Divergence among genes encoding the elongation factor Tu of Yersinia Species.

Abstract:

:Elongation factor Tu (EF-Tu), encoded by tuf genes, carries aminoacyl-tRNA to the ribosome during protein synthesis. Duplicated tuf genes (tufA and tufB), which are commonly found in enterobacterial species, usually coevolve via gene conversion and are very similar to one another. However, sequence analysis of tuf genes in our laboratory has revealed highly divergent copies in 72 strains spanning the genus Yersinia (representing 12 Yersinia species). The levels of intragenomic divergence between tufA and tufB sequences ranged from 8.3 to 16.2% for the genus Yersinia, which is significantly greater than the 0.0 to 3.6% divergence observed for other enterobacterial genera. We further explored tuf gene evolution in Yersinia and other Enterobacteriaceae by performing directed sequencing and phylogenetic analyses. Phylogenetic trees constructed using concatenated tufA and tufB sequences revealed a monophyletic genus Yersinia in the family Enterobacteriaceae. Moreover, Yersinia strains form clades within the genus that mostly correlate with their phenotypic and genetic classifications. These genetic analyses revealed an unusual divergence between Yersinia tufA and tufB sequences, a feature unique among sequenced Enterobacteriaceae and indicative of a genus-wide loss of gene conversion. Furthermore, they provided valuable phylogenetic information for possible reclassification and identification of Yersinia species.

journal_name

J Bacteriol

journal_title

Journal of bacteriology

authors

Isabel S,Leblanc E,Boissinot M,Boudreau DK,Grondin M,Picard FJ,Martel EA,Parham NJ,Chain PS,Bader DE,Mulvey MR,Bryden L,Roy PH,Ouellette M,Bergeron MG

doi

10.1128/JB.01067-08

subject

Has Abstract

pub_date

2008-11-01 00:00:00

pages

7548-58

issue

22

eissn

0021-9193

issn

1098-5530

pii

JB.01067-08

journal_volume

190

pub_type

杂志文章
  • Amplification of bacterial genomic DNA by the polymerase chain reaction and direct sequencing after asymmetric amplification: application to the study of periplasmic permeases.

    abstract::The polymerase chain reaction (PCR) has been used to amplify DNA fragments by using eucaryotic genomic DNA as a template. We show that bacterial genomic DNA can be used as a template for PCR amplification. We demonstrate that DNA fragments at least as large as 4,400 base pairs can be amplified with fidelity and that t...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.171.3.1602-1608.1989

    authors: Shyamala V,Ames GF

    更新日期:1989-03-01 00:00:00

  • Expression of primary sigma factor (PSF) and PSF-like sigma factors in the cyanobacterium Synechocystis sp. strain PCC 6803.

    abstract::Large amounts of sigA mRNA, encoding the primary sigma factor (PSF) in Synechocystis sp. strain PCC 6803, accumulated under standard growth conditions, while stress conditions like heat or high salinity led to a rapid decrease in sigA mRNA content. The sigB, sigC, sigD, and sigE genes, encoding PSF-like sigma factors,...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.185.3.1116-1119.2003

    authors: Tuominen I,Tyystjärvi E,Tyystjärvi T

    更新日期:2003-02-01 00:00:00

  • Nature of the complementation products formed by a complementing mutant of neurospora crassa.

    abstract::The mutant am-14 produces no active nicotinamide adenine dinucleotide phosphate-linked glutamate dehydrogenase (GDH) and no protein showing immunological cross-reaction with the enzyme. Nevertheless, it shows complementation with several other am mutants in heterokaryons. Active GDH can be extracted from heterokaryons...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.95.3.787-792.1968

    authors: Sundaram TK,Fincham JR

    更新日期:1968-03-01 00:00:00

  • Characterization of the replication region of plasmid pLS32 from the Natto strain of Bacillus subtilis.

    abstract::Plasmid pL32 from the Natto strain of Bacillus subtilis belongs to a group of low-copy-number plasmids in gram-positive bacteria that replicate via a theta mechanism of replication. We studied the DNA region encoding the replication protein, RepN, of pLS32, and obtained the following results. Transcription of the repN...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.187.13.4315-4326.2005

    authors: Tanaka T,Ishida H,Maehara T

    更新日期:2005-07-01 00:00:00

  • Genetic analysis of antibiotic resistance in Streptococcus pyogenes.

    abstract::The genetics of antibiotic resistance in mutant strains of Streptococcus pyrogenes was studied. Utilizing a type 6 strain (9440) primarily resistant to strepttomycin (Strr), classes of mutant strains were isolated that were resistant to one of the following antibiotics: rifampin (Rifr), erythromycin (Eryr), thiostrept...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.133.2.852-859.1978

    authors: Stuart JG,Ferretti JJ

    更新日期:1978-02-01 00:00:00

  • Organization and transcriptional regulation of the Escherichia coli K-12 D-serine tolerance locus.

