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Combined Genomics and Experimental Analyses of Respiratory Characteristics of Shewanella putrefaciens W3-18-1
Qiu, Dongru1,2,3,4; Wei, Hehong3,4; Tu, Qichao1,2; Yang, Yunfeng5,6; Xie, Ming1,2; Chen, Jingrong1,2; Pinkerton, Mark H., Jr.1,2; Liang, Yili1,2; He, Zhili1,2; Zhou, Jizhong1,2; Zhou, JZ (reprint author), Univ Oklahoma, Inst Environm Genom, Norman, OK 73019 USA.
2013-09-01
Source PublicationAPPLIED AND ENVIRONMENTAL MICROBIOLOGY
ISSN0099-2240
Volume79Issue:17Pages:5250-5257
AbstractIt has previously been shown that the Shewanella putrefaciens W3-18-1 strain produces remarkably high current in microbial fuel cells (MFCs) and can form magnetite at 0 degrees C. To explore the underlying mechanisms, we developed a genetic manipulation method by deleting the restriction-modification system genes of the SGI1 (Salmonella genome island 1)-like prophage and analyzed the key genes involved in bacterial respiration. W3-18-1 has less respiratory flexibility than the well-characterized S. oneidensis MR-1 strain, as it possesses fewer cytochrome c genes and lacks the ability to oxidize sulfite or reduce dimethyl sulfoxide (DMSO) and timethylamine oxide (TMAO). W3-18-1 lacks the hydrogen-producing Fe-only hydrogenase, and the hydrogen-oxidizing Ni-Fe hydrogenase genes were split into two separate clusters. Two periplasmic nitrate reductases (NapDAGHB and NapDABC) were functionally redundant in anaerobic growth of W3-18-1 with nitrate as the electron acceptor, though napDABC was not regulated by Crp. Moreover, nitrate respiration started earlier in W3-18-1 than in MR-1 (with NapDAGHB only) under microoxic conditions. These results indicate that Shewanella putrefaciens W3-18-1 is well adapted to habitats with higher oxygen levels. Taken together, the results of this study provide valuable insights into bacterial genome evolution.; It has previously been shown that the Shewanella putrefaciens W3-18-1 strain produces remarkably high current in microbial fuel cells (MFCs) and can form magnetite at 0 degrees C. To explore the underlying mechanisms, we developed a genetic manipulation method by deleting the restriction-modification system genes of the SGI1 (Salmonella genome island 1)-like prophage and analyzed the key genes involved in bacterial respiration. W3-18-1 has less respiratory flexibility than the well-characterized S. oneidensis MR-1 strain, as it possesses fewer cytochrome c genes and lacks the ability to oxidize sulfite or reduce dimethyl sulfoxide (DMSO) and timethylamine oxide (TMAO). W3-18-1 lacks the hydrogen-producing Fe-only hydrogenase, and the hydrogen-oxidizing Ni-Fe hydrogenase genes were split into two separate clusters. Two periplasmic nitrate reductases (NapDAGHB and NapDABC) were functionally redundant in anaerobic growth of W3-18-1 with nitrate as the electron acceptor, though napDABC was not regulated by Crp. Moreover, nitrate respiration started earlier in W3-18-1 than in MR-1 (with NapDAGHB only) under microoxic conditions. These results indicate that Shewanella putrefaciens W3-18-1 is well adapted to habitats with higher oxygen levels. Taken together, the results of this study provide valuable insights into bacterial genome evolution.
SubtypeArticle
KeywordC-type Cytochrome Periplasmic Nitrate Reductase Oneidensis Mr-1 Anaerobic Respiration Fumarate Reductase Escherichia-coli Pseudomonas-aeruginosa Genus Shewanella Systems Biology Sp. Nov
Department[Qiu, Dongru ; Tu, Qichao ; Xie, Ming ; Chen, Jingrong ; Pinkerton, Mark H., Jr. ; Liang, Yili ; He, Zhili ; Zhou, Jizhong] Univ Oklahoma, Inst Environm Genom, Norman, OK 73019 USA ; [Qiu, Dongru ; Tu, Qichao ; Xie, Ming ; Chen, Jingrong ; Pinkerton, Mark H., Jr. ; Liang, Yili ; He, Zhili ; Zhou, Jizhong] Univ Oklahoma, Dept Microbiol & Plant Biol, Norman, OK 73019 USA ; [Qiu, Dongru ; Wei, Hehong] Chinese Acad Sci, Inst Hydrobiol, Wuhan, Peoples R China ; [Qiu, Dongru ; Wei, Hehong] Chinese Acad Sci, Grad Univ, Wuhan, Peoples R China ; [Yang, Yunfeng] Tsinghua Univ, Sch Environm, State Key Joint Lab Environm Simulat & Pollut Con, Beijing 100084, Peoples R China ; [Yang, Yunfeng] Univ Calif Berkeley, Lawrence Berkeley Natl Lab, Div Earth Sci, Berkeley, CA 94720 USA
DOI10.1128/AEM.00619-13
WOS HeadingsScience & Technology ; Life Sciences & Biomedicine
