Search Menu
DOE PAGES title logo U.S. Department of Energy
Office of Scientific and Technical Information
Search Scholarly Publications

Title: Comparative genomics of the genus Desulfitobacterium

Abstract

The Desulfitobacterium genus comprises anaerobic Gram-positive bacteria, of which the majority are facultative organohalide respirers. We here present the genomes of eight strains of Desulfitobacterium spp., including five strains of Desulfitobacterium hafniense, one strain each from D. dichloroeliminans and D. metallireducens, and one strain that had not been assigned to any species prior to this study. The newly sequenced genomes were compared with four previously published desulfitobacterial genomes. The average genome sizes are 5.5, 4.3 and 3.4 Mbp for D. hafniense, D. dehalogenans and D. dichloroeliminans/metallireducens, respectively. The genomes encode up to seven reductive dehalogenases, the genomes of both D. hafniense DP7 and D. metallireducens 853–15AT did not encode any reductive dehalogenase. The latter result was a surprise as D. metallireducens 853–15AT has been reported to carry out organohalide respiration. Unlike reported for the pceABCT gene cluster, the other reductive dehalogenase gene clusters do not show any signs of being genetically mobile. All analyzed desulfitobacterial genomes encode a complete cobalamin synthesis pathway. A menaquinone synthesis pathway was found in all strains except D. dichloroeliminans DCA1T. The detailed analysis of the genome sequence of 12 desulfitobacteria from four different species confirmed that this genus has an extremely large metabolic repertoire.

Authors:
 [1];  [2];  [3];  [4];  [5];  [6];  [1]
+ Show Author Affiliations
  1. Wageningen Univ., Wageningen (Netherlands)
  2. Friedrich Schiller Univ., Jena (Germany)
  3. Ecole Polytechnique Federale Lausanne (Switzlerland)
  4. USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)
  5. Martin Luther Univ., Halle (Germany)
  6. Wageningen Univ., Wageningen (Netherlands); Helsinki Univ. (Finland)
Publication Date:
Research Org.:
Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States). National Energy Research Scientific Computing Center (NERSC); Univ. of California, Oakland, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC)
OSTI Identifier:
1543955
Grant/Contract Number:  
AC02-05CH11231
Resource Type:
Accepted Manuscript
Journal Name:
FEMS Microbiology Ecology (Online)
Additional Journal Information:
Journal Name: FEMS Microbiology Ecology (Online); Journal Volume: 93; Journal Issue: 12; Journal ID: ISSN 1574-6941
Publisher:
Federation of European Microbiological Societies
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; Microbiology

Citation Formats

Kruse, Thomas, Goris, Tobias, Maillard, Julien, Woyke, Tanja, Lechner, Ute, de Vos, Willem, and Smidt, Hauke. Comparative genomics of the genus Desulfitobacterium. United States: N. p., 2017. Web. doi:10.1093/femsec/fix135.
Copy to clipboard
Kruse, Thomas, Goris, Tobias, Maillard, Julien, Woyke, Tanja, Lechner, Ute, de Vos, Willem, & Smidt, Hauke. Comparative genomics of the genus Desulfitobacterium. United States. https://doi.org/10.1093/femsec/fix135
Copy to clipboard
Kruse, Thomas, Goris, Tobias, Maillard, Julien, Woyke, Tanja, Lechner, Ute, de Vos, Willem, and Smidt, Hauke. Wed . "Comparative genomics of the genus Desulfitobacterium". United States. https://doi.org/10.1093/femsec/fix135. https://www.osti.gov/servlets/purl/1543955.
Copy to clipboard
@article{osti_1543955,
title = {Comparative genomics of the genus Desulfitobacterium},
author = {Kruse, Thomas and Goris, Tobias and Maillard, Julien and Woyke, Tanja and Lechner, Ute and de Vos, Willem and Smidt, Hauke},
abstractNote = {The Desulfitobacterium genus comprises anaerobic Gram-positive bacteria, of which the majority are facultative organohalide respirers. We here present the genomes of eight strains of Desulfitobacterium spp., including five strains of Desulfitobacterium hafniense, one strain each from D. dichloroeliminans and D. metallireducens, and one strain that had not been assigned to any species prior to this study. The newly sequenced genomes were compared with four previously published desulfitobacterial genomes. The average genome sizes are 5.5, 4.3 and 3.4 Mbp for D. hafniense, D. dehalogenans and D. dichloroeliminans/metallireducens, respectively. The genomes encode up to seven reductive dehalogenases, the genomes of both D. hafniense DP7 and D. metallireducens 853–15AT did not encode any reductive dehalogenase. The latter result was a surprise as D. metallireducens 853–15AT has been reported to carry out organohalide respiration. Unlike reported for the pceABCT gene cluster, the other reductive dehalogenase gene clusters do not show any signs of being genetically mobile. All analyzed desulfitobacterial genomes encode a complete cobalamin synthesis pathway. A menaquinone synthesis pathway was found in all strains except D. dichloroeliminans DCA1T. The detailed analysis of the genome sequence of 12 desulfitobacteria from four different species confirmed that this genus has an extremely large metabolic repertoire.},
doi = {10.1093/femsec/fix135},
journal = {FEMS Microbiology Ecology (Online)},
number = 12,
volume = 93,
place = {United States},
year = {Wed Oct 11 00:00:00 EDT 2017},
month = {Wed Oct 11 00:00:00 EDT 2017}
}
Copy to clipboard
Journal Article:
Free Publicly Available Full Text
Publisher's Version of Record
https://doi.org/10.1093/femsec/fix135
Copyright Statement
Other availability
Search WorldCat Search WorldCat to find libraries that may hold this journal
Citation Metrics:
Cited by: 20 works
Citation information provided by
Web of Science

