NifH-Harboring Bacterial Community Composition across an Alaskan Permafrost Thaw Gradient
Abstract
Since nitrogen (N) is often limiting in permafrost soils, we investigated the N2-fixing genetic potential and the inferred taxa harboring those genes by sequencing nifH gene fragments in samples taken along a permafrost thaw gradient in an Alaskan boreal soil. Samples from minimally, moderately and extensively thawed sites were taken to a depth of 79 cm to encompass zones above and below the depth of the water table. NifH reads were translated with frameshift correction and 112,476 sequences were clustered at 5% amino acid dissimilarity resulting in 1,631 OTUs. Sample depth in relation to water table depth was correlated to differences in the NifH sequence classes with those most closely related to group I nifH-harboring Alpha- and Beta-Proteobacteria in higher abundance above water table depth while those related to group III nifH-harboring Delta Proteobacteria more abundant below. The most dominant below water table depth NifH sequences, comprising 1/3 of the total, were distantly related to Verrucomicrobia-Opitutaceae. Overall, these results suggest that permafrost thaw alters the class-level composition of N2-fixing communities in the thawed soil layers and that this distinction corresponds to the depth of the water table. These nifH data were also compared to nifH sequences obtained from a studymore »
- Authors:
-
- Arizona State Univ., Mesa, AZ (United States); Arizona State Univ., Tempe, AZ (United States)
- Univ. of Oklahoma, Norman, OK (United States); Xiamen Univ., Xiamen (China)
- Univ. of Oklahoma, Norman, OK (United States)
- Michigan State Univ., East Lansing, MI (United States)
- Xiamen Univ., Xiamen (China)
- Northern Arizona Univ., Flagstaff, AZ (United States)
- Univ. of Oklahoma, Norman, OK (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Tsinghua Univ., Beijing (China)
- Publication Date:
- Research Org.:
- Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC)
- OSTI Identifier:
- 1379591
- Grant/Contract Number:
- AC02-05CH11231
- Resource Type:
- Accepted Manuscript
- Journal Name:
- Frontiers in Microbiology
- Additional Journal Information:
- Journal Volume: 7; Journal Issue: NOV; Journal ID: ISSN 1664-302X
- Publisher:
- Frontiers Research Foundation
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; 54 ENVIRONMENTAL SCIENCES; nifH; nitrogen-fixing; permafrost; diazotroph; nitrogen; microbial
Citation Formats
Penton, C. Ryan, Yang, Caiyun, Wu, Liyou, Wang, Qiong, Zhang, Jin, Liu, Feifei, Qin, Yujia, Deng, Ye, Hemme, Christopher L., Zheng, Tianling, Schuur, Edward A. G., Tiedje, James, and Zhou, Jizhong. NifH-Harboring Bacterial Community Composition across an Alaskan Permafrost Thaw Gradient. United States: N. p., 2016.
Web. doi:10.3389/fmicb.2016.01894.
Penton, C. Ryan, Yang, Caiyun, Wu, Liyou, Wang, Qiong, Zhang, Jin, Liu, Feifei, Qin, Yujia, Deng, Ye, Hemme, Christopher L., Zheng, Tianling, Schuur, Edward A. G., Tiedje, James, & Zhou, Jizhong. NifH-Harboring Bacterial Community Composition across an Alaskan Permafrost Thaw Gradient. United States. https://doi.org/10.3389/fmicb.2016.01894
Penton, C. Ryan, Yang, Caiyun, Wu, Liyou, Wang, Qiong, Zhang, Jin, Liu, Feifei, Qin, Yujia, Deng, Ye, Hemme, Christopher L., Zheng, Tianling, Schuur, Edward A. G., Tiedje, James, and Zhou, Jizhong. Thu .
"NifH-Harboring Bacterial Community Composition across an Alaskan Permafrost Thaw Gradient". United States. https://doi.org/10.3389/fmicb.2016.01894. https://www.osti.gov/servlets/purl/1379591.
@article{osti_1379591,
title = {NifH-Harboring Bacterial Community Composition across an Alaskan Permafrost Thaw Gradient},
author = {Penton, C. Ryan and Yang, Caiyun and Wu, Liyou and Wang, Qiong and Zhang, Jin and Liu, Feifei and Qin, Yujia and Deng, Ye and Hemme, Christopher L. and Zheng, Tianling and Schuur, Edward A. G. and Tiedje, James and Zhou, Jizhong},
abstractNote = {Since nitrogen (N) is often limiting in permafrost soils, we investigated the N2-fixing genetic potential and the inferred taxa harboring those genes by sequencing nifH gene fragments in samples taken along a permafrost thaw gradient in an Alaskan boreal soil. Samples from minimally, moderately and extensively thawed sites were taken to a depth of 79 cm to encompass zones above and below the depth of the water table. NifH reads were translated with frameshift correction and 112,476 sequences were clustered at 5% amino acid dissimilarity resulting in 1,631 OTUs. Sample depth in relation to water table depth was correlated to differences in the NifH sequence classes with those most closely related to group I nifH-harboring Alpha- and Beta-Proteobacteria in higher abundance above water table depth while those related to group III nifH-harboring Delta Proteobacteria more abundant below. The most dominant below water table depth NifH sequences, comprising 1/3 of the total, were distantly related to Verrucomicrobia-Opitutaceae. Overall, these results suggest that permafrost thaw alters the class-level composition of N2-fixing communities in the thawed soil layers and that this distinction corresponds to the depth of the water table. These nifH data were also compared to nifH sequences obtained from a study at an Alaskan taiga site, and to those of other geographically distant, non-permafrost sites. The two Alaska sites were differentiated largely by changes in relative abundances of the same OTUs, whereas the non-Alaska sites were differentiated by the lack of many Alaskan OTUs, and the presence of unique halophilic, sulfate- and iron-reducing taxa in the Alaska sites.},
doi = {10.3389/fmicb.2016.01894},
journal = {Frontiers in Microbiology},
number = NOV,
volume = 7,
place = {United States},
year = {Thu Nov 24 00:00:00 EST 2016},
month = {Thu Nov 24 00:00:00 EST 2016}
}
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Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy
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Potential carbon release from permafrost soils of Northeastern Siberia
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Effects of experimental warming of air, soil and permafrost on carbon balance in Alaskan tundra: WARMING OF ALASKAN TUNDRA
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A frozen feast: thawing permafrost increases plant-available nitrogen in subarctic peatlands
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Changes in N-Transforming Archaea and Bacteria in Soil during the Establishment of Bioenergy Crops
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A Comprehensive Evaluation of PCR Primers to Amplify the nifH Gene of Nitrogenase
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The Nitrogen Balance of Arctic Tundra: Pathways, Rates, and Environmental Implications1
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Dinitrogen Fixation (Acetylene Reduction) in High Arctic Sedge Meadow Communities
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Nitrification Potentials in Primary and Secondary Succession
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Biogeochemical Diversity Along a Riverside Toposequence in Arctic Alaska
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