GeoChip profiling of microbial community in response to global changes simulated by soil transplant and cropping

Mengxin Zhao; Feng Wang; Shanshan Liu; Kai Xue; Yuting Liang; Shijie Bai; Zhili He; Joy D Van Nostrand; Jizhong Zhou; Yunfeng Yang; Bo Sun

doi:10.1016/j.gdata.2014.06.002

GeoChip profiling of microbial community in response to global changes simulated by soil transplant and cropping

Genom Data. 2014 Jun 11:2:166-9. doi: 10.1016/j.gdata.2014.06.002. eCollection 2014 Dec.

Authors

Mengxin Zhao¹, Feng Wang², Shanshan Liu¹, Kai Xue³, Yuting Liang⁴, Shijie Bai³, Zhili He³, Joy D Van Nostrand³, Jizhong Zhou⁵, Yunfeng Yang¹, Bo Sun⁴

Affiliations

¹ State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China.
² State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China ; University of Chinese Academy of Sciences, Beijing 100049, China.
³ Institute for Environmental Genomics, Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK 73019, USA.
⁴ State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China.
⁵ State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China ; Institute for Environmental Genomics, Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK 73019, USA ; Earth Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.

Abstract

Microbe plays an important role in driving biogeochemical cycles, thus it is of great interest to understand microbial responses and feedbacks to global changes. We have recently analyzed functional potentials of soil microbial community via a high-throughput, microarray-based metagenomic tool named GeoChip 3.0 to illustrate microbial responses to global changes simulated by soil transplant and/or maize cropping. Here we describe detailed experimental design, data collection and pre-processing to support our published studies by Liu et al. [5] and Zhao et al. [14].

Keywords: Climate change; Functional gene; GeoChip3.0; Maize cropping; Soil transplant.