Figures / Tables:

Figure 1 Figure 1: Genetic organisation of the reductive dehalogenase encoding gene clusters (rdh-lusters) from Desulfitobacterium spp.. Bottom bars indicate rdh-clusters A-G, and strain names without species designation are given below the corresponding gene clusters. Locus tags without prefix are given above arrows (see also Table 1), gene sizes in bp aremore » given under arrows to the right. Percentage amino acid similarity between homologues reductive dehalogenases are shown under arrows to the left, * indicates reference rdh$A$ homologue. $ using an alternative start codon. Gene names are given inside arrows, reductive dehalogenases and associated genes are given an rdh prefix, unless other names have been used in the literature, see text for details. The three letter prefix has been left out for some smaller genes due to space limitations. Other genes are tnp$A$: transposase; ta, tb and tc: tat$A$, $B$ and $C$; Restric-mod: restriction modification; $B$12: vitamin B12 binding enzyme; $U$ro-Ⅲ: Uroporphyrinogen-Ⅲ decarboxylase; $PT$: pterrin binding enzyme; Empty arrows indicate hypothetical protein encoding genes« less
All figures and tables (11 total)
Save / Share:
Export Metadata
Save to My Library
You must Sign In or Create an Account in order to save documents to your library.

Works referenced in this record:

Siro(haem)amide in Allochromatium vinosum and relevance of DsrL and DsrN, a homolog of cobyrinic acid a,c -diamide synthase, for sulphur oxidation
journal, August 2006

Use of Ferric and Ferrous Iron Containing Minerals for Respiration by Desulfitobacterium frappieri
journal, March 2003

  • Shelobolina, Evgenya S.; VanPraagh, Catherine Gaw; Lovley, Derek R.
  • Geomicrobiology Journal, Vol. 20, Issue 2
  • DOI: 10.1080/01490450303884

Anaerobic Microbial Dehalogenation
journal, October 2004

Reduction of fumarate, mesaconate and crotonate by Mfr, a novel oxygen-regulated periplasmic reductase in Campylobacter jejuni
journal, March 2010

Biochemical and EPR-Spectroscopic Investigation into Heterologously Expressed Vinyl Chloride Reductive Dehalogenase (VcrA) from Dehalococcoides mccartyi Strain VS
journal, March 2015

  • Parthasarathy, Anutthaman; Stich, Troy A.; Lohner, Svenja T.
  • Journal of the American Chemical Society, Vol. 137, Issue 10
  • DOI: 10.1021/ja511653d

A Desulfitobacterium strain isolated from human feces that does not dechlorinate chloroethenes or chlorophenols
journal, November 2001

  • Pas, Bram; Harmsen, Hermie; Raangs, Gerwin
  • Archives of Microbiology, Vol. 176, Issue 5
  • DOI: 10.1007/s002030100334

Tetrachloroethene metabolism of Dehalospirillum multivorans
journal, October 1994

  • Neumann, Anke; Scholz-Muramatsu, Heidrun; Diekert, Gabriele
  • Archives of Microbiology, Vol. 162, Issue 4
  • DOI: 10.1007/BF00301854

Phenyl methyl ethers: novel electron donors for respiratory growth of Desulfitobacterium hafniense and Desulfitobacterium sp. strain PCE-S
journal, March 2004

  • Diekert, Gabriele; Neumann, Anke; Engelmann, Tina
  • Archives of Microbiology, Vol. 181, Issue 3
  • DOI: 10.1007/s00203-004-0651-y

Shifting the genomic gold standard for the prokaryotic species definition
journal, October 2009

  • Richter, Michael; Rosselló-Móra, Ramon
  • Proceedings of the National Academy of Sciences, Vol. 106, Issue 45
  • DOI: 10.1073/pnas.0906412106

Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes
journal, February 2014

  • Kim, M.; Oh, H. -S.; Park, S. -C.
  • INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 64, Issue Pt 2
  • DOI: 10.1099/ijs.0.059774-0

A soil actinobacterium scavenges atmospheric H2 using two membrane-associated, oxygen-dependent [NiFe] hydrogenases
journal, March 2014

  • Greening, C.; Berney, M.; Hards, K.
  • Proceedings of the National Academy of Sciences, Vol. 111, Issue 11
  • DOI: 10.1073/pnas.1320586111

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
journal, January 1994

  • Thompson, Julie D.; Higgins, Desmond G.; Gibson, Toby J.
  • Nucleic Acids Research, Vol. 22, Issue 22, p. 4673-4680
  • DOI: 10.1093/nar/22.22.4673

Genome sequence of Desulfitobacterium hafniense DCB-2, a Gram-positive anaerobe capable of dehalogenation and metal reduction
journal, January 2012

  • Kim, Sang-Hoon; Harzman, Christina; Davis, John K.
  • BMC Microbiology, Vol. 12, Issue 1
  • DOI: 10.1186/1471-2180-12-21

Anaerobic reduction and oxidation of quinone moieties and the reduction of oxidized metals by halorespiring and related organisms
journal, July 2004

  • Luijten, Maurice L. G. C.; Weelink, Sander A. B.; Godschalk, Bas
  • FEMS Microbiology Ecology, Vol. 49, Issue 1
  • DOI: 10.1016/j.femsec.2004.01.015

