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      KCI등재 SCIE SCOPUS

      Ciceribacter ferrooxidans sp. nov., a nitrate-reducing Fe(II)-oxidizing bacterium isolated from ferrous ion-rich sediment

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      https://www.riss.kr/link?id=A107271165

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      다국어 초록 (Multilingual Abstract)

      A nitrate-reducing Fe(II)-oxidizing bacterial strain, F8825T, was isolated from the Fe(II)-rich sediment of an urban creek in Pearl River Delta, China. The strain was Gram-negative, facultative chemolithotrophic, facultative anaerobic, nonspore- formi...

      A nitrate-reducing Fe(II)-oxidizing bacterial strain, F8825T, was isolated from the Fe(II)-rich sediment of an urban creek in Pearl River Delta, China. The strain was Gram-negative, facultative chemolithotrophic, facultative anaerobic, nonspore- forming, and rod-shaped with a single flagellum. Phylogenetic analysis based on 16S rRNA gene sequencing indicated that it belongs to the genus Ciceribacter and is most closely related to C. lividus MSSRFBL1T (99.4%), followed by C. thiooxidans F43bT (98.8%) and C. azotifigens A.slu09T (98.0%). Fatty acid, polar lipid, respiratory quinone, and DNA G + C content analyses supported its classification in the genus Ciceribacter. Multilocus sequence analysis of concatenated 16S rRNA, atpD, glnII, gyrB, recA, and thrC suggested that the isolate was a novel species. DNA–DNA hybridization and genome sequence comparisons (90.88 and 89.86%, for values of ANIm and ANIb between strains F8825T with MSSRFBL1T, respectively) confirmed that strain F8825T was a novel species, different from C. lividus MSSRFBL1T, C. thiooxidans F43bT, and C. azotifigens A.slu09T. The physiological and biochemical properties of the strain, such as carbon source utilization, nitrate reduction, and ferrous ion oxidation, further supported that this is a novel species. Based on the polyphasic taxonomic results, strain F8825T was identified as a novel species in the genus Ciceribacter, for which the name Ciceribacter ferrooxidans sp. nov. is proposed.
      The type strain is F8825T (= CCTCC AB 2018196T = KCTC 62948T).

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      참고문헌 (Reference)

      1 Vaclavkova, S., "The importance of microbial iron sulfide oxidation for nitrate depletion in anoxic Danish sediments" 20 : 419-435, 2014

      2 Richter, M., "Shifting the genomic gold standard for the prokaryotic species definition" 106 : 19126-19131, 2009

      3 Bankevich, A., "SPAdes : a new genome assembly algorithm and its applications to single-cell sequencing" 19 : 455-477, 2012

      4 Lu, L. Y., "Rhizobium alkalisoli sp. nov. isolated from Caragana intermedia growing in saline-alkaline soils in the north of China" 59 : 3006-3011, 2009

      5 Chun, J., "Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes" 68 : 461-466, 2018

      6 Hyatt, D., "Prodigal : prokaryotic gene recognition and translation initiation site identification" 11 : 119-, 2010

      7 Moore, D. D., "Preparation and analysis of DNA" 98 : 2.0.1-2.0.3, 2012

      8 Vinuesa, P., "Population genetics and phylogenetic inference in bacterial molecular systematics : The roles of migration and recombination in Bradyrhizobium species cohesion and delineation" 34 : 29-54, 2005

      9 Cole, J. J., "Plumbing the global carbon cycle : integrating inland waters into the terrestrial carbon budget" 10 : 172-185, 2007

      10 Zhang, M., "Nitrate-dependent anaerobic ferrous oxidation(NAFO)by denitrifying bacteria : a perspective autotrophic nitrogen pollution control technology" 117 : 604-609, 2014

      1 Vaclavkova, S., "The importance of microbial iron sulfide oxidation for nitrate depletion in anoxic Danish sediments" 20 : 419-435, 2014

      2 Richter, M., "Shifting the genomic gold standard for the prokaryotic species definition" 106 : 19126-19131, 2009

      3 Bankevich, A., "SPAdes : a new genome assembly algorithm and its applications to single-cell sequencing" 19 : 455-477, 2012

      4 Lu, L. Y., "Rhizobium alkalisoli sp. nov. isolated from Caragana intermedia growing in saline-alkaline soils in the north of China" 59 : 3006-3011, 2009

      5 Chun, J., "Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes" 68 : 461-466, 2018

      6 Hyatt, D., "Prodigal : prokaryotic gene recognition and translation initiation site identification" 11 : 119-, 2010

      7 Moore, D. D., "Preparation and analysis of DNA" 98 : 2.0.1-2.0.3, 2012

      8 Vinuesa, P., "Population genetics and phylogenetic inference in bacterial molecular systematics : The roles of migration and recombination in Bradyrhizobium species cohesion and delineation" 34 : 29-54, 2005

      9 Cole, J. J., "Plumbing the global carbon cycle : integrating inland waters into the terrestrial carbon budget" 10 : 172-185, 2007

      10 Zhang, M., "Nitrate-dependent anaerobic ferrous oxidation(NAFO)by denitrifying bacteria : a perspective autotrophic nitrogen pollution control technology" 117 : 604-609, 2014