    abstract::We have reinvestigated the genetic organization and the transcription regulation of the dsd operon of Escherichia coli. By combining genetic and biochemical studies, it is demonstrated that the regulatory region of the operon and the gene encoding the specific regulator of D-serine tolerance (dsdC) had been misplaced ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.177.22.6456-6461.1995

    authors: Nørregaard-Madsen M,McFall E,Valentin-Hansen P

    更新日期:1995-11-01 00:00:00

  • Isolation of the lipid intermediate in peptidoglycan biosynthesis from Escherichia coli.

    abstract::The lipid intermediate in peptidoglycan biosynthesis was isolated from Escherichia coli strain W and characterized as C(55)-isoprenyl-pyrophosphoryl N-acetylmuramyl(-pentapeptide)-N-acetyl-glucosamine. ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.112.3.1306-1309.1972

    authors: Umbreit JN,Strominger JL

    更新日期:1972-12-01 00:00:00

  • Clostridium perfringens spore germination: characterization of germinants and their receptors.

    abstract::Clostridium perfringens food poisoning is caused by type A isolates carrying a chromosomal enterotoxin (cpe) gene (C-cpe), while C. perfringens-associated non-food-borne gastrointestinal (GI) diseases are caused by isolates carrying a plasmid-borne cpe gene (P-cpe). C. perfringens spores are thought to be the importan...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.01748-07

    authors: Paredes-Sabja D,Torres JA,Setlow P,Sarker MR

    更新日期:2008-02-01 00:00:00

  • Mapping hisS, the structural gene for histidyl-transfer ribonucleic acid synthetase, in Escherichia coli.

    abstract::The structural gene for histidyl-tRNA synthetase was localized to 53.8 min on the Escherichia coli genome. The gene order in this region was determined to be dapE-purC-upp-purG-(guaA, guaB)-hisS-glyA. ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.138.1.264-267.1979

    authors: Parker J,Fishman SE

    更新日期:1979-04-01 00:00:00

  • Ultrastructural alterations associated with the growth of resistant Pseudomonas aeruginosa in the presence of benzalkonium chloride.

    abstract::Cells of Pseudomonas aeruginosa resistant to benzalkonium chloride (BC) underwent unique ultrastructural reorganizations when they were grown in the presence of 1 mg of BC/ml. The resistant cells usually contained a single, centrally positioned pseudovacuole. The pseudovacuole was surrounded by a diffuse substance tha...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.113.1.409-416.1973

    authors: Hoffmann HP,Geftic SG,Gelzer J,Heymann H,Adair FW

    更新日期:1973-01-01 00:00:00

  • Redox signal transduction by the ArcB sensor kinase of Haemophilus influenzae lacking the PAS domain.

    abstract::The Arc (anoxic redox control) two-component signal transduction system of Escherichia coli, which comprises the tripartite ArcB sensor kinase and the ArcA response regulator, modulates the expression of numerous operons in response to redox conditions of growth. We demonstrate that the arcA and arcB genes of Haemophi...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.183.24.7206-7212.2001

    authors: Georgellis D,Kwon O,Lin EC,Wong SM,Akerley BJ

    更新日期:2001-12-01 00:00:00

  • Mutations affecting expression and maintenance of genes encoding the serotype b capsule of Haemophilus influenzae.

    abstract::Deletion mutagenesis analysis of a duplicated gene necessary for Haemophilus influenzae serotype b capsule expression showed that only one functional copy of this gene is required for capsule production and for virulence in infant rats. Mutant strains generated in this study differed from each other and from the paren...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.167.1.44-48.1986

    authors: Ely S,Tippett J,Kroll JS,Moxon ER

    更新日期:1986-07-01 00:00:00

  • Properties and characteristics of a bacteriocin from Serratia marcescens.

    abstract::A strain of Serratia marcescens was found to produce a bacteriocin that inhibits the growth of certain Escherichia coli strains. This inhibition was bacteriocidal rather than bacteriostatic and was not caused by a bacteriophage. Whereas the bacteriocin was inactive on the 7 Serratia strains tested, it killed 11 of the...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.99.3.655-660.1969

    authors: Foulds JD,Shemin D

    更新日期:1969-09-01 00:00:00

  • The amino acid sequence of Lrp is highly conserved in four enteric microorganisms.

    abstract::Lrp (leucine-responsive regulatory protein) is a global regulator of metabolism in Escherichia coli (J. M. Calvo and R. G. Matthews, Microbiol. Rev. 58:466-490, 1994). The lrp genes from three other enteric microorganisms, Enterobacter aerogenes, Klebsiella aerogenes, and Salmonella typhimurium, were cloned and sequen...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.177.6.1624-1626.1995

    authors: Friedberg D,Platko JV,Tyler B,Calvo JM

    更新日期:1995-03-01 00:00:00

  • Quorum sensing negatively controls type III secretion regulon expression in Pseudomonas aeruginosa PAO1.

