GeoChip as a metagenomics tool to analyze the microbial gene diversity along an elevation gradient
Abstract
To examine microbial responses to climate change, we used a microarray-based metagenomics tool named GeoChip 4.0 to profile soil microbial functional genes along four sites/elevations of a Tibetan mountainous grassland. We found that microbial communities differed among four elevations. Soil pH, temperature, $$NH_{4}^{+}$$–N and vegetation diversity were four major attributes affecting soil microbial communities. Here we describe in details the experiment design, the data normalization process, soil and vegetation analyses associated with the study published on ISME Journal in 2014, whose raw data have been uploaded to Gene Expression Omnibus (accession number GSM1185243).
- Authors:
- Publication Date:
- Research Org.:
- Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science Division
- OSTI Identifier:
- 1227541
- Alternate Identifier(s):
- OSTI ID: 1629234
- Grant/Contract Number:
- SC0004601; AC02-05CH11231
- Resource Type:
- Published Article
- Journal Name:
- Genomics data
- Additional Journal Information:
- Journal Name: Genomics data Journal Volume: 2 Journal Issue: C; Journal ID: ISSN 2213-5960
- Publisher:
- Elsevier
- Country of Publication:
- Netherlands
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; Gene diversity; Soil microbial community; GeoChip 4.0; Genomic technology
Citation Formats
Gao, Ying, Wang, Shiping, Xu, Depeng, Yu, Hao, Wu, Linwei, Lin, Qiaoyan, Hu, Yigang, Li, Xiangzhen, He, Zhili, Deng, Ye, Zhou, Jizhong, and Yang, Yunfeng. GeoChip as a metagenomics tool to analyze the microbial gene diversity along an elevation gradient. Netherlands: N. p., 2014.
Web. doi:10.1016/j.gdata.2014.06.003.
Gao, Ying, Wang, Shiping, Xu, Depeng, Yu, Hao, Wu, Linwei, Lin, Qiaoyan, Hu, Yigang, Li, Xiangzhen, He, Zhili, Deng, Ye, Zhou, Jizhong, & Yang, Yunfeng. GeoChip as a metagenomics tool to analyze the microbial gene diversity along an elevation gradient. Netherlands. https://doi.org/10.1016/j.gdata.2014.06.003
Gao, Ying, Wang, Shiping, Xu, Depeng, Yu, Hao, Wu, Linwei, Lin, Qiaoyan, Hu, Yigang, Li, Xiangzhen, He, Zhili, Deng, Ye, Zhou, Jizhong, and Yang, Yunfeng. Mon .
"GeoChip as a metagenomics tool to analyze the microbial gene diversity along an elevation gradient". Netherlands. https://doi.org/10.1016/j.gdata.2014.06.003.
@article{osti_1227541,
title = {GeoChip as a metagenomics tool to analyze the microbial gene diversity along an elevation gradient},
author = {Gao, Ying and Wang, Shiping and Xu, Depeng and Yu, Hao and Wu, Linwei and Lin, Qiaoyan and Hu, Yigang and Li, Xiangzhen and He, Zhili and Deng, Ye and Zhou, Jizhong and Yang, Yunfeng},
abstractNote = {To examine microbial responses to climate change, we used a microarray-based metagenomics tool named GeoChip 4.0 to profile soil microbial functional genes along four sites/elevations of a Tibetan mountainous grassland. We found that microbial communities differed among four elevations. Soil pH, temperature, $NH_{4}^{+}$–N and vegetation diversity were four major attributes affecting soil microbial communities. Here we describe in details the experiment design, the data normalization process, soil and vegetation analyses associated with the study published on ISME Journal in 2014, whose raw data have been uploaded to Gene Expression Omnibus (accession number GSM1185243).},
doi = {10.1016/j.gdata.2014.06.003},
journal = {Genomics data},
number = C,
volume = 2,
place = {Netherlands},
year = {Mon Dec 01 00:00:00 EST 2014},
month = {Mon Dec 01 00:00:00 EST 2014}
}
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https://doi.org/10.1016/j.gdata.2014.06.003
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