Tundra soil carbon is vulnerable to rapid microbial decomposition under climate warming
Xue, Kai, M. Yuan, Mengting, J. Shi, Zhou, Qin, Yujia, Deng, Ye, Cheng, Lei, Wu, Liyou, He, Zhili, Van Nostrand, Joy D., Bracho, Rosvel, Natali, Susan, Schuur, Edward. A. G., Luo, Chengwei, Konstantinidis, Konstantinos T., Wang, Qiong, Cole, James R., Tiedje, James M., Luo, Yiqi, Zhou, Jizhong
Published in Nature climate change (01.06.2016)
Published in Nature climate change (01.06.2016)
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The Microbial Genomes Atlas (MiGA) webserver: taxonomic and gene diversity analysis of Archaea and Bacteria at the whole genome level
Rodriguez-R, Luis M, Gunturu, Santosh, Harvey, William T, Rosselló-Mora, Ramon, Tiedje, James M, Cole, James R, Konstantinidis, Konstantinos T
Published in Nucleic acids research (02.07.2018)
Published in Nucleic acids research (02.07.2018)
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FunGene: the functional gene pipeline and repository
Fish, Jordan A, Chai, Benli, Wang, Qiong, Sun, Yanni, Brown, C Titus, Tiedje, James M, Cole, James R
Published in Frontiers in microbiology (2013)
Published in Frontiers in microbiology (2013)
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Ribosomal Database Project: data and tools for high throughput rRNA analysis
Cole, James R, Wang, Qiong, Fish, Jordan A, Chai, Benli, McGarrell, Donna M, Sun, Yanni, Brown, C Titus, Porras-Alfaro, Andrea, Kuske, Cheryl R, Tiedje, James M
Published in Nucleic acids research (01.01.2014)
Published in Nucleic acids research (01.01.2014)
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Comparison of two next-generation sequencing technologies for resolving highly complex microbiota composition using tandem variable 16S rRNA gene regions
Claesson, Marcus J, Wang, Qiong, O'Sullivan, Orla, Greene-Diniz, Rachel, Cole, James R, Ross, R. Paul, O'Toole, Paul W
Published in Nucleic acids research (01.12.2010)
Published in Nucleic acids research (01.12.2010)
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Journal Article
Metagenomic analysis reveals the shared and distinct features of the soil resistome across tundra, temperate prairie, and tropical ecosystems
Qian, Xun, Gunturu, Santosh, Guo, Jiarong, Chai, Benli, Cole, James R, Gu, Jie, Tiedje, James M
Published in Microbiome (14.05.2021)
Published in Microbiome (14.05.2021)
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In-feed antibiotic effects on the swine intestinal microbiome
Looft, Torey, Johnson, Timothy A., Allen, Heather K., Bayles, Darrell O., Alt, David P., Stedtfeld, Robert D., Sul, Woo Jun, Stedtfeld, Tiffany M., Chai, Benli, Cole, James R., Hashsham, Syed A., Tiedje, James M., Stanton, Thad B.
Published in Proceedings of the National Academy of Sciences - PNAS (31.01.2012)
Published in Proceedings of the National Academy of Sciences - PNAS (31.01.2012)
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Journal Article
Clusters of Antibiotic Resistance Genes Enriched Together Stay Together in Swine Agriculture
Johnson, Timothy A, Stedtfeld, Robert D, Wang, Qiong, Cole, James R, Hashsham, Syed A, Looft, Torey, Zhu, Yong-Guan, Tiedje, James M
Published in mBio (12.04.2016)
Published in mBio (12.04.2016)
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More replenishment than priming loss of soil organic carbon with additional carbon input
Liang, Junyi, Zhou, Zhenghu, Huo, Changfu, Shi, Zheng, Cole, James R., Huang, Lei, Konstantinidis, Konstantinos T., Li, Xiaoming, Liu, Bo, Luo, Zhongkui, Penton, C. Ryan, Schuur, Edward A. G., Tiedje, James M., Wang, Ying-Ping, Wu, Liyou, Xia, Jianyang, Zhou, Jizhong, Luo, Yiqi
Published in Nature communications (09.08.2018)
Published in Nature communications (09.08.2018)
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Fungal identification using a Bayesian classifier and the Warcup training set of internal transcribed spacer sequences