    abstract::A systematic analysis of the type III secretion (T3S) genes of Pseudomonas aeruginosa strain PAO1 revealed that they are under quorum-sensing control. This observation was supported by the down-regulation of the T3S regulon in the presence of RhlR-C4HSL and the corresponding advanced secretion of ExoS in a rhlI mutant...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.187.11.3898-3902.2005

    authors: Bleves S,Soscia C,Nogueira-Orlandi P,Lazdunski A,Filloux A

    更新日期:2005-06-01 00:00:00

  • Isolation of a metabolite capable of differentially supporting the growth of nicotinamide adenine dinucleotide auxotrophs of Escherichia coli.

    abstract::A compound, isolated from the culture fluid of a nadC auxotroph of Escherichia coli grown in a minimal medium, supports the growth of both a nadA and a nadB mutant. This metabolite exhibits an ultraviolet light absorption spectrum and a mass spectrum, different from quinolinic acid. This compound may be the precursor ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.121.1.212-218.1975

    authors: Chen JL,Tritz GJ

    更新日期:1975-01-01 00:00:00

  • Bacteriocin activity of Streptococcus pneumoniae is controlled by the serine protease HtrA via posttranscriptional regulation.

    abstract::The blp locus of a type 6A strain of Streptococcus pneumoniae encodes a two-peptide bacteriocin, pneumocin MN, which mediates intraspecies competition during mouse nasopharyngeal colonization. This locus is regulated by a quorum-sensing mechanism consisting of a dedicated two-component regulatory system and a peptide ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.01213-08

    authors: Dawid S,Sebert ME,Weiser JN

    更新日期:2009-03-01 00:00:00

  • Cell-free amino acid-incorporating system from Pseudomonas indigofera.

    abstract::Shiio, Tsuru (Washington State University, Pullman), and Bruce A. McFadden. Cell-free amino acid-incorporating system from Pseudomonas indigofera. J. Bacteriol. 90:978-983. 1965.-A cell-free preparation from Pseudomonas indigofera incorporated C(14)-phenylalanine and C(14)-leucine into a product which was insoluble in...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.90.4.978-983.1965

    authors: Shiio T,McFadden BA

    更新日期:1965-10-01 00:00:00

  • Amino acid compostion of walls from single and filamentous cells of Clostridium acidiurici.

    abstract::Gaffar, Abdul (Brigham Young University, Provo, Utah), David R. Terry, and Richard D. Sagers. Amino acid composition of walls from single and filamentous cells of Clostridium acidiurici. J. Bacteriol. 91:1618-1624. 1966.-The walls from single and filamentous cells of Clostridium acidiurici were shown to contain 11 ami...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.91.4.1618-1624.1966

    authors: Gaffar A,Terry DR,Sagers RD

    更新日期:1966-04-01 00:00:00

  • Genetic analysis of thymidine-resistant and low-thymine-requiring mutants of Escherichia coli K-12 induced by bacteriophage Mu-1.

    abstract::Four genes, dra, tpp, drm, and pup, that specify enzymes involved in the catabolism of nucleosides and deoxynucleosides in Escherichia coli are known to be very closely linked in the order dra-tpp-drm-pup. By infecting cells with the phage Mu-1 and isolating low-thymine-requiring derivatives of a strain lacking thymid...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.121.2.475-484.1975

    authors: Buxton RS

    更新日期:1975-02-01 00:00:00

  • Whole-genome sequence of Listeria welshimeri reveals common steps in genome reduction with Listeria innocua as compared to Listeria monocytogenes.

    abstract::We present the complete genome sequence of Listeria welshimeri, a nonpathogenic member of the genus Listeria. Listeria welshimeri harbors a circular chromosome of 2,814,130 bp with 2,780 open reading frames. Comparative genomic analysis of chromosomal regions between L. welshimeri, Listeria innocua, and Listeria monoc...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.00758-06

    authors: Hain T,Steinweg C,Kuenne CT,Billion A,Ghai R,Chatterjee SS,Domann E,Kärst U,Goesmann A,Bekel T,Bartels D,Kaiser O,Meyer F,Pühler A,Weisshaar B,Wehland J,Liang C,Dandekar T,Lampidis R,Kreft J,Goebel W,Chakraborty

    更新日期:2006-11-01 00:00:00

  • Metabolism of endogenous trehalose by Streptomyces griseus spores and by spores or cells of other actinomycetes.

