Bacterial community characterization of the rhizobiome of plants belonging to Solanaceae family cultivated in desert soils
Abstract Purpose The plant Solanaceae family is one of the most important for global agriculture and nutrition. Within this plant family, two plant species stand out for their economic importance and for human consumption, which are tomato (Solanum lycopersicum) and chili pepper (Capsicum annuum). M...
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| Format: | Article |
| Language: | English |
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BMC
2020-05-01
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| Series: | Annals of Microbiology |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s13213-020-01572-x |
| _version_ | 1818724986426228736 |
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| author | Aarón Barraza María Goretty Caamal-Chan Thelma Castellanos Abraham Loera-Muro |
| author_facet | Aarón Barraza María Goretty Caamal-Chan Thelma Castellanos Abraham Loera-Muro |
| author_sort | Aarón Barraza |
| collection | DOAJ |
| description | Abstract Purpose The plant Solanaceae family is one of the most important for global agriculture and nutrition. Within this plant family, two plant species stand out for their economic importance and for human consumption, which are tomato (Solanum lycopersicum) and chili pepper (Capsicum annuum). Moreover, those plants support diverse and characteristic microbial communities that are uniquely suited to the plant habitat and intimately connected to plant health. The main objective of this work is the bacterial community characterization in the rhizobiome of tomato and chili pepper, cultivated in arid environments. Methods Five crop fields located in the south of the peninsula of Baja California, Mexico, were sampled. Total DNA was extracted from rhizosphere, rhizoplane, and endophytic root compartment and sequenced by Illumina MiniSeq platform technology applied to 16S rRNA gene V3 region. Results We were able to obtain 1,195,426 total reads and 1,725,258 total reads for tomato and chili pepper samples, respectively. The analysis of the bacterial community structures confirmed that the two plant species showed differences in their microbial community structures. Nonetheless, the microbial community structures were directly and equally influenced by the crop field localization of each plant species. Interestingly, we determined that in both plant species, the Proteobacteria was the main phylum. Conclusion In conclusion, we found that several bacterial families are part of the core rhizobiome (28 OTUs) for both tomato and chili pepper, but the most abundant were the Pseudomonadaceae family and the Pseudomonas genus, which most probably play a pivotal role in the microbial ecology to benefit both crop plants. |
| first_indexed | 2024-12-17T21:35:08Z |
| format | Article |
| id | doaj.art-0cb8ac2eed23461cbba6d472807db14e |
| institution | Directory Open Access Journal |
| issn | 1590-4261 1869-2044 |
| language | English |
| last_indexed | 2024-12-17T21:35:08Z |
| publishDate | 2020-05-01 |
| publisher | BMC |
| record_format | Article |
| series | Annals of Microbiology |
| spelling | doaj.art-0cb8ac2eed23461cbba6d472807db14e2022-12-21T21:31:46ZengBMCAnnals of Microbiology1590-42611869-20442020-05-0170111410.1186/s13213-020-01572-xBacterial community characterization of the rhizobiome of plants belonging to Solanaceae family cultivated in desert soilsAarón Barraza0María Goretty Caamal-Chan1Thelma Castellanos2Abraham Loera-Muro3CONACYT-Centro de Investigaciones Biológicas del Noroeste, SCCONACYT-Centro de Investigaciones Biológicas del Noroeste, SCCentro de Investigaciones Biológicas del Noroeste, SCCONACYT-Centro de Investigaciones Biológicas del Noroeste, SCAbstract Purpose The plant Solanaceae family is one of the most important for global agriculture and nutrition. Within this plant family, two plant species stand out for their economic importance and for human consumption, which are tomato (Solanum lycopersicum) and chili pepper (Capsicum annuum). Moreover, those plants support diverse and characteristic microbial communities that are uniquely suited to the plant habitat and intimately connected to plant health. The main objective of this work is the bacterial community characterization in the rhizobiome of tomato and chili pepper, cultivated in arid environments. Methods Five crop fields located in the south of the peninsula of Baja California, Mexico, were sampled. Total DNA was extracted from rhizosphere, rhizoplane, and endophytic root compartment and sequenced by Illumina MiniSeq platform technology applied to 16S rRNA gene V3 region. Results We were able to obtain 1,195,426 total reads and 1,725,258 total reads for tomato and chili pepper samples, respectively. The analysis of the bacterial community structures confirmed that the two plant species showed differences in their microbial community structures. Nonetheless, the microbial community structures were directly and equally influenced by the crop field localization of each plant species. Interestingly, we determined that in both plant species, the Proteobacteria was the main phylum. Conclusion In conclusion, we found that several bacterial families are part of the core rhizobiome (28 OTUs) for both tomato and chili pepper, but the most abundant were the Pseudomonadaceae family and the Pseudomonas genus, which most probably play a pivotal role in the microbial ecology to benefit both crop plants.https://doi.org/10.1186/s13213-020-01572-xCapsicum annuumSolanum lycopersicumRhizobiomeRhizosphereRhizoplaneEndophytic root bacteria |
| spellingShingle | Aarón Barraza María Goretty Caamal-Chan Thelma Castellanos Abraham Loera-Muro Bacterial community characterization of the rhizobiome of plants belonging to Solanaceae family cultivated in desert soils Annals of Microbiology Capsicum annuum Solanum lycopersicum Rhizobiome Rhizosphere Rhizoplane Endophytic root bacteria |
| title | Bacterial community characterization of the rhizobiome of plants belonging to Solanaceae family cultivated in desert soils |
| title_full | Bacterial community characterization of the rhizobiome of plants belonging to Solanaceae family cultivated in desert soils |
| title_fullStr | Bacterial community characterization of the rhizobiome of plants belonging to Solanaceae family cultivated in desert soils |
| title_full_unstemmed | Bacterial community characterization of the rhizobiome of plants belonging to Solanaceae family cultivated in desert soils |
| title_short | Bacterial community characterization of the rhizobiome of plants belonging to Solanaceae family cultivated in desert soils |
| title_sort | bacterial community characterization of the rhizobiome of plants belonging to solanaceae family cultivated in desert soils |
| topic | Capsicum annuum Solanum lycopersicum Rhizobiome Rhizosphere Rhizoplane Endophytic root bacteria |
| url | https://doi.org/10.1186/s13213-020-01572-x |
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