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Comparative Metagenomics Reveals Microbial Signatures of Sugarcane Phyllosphere in Organic Management
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Document Title
Comparative Metagenomics Reveals Microbial Signatures of Sugarcane Phyllosphere in Organic Management
Author
Khoiri A.N., Cheevadhanarak S., Jirakkakul J., Dulsawat S., Prommeenate P., Tachaleat A., Kusonmano K., Wattanachaisaereekul S., Sutheeworapong S.
Name from Authors Collection
Affiliations
School of Bioresources and Technology, King Mongkut’s University of Technology Thonburi, Bangkok, Thailand; Pilot Plant Development and Training Institute, King Mongkut’s University of Technology Thonburi, Bangkok, Thailand; Biochemical Engineering and Systems Biology Research Group, National Center for Genetic Engineering and Biotechnology, National Science and Technology Development Agency at King Mongkut’s University of Technology Thonburi, Bangkok, Thailand; Bioinformatics and Systems Biology Program, School of Bioresources and Technology, King Mongkut’s University of Technology Thonburi, Bangkok, Thailand; Faculty of Food Industry, King Mongkut’s Institute of Technology Ladkrabang, Bangkok, Thailand
Type
Article
Source Title
Frontiers in Microbiology
ISSN
1664302X
Year
2021
Volume
12
Open Access
Gold, Green
Publisher
Frontiers Media S.A.
DOI
10.3389/fmicb.2021.623799
Abstract
Converting conventional farms to organic systems to improve ecosystem health is an emerging trend in recent decades, yet little is explored to what extent and how this process drives the taxonomic diversity and functional capacity of above-ground microbes. This study was, therefore, conducted to investigate the effects of agricultural management, i.e., organic, transition, and conventional, on the structure and function of sugarcane phyllosphere microbial community using the shotgun metagenomics approach. Comparative metagenome analysis exhibited that farming practices strongly influenced taxonomic and functional diversities, as well as co-occurrence interactions of phyllosphere microbes. A complex microbial network with the highest connectivity was observed in organic farming, indicating strong resilient capabilities of its microbial community to cope with the dynamic environmental stressors. Organic farming also harbored genus Streptomyces as the potential keystone species and plant growth-promoting bacteria as microbial signatures, including Mesorhizobium loti, Bradyrhizobium sp. SG09, Lactobacillus plantarum, and Bacillus cellulosilyticus. Interestingly, numerous toxic compound-degrading species were specifically enriched in transition farming, which might suggest their essential roles in the transformation of conventional to organic farming. Moreover, conventional practice diminished the abundance of genes related to cell motility and energy metabolism of phyllosphere microbes, which could negatively contribute to lower microbial diversity in this habitat. Altogether, our results demonstrated the response of sugarcane-associated phyllosphere microbiota to specific agricultural managements that played vital roles in sustainable sugarcane production. © Copyright © 2021 Khoiri, Cheevadhanarak, Jirakkakul, Dulsawat, Prommeenate, Tachaleat, Kusonmano, Wattanachaisaereekul and Sutheeworapong.
Keyword
agricultural shift | farming practices | microbial signatures | phyllosphere | Sugarcane
Industrial Classification
Knowledge Taxonomy Level 1
Knowledge Taxonomy Level 2
Knowledge Taxonomy Level 3
Funding Sponsor
King Mongkut's University of Technology Thonburi
License
CC BY
Rights
Author
Publication Source
Scopus