Funding OrganizationU.S. Department of Energy (DOE) [DE-FG02-07ER64383]; Chinese Academy of Science [Y15103-1-401]; ENIGMA under the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy [DE-AC02-05CH11231] ; U.S. Department of Energy (DOE)(DE-FG02-07ER64383) ; U.S. Department of Energy (DOE) [DE-FG02-07ER64383]; Chinese Academy of Science [Y15103-1-401]; ENIGMA under the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy [DE-AC02-05CH11231] ; U.S. Department of Energy (DOE)(DE-FG02-07ER64383) ; Chinese Academy of Science(Y15103-1-401) ; Chinese Academy of Science(Y15103-1-401) ; ENIGMA under the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy(DE-AC02-05CH11231) ; ENIGMA under the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy(DE-AC02-05CH11231) ; U.S. Department of Energy (DOE) [DE-FG02-07ER64383]; Chinese Academy of Science [Y15103-1-401]; ENIGMA under the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy [DE-AC02-05CH11231] ; U.S. Department of Energy (DOE)(DE-FG02-07ER64383) ; U.S. Department of Energy (DOE) [DE-FG02-07ER64383]; Chinese Academy of Science [Y15103-1-401]; ENIGMA under the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy [DE-AC02-05CH11231] ; U.S. Department of Energy (DOE)(DE-FG02-07ER64383) ; Chinese Academy of Science(Y15103-1-401) ; Chinese Academy of Science(Y15103-1-401) ; ENIGMA under the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy(DE-AC02-05CH11231) ; ENIGMA under the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy(DE-AC02-05CH11231)
Indexed BySCI
Language英语
WOS Research AreaBiotechnology & Applied Microbiology ; Microbiology
WOS SubjectBiotechnology & Applied Microbiology ; Microbiology
WOS IDWOS:000322828100019
WOS KeywordC-TYPE CYTOCHROME ; PERIPLASMIC NITRATE REDUCTASE ; ONEIDENSIS MR-1 ; ANAEROBIC RESPIRATION ; FUMARATE REDUCTASE ; ESCHERICHIA-COLI ; PSEUDOMONAS-AERUGINOSA ; GENUS SHEWANELLA ; SYSTEMS BIOLOGY ; SP. NOV
Funding OrganizationU.S. Department of Energy (DOE) [DE-FG02-07ER64383]; Chinese Academy of Science [Y15103-1-401]; ENIGMA under the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy [DE-AC02-05CH11231] ; U.S. Department of Energy (DOE)(DE-FG02-07ER64383) ; U.S. Department of Energy (DOE) [DE-FG02-07ER64383]; Chinese Academy of Science [Y15103-1-401]; ENIGMA under the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy [DE-AC02-05CH11231] ; U.S. Department of Energy (DOE)(DE-FG02-07ER64383) ; Chinese Academy of Science(Y15103-1-401) ; Chinese Academy of Science(Y15103-1-401) ; ENIGMA under the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy(DE-AC02-05CH11231) ; ENIGMA under the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy(DE-AC02-05CH11231) ; U.S. Department of Energy (DOE) [DE-FG02-07ER64383]; Chinese Academy of Science [Y15103-1-401]; ENIGMA under the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy [DE-AC02-05CH11231] ; U.S. Department of Energy (DOE)(DE-FG02-07ER64383) ; U.S. Department of Energy (DOE) [DE-FG02-07ER64383]; Chinese Academy of Science [Y15103-1-401]; ENIGMA under the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy [DE-AC02-05CH11231] ; U.S. Department of Energy (DOE)(DE-FG02-07ER64383) ; Chinese Academy of Science(Y15103-1-401) ; Chinese Academy of Science(Y15103-1-401) ; ENIGMA under the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy(DE-AC02-05CH11231) ; ENIGMA under the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy(DE-AC02-05CH11231)
Citation statistics
Cited Times:11[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/19593
Collection水环境工程研究中心_期刊论文
Corresponding AuthorZhou, JZ (reprint author), Univ Oklahoma, Inst Environm Genom, Norman, OK 73019 USA.
Affiliation1.Univ Oklahoma, Inst Environm Genom, Norman, OK 73019 USA
2.Univ Oklahoma, Dept Microbiol & Plant Biol, Norman, OK 73019 USA
3.Chinese Acad Sci, Inst Hydrobiol, Wuhan, Peoples R China
4.Chinese Acad Sci, Grad Univ, Wuhan, Peoples R China
5.Tsinghua Univ, Sch Environm, State Key Joint Lab Environm Simulat & Pollut Con, Beijing 100084, Peoples R China
6.Univ Calif Berkeley, Lawrence Berkeley Natl Lab, Div Earth Sci, Berkeley, CA 94720 USA
Recommended Citation
GB/T 7714
Qiu, Dongru,Wei, Hehong,Tu, Qichao,et al. Combined Genomics and Experimental Analyses of Respiratory Characteristics of Shewanella putrefaciens W3-18-1[J]. APPLIED AND ENVIRONMENTAL MICROBIOLOGY,2013,79(17):5250-5257.
APA Qiu, Dongru.,Wei, Hehong.,Tu, Qichao.,Yang, Yunfeng.,Xie, Ming.,...&Zhou, JZ .(2013).Combined Genomics and Experimental Analyses of Respiratory Characteristics of Shewanella putrefaciens W3-18-1.APPLIED AND ENVIRONMENTAL MICROBIOLOGY,79(17),5250-5257.
MLA Qiu, Dongru,et al."Combined Genomics and Experimental Analyses of Respiratory Characteristics of Shewanella putrefaciens W3-18-1".APPLIED AND ENVIRONMENTAL MICROBIOLOGY 79.17(2013):5250-5257.
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