SMART 6: recent updates and new developments
journal, January 2009

  • Letunic, I.; Doerks, T.; Bork, P.
  • Nucleic Acids Research, Vol. 37, Issue Database
  • DOI: 10.1093/nar/gkn808

SignalP 4.0: discriminating signal peptides from transmembrane regions
journal, September 2011

  • Petersen, Thomas Nordahl; Brunak, Søren; von Heijne, Gunnar
  • Nature Methods, Vol. 8, Issue 10
  • DOI: 10.1038/nmeth.1701

The “bacterial heterodisulfide” DsrC is a key protein in dissimilatory sulfur metabolism
journal, July 2014

  • Venceslau, S. S.; Stockdreher, Y.; Dahl, C.
  • Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1837, Issue 7
  • DOI: 10.1016/j.bbabio.2014.03.007

Dynamic Control of Electron Transfers in Diflavin Reductases
journal, November 2012

  • Aigrain, Louise; Fatemi, Fataneh; Frances, Oriane
  • International Journal of Molecular Sciences, Vol. 13, Issue 12
  • DOI: 10.3390/ijms131115012

The complete biosynthesis of the genetically encoded amino acid pyrrolysine from lysine
journal, March 2011

  • Gaston, Marsha A.; Zhang, Liwen; Green-Church, Kari B.
  • Nature, Vol. 471, Issue 7340
  • DOI: 10.1038/nature09918

Arsenic detoxification and evolution of trimethylarsine gas by a microbial arsenite S -adenosylmethionine methyltransferase
journal, February 2006

  • Qin, Jie; Rosen, Barry P.; Zhang, Yang
  • Proceedings of the National Academy of Sciences, Vol. 103, Issue 7
  • DOI: 10.1073/pnas.0506836103

Functional Heterologous Production of Reductive Dehalogenases from Desulfitobacterium hafniense Strains
journal, May 2014

  • Mac Nelly, Anita; Kai, Marco; Svatoš, Aleš
  • Applied and Environmental Microbiology, Vol. 80, Issue 14
  • DOI: 10.1128/AEM.00881-14

Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: Implications for the microbial "pan-genome"
journal, September 2005

  • Tettelin, H.; Masignani, V.; Cieslewicz, M. J.
  • Proceedings of the National Academy of Sciences, Vol. 102, Issue 39
  • DOI: 10.1073/pnas.0506758102

Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes
journal, May 2014

  • Kim, M.; Oh, H. -S.; Park, S. -C.
  • INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 64, Issue Pt 5
  • DOI: 10.1099/ijs.0.064931-0

Role of quinones in electron transport to oxygen and nitrate in Escherichia coli. Studies with a ubiA− menA− double quinone mutant
journal, July 1977

The organisation of proton motive and non-proton motive redox loops in prokaryotic respiratory systems
journal, December 2008

  • Simon, Jörg; van Spanning, Rob J. M.; Richardson, David J.
  • Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1777, Issue 12
  • DOI: 10.1016/j.bbabio.2008.09.008

The Genus DehalobacterDehalobacter
book, January 2016

A Combined Transmembrane Topology and Signal Peptide Prediction Method
journal, May 2004

  • Käll, Lukas; Krogh, Anders; Sonnhammer, Erik L. L.
  • Journal of Molecular Biology, Vol. 338, Issue 5
  • DOI: 10.1016/j.jmb.2004.03.016

Purification, Cloning, and Sequencing of a 3,5-Dichlorophenol Reductive Dehalogenase from Desulfitobacterium frappieri PCP-1
journal, August 2004

Purification and Molecular Characterization of ortho -Chlorophenol Reductive Dehalogenase, a Key Enzyme of Halorespiration in Desulfitobacterium dehalogenans
journal, July 1999

  • van de Pas, Bram A.; Smidt, Hauke; Hagen, Wilfred R.
  • Journal of Biological Chemistry, Vol. 274, Issue 29
  • DOI: 10.1074/jbc.274.29.20287

Stereoselective Microbial Dehalorespiration with Vicinal Dichlorinated Alkanes
journal, September 2003

Conversion of phenyl methyl ethers by Desulfitobacterium spp. and screening for the genes involved
journal, October 2014

  • Mingo, Felix S.; Studenik, Sandra; Diekert, Gabriele
  • FEMS Microbiology Ecology, Vol. 90, Issue 3
  • DOI: 10.1111/1574-6941.12433

Electron transfer by diflavin reductases
journal, April 2004

  • Murataliev, Marat B.; Feyereisen, René; Walker, F. Ann
  • Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, Vol. 1698, Issue 1
  • DOI: 10.1016/j.bbapap.2003.10.003

Two distinct enzyme systems are responsible for tetrachloroethene and chlorophenol reductive dehalogenation in Desulfitobacterium strain PCE1
journal, September 2001

  • van de Pas, Bram; Gerritse, Jan; de Vos, Willem
  • Archives of Microbiology, Vol. 176, Issue 3
  • DOI: 10.1007/s002030100316

The Physiological Opportunism of Desulfitobacterium hafniense Strain TCE1 towards Organohalide Respiration with Tetrachloroethene
journal, June 2012

  • Duret, Aurélie; Holliger, Christof; Maillard, Julien
  • Applied and Environmental Microbiology, Vol. 78, Issue 17
  • DOI: 10.1128/AEM.01221-12