Deshpande, Vinita, Wang, Qiong, Greenfield, Paul, Charleston, Michael, Porras-Alfaro, Andrea, Kuske, Cheryl R., Cole, James R., Midgley, David J, Tran-Dinh, Nai
Published in Mycologia (01.01.2016)
Published in Mycologia (01.01.2016)
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Journal Article
Gene-informed decomposition model predicts lower soil carbon loss due to persistent microbial adaptation to warming
Guo, Xue, Gao, Qun, Yuan, Mengting, Wang, Gangsheng, Zhou, Xishu, Feng, Jiajie, Shi, Zhou, Hale, Lauren, Wu, Linwei, Zhou, Aifen, Tian, Renmao, Liu, Feifei, Wu, Bo, Chen, Lijun, Jung, Chang Gyo, Niu, Shuli, Li, Dejun, Xu, Xia, Jiang, Lifen, Escalas, Arthur, Wu, Liyou, He, Zhili, Van Nostrand, Joy D., Ning, Daliang, Liu, Xueduan, Yang, Yunfeng, Schuur, Edward. A. G., Konstantinidis, Konstantinos T., Cole, James R., Penton, C. Ryan, Luo, Yiqi, Tiedje, James M., Zhou, Jizhong
Published in Nature communications (29.09.2020)
Published in Nature communications (29.09.2020)
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Primer set 2.0 for highly parallel qPCR array targeting antibiotic resistance genes and mobile genetic elements
Stedtfeld, Robert D, Guo, Xueping, Stedtfeld, Tiffany M, Sheng, Hongjie, Williams, Maggie R, Hauschild, Kristin, Gunturu, Santosh, Tift, Leo, Wang, Fang, Howe, Adina, Chai, Benli, Yin, Daqiang, Cole, James R, Tiedje, James M, Hashsham, Syed A
Published in FEMS microbiology ecology (01.09.2018)
Published in FEMS microbiology ecology (01.09.2018)
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Nonpareil 3: Fast Estimation of Metagenomic Coverage and Sequence Diversity
Rodriguez-R, Luis M, Gunturu, Santosh, Tiedje, James M, Cole, James R, Konstantinidis, Konstantinos T
Published in mSystems (01.05.2018)
Published in mSystems (01.05.2018)
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The Genomic Standards Consortium
Field, Dawn, Amaral-Zettler, Linda, Cochrane, Guy, Cole, James R, Dawyndt, Peter, Garrity, George M, Gilbert, Jack, Glöckner, Frank Oliver, Hirschman, Lynette, Karsch-Mizrachi, Ilene, Klenk, Hans-Peter, Knight, Rob, Kottmann, Renzo, Kyrpides, Nikos, Meyer, Folker, San Gil, Inigo, Sansone, Susanna-Assunta, Schriml, Lynn M, Sterk, Peter, Tatusova, Tatiana, Ussery, David W, White, Owen, Wooley, John
Published in PLoS biology (01.06.2011)
Published in PLoS biology (01.06.2011)
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Journal Article
Warming-induced permafrost thaw exacerbates tundra soil carbon decomposition mediated by microbial community
Feng, Jiajie, Wang, Cong, Lei, Jiesi, Yang, Yunfeng, Yan, Qingyun, Zhou, Xishu, Tao, Xuanyu, Ning, Daliang, Yuan, Mengting M, Qin, Yujia, Shi, Zhou J, Guo, Xue, He, Zhili, Van Nostrand, Joy D, Wu, Liyou, Bracho-Garillo, Rosvel G, Penton, C Ryan, Cole, James R, Konstantinidis, Konstantinos T, Luo, Yiqi, Schuur, Edward A G, Tiedje, James M, Zhou, Jizhong
Published in Microbiome (17.01.2020)
Published in Microbiome (17.01.2020)
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RNAcentral: an international database of ncRNA sequences
Petrov, Anton I, Kay, Simon J E, Gibson, Richard, Kulesha, Eugene, Staines, Dan, Bruford, Elspeth A, Wright, Mathew W, Burge, Sarah, Finn, Robert D, Kersey, Paul J, Cochrane, Guy, Bateman, Alex, Griffiths-Jones, Sam, Harrow, Jennifer, Chan, Patricia P, Lowe, Todd M, Zwieb, Christian W, Wower, Jacek, Williams, Kelly P, Hudson, Corey M, Gutell, Robin, Clark, Michael B, Dinger, Marcel, Quek, Xiu Cheng, Bujnicki, Janusz M, Chua, Nam-Hai, Liu, Jun, Wang, Huan, Skogerbø, Geir, Zhao, Yi, Chen, Runsheng, Zhu, Weimin, Cole, James R, Chai, Benli, Huang, Hsien-Da, Huang, His-Yuan, Cherry, J Michael, Hatzigeorgiou, Artemis, Pruitt, Kim D
Published in Nucleic acids research (28.01.2015)
Published in Nucleic acids research (28.01.2015)
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