Origins of the 2,4-dinitrotoluene pathway.

Abstract:

:The degradation of synthetic compounds requires bacteria to recruit and adapt enzymes from pathways for naturally occurring compounds. Previous work defined the steps in 2,4-dinitrotoluene (2,4-DNT) metabolism through the ring fission reaction. The results presented here characterize subsequent steps in the pathway that yield the central metabolic intermediates pyruvate and propionyl coenzyme A (CoA). The genes encoding the degradative pathway were identified within a 27-kb region of DNA cloned from Burkholderia cepacia R34, a strain that grows using 2,4-DNT as a sole carbon, energy, and nitrogen source. Genes for the lower pathway in 2,4-DNT degradation were found downstream from dntD, the gene encoding the extradiol ring fission enzyme of the pathway. The region includes genes encoding a CoA-dependent methylmalonate semialdehyde dehydrogenase (dntE), a putative NADH-dependent dehydrogenase (ORF13), and a bifunctional isomerase/hydrolase (dntG). Results from analysis of the gene sequence, reverse transcriptase PCR, and enzyme assays indicated that dntD dntE ORF13 dntG composes an operon that encodes the lower pathway. Additional genes that were uncovered encode the 2,4-DNT dioxygenase (dntAaAbAcAd), methylnitrocatechol monooxygenase (dntB), a putative LysR-type transcriptional (ORF12) regulator, an intradiol ring cleavage enzyme (ORF3), a maleylacetate reductase (ORF10), a complete ABC transport complex (ORF5 to ORF8), a putative methyl-accepting chemoreceptor protein (ORF11), and remnants from two transposable elements. Some of the additional gene products might play as-yet-undefined roles in 2,4-DNT degradation; others appear to remain from recruitment of the neighboring genes. The presence of the transposon remnants and vestigial genes suggests that the pathway for 2,4-DNT degradation evolved relatively recently because the extraneous elements have not been eliminated from the region.

journal_name

J Bacteriol

journal_title

Journal of bacteriology

authors

Johnson GR,Jain RK,Spain JC

doi

10.1128/jb.184.15.4219-4232.2002

keywords:

subject

Has Abstract

pub_date

2002-08-01 00:00:00

pages

4219-32

issue

15

eissn

0021-9193

issn

1098-5530

journal_volume

184

pub_type

杂志文章
  • Inhibitory effect of heparin on herpes simplex virus.

    abstract::Nahmias, André J. (Boston University School of Medicine, Boston, Mass.), and Sidney Kibrick. Inhibitory effect of heparin on herpes simplex virus. J. Bacteriol. 87:1060-1066. 1964.-A substance inhibitory to herpes simplex virus was observed during experiments with leukocyte cultures. The component in the cultures resp...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.87.5.1060-1066.1964

    authors: Nahmias AJ,Kibrick S

    更新日期:1964-05-01 00:00:00

  • Construction of a modified penicillin-binding protein 2a from methicillin-resistant Staphylococcus aureus and purification by immobilized metal affinity chromatography.

    abstract::The mecA-27r gene, which encodes PBP2a-27r, was modified by site-specific mutagenesis, resulting in replacement of the N-terminal membrane anchor with a short chelating peptide (CP-PBP2a-27r). CP-PBP2a-27r retained the same binding affinity for beta-lactam antibiotics as the wild-type enzyme. Approximately 95% pure CP...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.176.5.1539-1541.1994

    authors: Wu CY,Blaszczak LC,Smith MC,Skatrud PL

    更新日期:1994-03-01 00:00:00

  • Cloning, sequencing, and mapping of the bacterioferritin gene (bfr) of Escherichia coli K-12.

