scholarly article | Q13442814 |
P50 | author | Paul J. McMurdie | Q55121955 |
Jochen A Müller | Q57947501 | ||
Alla Lapidus | Q28037157 | ||
Susan P. Holmes | Q33082910 | ||
Jonathan Göke | Q39050971 | ||
P2093 | author name string | Ryan Wagner | |
Alfred M Spormann | |||
Frank E Löffler | |||
Kirsti M Ritalahti | |||
Eugene Goltsman | |||
Sebastian F Behrens | |||
P2860 | cites work | Accelerated evolution associated with genome reduction in a free-living prokaryote | Q21999766 |
Complete genome sequence of the dehalorespiring bacterium Desulfitobacterium hafniense Y51 and comparison with Dehalococcoides ethenogenes 195. | Q22065442 | ||
Genome Streamlining in a Cosmopolitan Oceanic Bacterium | Q22065795 | ||
Genome Sequence of the PCE-Dechlorinating Bacterium Dehalococcoides ethenogenes | Q22065809 | ||
Genome sequence of the chlorinated compound–respiring bacterium Dehalococcoides species strain CBDB1 | Q22122113 | ||
KEGG: kyoto encyclopedia of genes and genomes | Q24515297 | ||
Codon usages in different gene classes of the Escherichia coli genome. | Q51193392 | ||
Breathing with chlorinated solvents. | Q51540666 | ||
Growth of Dehalococcoides strains with chlorophenols as electron acceptors. | Q52926525 | ||
Evolution of the terminal regions of the Streptomyces linear chromosome | Q80222873 | ||
ISfinder: the reference centre for bacterial insertion sequences | Q24538230 | ||
Traffic at the tmRNA gene | Q24542423 | ||
tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence | Q24544402 | ||
SMART, a simple modular architecture research tool: identification of signaling domains | Q24597380 | ||
MUSCLE: multiple sequence alignment with high accuracy and high throughput | Q24613456 | ||
ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide sequences | Q24634141 | ||
Dynamics of Pseudomonas aeruginosa genome evolution | Q24652525 | ||
Versatile and open software for comparing large genomes | Q24807126 | ||
Projector 2: contig mapping for efficient gap-closure of prokaryotic genome sequence assemblies | Q24812045 | ||
The integrated microbial genomes (IMG) system | Q25257667 | ||
Basic local alignment search tool | Q25938991 | ||
Improved microbial gene identification with GLIMMER | Q27860463 | ||
Consed: a graphical tool for sequence finishing | Q27860740 | ||
A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood | Q27861000 | ||
Primer3 on the WWW for general users and for biologist programmers | Q27861030 | ||
Bacterial dehalorespiration with chlorinated benzenes | Q28140395 | ||
A bacterial genome in flux: the twelve linear and nine circular extrachromosomal DNAs in an infectious isolate of the Lyme disease spirochete Borrelia burgdorferi | Q28144621 | ||
Isolation of a bacterium that reductively dechlorinates tetrachloroethene to ethene | Q28239702 | ||
The small genome of an abundant coastal ocean methylotroph | Q28275384 | ||
Reductive dechlorination of tetrachloroethene to ethene by a two-component enzyme pathway | Q28343903 | ||
Mauve: multiple alignment of conserved genomic sequence with rearrangements | Q29547292 | ||
Circos: an information aesthetic for comparative genomics | Q29547653 | ||
CRITICA: coding region identification tool invoking comparative analysis | Q29614364 | ||
MEGA: a biologist-centric software for evolutionary analysis of DNA and protein sequences | Q29617490 | ||
Role of a peptide tagging system in degradation of proteins synthesized from damaged messenger RNA | Q29617951 | ||
Viewing and annotating sequence data with Artemis | Q30809868 | ||
Identification of a chlorobenzene reductive dehalogenase in Dehalococcoides sp. strain CBDB1. | Q33302487 | ||
Genomic plasticity in prokaryotes: the case of the square haloarchaeon | Q33307504 | ||
Monitoring abundance and expression of "Dehalococcoides" species chloroethene-reductive dehalogenases in a tetrachloroethene-dechlorinating flow column | Q33357278 | ||
Isolation and characterization of "Dehalococcoides" sp. strain MB, which dechlorinates tetrachloroethene to trans-1,2-dichloroethene | Q33487081 | ||
