Title |
Comparative metagenomics reveals impact of contaminants on groundwater microbiomes
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Published in |
Frontiers in Microbiology, October 2015
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DOI | 10.3389/fmicb.2015.01205 |
Pubmed ID | |
Authors |
Christopher L. Hemme, Qichao Tu, Zhou Shi, Yujia Qin, Weimin Gao, Ye Deng, Joy D. Van Nostrand, Liyou Wu, Zhili He, Patrick S. G. Chain, Susannah G. Tringe, Matthew W. Fields, Edward M. Rubin, James M. Tiedje, Terry C. Hazen, Adam P. Arkin, Jizhong Zhou |
Abstract |
To understand patterns of geochemical cycling in pristine versus contaminated groundwater ecosystems, pristine shallow groundwater (FW301) and contaminated groundwater (FW106) samples from the Oak Ridge Integrated Field Research Center (OR-IFRC) were sequenced and compared to each other to determine phylogenetic and metabolic difference between the communities. Proteobacteria (e.g., Burkholderia, Pseudomonas) are the most abundant lineages in the pristine community, though a significant proportion ( >55%) of the community is composed of poorly characterized low abundance (individually <1%) lineages. The phylogenetic diversity of the pristine community contributed to a broader diversity of metabolic networks than the contaminated community. In addition, the pristine community encodes redundant and mostly complete geochemical cycles distributed over multiple lineages and appears capable of a wide range of metabolic activities. In contrast, many geochemical cycles in the contaminated community appear truncated or minimized due to decreased biodiversity and dominance by Rhodanobacter populations capable of surviving the combination of stresses at the site. These results indicate that the pristine site contains more robust and encodes more functional redundancy than the stressed community, which contributes to more efficient nutrient cycling and adaptability than the stressed community. |
X Demographics
Geographical breakdown
Country | Count | As % |
---|---|---|
United States | 3 | 21% |
Cameroon | 1 | 7% |
Taiwan | 1 | 7% |
Spain | 1 | 7% |
Switzerland | 1 | 7% |
Unknown | 7 | 50% |
Demographic breakdown
Type | Count | As % |
---|---|---|
Scientists | 7 | 50% |
Members of the public | 7 | 50% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
---|---|---|
Brazil | 2 | 1% |
Australia | 1 | <1% |
Germany | 1 | <1% |
United Kingdom | 1 | <1% |
Mexico | 1 | <1% |
Belgium | 1 | <1% |
Estonia | 1 | <1% |
United States | 1 | <1% |
Unknown | 143 | 94% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Student > Ph. D. Student | 46 | 30% |
Researcher | 31 | 20% |
Student > Master | 15 | 10% |
Student > Doctoral Student | 10 | 7% |
Student > Bachelor | 6 | 4% |
Other | 23 | 15% |
Unknown | 21 | 14% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 62 | 41% |
Biochemistry, Genetics and Molecular Biology | 21 | 14% |
Environmental Science | 18 | 12% |
Earth and Planetary Sciences | 5 | 3% |
Engineering | 4 | 3% |
Other | 14 | 9% |
Unknown | 28 | 18% |