红树林沉积物中细菌和古菌的全基因组数据集。

A holistic genome dataset of bacteria and archaea of mangrove sediments.

作者信息

Pan Shijun, Du Huan, Zheng Ruiqi, Zhang Cuijing, Pan Jie, Yang Xilan, Wang Cheng, Lin Xiaolan, Li Jinhui, Liu Wan, Zhou Haokui, Yu Xiaoli, Mo Shuming, Zhang Guoqing, Zhao Guoping, He Zhili, Tian Yun, Jiang Chengjian, Qu Wu, Liu Yang, Li Meng

机构信息

Archaeal Biology Centre, Synthetic Biology Research Center, Shenzhen Key Laboratory of Marine Microbiome Engineering, Key Laboratory of Marine Microbiome Engineering of Guangdong Higher Education Institutes, Institute for Advanced Study, Shenzhen University, Shenzhen 518060, China.

Shenzhen Key Laboratory of Synthetic Genomics, Guangdong Provincial Key Laboratory of Synthetic Genomics, CAS Key Laboratory of Quantitative Engineering Biology, Shenzhen 518055, China.

出版信息

Gigascience. 2025 Jan 6;14. doi: 10.1093/gigascience/giaf081.

DOI:10.1093/gigascience/giaf081

PMID:40796374

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12343073/

Abstract

BACKGROUND

Mangroves are one of the most productive marine ecosystems with high ecosystem service value. The sediment microbial communities contribute to pivotal ecological functions in mangrove ecosystems. However, the study of mangrove sediment microbiomes is limited.

FINDINGS

Here, we applied metagenome sequencing analysis of microbial communities in mangrove sediments across Southeast China from 2014 to 2020. This genome dataset includes 966 metagenome-assembled genomes with ≥50% completeness and ≤10% contamination generated from 6 groups of samples. Phylogenomic analysis and taxonomy classification show that mangrove sediments are inhabited by microbial communities with high species diversity. Thermoplasmatota, Thermoproteota, and Asgardarchaeota in archaea, as well as Proteobacteria, Desulfobacterota, Chloroflexota, Acidobacteriota, and Gemmatimonadota in bacteria, dominate the mangrove sediments across Southeast China. Functional analyses suggest that the microbial communities may contribute to carbon, nitrogen, and sulfur cycling in mangrove sediments.

CONCLUSIONS

These combined microbial genomes provide an important complement of global mangrove genome datasets and may serve as a foundational resource for enhancing our understanding of the composition and functions of mangrove sediment microbiomes.

摘要

背景

红树林是生态系统服务价值高的最具生产力的海洋生态系统之一。沉积物微生物群落对红树林生态系统的关键生态功能有贡献。然而，对红树林沉积物微生物组的研究有限。

研究结果

在此，我们对2014年至2020年中国东南部红树林沉积物中的微生物群落进行了宏基因组测序分析。该基因组数据集包括从6组样本中产生的966个完整性≥50%且污染率≤10%的宏基因组组装基因组。系统发育分析和分类学分类表明，红树林沉积物中栖息着具有高物种多样性的微生物群落。古菌中的热原体门、热变形菌门和阿斯加德古菌门，以及细菌中的变形菌门、脱硫杆菌门、绿弯菌门、酸杆菌门和芽单胞菌门在整个中国东南部的红树林沉积物中占主导地位。功能分析表明，微生物群落可能对红树林沉积物中的碳、氮和硫循环有贡献。