      11 Senn, D. B., "Nitrate controls on iron and arsenic in an urban lake" 296 : 2373-2376, 2002

      12 Martens, M., "Multilocus sequence analysis of Ensifer and related taxa" 57 : 489-503, 2007

      13 Weber, K. A., "Microorganisms pumping iron : anaerobic microbial iron oxidation and reduction" 4 : 752-764, 2006

      14 Schaedler, F., "Microbially mediated coupling of Fe and N cycles by nitrate-reducing Fe(II)-oxidizing bacteria in littoral freshwater sediments" 84 : e02013-17, 2018

      15 Gerhardt, P., "Manual of methods for general bacteriology" American Society Microbiology 1981

      16 Richter, M., "JSpeciesWS : a web server for prokaryotic species circumscription based on pairwise genome comparison" 32 : 929-931, 2016

      17 Lack, J. G., "Immobilization of radionuclides and heavy metals through anaerobic bio-oxidation of Fe(II)" 68 : 2704-2710, 2002

      18 Nishijima, M., "Identification of isoprenoid quinones by frit-FAB liquid chromatography-mass spectrometry for the chemotaxonomy of microorganisms" 28 : 113-122, 1997

      19 Widdel, F., "Ferrous iron oxidation by anoxygenic phototrophic bacteria" 362 : 834-836, 1993

      20 Huerta-Cepas, J., "Fast genome-wide functional annotation through orthology assignment by eggNOGmapper" 34 : 2115-2122, 2017

      21 Xu, M., "Elevated nitrate enriches microbial functional genes for potential bioremediation of complexly contaminated sediments" 8 : 1932-1944, 2014

      22 Sinsabaugh, R. L., "Ecoenzymatic stoichiometry of microbial organic nutrient acquisition in soil and sediment" 462 : 795-798, 2009

      23 Song, Y., "Distinctness of spore and vegetative cellular fatty acid profiles of some aerobic endospore-forming bacilli" 39 : 225-241, 2000

      24 Kumar, M., "Devosia chinhatensis sp. nov., isolated from a hexachlorocyclohexane (HCH) dump site in India" 58 : 861-865, 2008

      25 Deng, T., "Ciceribacter thiooxidans sp. nov. a novel nitrate-reducing thiosulfate-oxidizing bacterium isolated from sulfide-rich anoxic sediment" 67 : 4710-4715, 2017

      26 Kathiravan, R., "Ciceribacter lividus gen. nov. sp. nov. isolated from rhizosphere soil of chick pea (Cicerarietinum L.)" 63 : 4484-4488, 2013

      27 Siddiqi, M. Z., "Ciceribacter azotifigens sp. nov. a nitrogen-fixing bacterium isolated from activated sludge" 68 : 482-486, 2018

      28 Kanehisa, M., "BlastKOALA and GhostKOALA : KEGG tools for functional characterization of genome and metagenome sequences" 428 : 726-731, 2016

      29 Schippers, A., "Biogeochemistry of pyrite and iron sulfide oxidation in marine sediments" 66 : 85-92, 2002

      30 Chaudhuri, S. K., "Biogenic magnetite formation through anaerobic biooxidation of Fe(Ⅱ)" 67 : 2844-2848, 2001

      31 Straub, K. L., "Anaerobic, nitrate-dependent microbial oxidation of ferrous iron" 62 : 1458-1460, 1996

      32 Weber, K. A., "Anaerobic redox cycling of iron by freshwater sediment microorganisms" 8 : 100-113, 2006

      33 Minnikin, D. E., "An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids" 2 : 233-241, 1984

      34 Tuan Manh Nguyen, "A rapid and simple method for identifying bacterial polar lipid components in wet biomass" 한국미생물학회 55 (55): 635-639, 2017

      35 Yassin, A. F., "A new actinomycete species, Nocardiopsis lucentensis sp. nov" 43 : 266-271, 1993

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      연월일 이력구분 이력상세 등재구분
      2023 평가예정 해외DB학술지평가 신청대상 (해외등재 학술지 평가)
      2020-01-01 평가 등재학술지 유지 (해외등재 학술지 평가) KCI등재
      2013-12-02 학술지명변경 외국어명 : The Journal of Microbiology -> Journal of Microbiology KCI등재
      2010-01-01 평가 등재학술지 유지 (등재유지) KCI등재
      2008-01-01 평가 등재학술지 유지 (등재유지) KCI등재
      2006-01-01 평가 등재학술지 유지 (등재유지) KCI등재
      2004-01-01 평가 등재학술지 유지 (등재유지) KCI등재
      2001-07-01 평가 등재학술지 선정 (등재후보2차) KCI등재
      1999-01-01 평가 등재후보학술지 선정 (신규평가) KCI등재후보
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      기준연도 WOS-KCI 통합IF(2년) KCIF(2년) KCIF(3년)
      2016 1.76 0.2 1.22
      KCIF(4년) KCIF(5년) 중심성지수(3년) 즉시성지수
      0.91 0.73 0.399 0.07
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