Cultivar-specific dynamics: unravelling rhizosphere microbiome responses to water deficit stress in potato cultivars
Abstract Background Growing evidence suggests that soil microbes can improve plant fitness under drought. However, in potato, the world’s most important non-cereal crop, the role of the rhizosphere microbiome under drought has been poorly studied. Using a cultivation independent metabarcoding approa...
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| Format: | Article |
| Language: | English |
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BMC
2023-12-01
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| Series: | BMC Microbiology |
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| Online Access: | https://doi.org/10.1186/s12866-023-03120-4 |
| _version_ | 1797415845162385408 |
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| author | Benoit Renaud Martins Roberto Siani Krzysztof Treder Dorota Michałowska Viviane Radl Karin Pritsch Michael Schloter |
| author_facet | Benoit Renaud Martins Roberto Siani Krzysztof Treder Dorota Michałowska Viviane Radl Karin Pritsch Michael Schloter |
| author_sort | Benoit Renaud Martins |
| collection | DOAJ |
| description | Abstract Background Growing evidence suggests that soil microbes can improve plant fitness under drought. However, in potato, the world’s most important non-cereal crop, the role of the rhizosphere microbiome under drought has been poorly studied. Using a cultivation independent metabarcoding approach, we examined the rhizosphere microbiome of two potato cultivars with different drought tolerance as a function of water regime (continuous versus reduced watering) and manipulation of soil microbial diversity (i.e., natural (NSM), vs. disturbed (DSM) soil microbiome). Results Water regime and soil pre-treatment showed a significant interaction with bacterial community composition of the sensitive (HERBST) but not the resistant cultivar (MONI). Overall, MONI had a moderate response to the treatments and its rhizosphere selected Rhizobiales under reduced watering in NSM soil, whereas Bradyrhizobium, Ammoniphilus, Symbiobacterium and unclassified Hydrogenedensaceae in DSM soil. In contrast, HERBST response to the treatments was more pronounced. Notably, in NSM soil treated with reduced watering, the root endophytic fungus Falciphora and many Actinobacteriota members (Streptomyces, Glycomyces, Marmoricola, Aeromicrobium, Mycobacterium and others) were largely represented. However, DSM soil treatment resulted in no fungal taxa and fewer enrichment of these Actinobacteriota under reduced watering. Moreover, the number of bacterial core amplicon sequence variants (core ASVs) was more consistent in MONI regardless of soil pre-treatment and water regimes as opposed to HERBST, in which a marked reduction of core ASVs was observed in DSM soil. Conclusions Besides the influence of soil conditions, our results indicate a strong cultivar-dependent relationship between the rhizosphere microbiome of potato cultivars and their capacity to respond to perturbations such as reduced soil moisture. Our study highlights the importance of integrating soil conditions and plant genetic variability as key factors in future breeding programs aiming to develop drought resistance in a major food crop like potato. Elucidating the molecular mechanisms how plants recruit microbes from soil which help to mitigate plant stress and to identify key microbial taxa, which harbour the respective traits might therefore be an important topic for future research. |
| first_indexed | 2024-03-09T05:55:25Z |
| format | Article |
| id | doaj.art-85d423637bb84820aa176c27b5e4a5f0 |
| institution | Directory Open Access Journal |
| issn | 1471-2180 |
| language | English |
| last_indexed | 2024-03-09T05:55:25Z |
| publishDate | 2023-12-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Microbiology |