    abstract::The bacterioferritin (BFR) of Escherichia coli K-12 is an iron-storage hemoprotein, previously identified as cytochrome b1. The bacterioferritin gene (bfr) has been cloned, sequenced, and located in the E. coli linkage map. Initially a gene fusion encoding a BFR-lambda hybrid protein (Mr 21,000) was detected by immuno...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.171.7.3940-3947.1989

    authors: Andrews SC,Harrison PM,Guest JR

    更新日期:1989-07-01 00:00:00

  • Investigations of Dimethylglycine, Glycine Betaine, and Ectoine Uptake by a Betaine-Carnitine-Choline Transporter Family Transporter with Diverse Substrate Specificity in Vibrio Species.

    abstract::Fluctuations in osmolarity are one of the most prevalent stresses to which bacteria must adapt, both hypo- and hyperosmotic conditions. Most bacteria cope with high osmolarity by accumulating compatible solutes (osmolytes) in the cytoplasm to maintain the turgor pressure of the cell. Vibrio parahaemolyticus, a halophi...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.00314-20

    authors: Gregory GJ,Dutta A,Parashar V,Boyd EF

    更新日期:2020-11-19 00:00:00

  • The cyclic nucleotide monophosphate domain of Xanthomonas campestris global regulator Clp defines a new class of cyclic di-GMP effectors.

    abstract::The widely conserved second messenger cyclic diguanosine monophosphate (c-di-GMP) plays a key role in quorum-sensing (QS)-dependent production of virulence factors in Xanthomonas campestris pv. campestris. The detection of QS diffusible signal factor (DSF) by the sensor RpfC leads to the activation of response regulat...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.01253-09

    authors: Tao F,He YW,Wu DH,Swarup S,Zhang LH

    更新日期:2010-02-01 00:00:00

  • Expression of glycosidase activities during germination of Dictyostelium discoideum spores.

    abstract::Several lysosomal glycosidase activities were examined in vitro during heat-induced germination of Dictyostelium discoideum spores and were found not to be coordinately controlled. The level of beta-glucosidase activity increased significantly during the emergence stage of germination. Both alpha-glucosidase and N-ace...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.141.2.436-442.1980

    authors: Tisa LS,Cotter DA

    更新日期:1980-02-01 00:00:00

  • Cloning of Escherichia coli and Pseudomonas aeruginosa phosphomannose isomerase genes and their expression in alginate-negative mutants of Pseudomonas aeruginosa.

    abstract::The phosphomannose isomerase (pmi) gene of Escherichia coli was cloned on a broad-host-range cosmid vector and expressed in Pseudomonas aeruginosa at a low level. Plasmid pAD3, which harbors the E. coli pmi gene, contains a 6.2-kilobase-pair HindIII fragment derived from the chromosome of E. coli. Subcloning produced ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.161.1.249-257.1985

    authors: Darzins A,Nixon LL,Vanags RI,Chakrabarty AM

    更新日期:1985-01-01 00:00:00

  • Mfd is required for rapid recovery of transcription following UV-induced DNA damage but not oxidative DNA damage in Escherichia coli.

    abstract::Transcription-coupled repair (TCR) is a cellular process by which some forms of DNA damage are repaired more rapidly from transcribed strands of active genes than from nontranscribed strands or the overall genome. In humans, the TCR coupling factor, CSB, plays a critical role in restoring transcription following both ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.06725-11

    authors: Schalow BJ,Courcelle CT,Courcelle J

    更新日期:2012-05-01 00:00:00

  • Identification of YidC residues that define interactions with the Sec Apparatus.

    abstract::In bacteria, a subset of membrane proteins insert into the membrane via the Sec apparatus with the assistance of the widely conserved essential membrane protein insertase YidC. After threading into the SecYEG translocon, transmembrane segments of nascent proteins are thought to exit the translocon via a lateral gate i...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.01095-13

    authors: Li Z,Boyd D,Reindl M,Goldberg MB

    更新日期:2014-01-01 00:00:00

  • Genome sequences of Listeria monocytogenes strains J1816 and J1-220, associated with human outbreaks.