Emergence of two types of nondechlorinating variants in the tetrachloroethene-halorespiring Desulfitobacterium sp. strain Y51
journal, August 2005

  • Futagami, Taiki; Tsuboi, Yoshinori; Suyama, Akiko
  • Applied Microbiology and Biotechnology, Vol. 70, Issue 6
  • DOI: 10.1007/s00253-005-0112-9

On the function of the various quinone species in Escherichia coli : The role of DMK in the electron transfer chains of
journal, May 2012

A Desulfitobacterium strain isolated from human feces that does not dechlorinate chloroethenes or chlorophenols
journal, June 2001

  • van de Pas, Bram; Harmsen, Hermie; Raangs, Gerwin
  • Archives of Microbiology, Vol. 175, Issue 6
  • DOI: 10.1007/s002030100276

HydDB: A web tool for hydrogenase classification and analysis
journal, September 2016

  • Søndergaard, Dan; Pedersen, Christian N. S.; Greening, Chris
  • Scientific Reports, Vol. 6, Issue 1
  • DOI: 10.1038/srep34212

Identification and Characterization of a Novel CprA Reductive Dehalogenase Specific to Highly Chlorinated Phenols from Desulfitobacterium hafniense Strain PCP-1
journal, September 2010

  • Bisaillon, A.; Beaudet, R.; Lepine, F.
  • Applied and Environmental Microbiology, Vol. 76, Issue 22
  • DOI: 10.1128/AEM.01362-10

Isolation and Characterization of a Novel As(V)-Reducing Bacterium: Implications for Arsenic Mobilization and the Genus Desulfitobacterium
journal, December 2001

Arsenics as bioenergetic substrates
journal, February 2013

  • van Lis, Robert; Nitschke, Wolfgang; Duval, Simon
  • Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1827, Issue 2
  • DOI: 10.1016/j.bbabio.2012.08.007

Making sense of it all: bacterial chemotaxis
journal, December 2004

  • Wadhams, George H.; Armitage, Judith P.
  • Nature Reviews Molecular Cell Biology, Vol. 5, Issue 12
  • DOI: 10.1038/nrm1524

Identification of a Hotdog Fold Thioesterase Involved in the Biosynthesis of Menaquinone in Escherichia coli
journal, April 2013

  • Chen, M.; Ma, X.; Chen, X.
  • Journal of Bacteriology, Vol. 195, Issue 12
  • DOI: 10.1128/JB.00141-13

Predicting transmembrane protein topology with a hidden markov model: application to complete genomes11Edited by F. Cohen
journal, January 2001

  • Krogh, Anders; Larsson, Björn; von Heijne, Gunnar
  • Journal of Molecular Biology, Vol. 305, Issue 3
  • DOI: 10.1006/jmbi.2000.4315

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods
journal, May 2011

  • Tamura, K.; Peterson, D.; Peterson, N.
  • Molecular Biology and Evolution, Vol. 28, Issue 10
  • DOI: 10.1093/molbev/msr121

Purification, cloning and sequencing of an enzyme mediating the reductive dechlorination of 2,4,6-trichlorophenol from Desulfitobacterium frappieri PCP-1
journal, July 2003

  • Boyer, Annie; PagÉ-BÉLanger, Rachel; Saucier, Maude
  • Biochemical Journal, Vol. 373, Issue 1
  • DOI: 10.1042/bj20021837

A unique iron-sulfur cluster is crucial for oxygen tolerance of a [NiFe]-hydrogenase
journal, March 2011

  • Goris, Tobias; Wait, Annemarie F.; Saggu, Miguel
  • Nature Chemical Biology, Vol. 7, Issue 5
  • DOI: 10.1038/nchembio.555

Characterization of an O-Demethylase of Desulfitobacterium hafniense DCB-2
journal, April 2012

  • Studenik, S.; Vogel, M.; Diekert, G.
  • Journal of Bacteriology, Vol. 194, Issue 13, p. 3317-3326
  • DOI: 10.1128/JB.00146-12

A novel diterpene agent isolated from Microbispora hainanensis strain CSR-4 and its in vitro and in silico inhibition effects on acetylcholine esterase enzyme
journal, July 2020

  • Thawai, Chitti; Bunbamrung, Nantiya; Pittayakhajonwut, Pattama
  • Scientific Reports, Vol. 10, Issue 1
  • DOI: 10.1038/s41598-020-68009-y

Draft Genome Sequence of Desulfitobacterium hafniense Strain DH, a Sulfate-Reducing Bacterium Isolated from Paddy Soils
journal, February 2016

Characterization of CprK1, a CRP/FNR-Type Transcriptional Regulator of Halorespiration from Desulfitobacterium hafniense
journal, March 2006

Development of a Gene Cloning and Inactivation System for Halorespiring Desulfitobacterium dehalogenans
journal, February 2001

Isolation and Characterization of Desulfitobacterium frappieri sp. nov., an Anaerobic Bacterium Which Reductively Dechlorinates Pentachlorophenol to 3-Chlorophenol
journal, October 1996

  • Bouchard, B.; Beaudet, R.; Villemur, R.
  • International Journal of Systematic Bacteriology, Vol. 46, Issue 4
  • DOI: 10.1099/00207713-46-4-1010

Detecting anomalous gene clusters and pathogenicity islands in diverse bacterial genomes
journal, July 2001

The genetic basis of tetrathionate respiration in Salmonella typhimurium
journal, April 1999

