Geochip-based analysis of microbial communities in alpine meadow soils in the Qinghai-Tibetan plateau

BMC Microbiology

Research Article

Yunfeng Yang¹  Shanshan Liu¹  Zuohua Ren²  Zhili He³  Zhenmei Lu⁴  Jizhong Zhou⁵  Yuguang Zhang⁶  Diqiang Li⁶ 

[1] Department of Environmental Science and Engineering, Tsinghua University, 100084, Beijing, China;Hunan Agricultural University, 410128, Changsha, China;Institute for Environmental Genomics and Department of Botany and Microbiology, the University of Oklahoma, 73019, Norman, OK, USA;Institute for Environmental Genomics and Department of Botany and Microbiology, the University of Oklahoma, 73019, Norman, OK, USA;College of Life Science, Zhejiang University, 310058, Hangzhou, P. R. China;Institute for Environmental Genomics and Department of Botany and Microbiology, the University of Oklahoma, 73019, Norman, OK, USA;Department of Environmental Science and Engineering, Tsinghua University, 100084, Beijing, China;Institute of Forestry Ecology, Environment and Protection, and the Key Laboratory of Forest Ecology and Environment of State Forestry Administration, the Chinese Academy of Forestry, 100091, Beijing, China;

关键词: Alpine meadow;    Geochip 3.0;    Microbial functional gene diversity;    Environmental variable;    Climate change;   

DOI  :  10.1186/1471-2180-13-72

 received in 2012-10-08, accepted in 2013-03-20,  发布年份 2013

来源: Springer

【 摘 要 】

BackgroundGeoChip 3.0, a microbial functional gene array, containing ~28,000 oligonucleotide probes and targeting ~57,000 sequences from 292 functional gene families, provided a powerful tool for researching microbial community structure in natural environments. The alpine meadow is a dominant plant community in the Qinghai-Tibetan plateau, hence it is important to profile the unique geographical flora and assess the response of the microbial communities to environmental variables. In this study, Geochip 3.0 was employed to understand the microbial functional gene diversity and structure, and metabolic potential and the major environmental factors in shaping microbial communities structure of alpine meadow soil in Qinghai-Tibetan Plateau.ResultsA total of 6143 microbial functional genes involved in carbon degradation, carbon fixation, methane oxidation and production, nitrogen cycling, phosphorus utilization, sulphur cycling, organic remediation, metal resistance, energy process and other category were detected in six soil samples and high diversity was observed. Interestingly, most of the detected genes associated with carbon degradation were derived from cultivated organisms. To identify major environmental factors in shaping microbial communities, Mantel test and CCA Statistical analyses were performed. The results indicated that altitude, C/N, pH and soil organic carbon were significantly (P < 0.05) correlated with the microbial functional structure and a total of 80.97% of the variation was significantly explained by altitude, C/N and pH. The C/N contributed 38.2% to microbial functional gene variation, which is in accordance with the hierarchical clustering of overall microbial functional genes.ConclusionsHigh overall functional genes and phylogenetic diversity of the alpine meadow soil microbial communities existed in the Qinghai-Tibetan Plateau. Most of the genes involved in carbon degradation were derived from characterized microbial groups. Microbial composition and structures variation were significantly impacted by local environmental conditions, and soil C/N is the most important factor to impact the microbial structure in alpine meadow in Qinghai-Tibetan plateau.

【 授权许可】

Unknown   
© Zhang et al.; licensee BioMed Central Ltd. 2013. This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.