    abstract::Listeria monocytogenes has caused numerous human outbreaks. Here we report draft genomes of L. monocytogenes J1816 and J1-220, which belong to epidemic clones II and IV, respectively. Whole-genome sequence analysis of these strains provides a tool for studying the short-term evolution of these epidemic clones. ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.05048-11

    authors: Chen Y,Strain EA,Allard M,Brown EW

    更新日期:2011-07-01 00:00:00

  • Electron micrography study of the asci and ascospores of Metschnikowia Kamienski.

    abstract::Internal and surface structures of asci and ascospores were studied by transmission electron microscopy (TEM) and by scanning electron microscopy (SEM) to establish the character and number of ascospores within the ascus of Metschnikowia krissii. Enzyme digestion with snail gut enzymes and SEM examination suggested th...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.115.1.316-322.1973

    authors: Talens LT,Miller MW,Miranda M

    更新日期:1973-07-01 00:00:00

  • Analysis for antigenic similarities among the 30S ribosomal proteins of Escherichia coli.

    abstract::Antiserum was made against a single 30S protein, 30S-7. The amount of complement fixed by total 30S protein in the presence of this antiserum indicated that protein 30S-7 was the major antigen in the mixture of proteins. Each of the 30S ribosomal proteins was tested for cross-reactivity with anti-30S-7. This was done ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.108.2.910-915.1971

    authors: Strnad BC,Sypherd PS

    更新日期:1971-11-01 00:00:00

  • InvB is a type III secretion-associated chaperone for the Salmonella enterica effector protein SopE.

    abstract::SopE is a bacteriophage-encoded effector protein of Salmonella enterica serovar Typhimurium that is translocated into the cytosol of eukaryotic cells by a type III secretion system (TTSS) (W.-D. Hardt, H. Urlaub, and J. E. Galán, Proc. Natl. Acad. Sci. USA 95:2574-2579, 1998; M. W. Wood, R. Rosqvist, P. B. Mullan, M. ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.185.24.7279-7284.2003

    authors: Lee SH,Galán JE

    更新日期:2003-12-01 00:00:00

  • In vivo production of active nickel superoxide dismutase from Prochlorococcus marinus MIT9313 is dependent on its cognate peptidase.

    abstract::Metal-dependent superoxide dismutases (SODs) with a specific requirement for a manganese or iron ion for catalytic activity and copper- and zinc-dependent enzymes are essential for detoxification of superoxide anion radicals. Genome sequence analyses predict the existence of a nickel-dependent enzyme (NiSOD) as the un...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.186.22.7821-7825.2004

    authors: Eitinger T

    更新日期:2004-11-01 00:00:00

  • cse15, cse60, and csk22 are new members of mother-cell-specific sporulation regulons in Bacillus subtilis.

    abstract::We report on the characterization of three new transcription units expressed during sporulation in Bacillus subtilis. Two of the units, cse15 and cse60, were mapped at about 123 degrees and 62 degrees on the genetic map, respectively. Their transcription commenced around h 2 of sporulation and showed an absolute requi...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.179.2.389-398.1997

    authors: Henriques AO,Bryan EM,Beall BW,Moran CP Jr

    更新日期:1997-01-01 00:00:00

  • Proposal to designate strain ATCC 3004 (IMRU 3004) as the neotype strain of Streptomyces albus (Rossi-Doria) Waksman and Henrici.

    abstract::Lyons, A. J., Jr. (Northern Regional Research Laboratory, Peoria, Ill.) and T. G. Pridham. Proposal to designate strain ATCC 3004 (IMRU 3004) as the neotype strain of Streptomyces albus (Rossi-Doria) Waksman and Henrici. J. Bacteriol. 83:370-380. 1962.-It is proposed that strain ATCC 3004 (IMRU 3004) be designated hen...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.83.2.370-380.1962

    authors: LYONS AJ Jr,PRIDHAM TG

    更新日期:1962-02-01 00:00:00

  • Reactivative action of ethylenediaminetetraacetic acid or dipicolinic acid on inactive glucose dehydrogenase obtained from heated spores of Bacillus subtilis.

