The Rhizosphere Microbiomes of Five Species of Coffee Trees
ABSTRACT Coffee is one of the most important commodities in the global market. Of the 130 species of Coffea, only Coffea arabica and Coffea canephora are actually cultivated on a large scale. Despite the economic and social importance of coffee, little research has been done on the coffee tree micro...
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| Format: | Article |
| Language: | English |
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American Society for Microbiology
2022-04-01
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| Series: | Microbiology Spectrum |
| Subjects: | |
| Online Access: | https://journals.asm.org/doi/10.1128/spectrum.00444-22 |
| _version_ | 1818480085965996032 |
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| author | Leandro Pio de Sousa Oliveiro Guerreiro-Filho Jorge Maurício Costa Mondego |
| author_facet | Leandro Pio de Sousa Oliveiro Guerreiro-Filho Jorge Maurício Costa Mondego |
| author_sort | Leandro Pio de Sousa |
| collection | DOAJ |
| description | ABSTRACT Coffee is one of the most important commodities in the global market. Of the 130 species of Coffea, only Coffea arabica and Coffea canephora are actually cultivated on a large scale. Despite the economic and social importance of coffee, little research has been done on the coffee tree microbiome. To assess the structure and function of the rhizosphere microbiome, we performed a deep shotgun metagenomic sequencing of the rhizospheres of five different species, C. arabica, C. canephora, Coffea stenophylla, Coffea racemosa, and Coffea liberica. Our findings indicated that C. arabica and C. stenophylla have different microbiomes, while no differences were detected between the other Coffea species. The core rhizosphere microbiome comprises genera such as Streptomyces, Mycobacterium, Bradyrhizobium, Burkholderia, Sphingomonas, Penicillium, Trichoderma, and Rhizophagus, several of which are potential plant-beneficial microbes. Streptomyces and mycorrhizal fungi dominate the microbial communities. The concentration of sucrose in the rhizosphere seems to influence fungal communities, and the concentration of caffeine/theobromine has little effect on the microbiome. We also detected a possible relationship between drought tolerance in Coffea and known growth-promoting microorganisms. The results provide important information to guide future studies of the coffee tree microbiome to improve plant production and health. IMPORTANCE The microbiome has been identified as a fundamental factor for the maintenance of plant health, helping plants to fight diseases and the deleterious effects of abiotic stresses. Despite this, in-depth studies of the microbiome have been limited to a few species, generally with a short life cycle, and perennial species have mostly been neglected. The coffee tree microbiome, on the other hand, has gained interest in recent years as Coffea trees are perennial tropical species of enormous importance, especially for developing countries. A better understanding of the microorganisms associated with coffee trees can help to mitigate the deleterious effects of climate change on the crop, improving plant health and making the system more sustainable. |
| first_indexed | 2024-12-10T11:18:33Z |
| format | Article |
| id | doaj.art-0cae11777f194fd49e889984b758292f |
| institution | Directory Open Access Journal |
| issn | 2165-0497 |
| language | English |
| last_indexed | 2024-12-10T11:18:33Z |
| publishDate | 2022-04-01 |
| publisher | American Society for Microbiology |
| record_format | Article |
| series | Microbiology Spectrum |
| spelling | doaj.art-0cae11777f194fd49e889984b758292f2022-12-22T01:51:03ZengAmerican Society for MicrobiologyMicrobiology Spectrum2165-04972022-04-0110210.1128/spectrum.00444-22The Rhizosphere Microbiomes of Five Species of Coffee TreesLeandro Pio de Sousa0Oliveiro Guerreiro-Filho1Jorge Maurício Costa Mondego2Department of Genetics, Evolution, Microbiology and Immunology, Institute of Biology, State University of Campinas, Campinas, BrazilCentro de Café Alcides Carvalho, Instituto Agronômico (IAC), Campinas, São Paulo, BrazilCentro de Pesquisa e Desenvolvimento de Recursos Genéticos Vegetais, Instituto Agronômico, Campinas, São Paulo, BrazilABSTRACT Coffee is one of the most important commodities in the global market. Of the 130 species of Coffea, only Coffea arabica and Coffea canephora are actually cultivated on a large scale. Despite the economic and social importance of coffee, little research has been done on the coffee tree microbiome. To assess the structure and function of the rhizosphere microbiome, we performed a deep shotgun metagenomic sequencing of the rhizospheres of five different species, C. arabica, C. canephora, Coffea stenophylla, Coffea racemosa, and Coffea liberica. Our findings indicated that C. arabica and C. stenophylla have different microbiomes, while no differences were detected between the other Coffea species. The core rhizosphere microbiome comprises genera such as Streptomyces, Mycobacterium, Bradyrhizobium, Burkholderia, Sphingomonas, Penicillium, Trichoderma, and Rhizophagus, several of which are potential plant-beneficial microbes. Streptomyces and mycorrhizal fungi dominate the microbial communities. The concentration of sucrose in the rhizosphere seems to influence fungal communities, and the concentration of caffeine/theobromine has little effect on the microbiome. We also detected a possible relationship between drought tolerance in Coffea and known growth-promoting microorganisms. The results provide important information to guide future studies of the coffee tree microbiome to improve plant production and health. IMPORTANCE The microbiome has been identified as a fundamental factor for the maintenance of plant health, helping plants to fight diseases and the deleterious effects of abiotic stresses. Despite this, in-depth studies of the microbiome have been limited to a few species, generally with a short life cycle, and perennial species have mostly been neglected. The coffee tree microbiome, on the other hand, has gained interest in recent years as Coffea trees are perennial tropical species of enormous importance, especially for developing countries. A better understanding of the microorganisms associated with coffee trees can help to mitigate the deleterious effects of climate change on the crop, improving plant health and making the system more sustainable.https://journals.asm.org/doi/10.1128/spectrum.00444-22Coffeamicrobiomerhizosphere-inhabiting microbes |
| spellingShingle | Leandro Pio de Sousa Oliveiro Guerreiro-Filho Jorge Maurício Costa Mondego The Rhizosphere Microbiomes of Five Species of Coffee Trees Microbiology Spectrum Coffea microbiome rhizosphere-inhabiting microbes |
| title | The Rhizosphere Microbiomes of Five Species of Coffee Trees |
| title_full | The Rhizosphere Microbiomes of Five Species of Coffee Trees |
| title_fullStr | The Rhizosphere Microbiomes of Five Species of Coffee Trees |
| title_full_unstemmed | The Rhizosphere Microbiomes of Five Species of Coffee Trees |
| title_short | The Rhizosphere Microbiomes of Five Species of Coffee Trees |
| title_sort | rhizosphere microbiomes of five species of coffee trees |
| topic | Coffea microbiome rhizosphere-inhabiting microbes |
| url | https://journals.asm.org/doi/10.1128/spectrum.00444-22 |
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