory of Sugarcane Biology, Guangxi University, Nanning, ChinaState Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresource, Guangxi Key Laboratory of Sugarcane Biology, Guangxi University, Nanning, ChinaLaboratory of Crop Physiology and Field Ecology, Northwest A&F University, Yangling, ChinaState Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresource, Guangxi Key Laboratory of Sugarcane Biology, Guangxi University, Nanning, ChinaState Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresource, Guangxi Key Laboratory of Sugarcane Biology, Guangxi University, Nanning, ChinaState Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresource, Guangxi Key Laboratory of Sugarcane Biology, Guangxi University, Nanning, ChinaState Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresource, Guangxi Key Laboratory of Sugarcane Biology, Guangxi University, Nanning, ChinaState Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, ChinaState Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, ChinaTo explore the causal pathogen and the correlated rhizosphere soil microecology of sugarcane root rot, we sampled the sugarcane root materials displaying different disease severity, and the corresponding rhizosphere soil, for systematic root phenotype and microbial population analyses. We found that with increased level of disease severity reflected by above-ground parts of sugarcane, the total root length, total root surface area and total volume were significantly reduced, accompanied with changes in the microbial population diversity and structure in rhizosphere soil. Fungal community richness was significantly lower in the rhizosphere soil samples from mildly diseased plant than that from either healthy plant, or severely diseased plant. Particularly, we noticed that a peculiar decrease of potential pathogenic fungi in rhizosphere soil, including genera Fusarium, Talaromyces and Neocosmospora, with increased level of disease severity. As for bacterial community, Firmicutes was found to be of the highest level, while Acidobacteria and Chloroflexi of the lowest level, in rhizosphere soil from healthy plant compared to that from diseased plant of different severity. FUNGuild prediction showed that the proportion of saprophytic fungi was higher in the rhizosphere soil of healthy plants, while the proportion of pathogenic fungi was higher in the rhizosphere soil of diseased plants. By co-occurrence network analysis we demonstrated the Bacillus and Burkholderia were in a strong interaction with Fusarium pathogen(s). Consistently, the biocontrol and/or growth-promoting bacteria isolated from the rhizosphere soil were mostly (6 out of 7) belonging to Bacillus and Burkholderia species. By confrontation culture and pot experiments, we verified the biocontrol and/or growth-promoting property of the isolated bacterial strains. Overall, we demonstrated a clear correlation between sugarcane root rot severity and rhizosphere soil microbiome composition and function, and identified several promising biocontrol bacteria strains with strong disease suppression effect and growth-promoting properties.https://www.frontiersin.org/articles/10.3389/fbioe.2022.1062351/fullsugarcane root rotrhizosphere soil microecologybiocontrol bacteriagrowth-promoting bacteriafusarium |
| spellingShingle | Xinyang Li Yue Liu Yue Liu Ziting Wang Chenglong Yang Runzhi Zhang Yibao Luo Yuming Ma Yizhen Deng Microbiome analysis and biocontrol bacteria isolation from rhizosphere soils associated with different sugarcane root rot severity Frontiers in Bioengineering and Biotechnology sugarcane root rot rhizosphere soil microecology biocontrol bacteria growth-promoting bacteria fusarium |
| title | Microbiome analysis and biocontrol bacteria isolation from rhizosphere soils associated with different sugarcane root rot severity |
| title_full | Microbiome analysis and biocontrol bacteria isolation from rhizosphere soils associated with different sugarcane root rot severity |
| title_fullStr | Microbiome analysis and biocontrol bacteria isolation from rhizosphere soils associated with different sugarcane root rot severity |
| title_full_unstemmed | Microbiome analysis and biocontrol bacteria isolation from rhizosphere soils associated with different sugarcane root rot severity |
| title_short | Microbiome analysis and biocontrol bacteria isolation from rhizosphere soils associated with different sugarcane root rot severity |
| title_sort | microbiome analysis and biocontrol bacteria isolation from rhizosphere soils associated with different sugarcane root rot severity |
| topic | sugarcane root rot rhizosphere soil microecology biocontrol bacteria growth-promoting bacteria fusarium |
| url | https://www.frontiersin.org/articles/10.3389/fbioe.2022.1062351/full |
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