IMG/M: integrated genome and metagenome comparative data analysis system
journal, October 2016

  • Chen, I-Min A.; Markowitz, Victor M.; Chu, Ken
  • Nucleic Acids Research, Vol. 45, Issue D1
  • DOI: 10.1093/nar/gkw929

Artemis: sequence visualization and annotation
journal, October 2000

Translocation of proteins across the cell envelope of Gram-positive bacteria
journal, August 2001

The twin-arginine translocation (Tat) protein export pathway
journal, June 2012

  • Palmer, Tracy; Berks, Ben C.
  • Nature Reviews Microbiology, Vol. 10, Issue 7
  • DOI: 10.1038/nrmicro2814

A 12-cistron Escherichia coli operon (hyf) encoding a putative proton-translocating formate hydrogenlyase system
journal, November 1997

The InterPro protein families database: the classification resource after 15 years
journal, November 2014

  • Mitchell, Alex; Chang, Hsin-Yu; Daugherty, Louise
  • Nucleic Acids Research, Vol. 43, Issue D1
  • DOI: 10.1093/nar/gku1243

Overview of organohalide-respiring bacteria and a proposal for a classification system for reductive dehalogenases
journal, April 2013

  • Hug, Laura A.; Maphosa, Farai; Leys, David
  • Philosophical Transactions of the Royal Society B: Biological Sciences, Vol. 368, Issue 1616
  • DOI: 10.1098/rstb.2012.0322

Functional characterization of the trigger factor protein PceT of tetrachloroethene-dechlorinating Desulfitobacterium hafniense Y51
journal, April 2009

  • Morita, Yasuyuki; Futagami, Taiki; Goto, Masatoshi
  • Applied Microbiology and Biotechnology, Vol. 83, Issue 4
  • DOI: 10.1007/s00253-009-1958-z

The restricted metabolism of the obligate organohalide respiring bacterium Dehalobacter restrictus: lessons from tiered functional genomics
journal, April 2013

  • Rupakula, Aamani; Kruse, Thomas; Boeren, Sjef
  • Philosophical Transactions of the Royal Society B: Biological Sciences, Vol. 368, Issue 1616
  • DOI: 10.1098/rstb.2012.0325

Evolution and diversification of Group 1 [NiFe] hydrogenases. Is there a phylogenetic marker for O2-tolerance?
journal, September 2012

  • Pandelia, Maria-Eirini; Lubitz, Wolfgang; Nitschke, Wolfgang
  • Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1817, Issue 9
  • DOI: 10.1016/j.bbabio.2012.04.012

A periplasmic flavoprotein in Wolinella succinogenes that resembles the fumarate reductase of Shewanella putrefaciens
journal, April 1998

  • Simon, Jörg; Gross, Roland; Klimmek, Oliver
  • Archives of Microbiology, Vol. 169, Issue 5
  • DOI: 10.1007/s002030050593

Clustal W and Clustal X version 2.0
journal, September 2007

Guided cobalamin biosynthesis supports Dehalococcoides mccartyi reductive dechlorination activity
journal, April 2013

  • Yan, Jun; Im, Jeongdae; Yang, Yi
  • Philosophical Transactions of the Royal Society B: Biological Sciences, Vol. 368, Issue 1616
  • DOI: 10.1098/rstb.2012.0320

Analysis of a 2,4,6-trichlorophenol-dehalogenating enrichment culture and isolation of the dehalogenating member Desulfitobacterium frappieri strain TCP-A
journal, March 2001

  • Breitenstein, Antje; Saano, Aimo; Salkinoja-Salonen, Mirja
  • Archives of Microbiology, Vol. 175, Issue 2
  • DOI: 10.1007/s002030000248

Quantitative Analysis of the Relative Transcript Levels of Four Chlorophenol Reductive Dehalogenase Genes in Desulfitobacterium hafniense PCP-1 Exposed to Chlorophenols
journal, July 2011

  • Bisaillon, Ariane; Beaudet, Réjean; Lépine, François
  • Applied and Environmental Microbiology, Vol. 77, Issue 17
  • DOI: 10.1128/AEM.00390-11

Fumarate respiration of Wolinella succinogenes: enzymology, energetics and coupling mechanism
journal, January 2002

  • Kröger, Achim; Biel, Simone; Simon, Jörg
  • Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1553, Issue 1-2
  • DOI: 10.1016/S0005-2728(01)00234-1

Growth substrate dependent localization of tetrachloroethene reductive dehalogenase in Sulfurospirillum multivorans
journal, June 2006

  • John, Markus; Schmitz, Roland P. H.; Westermann, Martin
  • Archives of Microbiology, Vol. 186, Issue 2
  • DOI: 10.1007/s00203-006-0125-5

Diversity of Cobalamin Riboswitches in the Corrinoid-Producing Organohalide Respirer Desulfitobacterium hafniense
journal, September 2013

  • Choudhary, P. K.; Duret, A.; Rohrbach-Brandt, E.
  • Journal of Bacteriology, Vol. 195, Issue 22
  • DOI: 10.1128/JB.00730-13

Complete genome sequence of Dehalobacter restrictus PER-K23T
journal, July 2013

  • Kruse, Thomas; Maillard, Julien; Goodwin, Lynne
  • Standards in Genomic Sciences, Vol. 8, Issue 3
  • DOI: 10.4056/sigs.3787426

Cytochrome c-dependent methacrylate reductase from Geobacter sulfurreducens AM-1
journal, July 1999

