Environmental selection and evolutionary process jointly shape genomic and functional profiles of mangrove rhizosphere microbiomes
Xiaoli Yu,
Qichao Tu,
Jihua Liu,
Yisheng Peng,
Cheng Wang,
Fanshu Xiao,
Yingli Lian,
Xueqin Yang,
Ruiwen Hu,
Huang Yu,
Lu Qian,
Daoming Wu,
Ziying He,
Longfei Shu,
Qiang He,
Yun Tian,
Faming Wang,
Shanquan Wang,
Bo Wu,
Zhijian Huang,
Jianguo He,
Qingyun Yan,
Zhili He
Affiliations
Xiaoli Yu
State Key Laboratory for Biocontrol, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering, Environmental Microbiomics Research Center Sun Yat‐sen University Guangzhou China
Qichao Tu
Institute of Marine Science and Technology Shandong University Qingdao China
Jihua Liu
Institute of Marine Science and Technology Shandong University Qingdao China
Yisheng Peng
State Key Laboratory for Biocontrol, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering, Environmental Microbiomics Research Center Sun Yat‐sen University Guangzhou China
Cheng Wang
State Key Laboratory for Biocontrol, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering, Environmental Microbiomics Research Center Sun Yat‐sen University Guangzhou China
Fanshu Xiao
State Key Laboratory for Biocontrol, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering, Environmental Microbiomics Research Center Sun Yat‐sen University Guangzhou China
Yingli Lian
State Key Laboratory for Biocontrol, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering, Environmental Microbiomics Research Center Sun Yat‐sen University Guangzhou China
Xueqin Yang
State Key Laboratory for Biocontrol, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering, Environmental Microbiomics Research Center Sun Yat‐sen University Guangzhou China
Ruiwen Hu
State Key Laboratory for Biocontrol, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering, Environmental Microbiomics Research Center Sun Yat‐sen University Guangzhou China
Huang Yu
State Key Laboratory for Biocontrol, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering, Environmental Microbiomics Research Center Sun Yat‐sen University Guangzhou China
Lu Qian
State Key Laboratory for Biocontrol, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering, Environmental Microbiomics Research Center Sun Yat‐sen University Guangzhou China
Daoming Wu
College of Forestry & Landscape Architecture South China Agricultural University Guangzhou China
Ziying He
Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Marine Science Sun Yat‐sen University Guangzhou China
Longfei Shu
State Key Laboratory for Biocontrol, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering, Environmental Microbiomics Research Center Sun Yat‐sen University Guangzhou China
Qiang He
Department of Civil and Environmental Engineering The University of Tennessee Knoxville Tennessee USA
Yun Tian
Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences Xiamen University Xiamen China
Faming Wang
Xiaoliang Research Station for Tropical Coastal Ecosystems and Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, South China Botanical Garden Chinese Academy of Sciences Guangzhou China
Shanquan Wang
State Key Laboratory for Biocontrol, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering, Environmental Microbiomics Research Center Sun Yat‐sen University Guangzhou China
Bo Wu
State Key Laboratory for Biocontrol, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering, Environmental Microbiomics Research Center Sun Yat‐sen University Guangzhou China
Zhijian Huang
State Key Laboratory for Biocontrol, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering, Environmental Microbiomics Research Center Sun Yat‐sen University Guangzhou China
Jianguo He
State Key Laboratory for Biocontrol, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering, Environmental Microbiomics Research Center Sun Yat‐sen University Guangzhou China
Qingyun Yan
State Key Laboratory for Biocontrol, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering, Environmental Microbiomics Research Center Sun Yat‐sen University Guangzhou China
Zhili He
State Key Laboratory for Biocontrol, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering, Environmental Microbiomics Research Center Sun Yat‐sen University Guangzhou China
Abstract Mangrove reforestation with introduced species has been an important strategy to restore mangrove ecosystem functioning. However, how such activities affect microbially driven methane (CH4), nitrogen (N), and sulfur (S) cycling of rhizosphere microbiomes remains unclear. To understand the effect of environmental selection and the evolutionary process on microbially driven biogeochemical cycles in native and introduced mangrove rhizospheres, we analyzed key genomic and functional profiles of rhizosphere microbiomes from native and introduced mangrove species by metagenome sequencing technologies. Compared with the native mangrove (Kandelia obovata, KO), the introduced mangrove (Sonneratia apetala, SA) rhizosphere microbiome had significantly (p < 0.05) higher average genome size (AGS) (5.8 vs. 5.5 Mb), average 16S ribosomal RNA gene copy number (3.5 vs. 3.1), relative abundances of mobile genetic elements, and functional diversity in terms of the Shannon index (7.88 vs. 7.84) but lower functional potentials involved in CH4 cycling (e.g., mcrABCDG and pmoABC), N2 fixation (nifHDK), and inorganic S cycling (dsrAB, dsrC, dsrMKJOP, soxB, sqr, and fccAB). Similar results were also observed from the recovered Proteobacterial metagenome‐assembled genomes with a higher AGS and distinct functions in the introduced mangrove rhizosphere. Additionally, salinity and ammonium were identified as the main environmental drivers of functional profiles of mangrove rhizosphere microbiomes through deterministic processes. This study advances our understanding of microbially mediated biogeochemical cycling of CH4, N, and S in the mangrove rhizosphere and provides novel insights into the influence of environmental selection and evolutionary processes on ecosystem functions, which has important implications for future mangrove reforestation.
