Grape pomace compost harbors organohalide-respiring Dehalogenimonas species with novel reductive dehalogenase genes

doi:10.1038/ismej.2017.127

IMR OpenIR

	Grape pomace compost harbors organohalide-respiring Dehalogenimonas species with novel reductive dehalogenase genes
	Yang, Yi 1,2,3; Higgins, Steven A.2,3,4,5; Yan, Jun 2,3,4,5,6; Simsir, Burcu 1; Chourey, Karuna 7; Iyer, Ramsunder 7,8; Hettich, Robert L.3,7,8; Baldwin, Brett 9; Ogles, Dora M.9; Loffler, Frank E.1,2,3,4,5,8
通讯作者	Loffler, Frank E.(frank.loeffler@utk.edu)
	2017-12-01
发表期刊	ISME JOURNAL
ISSN	1751-7362
卷号	11 期号:12 页码:2767-2780
摘要	Organohalide-respiring bacteria have key roles in the natural chlorine cycle; however, most of the current knowledge is based on cultures from contaminated environments. We demonstrate that grape pomace compost without prior exposure to chlorinated solvents harbors a Dehalogenimonas (Dhgm) species capable of using chlorinated ethenes, including the human carcinogen and common groundwater pollutant vinyl chloride (VC) as electron acceptors. Grape pomace microcosms and derived solid-free enrichment cultures were able to dechlorinate trichloroethene (TCE) to less chlorinated daughter products including ethene. 16S rRNA gene amplicon and qPCR analyses revealed a predominance of Dhgm sequences, but Dehalococcoides mccartyi (Dhc) biomarker genes were not detected. The enumeration of Dhgm 16S rRNA genes demonstrated VCdependent growth, and 6.55 +/- 0.64 x 10(8) cells were measured per mu mol of chloride released. Metagenome sequencing enabled the assembly of a Dhgm draft genome, and 52 putative reductive dehalogenase (RDase) genes were identified. Proteomic workflows identified a putative VC RDase with 49 and 56.1% amino acid similarity to the known VC RDases VcrA and BvcA, respectively. A survey of 1,173 groundwater samples collected from 111 chlorinated solvent-contaminated sites in the United States and Australia revealed that Dhgm 16S rRNA genes were frequently detected and outnumbered Dhc in 65% of the samples. Dhgm are likely greater contributors to reductive dechlorination of chlorinated solvents in contaminated aquifers than is currently recognized, and non-polluted environments represent sources of organohalide-respiring bacteria with novel RDase genes.
资助者	Strategic Environmental Research and Development Program (SERDP) ; National Institute of Environmental Health Sciences Superfund Research Program
DOI	10.1038/ismej.2017.127
收录类别	SCI
语种	英语
资助项目	Strategic Environmental Research and Development Program (SERDP)[ER-2312] ; National Institute of Environmental Health Sciences Superfund Research Program[R01ES24294]
WOS研究方向	Environmental Sciences & Ecology ; Microbiology
WOS类目	Ecology ; Microbiology
WOS记录号	WOS:000415947900012
出版者	NATURE PUBLISHING GROUP
引用统计	被引频次：99[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.imr.ac.cn/handle/321006/127073
专题	中国科学院金属研究所
通讯作者	Loffler, Frank E.
作者单位	1.Univ Tennessee, Dept Civil & Environm Engn, Knoxville, TN USA 2.Univ Tennessee, Ctr Environm Biotechnol, Knoxville, TN 37932 USA 3.Oak Ridge Natl Lab, JIBS, Oak Ridge, TN USA 4.Univ Tennessee, Dept Microbiol, M409 Walters Life Sci, Knoxville, TN 37996 USA 5.Oak Ridge Natl Lab, Biosci Div, Oak Ridge, TN USA 6.Chinese Acad Sci, Inst Appl Ecol, Key Lab Pollut Ecol & Environm Engn, Shenyang, Liaoning, Peoples R China 7.Oak Ridge Natl Lab, Chem Sci Div, Oak Ridge, TN USA 8.Univ Tennessee, Genome Sci & Technol, Knoxville, TN USA 9.Microbial Insights, Knoxville, TN USA
推荐引用方式 GB/T 7714	Yang, Yi,Higgins, Steven A.,Yan, Jun,et al. Grape pomace compost harbors organohalide-respiring Dehalogenimonas species with novel reductive dehalogenase genes[J]. ISME JOURNAL,2017,11(12):2767-2780.
APA	Yang, Yi.,Higgins, Steven A..,Yan, Jun.,Simsir, Burcu.,Chourey, Karuna.,...&Loffler, Frank E..(2017).Grape pomace compost harbors organohalide-respiring Dehalogenimonas species with novel reductive dehalogenase genes.ISME JOURNAL,11(12),2767-2780.
MLA	Yang, Yi,et al."Grape pomace compost harbors organohalide-respiring Dehalogenimonas species with novel reductive dehalogenase genes".ISME JOURNAL 11.12(2017):2767-2780.