Transcriptional Regulation of the cpr Gene Cluster in ortho-Chlorophenol-Respiring Desulfitobacterium dehalogenans
journal, October 2000

CMG-Biotools, a Free Workbench for Basic Comparative Microbial Genomics
journal, April 2013

Recent Origin of the Methacrylate Redox System in Geobacter sulfurreducens AM-1 through Horizontal Gene Transfer
journal, May 2015

Characterization of a flavocytochrome that is induced during the anaerobic respiration of Fe3+ by Shewanella frigidimarina NCIMB400
journal, August 1999

  • Dobbin, Paul S.; Butt, Julea N.; Powell, Anne K.
  • Biochemical Journal, Vol. 342, Issue 2
  • DOI: 10.1042/bj3420439

IMG 4 version of the integrated microbial genomes comparative analysis system
journal, October 2013

  • Markowitz, Victor M.; Chen, I-Min A.; Palaniappan, Krishna
  • Nucleic Acids Research, Vol. 42, Issue D1
  • DOI: 10.1093/nar/gkt963

The Desulfitobacterium genus
journal, September 2006

Comparative studies on tetrachloroethene reductive dechlorination mediated by Desulfitobacterium sp. strain PCE-S
journal, December 1997

  • Miller, Evelyn; Wohlfarth, Gert; Diekert, G.
  • Archives of Microbiology, Vol. 168, Issue 6
  • DOI: 10.1007/s002030050529

Physiological Adaptation of Desulfitobacterium hafniense Strain TCE1 to Tetrachloroethene Respiration
journal, April 2011

  • Prat, Laure; Maillard, Julien; Grimaud, Régis
  • Applied and Environmental Microbiology, Vol. 77, Issue 11
  • DOI: 10.1128/AEM.02471-10

Microbial Methylation of Metalloids: Arsenic, Antimony, and Bismuth
journal, June 2002

Desulfitobacterium hafniense sp. nov., an Anaerobic, Reductively Dechlorinating Bacterium
journal, April 1996

  • Christiansen, N.; Ahring, B. K.
  • International Journal of Systematic Bacteriology, Vol. 46, Issue 2
  • DOI: 10.1099/00207713-46-2-442

Global transcriptome analysis of the tetrachloroethene-dechlorinating bacterium Desulfitobacterium hafniense Y51 in the presence of various electron donors and terminal electron acceptors
journal, August 2011

  • Peng, Xue; Yamamoto, Shogo; Vertès, Alain A.
  • Journal of Industrial Microbiology & Biotechnology, Vol. 39, Issue 2
  • DOI: 10.1007/s10295-011-1023-7

The Many Faces of Vitamin B12: Catalysis by Cobalamin-Dependent Enzymes
journal, June 2003

vanI : a novel d -Ala- d -Lac vancomycin resistance gene cluster found in Desulfitobacterium hafniense : Vancomycin resistance in
journal, July 2014

  • Kruse, Thomas; Levisson, Mark; de Vos, Willem M.
  • Microbial Biotechnology, Vol. 7, Issue 5
  • DOI: 10.1111/1751-7915.12139

Redundancy and specificity of multiple trigger factor chaperones in Desulfitobacteria
journal, May 2011

Fine-Tuning Our Knowledge of the Anaerobic Route to Cobalamin (Vitamin B12)
journal, August 2006

  • Roessner, C. A.; Scott, A. I.
  • Journal of Bacteriology, Vol. 188, Issue 21
  • DOI: 10.1128/JB.00918-06

Arsenic and Selenium in Microbial Metabolism
journal, October 2006

Proteomics of the organohalide-respiring Epsilonproteobacterium Sulfurospirillum multivorans adapted to tetrachloroethene and other energy substrates
journal, September 2015

  • Goris, Tobias; Schiffmann, Christian L.; Gadkari, Jennifer
  • Scientific Reports, Vol. 5, Issue 1
  • DOI: 10.1038/srep13794

Divergent roles of CprK paralogues from Desulfitobacterium hafniense in activating gene expression
journal, December 2008

Periplasmic Electron Transfer via the c-Type Cytochromes MtrA and FccA of Shewanella oneidensis MR-1
journal, October 2009

  • Schuetz, B.; Schicklberger, M.; Kuermann, J.
  • Applied and Environmental Microbiology, Vol. 75, Issue 24
  • DOI: 10.1128/AEM.01834-09

Isolation and characterization of Tn-Dha1, a transposon containing the tetrachloroethene reductive dehalogenase of Desulfitobacterium hafniense strain TCE1
journal, January 2005

Functional characterization of the early steps of tetrapyrrole biosynthesis and modification in Desulfovibrio vulgaris Hildenborough
journal, May 2009

  • Lobo, Susana A. L.; Brindley, Amanda; Warren, Martin J.
  • Biochemical Journal, Vol. 420, Issue 2
  • DOI: 10.1042/BJ20090151

Diversity and evolution of bioenergetic systems involved in microbial nitrogen compound transformations
journal, February 2013

Isolation and Characterization of Desulfitobacterium sp. strain Y51 Capable of Efficient Dehalogenation of Tetrachloroethene and Polychloroethanes
journal, January 2001

  • Suyama, Akiko; Iwakiri, Ryo; Kai, Keiichirou
  • Bioscience, Biotechnology, and Biochemistry, Vol. 65, Issue 7
  • DOI: 10.1271/bbb.65.1474

Carbon source-dependent expansion of the genetic code in bacteria
journal, November 2012