    abstract::The disaccharide trehalose is accumulated as a storage product by spores of Streptomyces griseus. Nongerminating spores used their trehalose reserves slowly when incubated in buffer for several months. In contrast, spores rapidly depleted their trehalose pools during the first hours of germination. Extracts of dormant...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.169.11.5002-5007.1987

    authors: McBride MJ,Ensign JC

    更新日期:1987-11-01 00:00:00

  • A genetic mechanism for deletion of the ser2 gene cluster and formation of rough morphological variants of Mycobacterium avium.

    abstract::A major phenotypic trait of the Mycobacterium avium complex is the ability to produce rough and smooth colony variants. The chemical basis of this morphological variation is the loss of an antigenic surface structure, termed glycopeptidolipid (GPL), by rough variants. Using M. avium serovar 2 strain 2151 as a model sy...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.182.21.6177-6182.2000

    authors: Eckstein TM,Inamine JM,Lambert ML,Belisle JT

    更新日期:2000-11-01 00:00:00

  • A Dual-Species Biofilm with Emergent Mechanical and Protective Properties.

    abstract::Many microbes coexist within biofilms, or multispecies communities of cells encased in an extracellular matrix. However, little is known about the microbe-microbe interactions relevant for creating these structures. In this study, we explored a striking dual-species biofilm between Bacillus subtilis and Pantoea agglom...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.00670-18

    authors: Yannarell SM,Grandchamp GM,Chen SY,Daniels KE,Shank EA

    更新日期:2019-08-22 00:00:00

  • Genome sequence of Lactococcus garvieae 8831, isolated from rainbow trout lactococcosis outbreaks in Spain.

    abstract::Lactococcus garvieae is the etiological agent of lactococcosis, one of the most important disease threats to the sustainability of the rainbow trout farming industry. Here, we present the draft genome sequence of Lactococcus garvieae strain 8831, isolated from diseased rainbow trout, which is composed of 2,087,276 bp ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.05326-11

    authors: Aguado-Urda M,López-Campos GH,Gibello A,Cutuli MT,López-Alonso V,Fernández-Garayzábal JF,Blanco MM

    更新日期:2011-08-01 00:00:00

  • Evidence that TP_0144 of Treponema pallidum is a thiamine-binding protein.

    abstract::Thiamine pyrophosphate (TPP), the biologically active form of thiamine (also known as vitamin B1), is an essential cofactor for several important enzymes involved in carbohydrate metabolism, and therefore, it is required for all living organisms. We recently found that a thiamine-binding protein (TDE_0143) is essentia...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.02472-14

    authors: Bian J,Tu Y,Wang SM,Wang XY,Li C

    更新日期:2015-04-01 00:00:00

  • Functional identification of the product of the Bacillus subtilis yvaL gene as a SecG homologue.

    abstract::Protein export in Escherichia coli is mediated by translocase, a multisubunit membrane protein complex with SecA as the peripheral subunit and the SecY, SecE, and SecG proteins as the integral membrane domain. In the gram-positive bacterium Bacillus subtilis, SecA, SecY, and SecE have been identified through genetic a...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.181.6.1786-1792.1999

    authors: van Wely KH,Swaving J,Broekhuizen CP,Rose M,Quax WJ,Driessen AJ

    更新日期:1999-03-01 00:00:00

  • Genes responsible for the supervirulence phenotype of Agrobacterium tumefaciens A281.

    abstract::Agrobacterium tumefaciens A281 induces large, rapidly appearing tumors on a variety of plants and has a wider host range than other strains of A. tumefaciens. By using Tn3HoHo1 transposon mutagenesis and complementation analysis, a 2.5-kilobase DNA fragment which is responsible for the supervirulence phenotype was ide...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.169.10.4417-4425.1987

    authors: Jin SG,Komari T,Gordon MP,Nester EW

    更新日期:1987-10-01 00:00:00

  • Decreased chromate uptake in Pseudomonas fluorescens carrying a chromate resistance plasmid.

    abstract::CrO4(2-) resistance in Pseudomonas fluorescens LB300(pLHB1) was related to reduced uptake of CrO4(2-) relative to the plasmidless strain LB303. 51CrO4(2-) was transported mainly via the SO4(2-) active transport system; thus, cells grown with 0.15 mM cysteine, a repressor of the SO4(2-) transport system, were much more...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.169.8.3853-3856.1987

    authors: Ohtake H,Cervantes C,Silver S

    更新日期:1987-08-01 00:00:00

  • Estimation of gene expression in heterocysts of Anabaena variabilis by using DNA-RNA hybridization.

    abstract::In the filamentous cyanobacterium Anabaena variabilis, specialized cells called heterocysts occur in a regular pattern along the filament and are the sites of nitrogen fixation. We used two different types of DNA-excess RNA hybridization techniques to estimate the number of genes expressed in recently differentiated, ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.167.3.940-946.1986

    authors: Lynn ME,Bantle JA,Ownby JD

    更新日期:1986-09-01 00:00:00