The Effects of Cropping Regimes on Fungal and Bacterial Communities of Wheat and Faba Bean in a Greenhouse Pot Experiment Differ between Plant Species and Compartment
Many bacteria and fungi in the plant rhizosphere and endosphere are beneficial to plant nutrient acquisition, health, and growth. Although playing essential roles in ecosystem functioning, our knowledge about the effects of multiple cropping regimes on the plant microbiome and their interactions is...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2017-05-01
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| Series: | Frontiers in Microbiology |
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| Online Access: | http://journal.frontiersin.org/article/10.3389/fmicb.2017.00902/full |
| _version_ | 1828394989978124288 |
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| author | Sandra Granzow Kristin Kaiser Bernd Wemheuer Birgit Pfeiffer Rolf Daniel Stefan Vidal Franziska Wemheuer |
| author_facet | Sandra Granzow Kristin Kaiser Bernd Wemheuer Birgit Pfeiffer Rolf Daniel Stefan Vidal Franziska Wemheuer |
| author_sort | Sandra Granzow |
| collection | DOAJ |
| description | Many bacteria and fungi in the plant rhizosphere and endosphere are beneficial to plant nutrient acquisition, health, and growth. Although playing essential roles in ecosystem functioning, our knowledge about the effects of multiple cropping regimes on the plant microbiome and their interactions is still limited. Here, we designed a pot experiment simulating different cropping regimes. For this purpose, wheat and faba bean plants were grown under controlled greenhouse conditions in monocultures and in two intercropping regimes: row and mixed intercropping. Bacterial and fungal communities in bulk and rhizosphere soils as well as in the roots and aerial plant parts were analyzed using large-scale metabarcoding. We detected differences in microbial richness and diversity between the cropping regimes. Generally, observed effects were attributed to differences between mixed and row intercropping or mixed intercropping and monoculture. Bacterial and fungal diversity were significantly higher in bulk soil samples of wheat and faba bean grown in mixed compared to row intercropping. Moreover, microbial communities varied between crop species and plant compartments resulting in different responses of these communities toward cropping regimes. Leaf endophytes were not affected by cropping regime but bacterial and fungal community structures in bulk and rhizosphere soil as well as fungal community structures in roots. We further recorded highly complex changes in microbial interactions. The number of negative inter-domain correlations between fungi and bacteria decreased in bulk and rhizosphere soil in intercropping regimes compared to monocultures due to beneficial effects. In addition, we observed plant species-dependent differences indicating that intra- and interspecific competition between plants had different effects on the plant species and thus on their associated microbial communities. To our knowledge, this is the first study investigating microbial communities in different plant compartments with respect to multiple cropping regimes using large-scale metabarcoding. Although a simple design simulating different cropping regimes was used, obtained results contribute to the understanding how cropping regimes affect bacterial and fungal communities and their interactions in different plant compartments. Nonetheless, we need field experiments to properly quantify observed effects in natural ecosystems. |
| first_indexed | 2024-12-10T08:03:52Z |
| format | Article |
| id | doaj.art-1fb850c858734f868856633df0ec745d |
| institution | Directory Open Access Journal |
| issn | 1664-302X |
| language | English |
| last_indexed | 2024-12-10T08:03:52Z |
| publishDate | 2017-05-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Microbiology |
| spelling | doaj.art-1fb850c858734f868856633df0ec745d2022-12-22T01:56:43ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2017-05-01810.3389/fmicb.2017.00902216435The Effects of Cropping Regimes on Fungal and Bacterial Communities of Wheat and Faba Bean in a Greenhouse Pot Experiment Differ between Plant Species and CompartmentSandra Granzow0Kristin Kaiser1Bernd Wemheuer2Birgit Pfeiffer3Rolf Daniel4Stefan Vidal5Franziska Wemheuer6Section of Agricultural Entomology, Department of Crop Sciences, University of GöttingenGöttingen, GermanyGenomic and Applied Microbiology and Göttingen Genomics Laboratory, Institute of Microbiology and Genetics, University of GöttingenGöttingen, GermanyGenomic and Applied Microbiology and Göttingen Genomics Laboratory, Institute of Microbiology and Genetics, University of GöttingenGöttingen, GermanyPlant Nutrition and Crop Physiology, Department of Crop