  • Prat, L.; Heinemann, I. U.; Aerni, H. R.
  • Proceedings of the National Academy of Sciences, Vol. 109, Issue 51
  • DOI: 10.1073/pnas.1218613110

Complete genome sequence and analysis of Wolinella succinogenes
journal, September 2003

  • Baar, C.; Eppinger, M.; Raddatz, G.
  • Proceedings of the National Academy of Sciences, Vol. 100, Issue 20
  • DOI: 10.1073/pnas.1932838100

Distribution of nitrogen fixation and nitrogenase-like sequences amongst microbial genomes
journal, January 2012

The Cofactor of Tetrachloroethene Reductive Dehalogenase ofDehalospirillum multivorans Is Norpseudo-B12, a New Type of a Natural Corrinoid
journal, November 2003

  • Kräutler, Bernhard; Fieber, Wolfgang; Ostermann, Sigrid
  • Helvetica Chimica Acta, Vol. 86, Issue 11
  • DOI: 10.1002/hlca.200390313

Genomic, Proteomic, and Biochemical Analysis of the Organohalide Respiratory Pathway in Desulfitobacterium dehalogenans
journal, December 2014

  • Kruse, Thomas; van de Pas, Bram A.; Atteia, Ariane
  • Journal of Bacteriology, Vol. 197, Issue 5
  • DOI: 10.1128/JB.02370-14

Use of Bacteria To Stabilize Archaeological Iron
journal, March 2017

  • Comensoli, Lucrezia; Maillard, Julien; Albini, Monica
  • Applied and Environmental Microbiology, Vol. 83, Issue 9
  • DOI: 10.1128/AEM.03478-16

cobA function is required for both de novo cobalamin biosynthesis and assimilation of exogenous corrinoids in Salmonella typhimurium.
journal, January 1990

The nos gene cluster from gram-positive bacterium Geobacillus thermodenitrificans NG80-2 and functional characterization of the recombinant NosZ
journal, December 2008

Draft genome sequence and characterization of Desulfitobacterium hafniense PCE-S
journal, February 2015

  • Goris, Tobias; Hornung, Bastian; Kruse, Thomas
  • Standards in Genomic Sciences, Vol. 10, Issue 1
  • DOI: 10.1186/1944-3277-10-15

Noncanonical Vancomycin Resistance Cluster from Desulfitobacterium hafniense Y51
journal, May 2009

  • Kalan, L.; Ebert, S.; Kelly, T.
  • Antimicrobial Agents and Chemotherapy, Vol. 53, Issue 7
  • DOI: 10.1128/AAC.01408-08

Nucleotide sequence and expression of the selenocysteine-containing polypeptide of formate dehydrogenase (formate-hydrogen-lyase-linked) from Escherichia coli.
journal, July 1986

  • Zinoni, F.; Birkmann, A.; Stadtman, T. C.
  • Proceedings of the National Academy of Sciences, Vol. 83, Issue 13
  • DOI: 10.1073/pnas.83.13.4650

Arsenic Methylation and Volatilization by Arsenite S -Adenosylmethionine Methyltransferase in Pseudomonas alcaligenes NBRC14159
journal, February 2015

  • Zhang, Jun; Cao, Tingting; Tang, Zhu
  • Applied and Environmental Microbiology, Vol. 81, Issue 8
  • DOI: 10.1128/AEM.03804-14

Isolation and Characterization of Desulfitobacterium dehalogenans gen. nov., sp. nov., an Anaerobic Bacterium Which Reductively Dechlorinates Chlorophenolic Compounds
journal, October 1994

  • Utkin, I.; Woese, C.; Wiegel, J.
  • International Journal of Systematic Bacteriology, Vol. 44, Issue 4
  • DOI: 10.1099/00207713-44-4-612

Specificity of respiratory pathways involved in the reduction of sulfur compounds by Salmonella enterica
journal, November 2002

ACT: the Artemis comparison tool
journal, June 2005

Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy
journal, April 2011

  • Letunic, I.; Bork, P.
  • Nucleic Acids Research, Vol. 39, Issue suppl
  • DOI: 10.1093/nar/gkr201

EMBOSS: The European Molecular Biology Open Software Suite
journal, June 2000

Localized Plasticity in the Streamlined Genomes of Vinyl Chloride Respiring Dehalococcoides
journal, November 2009

Microbial comparative pan-genomics using binomial mixture models
journal, January 2009

Desulfitobacterium sp. strain PCE1, an anaerobic bacterium that can grow by reductive dechlorination of tetrachloroethene or ortho -chlorinated phenols
journal, February 1996

  • Gerritse, J.; Renard, Veronique; Gomes, T. M. Pedro
  • Archives of Microbiology, Vol. 165, Issue 2
  • DOI: 10.1007/s002030050308

Desulfitobacterium aromaticivorans sp. nov. and Geobacter toluenoxydans sp. nov., iron-reducing bacteria capable of anaerobic degradation of monoaromatic hydrocarbons
journal, August 2009

  • Kunapuli, U.; Jahn, M. K.; Lueders, T.
  • INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 60, Issue 3
  • DOI: 10.1099/ijs.0.003525-0

Regulation of Anaerobic Dehalorespiration by the Transcriptional Activator CprK
journal, September 2004

  • Pop, Stelian M.; Kolarik, Ryan J.; Ragsdale, Stephen W.
  • Journal of Biological Chemistry, Vol. 279, Issue 48
  • DOI: 10.1074/jbc.M409435200