Indications for acquisition of reductive dehalogenase genes through horizontal gene transfer by Dehalococcoides ethenogenes strain 195 | Q33855816 | ||
Vinyl chloride: still a cause for concern | Q33910749 | ||
Trichloroethene reductive dehalogenase from Dehalococcoides ethenogenes: sequence of tceA and substrate range characterization | Q33988197 | ||
Molecular analysis of Dehalococcoides 16S ribosomal DNA from chloroethene-contaminated sites throughout North America and Europe | Q34099848 | ||
Anaerobic microbial dehalogenation | Q34359365 | ||
Genomic islands and the ecology and evolution of Prochlorococcus. | Q34504656 | ||
Integration sites for genetic elements in prokaryotic tRNA and tmRNA genes: sublocation preference of integrase subfamilies | Q34528191 | ||
Variations on the tmRNA gene. | Q34993003 | ||
Discrimination of multiple Dehalococcoides strains in a trichloroethene enrichment by quantification of their reductive dehalogenase genes | Q35023609 | ||
Comparative proteomics of Dehalococcoides spp. reveals strain-specific peptides associated with activity | Q35633957 | ||
Order and disorder in bacterial genomes | Q35903259 | ||
Streamlining and simplification of microbial genome architecture | Q36528800 | ||
Temporal transcriptomic microarray analysis of "Dehalococcoides ethenogenes" strain 195 during the transition into stationary phase | Q36672631 | ||
Comparative genomics of "Dehalococcoides ethenogenes" 195 and an enrichment culture containing unsequenced "Dehalococcoides" strains | Q36710507 | ||
The organization of the bacterial genome. | Q37208839 | ||
Genetic identification of a putative vinyl chloride reductase in Dehalococcoides sp. strain BAV1. | Q37572481 | ||
Macrodomain organization of the Escherichia coli chromosome. | Q37592872 | ||
Oriloc: prediction of replication boundaries in unannotated bacterial chromosomes | Q37875703 | ||
Molecular identification of the catabolic vinyl chloride reductase from Dehalococcoides sp. strain VS and its environmental distribution | Q39305144 | ||
Reductive dechlorination of chlorinated ethenes and 1, 2-dichloroethane by "Dehalococcoides ethenogenes" 195. | Q39482593 | ||
Multiple reductive-dehalogenase-homologous genes are simultaneously transcribed during dechlorination by Dehalococcoides-containing cultures | Q40717124 | ||
In vitro studies on reductive vinyl chloride dehalogenation by an anaerobic mixed culture | Q41890800 | ||
Detoxification of vinyl chloride to ethene coupled to growth of an anaerobic bacterium | Q42164123 | ||
Expression of reductive dehalogenase genes in Dehalococcoides ethenogenes strain 195 growing on tetrachloroethene, trichloroethene, or 2,3-dichlorophenol. | Q42432595 | ||
Isolation and characterization of Tn-Dha1, a transposon containing the tetrachloroethene reductive dehalogenase of Desulfitobacterium hafniense strain TCE1. | Q42644761 | ||
Unusual codon bias in vinyl chloride reductase genes of Dehalococcoides species. | Q42845847 | ||
Transcription analysis of genes encoding homologues of reductive dehalogenases in "Dehalococcoides" sp. strain CBDB1 by using terminal restriction fragment length polymorphism and quantitative PCR. | Q43153339 | ||
Acetate versus hydrogen as direct electron donors to stimulate the microbial reductive dechlorination process at chloroethene-contaminated sites | Q43356639 | ||
Reductive dehalogenation of chlorinated dioxins by an anaerobic bacterium | Q44286597 | ||
Vinyl chloride and cis-dichloroethene dechlorination kinetics and microorganism growth under substrate limiting conditions. | Q44784663 | ||
Dehalococcoides ethenogenes strain 195 reductively dechlorinates diverse chlorinated aromatic pollutants | Q44867363 | ||
Isolation and characterization of Dehalococcoides sp. strain FL2, a trichloroethene (TCE)- and 1,2-dichloroethene-respiring anaerobe. | Q46653979 | ||
Correlation of respiratory gene expression levels and pseudo-steady-state PCE respiration rates in Dehalococcoides ethenogenes | Q46745994 | ||
P275 | copyright license | Creative Commons Attribution 4.0 International | Q20007257 |
P6216 | copyright status | copyrighted | Q50423863 |
P433 | issue | 11 | |
P304 | page(s) | e1000714 | |
P577 | publication date | 2009-11-06 | |
P1433 | published in | PLOS Genetics | Q1893441 |
P1476 | title | Localized plasticity in the streamlined genomes of vinyl chloride respiring Dehalococcoides | |
P478 | volume | 5 |
Q36254594 | A comparative genomics and reductive dehalogenase gene transcription study of two chloroethene-respiring bacteria, Dehalococcoides mccartyi strains MB and 11a |
Q44460504 | A conceptual model linking functional gene expression and reductive dechlorination rates of chlorinated ethenes in clay rich groundwater sediment. |
Q38069492 | A genomic approach to the cryptic secondary metabolome of the anaerobic world |
Q28077081 | Bacterial Biotransformation of Pentachlorophenol and Micropollutants Formed during Its Production Process |
Q34703771 | Characterization of four TCE-dechlorinating microbial enrichments grown with different cobalamin stress and methanogenic conditions. |
Q33682086 | Characterizing the metabolism of Dehalococcoides with a constraint-based model |
Q55362083 | Chlorinated Electron Acceptor Abundance Drives Selection of Dehalococcoides mccartyi (D. mccartyi) Strains in Dechlorinating Enrichment Cultures and Groundwater Environments. |
Q37677341 | Community genomic analyses constrain the distribution of metabolic traits across the Chloroflexi phylum and indicate roles in sediment carbon cycling |
Q46282835 | Comparative genomics of the genus Desulfitobacterium |
Q35092532 | Comparative genomics of two newly isolated Dehalococcoides strains and an enrichment using a genus microarray |
Q34347988 | Comparative metagenomics of three Dehalococcoides-containing enrichment cultures: the role of the non-dechlorinating community |
Q92646144 | Complete Genome Sequence of Dehalococcoides mccartyi Strain FL2, a Trichloroethene-Respiring Anaerobe Isolated from Pristine Freshwater Sediment |
Q39743713 | Complete Genome Sequence of Dehalococcoides mccartyi Strain WBC-2, Capable of Anaerobic Reductive Dechlorination of Vinyl Chloride |
Q37544239 | Complete genome sequence of Dehalobacter restrictus PER-K23(T.). |
Q24594121 | Complete genome sequence of Dehalogenimonas lykanthroporepellens type strain (BL-DC-9(T)) and comparison to "Dehalococcoides" strains |
Q36278349 | Complete genome sequencing of Dehalococcoides sp. strain UCH007 using a differential reads picking method |
Q46790524 | Dehalogenation of diverse halogenated substrates by a highly enriched Dehalococcoides-containing culture derived from the contaminated mega-site in Bitterfeld |
Q46913762 | Dehalogenimonas lykanthroporepellens BL-DC-9T simultaneously transcribes many rdhA genes during organohalide respiration with 1,2-DCA, 1,2-DCP, and 1,2,3-TCP as electron acceptors |
Q40447859 | Dehalogenimonas sp. Strain WBC-2 Genome and Identification of Its trans-Dichloroethene Reductive Dehalogenase, TdrA. |
Q42849491 | Design and verification of a pangenome microarray oligonucleotide probe set for Dehalococcoides spp. |
Q91971549 | Detection of Organohalide-Respiring Enzyme Biomarkers at a Bioaugmented TCE-Contaminated Field Site |
Q35180121 | Development and application of primers for the class Dehalococcoidia (phylum Chloroflexi) enables deep insights into diversity and stratification of subgroups in the marine subsurface |
Q35886481 | Distribution of Dehalococcoidia in the Anaerobic Deep Water of a Remote Meromictic Crater Lake and Detection of Dehalococcoidia-Derived Reductive Dehalogenase Homologous Genes |
Q42878896 | Diversity of reductive dehalogenase genes from environmental samples and enrichment cultures identified with degenerate primer PCR screens |
Q34283775 | Draft Genome Sequence of Polychlorinated Biphenyl-Dechlorinating Dehalococcoides mccartyi Strain SG1, Which Carries a Circular Putative Plasmid |
Q36291932 | Ecogenomics of microbial communities in bioremediation of chlorinated contaminated sites |
