期刊
MOLECULAR ECOLOGY RESOURCES
卷 21, 期 3, 页码 924-940出版社
WILEY
DOI: 10.1111/1755-0998.13306
关键词
functional gene database; metagenome sequencing; microbial community; sulphur cycling
资金
- National Natural Science Foundation of China [91951207, 31770539, 31971446, 31700427, 92051110]
- National Key Research and Development Program of China [2019YFA0606700, 2020YFA0607600, 2017YFA0604300]
- Natural Sience Foundation of Shandong Province [ZR201911110287]
Shotgun metagenome sequencing has opened up a new way to deepen our understanding of sulfur cycling microbial communities, but accurate analysis of these microbial communities remains technically challenging due to low coverage and inaccurate definition of sulfur cycling gene families in public databases.
Microorganisms play important roles in the biogeochemical cycling of sulphur (S), an essential element in the Earth's biosphere. Shotgun metagenome sequencing has opened a new avenue to advance our understanding of S cycling microbial communities. However, accurate metagenomic profiling of S cycling microbial communities remains technically challenging, mainly due to low coverage and inaccurate definition of S cycling gene families in public orthology databases. Here we developed a manually curated S cycling database (SCycDB) to profile S cycling functional genes and taxonomic groups for shotgun metagenomes. The developed SCycDB contains 207 gene families and 585,055 representative sequences affiliated with 52 phyla and 2684 genera of bacteria/archaea, and 20,761 homologous orthology groups were also included to reduce false positive sequence assignments. SCycDB was applied for functional and taxonomic analysis of S cycling microbial communities from four habitats (freshwater, hot spring, marine sediment and soil). Gene families and microorganisms involved in S reduction were abundant in the marine sediment, while those of S oxidation and dimethylsulphoniopropionate transformation were abundant in the soil. SCycDB is expected to be a useful tool for fast and accurate metagenomic analysis of S cycling microbial communities in the environment.
作者
我是这篇论文的作者
点击您的名字以认领此论文并将其添加到您的个人资料中。
推荐
暂无数据