DNA–DNA hybridization values and their relationship to whole-genome sequence similarities
journal, January 2007

  • Klappenbach, Joel A.; Goris, Johan; Vandamme, Peter
  • International Journal of Systematic and Evolutionary Microbiology, Vol. 57, Issue 1
  • DOI: 10.1099/ijs.0.64483-0

The Role of the Novel Fem Protein VanK in Vancomycin Resistance in Streptomyces coelicolor
journal, January 2005

  • Hong, Hee-Jeon; Hutchings, Matthew I.; Hill, Lionel M.
  • Journal of Biological Chemistry, Vol. 280, Issue 13
  • DOI: 10.1074/jbc.M413801200

The bacterial Sec-translocase: structure and mechanism
journal, April 2012

  • Lycklama a. Nijeholt, Jelger A.; Driessen, Arnold J. M.
  • Philosophical Transactions of the Royal Society B: Biological Sciences, Vol. 367, Issue 1592
  • DOI: 10.1098/rstb.2011.0201

Impact of Vitamin B 12 on Formation of the Tetrachloroethene Reductive Dehalogenase in Desulfitobacterium hafniense Strain Y51
journal, September 2012

  • Reinhold, Anika; Westermann, Martin; Seifert, Jana
  • Applied and Environmental Microbiology, Vol. 78, Issue 22
  • DOI: 10.1128/AEM.02173-12

Influence of Different Electron Donors and Acceptors on Dehalorespiration of Tetrachloroethene by Desulfitobacterium frappieri TCE1
journal, December 1999

Isolation and characterization of an anaerobic chlorophenol-transforming bacterium
journal, September 1992

Random Transposition by Tn 916 in Desulfitobacterium dehalogenans Allows for Isolation and Characterization of Halorespiration-Deficient Mutants
journal, November 1999

    Sort by:
    [ × clear filter / sort ]

    Works referencing / citing this record:

    Guided cobamide biosynthesis for heterologous production of reductive dehalogenases
    journal, December 2018

    • Schubert, Torsten; Reuß, Stephan H.; Kunze, Cindy
    • Microbial Biotechnology, Vol. 12, Issue 2
    • DOI: 10.1111/1751-7915.13339

    An integrative overview of genomic, transcriptomic and proteomic analyses in organohalide respiration research
    journal, January 2018

    • Türkowsky, Dominique; Jehmlich, Nico; Diekert, Gabriele
    • FEMS Microbiology Ecology, Vol. 94, Issue 3
    • DOI: 10.1093/femsec/fiy013

    The Membrane-Bound C Subunit of Reductive Dehalogenases: Topology Analysis and Reconstitution of the FMN-Binding Domain of PceC
    journal, April 2018

    • Buttet, Géraldine F.; Willemin, Mathilde S.; Hamelin, Romain
    • Frontiers in Microbiology, Vol. 9
    • DOI: 10.3389/fmicb.2018.00755

    Guided cobamide biosynthesis for heterologous production of reductive dehalogenases
    journal, December 2018

    • Schubert, Torsten; Reuß, Stephan H.; Kunze, Cindy
    • Microbial Biotechnology, Vol. 12, Issue 2
    • DOI: 10.1111/1751-7915.13339

    Organohalide-respiring Desulfoluna species isolated from marine environments
    journal, January 2020

    The Membrane-Bound C Subunit of Reductive Dehalogenases: Topology Analysis and Reconstitution of the FMN-Binding Domain of PceC
    journal, April 2018

    • Buttet, Géraldine F.; Willemin, Mathilde S.; Hamelin, Romain
    • Frontiers in Microbiology, Vol. 9
    • DOI: 10.3389/fmicb.2018.00755

    Flux, Impact, and Fate of Halogenated Xenobiotic Compounds in the Gut
    journal, July 2018

    Desulfitobacterium contributes to the microbial transformation of 2,4,5-T by methanogenic enrichment cultures from a Vietnamese active landfill
    journal, August 2018

    • Lechner, Ute; Türkowsky, Dominique; Dinh, Thi Thu Hang
    • Microbial Biotechnology, Vol. 11, Issue 6
    • DOI: 10.1111/1751-7915.13301

    Organohalide-respiring Desulfoluna species isolated from marine environments
    journal, January 2020

    Desulfitobacterium contributes to the microbial transformation of 2,4,5-T by methanogenic enrichment cultures from a Vietnamese active landfill
    journal, August 2018

    • Lechner, Ute; Türkowsky, Dominique; Dinh, Thi Thu Hang
    • Microbial Biotechnology, Vol. 11, Issue 6
    • DOI: 10.1111/1751-7915.13301

    Flux, Impact, and Fate of Halogenated Xenobiotic Compounds in the Gut
    journal, July 2018

      Sort by:
      [ × clear filter / sort ]

      Figures / Tables found in this record:

      Figure 1 (p. 35)figure
      Figure 2 (p. 36)figure
      Figure 3 (p. 37)figure
      Figure 4 (p. 38)figure
      Figure 5 (p. 39)figure
      Table 1 (p. 40)table
      Table 2 (p. 41)table
      Table 3 (p. 42)table
      Table 4 (p. 43)table
      Table 5 (p. 44)table
      Figure 6 (p. 45)figure
        [ × clear filter / sort ]
        Figures/Tables have been extracted from DOE-funded journal article accepted manuscripts.

        Similar Records in DOE PAGES and OSTI.GOV collections: