Diurnal cycling of rhizosphere bacterial communities is associated with shifts in carbon metabolism

Autor: Thalita Regina Tuleski, Richard A. Ferrieri, Beverly J. Agtuca, Yaya Cui, Christopher Staley, Malak M. Tfaily, Charles Ansong, Susannah G. Tringe, Fernanda Plucani do Amaral, Michael J. Sadowsky, Angela D. Norbeck, Jared B. Shaw, Ping Wang, Meng Markillie, Tomás Pellizzaro, Abigail P. Ferrieri, Rosalie K. Chu, Gary Stacey, Ljiljana Paša-Tolić, Heather M. Brewer
Jazyk: angličtina
Rok vydání: 2017
Předmět:
0106 biological sciences
0301 basic medicine
Microbiology (medical)
16S
Circadian clock
Arabidopsis
Plant Development
Bacterial Physiological Phenomena
01 natural sciences
Microbiology
lcsh:Microbial ecology
03 medical and health sciences
Microbial ecology
RNA
Ribosomal
16S
Botany
Genetics
Arabidopsis thaliana
Soil Microbiology
Ribosomal
Rhizosphere
Ecology
biology
Bacteria
Arabidopsis Proteins
Research
Microbiota
food and beverages
High-Throughput Nucleotide Sequencing
Biodiversity
biology.organism_classification
Carbon
Circadian Rhythm
030104 developmental biology
Microbial population biology
Medical Microbiology
Diurnal rhythm
lcsh:QR100-130
RNA
Bacterial community structure
Brachypodium
Brachypodium distachyon
Sleep Research
Soil microbiology
010606 plant biology & botany
Transcription Factors
Zdroj: Microbiome
Staley, C; Ferrieri, AP; Tfaily, MM; Cui, Y; Chu, RK; Wang, P; et al.(2017). Diurnal cycling of rhizosphere bacterial communities is associated with shifts in carbon metabolism. Microbiome, 5(1), 65. doi: 10.1186/s40168-017-0287-1. Lawrence Berkeley National Laboratory: Retrieved from: http://www.escholarship.org/uc/item/03s3j0xv
Microbiome, vol 5, iss 1
Microbiome, Vol 5, Iss 1, Pp 1-13 (2017)
ISSN: 2049-2618
Popis: Background The circadian clock regulates plant metabolic functions and is an important component in plant health and productivity. Rhizosphere bacteria play critical roles in plant growth, health, and development and are shaped primarily by soil communities. Using Illumina next-generation sequencing and high-resolution mass spectrometry, we characterized bacterial communities of wild-type (Col-0) Arabidopsis thaliana and an acyclic line (OX34) ectopically expressing the circadian clock-associated cca1 transcription factor, relative to a soil control, to determine how cycling dynamics affected the microbial community. Microbial communities associated with Brachypodium distachyon (BD21) were also evaluated. Results Significantly different bacterial community structures (P = 0.031) were observed in the rhizosphere of wild-type plants between light and dark cycle samples. Furthermore, 13% of the community showed cycling, with abundances of several families, including Burkholderiaceae, Rhodospirillaceae, Planctomycetaceae, and Gaiellaceae, exhibiting fluctuation in abundances relative to the light cycle. However, limited-to-no cycling was observed in the acyclic CCAox34 line or in soil controls. Significant cycling was also observed, to a lesser extent, in Brachypodium. Functional gene inference revealed that genes involved in carbohydrate metabolism were likely more abundant in near-dawn, dark samples. Additionally, the composition of organic matter in the rhizosphere showed a significant variation between dark and light cycles. Conclusions The results of this study suggest that the rhizosphere bacterial community is regulated, to some extent, by the circadian clock and is likely influenced by, and exerts influences, on plant metabolism and productivity. The timing of bacterial cycling in relation to that of Arabidopsis further suggests that diurnal dynamics influence plant-microbe carbon metabolism and exchange. Equally important, our results suggest that previous studies done without relevance to time of day may need to be reevaluated with regard to the impact of diurnal cycles on the rhizosphere microbial community. Electronic supplementary material The online version of this article (doi:10.1186/s40168-017-0287-1) contains supplementary material, which is available to authorized users.
Databáze: OpenAIRE
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