Q90928445 | Extrachromosomal circular elements targeted by CRISPR-Cas in Dehalococcoides mccartyi are linked to mobilization of reductive dehalogenase genes |
Q36598982 | Functional characterization of reductive dehalogenases by using blue native polyacrylamide gel electrophoresis |
Q41086110 | Functional heterologous production of reductive dehalogenases from Desulfitobacterium hafniense strains |
Q37031155 | Genome sequence of the organohalide-respiring Dehalogenimonas alkenigignens type strain (IP3-3(T)). |
Q28289260 | Genome sequences of two dehalogenation specialists – Dehalococcoides mccartyi strains BTF08 and DCMB5 enriched from the highly polluted Bitterfeld region |
Q37531995 | Genome sequencing of a single cell of the widely distributed marine subsurface Dehalococcoidia, phylum Chloroflexi |
Q34082625 | Genomic characterization of three unique Dehalococcoides that respire on persistent polychlorinated biphenyls |
Q21266709 | Genomic determinants of organohalide-respiration in Geobacter lovleyi, an unusual member of the Geobacteraceae |
Q46239903 | Global gene expression of Dehalococcoides within a robust dynamic TCE-dechlorinating community under conditions of periodic substrate supply. |
Q35804797 | Global transcriptomic and proteomic responses of Dehalococcoides ethenogenes strain 195 to fixed nitrogen limitation |
Q64957061 | Growth of Dehalococcoides spp. and increased abundance of reductive dehalogenase genes in anaerobic PCB-contaminated sediment microcosms. |
Q47099664 | Homoacetogenesis in Deep-Sea Chloroflexi, as Inferred by Single-Cell Genomics, Provides a Link to Reductive Dehalogenation in Terrestrial Dehalococcoidetes |
Q37941835 | Horizontal transfer of dehalogenase genes involved in the catalysis of chlorinated compounds: evidence and ecological role |
Q90479483 | Hybrid Transcriptional Regulators for the Screening of Target DNA Motifs in Organohalide-Respiring Bacteria |
Q35274293 | Identification and characterization of a re-citrate synthase in Dehalococcoides strain CBDB1 |
Q36801377 | Identification of Dehalobacter reductive dehalogenases that catalyse dechlorination of chloroform, 1,1,1-trichloroethane and 1,1-dichloroethane |
Q45843291 | Identification of Multiple Dehalogenase Genes Involved in Tetrachloroethene-to-Ethene Dechlorination in a Dehalococcoides-Dominated Enrichment Culture. |
Q48271348 | Identification of a multi-protein reductive dehalogenase complex in Dehalococcoides mccartyi strain CBDB1 suggests a protein-dependent respiratory electron transport chain obviating quinone involvement |
Q34332291 | Identification of a reductive tetrachloroethene dehalogenase in Shewanella sediminis |
Q28830415 | Identification of specific corrinoids reveals corrinoid modification in dechlorinating microbial communities |
Q42579257 | Identity and Substrate Specificity of Reductive Dehalogenases Expressed in Dehalococcoides-Containing Enrichment Cultures Maintained on Different Chlorinated Ethenes |
Q33674469 | Incomplete Wood-Ljungdahl pathway facilitates one-carbon metabolism in organohalide-respiring Dehalococcoides mccartyi |
Q36187481 | Inferring Gene Networks for Strains of Dehalococcoides Highlights Conserved Relationships between Genes Encoding Core Catabolic and Cell-Wall Structural Proteins |
Q90228388 | Insights into origins and function of the unexplored majority of the reductive dehalogenase gene family as a result of genome assembly and ortholog group classification |
Q46023062 | Isolation of two new Dehalococcoides mccartyi strains with dissimilar dechlorination functions and their characterization by comparative genomics via microarray analysis. |
Q38864392 | Loop-Mediated Isothermal Amplification (LAMP) for Rapid Detection and Quantification of Dehalococcoides Biomarker Genes in Commercial Reductive Dechlorinating Cultures KB-1 and SDC-9. |
Q38724217 | Loss of the ssrA genome island led to partial debromination in the PBDE respiring Dehalococcoides mccartyi strain GY50. |
