Comamonas-dominant microbial community in carbon poor aquitard sediments revealed by metagenomic-based growth rate investigation

Zhang，Miao1,2; Zhao，Bixi2; Yan，Yuxi1,2; Cheng，Zhanwen2; Li，Zengyi2; Han，Long2; Sun，Yuqin2; Zheng，Yan2,3,4; Xia，Yu2,3,4

2024-02-20

10.1016/j.scitotenv.2023.169203

Science of the Total Environment   影响因子和分区

0048-9697

1879-1026

The microbiological ecology of a low-nutrient shallow aquifer with high arsenic content in the Yinchuan Plain was investigated in this study. Amplicon sequencing data from five samples (depths: 1.5 m, 3.5 m, 11.2 m, 19.3 m, and 25.5 m) revealed diverse and adaptable microbial community. Among the microbial community, Comamonas was the most prominent, accounting for 10.52 % of the total. This genus displayed high growth rates, with a maximum growth rate of 12.06 d and a corresponding doubling time of 1.38 days, as determined through an analysis of codon usage bias. Functional annotation of Metagenome-Assembled Genomes (MAGs) for samples at 1.5 m and 11.2 m depths revealed Comamonas' metabolic versatility, including various carbon pathways, assimilative sulfate reduction (ASR), and dissimilatory reduction to ammonium (DNRA). The TPM (Transcripts Per Kilobase of exon model per Million mapped reads) of MAGs at 11.2 m sample was 15.7 and 12.3. The presence of arsenic resistance genes in Comamonas aligns with sediment arsenic levels (65.8 mg/kg for 1.5 m depth, 32.8 mg/kg for 11.2 m depth). This study highlights the role of Comamonas as a ‘generalist’ bacteria in challenging oligotrophic sediments, emphasizing the significance of such organisms in community stability and ecological functions. Environmental implication: Low-biomass limits the microbial activity and biogeochemical study in oligotrophic environments, which is the typical condition for underground aquatic ecosystems. Facilitated by growth rate estimation, our research focuses on active functional microorganisms and their biogeochemical metabolic in oligotrophic aquifer sediments, revealing their impact on the environment and response to arsenic threats. Findings illuminate the metabolic advantage of a ‘generalist life-style’ in carbon-scarce environments and contribute to a broader understanding of bacterial ecosystems and environmental impacts in oligotrophic aquifer sediments worldwide.

Aquitard sediments Comamonas genus Growth rate Microbial ecology Oligotrophic environments

SCI

英语

通讯

ENVIRONMENT/ECOLOGY

2-s2.0-85180409484

Scopus

1.School of Environment,Harbin Institute of Technology,Harbin,150001,China
2.School of Environmental Science and Engineering,College of Engineering,Southern University of Science and Technology,Shenzhen,518055,China
3.State Environmental Protection Key Laboratory of Integrated Surface Water-Groundwater Pollution Control,School of Environmental Science and Engineering,Southern University of Science and Technology,Shenzhen,518055,China
4.Guangdong Provincial Key Laboratory of Soil and Groundwater Pollution Control,School of Environmental Science and Engineering,Southern University of Science and Technology,Shenzhen,518055,China

Zhang，Miao,Zhao，Bixi,Yan，Yuxi,et al. Comamonas-dominant microbial community in carbon poor aquitard sediments revealed by metagenomic-based growth rate investigation[J]. Science of the Total Environment,2024,912.

Zhang，Miao.,Zhao，Bixi.,Yan，Yuxi.,Cheng，Zhanwen.,Li，Zengyi.,...&Xia，Yu.(2024).Comamonas-dominant microbial community in carbon poor aquitard sediments revealed by metagenomic-based growth rate investigation.Science of the Total Environment,912.

Zhang，Miao,et al."Comamonas-dominant microbial community in carbon poor aquitard sediments revealed by metagenomic-based growth rate investigation".Science of the Total Environment 912(2024).