    abstract::Partially purified inactive glucose dehydrogenase obtained from spores which were heated at 87 or 90 C for 30 min is converted to an active from by the addition of ethylenediaminetetraacetic acid, dipicolinic acid, or some salts. The molecular weight of the inactive glucose dehydrogenase in the heated spores is about ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.107.2.442-447.1971

    authors: Hachisuka Y,Tochikubo K

    更新日期:1971-08-01 00:00:00

  • Intraperiplasmic growth of Bdellovibrio bacteriovorus 109J: N-deacetylation of Escherichia coli peptidoglycan amino sugars.

    abstract::During intraperiplasmic growth of Bdellovibrio bacteriovorus on Escherichia coli, the substrate cell peptidoglycan is extensively modified as it is converted to bdelloplast peptidoglycan. The initially lysozyme-sensitive peptidoglycan of E. coli was rapidly converted to a lysozyme-resistant form. The conversion was du...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.135.3.1008-1014.1978

    authors: Thomashow MF,Rittenberg SC

    更新日期:1978-09-01 00:00:00

  • Evidence that TET protein functions as a multimer in the inner membrane of Escherichia coli.

    abstract::The inner membrane TET (TetA) protein, which is involved in Tn10-mediated microbial tetracycline resistance, consists of two domains, alpha and beta, both of which are needed for tetracycline resistance and efflux (M.S. Curiale, L.M. McMurry, and S.B. Levy, J. Bacteriol. 157:211-217, 1984). Since tetracycline-sensitiv...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.170.4.1715-1720.1988

    authors: Hickman RK,Levy SB

    更新日期:1988-04-01 00:00:00

  • Specificity and biological distribution of coenzyme M (2-mercaptoethanesulfonic acid).

    abstract::The specificity of the growth requirement of Methanobacterium ruminantium strain M1 for a new coenzyme, 2-mercaptoethanesulfonic acid (HS--CoM), was examined. A variety of derivatives, analogs, and potential biosynthetic precursors of coenzyme M were tested; only a restricted range of thioether, thioester, and thiocar...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.137.1.256-263.1979

    authors: Balch WE,Wolfe RS

    更新日期:1979-01-01 00:00:00

  • Glucose catabolism in two derivatives of a Rhizobium japonicum strain differing in nitrogen-fixing efficiency.

    abstract::Radiorespirometric and enzymatic analyses reveal that glucose-grown cells of Rhizobium japonicum isolates I-110 and L1-110, both derivatives of R. japonicum strain 3I1b110, possess an active tricarboxylic acid cycle and metabolize glucose by simultaneous operation of the Embden-Meyerhof-Parnas and Entner-Doudoroff pat...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.131.1.179-187.1977

    authors: Mulongoy K,Elkan GH

    更新日期:1977-07-01 00:00:00

  • Differential regulation of multiple flagellins in Vibrio cholerae.

    abstract::Vibrio cholerae, the causative agent of the human diarrheal disease cholera, is a motile bacterium with a single polar flagellum. Motility has been implicated as a virulence determinant in some animal models of cholera, but the relationship between motility and virulence has not yet been clearly defined. We have begun...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.180.2.303-316.1998

    authors: Klose KE,Mekalanos JJ

    更新日期:1998-01-01 00:00:00

  • Propagation and growth cycle of Rickettsia quintana in a new liquid medium.

    abstract::The growth cycle of Rickettsia quintana was studied for the first time in liquid culture. Growth of the microorganism in a transparent broth medium was made possible by the finding that fetal calf serum (FCS), but not calf serum (CS), satisfied the requirement of R. quintana (Fuller strain) for red blood cell lysate. ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.103.1.184-190.1970

    authors: Mason RA

    更新日期:1970-07-01 00:00:00

  • Mutant analysis reveals a specific requirement for protein P30 in Mycoplasma pneumoniae gliding motility.

