Analysis of microbial dynamics in the soybean root-associated environments from community to single-cell levels.
J Biosci Bioeng
; 137(6): 429-436, 2024 Jun.
Article
en En
| MEDLINE
| ID: mdl-38570219
ABSTRACT
Plant root-associated environments such as the rhizosphere, rhizoplane, and endosphere, are notably different from non-root-associated soil environments. However, the microbial dynamics in these spatially divided compartments remain unexplored. In this study, we propose a combinational analysis of single-cell genomics with 16S rRNA gene sequencing. This method enabled us to understand the entire soil microbiome and individual root-associated microorganisms. We applied this method to soybean microbiomes and revealed that their composition was different between the rhizoplane and rhizosphere in the early growth stages, but became more similar as growth progressed. In addition, a total of 610 medium- to high-quality single-amplified genomes (SAGs) were acquired, including plant growth-promoting rhizobacteria (PGPR) candidates while genomes with high GC content tended to be missed by SAGs. The whole-genome analyses of the SAGs suggested that rhizoplane-enriched Flavobacterium solubilizes organophosphate actively and Bacillus colonizes roots more efficiently. Single-cell genomics, together with 16S rRNA gene sequencing, enabled us to connect microbial taxonomy and function, and assess microorganisms at a strain resolution even in the complex soil microbiome.
Palabras clave
Texto completo:
1
Base de datos:
MEDLINE
Asunto principal:
Microbiología del Suelo
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Glycine max
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ARN Ribosómico 16S
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Raíces de Plantas
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Análisis de la Célula Individual
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Rizosfera
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Microbiota
Idioma:
En
Revista:
J Biosci Bioeng
Asunto de la revista:
ENGENHARIA BIOMEDICA
/
MICROBIOLOGIA
Año:
2024
Tipo del documento:
Article