Sciences, University of GöttingenGöttingen, GermanyGenomic and Applied Microbiology and Göttingen Genomics Laboratory, Institute of Microbiology and Genetics, University of GöttingenGöttingen, GermanySection of Agricultural Entomology, Department of Crop Sciences, University of GöttingenGöttingen, GermanySection of Agricultural Entomology, Department of Crop Sciences, University of GöttingenGöttingen, GermanyMany bacteria and fungi in the plant rhizosphere and endosphere are beneficial to plant nutrient acquisition, health, and growth. Although playing essential roles in ecosystem functioning, our knowledge about the effects of multiple cropping regimes on the plant microbiome and their interactions is still limited. Here, we designed a pot experiment simulating different cropping regimes. For this purpose, wheat and faba bean plants were grown under controlled greenhouse conditions in monocultures and in two intercropping regimes: row and mixed intercropping. Bacterial and fungal communities in bulk and rhizosphere soils as well as in the roots and aerial plant parts were analyzed using large-scale metabarcoding. We detected differences in microbial richness and diversity between the cropping regimes. Generally, observed effects were attributed to differences between mixed and row intercropping or mixed intercropping and monoculture. Bacterial and fungal diversity were significantly higher in bulk soil samples of wheat and faba bean grown in mixed compared to row intercropping. Moreover, microbial communities varied between crop species and plant compartments resulting in different responses of these communities toward cropping regimes. Leaf endophytes were not affected by cropping regime but bacterial and fungal community structures in bulk and rhizosphere soil as well as fungal community structures in roots. We further recorded highly complex changes in microbial interactions. The number of negative inter-domain correlations between fungi and bacteria decreased in bulk and rhizosphere soil in intercropping regimes compared to monocultures due to beneficial effects. In addition, we observed plant species-dependent differences indicating that intra- and interspecific competition between plants had different effects on the plant species and thus on their associated microbial communities. To our knowledge, this is the first study investigating microbial communities in different plant compartments with respect to multiple cropping regimes using large-scale metabarcoding. Although a simple design simulating different cropping regimes was used, obtained results contribute to the understanding how cropping regimes affect bacterial and fungal communities and their interactions in different plant compartments. Nonetheless, we need field experiments to properly quantify observed effects in natural ecosystems.http://journal.frontiersin.org/article/10.3389/fmicb.2017.00902/fullmicrobial diversitymultiple cropping vs. monoculturemicrobial interactionsindicator speciesco-occurrence networks |
| spellingShingle | Sandra Granzow Kristin Kaiser Bernd Wemheuer Birgit Pfeiffer Rolf Daniel Stefan Vidal Franziska Wemheuer The Effects of Cropping Regimes on Fungal and Bacterial Communities of Wheat and Faba Bean in a Greenhouse Pot Experiment Differ between Plant Species and Compartment Frontiers in Microbiology microbial diversity multiple cropping vs. monoculture microbial interactions indicator species co-occurrence networks |
| title | The Effects of Cropping Regimes on Fungal and Bacterial Communities of Wheat and Faba Bean in a Greenhouse Pot Experiment Differ between Plant Species and Compartment |
| title_full | The Effects of Cropping Regimes on Fungal and Bacterial Communities of Wheat and Faba Bean in a Greenhouse Pot Experiment Differ between Plant Species and Compartment |
| title_fullStr | The Effects of Cropping Regimes on Fungal and Bacterial Communities of Wheat and Faba Bean in a Greenhouse Pot Experiment Differ between Plant Species and Compartment |
| title_full_unstemmed | The Effects of Cropping Regimes on Fungal and Bacterial Communities of Wheat and Faba Bean in a Greenhouse Pot Experiment Differ between Plant Species and Compartment |
| title_short | The Effects of Cropping Regimes on Fungal and Bacterial Communities of Wheat and Faba Bean in a Greenhouse Pot Experiment Differ between Plant Species and Compartment |
| title_sort | effects of cropping regimes on fungal and bacterial communities of wheat and faba bean in a greenhouse pot experiment differ between plant species and compartment |
| topic | microbial diversity multiple cropping vs. monoculture microbial interactions indicator species co-occurrence networks |
| url | http://journal.frontiersin.org/article/10.3389/fmicb.2017.00902/full |
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