    abstract::The cell-wall-less prokaryote Mycoplasma pneumoniae, long considered among the smallest and simplest cells capable of self-replication, has a distinct cellular polarity characterized by the presence of a differentiated terminal organelle which functions in adherence to human respiratory epithelium, gliding motility, a...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.187.18.6281-6289.2005

    authors: Hasselbring BM,Jordan JL,Krause DC

    更新日期:2005-09-01 00:00:00

  • Escherichia coli alkaline phosphatase fails to acquire disulfide bonds when retained in the cytoplasm.

    abstract::The cysteines of the Escherichia coli periplasmic enzyme alkaline phosphatase, which are involved in disulfide bonds in the native enzyme, were found to be fully reduced when the protein was retained in the cytoplasm. Under these circumstances the cysteines remained reduced for at least several minutes after the synth...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.173.23.7719-7722.1991

    authors: Derman AI,Beckwith J

    更新日期:1991-12-01 00:00:00

  • Polypeptide involved in the Escherichia coli plasmid-mediated citrate transport system.

    abstract::A genetic determinant conferring on Escherichia coli the ability to utilize citrate as a sole source of carbon and energy was subcloned into pBR322 from a naturally occurring, citrate utilization (Cit+) plasmid, pOH30221, and was localized to a 1.6-kilobase region by cloning and subsequent deletion analysis. Genetic e...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.160.1.421-426.1984

    authors: Hirato T,Shinagawa M,Ishiguro N,Sato G

    更新日期:1984-10-01 00:00:00

  • Under Elevated c-di-GMP in Escherichia coli, YcgR Alters Flagellar Motor Bias and Speed Sequentially, with Additional Negative Control of the Flagellar Regulon via the Adaptor Protein RssB.

    abstract::In Escherichia coli and Salmonella, the c-di-GMP effector YcgR inhibits flagellar motility by interacting directly with the motor to alter both its bias and speed. Here, we demonstrate that in both of these bacteria, YcgR acts sequentially, altering motor bias first and then decreasing motor speed. We show that when c...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.00578-19

    authors: Nieto V,Partridge JD,Severin GB,Lai RZ,Waters CM,Parkinson JS,Harshey RM

    更新日期:2019-12-06 00:00:00

  • Isolation and expansion of the catabolic potential of a Pseudomonas putida strain able to grow in the presence of high concentrations of aromatic hydrocarbons.

    abstract::Pseudomonas putida DOT-T1 was isolated after enrichment on minimal medium with 1% (vol/vol) toluene as the sole C source. The strain was able to grow in the presence of 90% (vol/vol) toluene and was tolerant to organic solvents whose log P(ow) (octanol/water partition coefficient) was higher than 2.3. Solvent toleranc...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.177.14.3911-3916.1995

    authors: Ramos JL,Duque E,Huertas MJ,Haïdour A

    更新日期:1995-07-01 00:00:00

  • Presence of a novel phosphopentomutase and a 2-deoxyribose 5-phosphate aldolase reveals a metabolic link between pentoses and central carbon metabolism in the hyperthermophilic archaeon Thermococcus kodakaraensis.

    abstract::Numerous bacteria and mammalian cells harbor two enzymes, phosphopentomutase (PPM) and 2-deoxyribose 5-phosphate aldolase (DERA), involved in the interconversion between nucleosides and central carbon metabolism. In this study, we have examined the presence of this metabolic link in the hyperthermophilic archaeon, The...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.186.13.4185-4191.2004

    authors: Rashid N,Imanaka H,Fukui T,Atomi H,Imanaka T

    更新日期:2004-07-01 00:00:00

  • The Vibrio cholerae flagellar regulatory hierarchy controls expression of virulence factors.

    abstract::Vibrio cholerae is a motile bacterium responsible for the disease cholera, and motility has been hypothesized to be inversely regulated with virulence. We examined the transcription profiles of V. cholerae strains containing mutations in flagellar regulatory genes (rpoN, flrA, flrC, and fliA) by utilizing whole-genome...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.00949-09

    authors: Syed KA,Beyhan S,Correa N,Queen J,Liu J,Peng F,Satchell KJ,Yildiz F,Klose KE

    更新日期:2009-11-01 00:00:00