| spelling | doaj.art-85d423637bb84820aa176c27b5e4a5f02023-12-03T12:14:02ZengBMCBMC Microbiology1471-21802023-12-0123111610.1186/s12866-023-03120-4Cultivar-specific dynamics: unravelling rhizosphere microbiome responses to water deficit stress in potato cultivarsBenoit Renaud Martins0Roberto Siani1Krzysztof Treder2Dorota Michałowska3Viviane Radl4Karin Pritsch5Michael Schloter6Research Unit for Comparative Microbiome Analysis (COMI), Helmholtz Zentrum München, German Research Center for Environmental Health (GmbH)Research Unit for Comparative Microbiome Analysis (COMI), Helmholtz Zentrum München, German Research Center for Environmental Health (GmbH)Plant Breeding and Acclimatization Institute – National Research Institute in Radzików, Bonin Division, Department of Potato Protection and Seed Science at BoninPlant Breeding and Acclimatization Institute – National Research Institute in Radzików, Bonin Division, Department of Potato Protection and Seed Science at BoninResearch Unit for Comparative Microbiome Analysis (COMI), Helmholtz Zentrum München, German Research Center for Environmental Health (GmbH)Research Unit for Environmental Simulation (EUS), Helmholtz Zentrum München, German Research Center for Environmental Health (GmbH)Research Unit for Comparative Microbiome Analysis (COMI), Helmholtz Zentrum München, German Research Center for Environmental Health (GmbH)Abstract Background Growing evidence suggests that soil microbes can improve plant fitness under drought. However, in potato, the world’s most important non-cereal crop, the role of the rhizosphere microbiome under drought has been poorly studied. Using a cultivation independent metabarcoding approach, we examined the rhizosphere microbiome of two potato cultivars with different drought tolerance as a function of water regime (continuous versus reduced watering) and manipulation of soil microbial diversity (i.e., natural (NSM), vs. disturbed (DSM) soil microbiome). Results Water regime and soil pre-treatment showed a significant interaction with bacterial community composition of the sensitive (HERBST) but not the resistant cultivar (MONI). Overall, MONI had a moderate response to the treatments and its rhizosphere selected Rhizobiales under reduced watering in NSM soil, whereas Bradyrhizobium, Ammoniphilus, Symbiobacterium and unclassified Hydrogenedensaceae in DSM soil. In contrast, HERBST response to the treatments was more pronounced. Notably, in NSM soil treated with reduced watering, the root endophytic fungus Falciphora and many Actinobacteriota members (Streptomyces, Glycomyces, Marmoricola, Aeromicrobium, Mycobacterium and others) were largely represented. However, DSM soil treatment resulted in no fungal taxa and fewer enrichment of these Actinobacteriota under reduced watering. Moreover, the number of bacterial core amplicon sequence variants (core ASVs) was more consistent in MONI regardless of soil pre-treatment and water regimes as opposed to HERBST, in which a marked reduction of core ASVs was observed in DSM soil. Conclusions Besides the influence of soil conditions, our results indicate a strong cultivar-dependent relationship between the rhizosphere microbiome of potato cultivars and their capacity to respond to perturbations such as reduced soil moisture. Our study highlights the importance of integrating soil conditions and plant genetic variability as key factors in future breeding programs aiming to develop drought resistance in a major food crop like potato. Elucidating the molecular mechanisms how plants recruit microbes from soil which help to mitigate plant stress and to identify key microbial taxa, which harbour the respective traits might therefore be an important topic for future research.https://doi.org/10.1186/s12866-023-03120-4Potato rhizosphereSoil microbiomeDrought toleranceActinobacteriaRhizobiales |
| spellingShingle | Benoit Renaud Martins Roberto Siani Krzysztof Treder Dorota Michałowska Viviane Radl Karin Pritsch Michael Schloter Cultivar-specific dynamics: unravelling rhizosphere microbiome responses to water deficit stress in potato cultivars BMC Microbiology Potato rhizosphere Soil microbiome Drought tolerance Actinobacteria Rhizobiales |
| title | Cultivar-specific dynamics: unravelling rhizosphere microbiome responses to water deficit stress in potato cultivars |
| title_full | Cultivar-specific dynamics: unravelling rhizosphere microbiome responses to water deficit stress in potato cultivars |
| title_fullStr | Cultivar-specific dynamics: unravelling rhizosphere microbiome responses to water deficit stress in potato cultivars |
| title_full_unstemmed | Cultivar-specific dynamics: unravelling rhizosphere microbiome responses to water deficit stress in potato cultivars |
| title_short | Cultivar-specific dynamics: unravelling rhizosphere microbiome responses to water deficit stress in potato cultivars |
| title_sort | cultivar specific dynamics unravelling rhizosphere microbiome responses to water deficit stress in potato cultivars |
| topic | Potato rhizosphere Soil microbiome Drought tolerance Actinobacteria Rhizobiales |
| url | https://doi.org/10.1186/s12866-023-03120-4 |
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