Q34261225 | Meta-analyses of Dehalococcoides mccartyi strain 195 transcriptomic profiles identify a respiration rate-related gene expression transition point and interoperon recruitment of a key oxidoreductase subunit |
Q34179603 | Metagenomic analysis of a stable trichloroethene-degrading microbial community. |
Q60958302 | Microbial Synthesis and Transformation of Inorganic and Organic Chlorine Compounds |
Q39220999 | Microbial degradation of chloroethenes: a review. |
Q43527827 | Natural Attenuation in Streambed Sediment Receiving Chlorinated Solvents from Underlying Fracture Networks. |
Q35148067 | New insights into Dehalococcoides mccartyi metabolism from a reconstructed metabolic network-based systems-level analysis of D. mccartyi transcriptomes |
Q58579417 | Normalized Quantitative PCR Measurements as Predictors for Ethene Formation at Sites Impacted with Chlorinated Ethenes |
Q28706631 | Organic cofactors in the metabolism of Dehalococcoides mccartyi strains |
Q26765940 | Organohalide Respiring Bacteria and Reductive Dehalogenases: Key Tools in Organohalide Bioremediation |
Q47180233 | Organohalide respiration in pristine environments: implications for the natural halogen cycle |
Q26997313 | Overview of organohalide-respiring bacteria and a proposal for a classification system for reductive dehalogenases |
Q30558227 | Phylogenetic framework and molecular signatures for the class Chloroflexi and its different clades; proposal for division of the class Chloroflexia class. nov. [corrected] into the suborder Chloroflexineae subord. nov., consisting of the emended fam |
Q34076432 | Phylogenetic microarray analysis of a microbial community performing reductive dechlorination at a TCE-contaminated site |
Q47720025 | Reconstructed genomes of novel Dehalococcoides mccartyi strains from 1,2,3,4-tetrachlorodibenzo-p-dioxin-dechlorinating enrichment cultures reveal divergent reductive dehalogenase gene profiles |
Q40185618 | Regulation of reductive dehalogenase gene transcription in Dehalococcoides mccartyi |
Q30395667 | Role of "Dehalococcoides" spp. in the anaerobic transformation of hexachlorobenzene in European rivers |
Q42291118 | SAR202 Genomes from the Dark Ocean Predict Pathways for the Oxidation of Recalcitrant Dissolved Organic Matter |
Q35530697 | Selective utilization of exogenous amino acids by Dehalococcoides ethenogenes strain 195 and its effects on growth and dechlorination activity |
Q34071972 | Single cell genomic study of Dehalococcoidetes species from deep-sea sediments of the Peruvian Margin |
Q57085094 | Single-Cell Genomics Reveals a Diverse Metabolic Potential of Uncultivated -Related Deltaproteobacteria Widely Distributed in Marine Sediment |
Q36573697 | Sister Dehalobacter Genomes Reveal Specialization in Organohalide Respiration and Recent Strain Differentiation Likely Driven by Chlorinated Substrates |
Q33920363 | Site-specific mobilization of vinyl chloride respiration islands by a mechanism common in Dehalococcoides |
Q42014756 | Stable isotope peptide mass spectrometry to decipher amino acid metabolism in Dehalococcoides strain CBDB1. |
Q42369906 | The MarR-Type Regulator Rdh2R Regulates rdh Gene Transcription in Dehalococcoides mccartyi Strain CBDB1 |
Q37268230 | The corrinoid cofactor of reductive dehalogenases affects dechlorination rates and extents in organohalide-respiring Dehalococcoides mccartyi |
Q33736839 | The effect of co-substrate activation on indigenous and bioaugmented PCB dechlorinating bacterial communities in sediment microcosms. |
Q36156495 | The physiological opportunism of Desulfitobacterium hafniense strain TCE1 towards organohalide respiration with tetrachloroethene |
Q34332288 | The restricted metabolism of the obligate organohalide respiring bacterium Dehalobacter restrictus: lessons from tiered functional genomics |
Q34104656 | Transcriptional analysis of a Dehalococcoides-containing microbial consortium reveals prophage activation |
Q36361836 | Versatility in corrinoid salvaging and remodeling pathways supports corrinoid-dependent metabolism in Dehalococcoides mccartyi |