Recombination of synthetic oligonucleotides with prokaryotic chromosomes: substrate requirements of the Escherichia coli/lambdaRed and Sulfolobus acidocaldarius recombination systems.

Abstract:

:In order to reveal functional properties of recombination involving short ssDNAs in hyperthermophilic archaea, we evaluated oligonucleotide-mediated transformation (OMT) in Sulfolobus acidocaldarius and Escherichia coli as a function of the molecular properties of the ssDNA substrates. Unmodified ssDNAs as short as 20-22 nt yielded recombinants in both organisms, as did longer DNAs forming as few as 2-5 base pairs on one side of the genomic mutation. The two OMT systems showed similar responses to certain end modifications of the oligonucleotides, but E. coli was found to require a 5' phosphate on 5'-limited ssDNA whereas this requirement was not evident in S. acidocaldarius. The ability of both E. coli and S. acidocaldarius to incorporate short, mismatched ssDNAs into their genomes raises questions about the biological significance of this capability, including its phylogenetic distribution among microorganisms and its impact on genome stability. These questions seem particularly relevant for S. acidocaldarius, as this archaeon has natural competence for OMT, encodes no MutSL homologues and thrives under environmental conditions that accelerate DNA decomposition.

journal_name

Mol Microbiol

journal_title

Molecular microbiology

authors

Grogan DW,Stengel KR

doi

10.1111/j.1365-2958.2008.06356.x

subject

Has Abstract

pub_date

2008-09-01 00:00:00

pages

1255-65

issue

5

eissn

0950-382X

issn

1365-2958

pii

MMI6356

journal_volume

69

pub_type

杂志文章
  • Chromosomal constraints in Gram-positive bacteria revealed by artificial inversions.

    abstract::We used artificial chromosome inversions to investigate the chromosomal constraints that preserve genome organization in the Gram-positive bacterium Lactococcus lactis. Large inversions, 80-1260 kb in length, disturbing the symmetry of the origin and terminus of the replication axis to various extents, were constructe...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1046/j.1365-2958.2003.03847.x

    authors: Campo N,Dias MJ,Daveran-Mingot ML,Ritzenthaler P,Le Bourgeois P

    更新日期:2004-01-01 00:00:00

  • 5'-Adenosinephosphosulphate reductase (CysH) protects Mycobacterium tuberculosis against free radicals during chronic infection phase in mice.

    abstract::A major obstacle to tuberculosis (TB) control is the problem of chronic TB infection (CTBI). Here we report that 5'-adenosinephosphosulphate reductase (CysH), an enzyme essential for the production of reduced-sulphur-containing metabolites, is critical for Mycobacterium tuberculosis (Mtb) survival in chronic infection...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2958.2006.05075.x

    authors: Senaratne RH,De Silva AD,Williams SJ,Mougous JD,Reader JR,Zhang T,Chan S,Sidders B,Lee DH,Chan J,Bertozzi CR,Riley LW

    更新日期:2006-03-01 00:00:00

  • FliL is essential for swarming: motor rotation in absence of FliL fractures the flagellar rod in swarmer cells of Salmonella enterica.

    abstract::fliL is the first gene in a flagellar operon that specifies members of the switch complex and type III export system in Salmonella enterica and Escherichia coli, but no function has been ascribed to this gene thus far. Here we report that a fliL mutant is slightly impaired for swimming but completely defective in swar...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2958.2008.06170.x

    authors: Attmannspacher U,Scharf BE,Harshey RM

    更新日期:2008-04-01 00:00:00

  • A well-conserved Plasmodium falciparum var gene shows an unusual stage-specific transcript pattern.

    abstract::The var multicopy gene family encodes Plasmodium falciparum erythrocyte membrane protein 1 (PfEMP1) variant antigens, which, through their ability to adhere to a variety of host receptors, are thought to be important virulence factors. The predominant expression of a single cytoadherent PfEMP1 type on an infected red ...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1046/j.1365-2958.2003.03505.x

    authors: Kyes SA,Christodoulou Z,Raza A,Horrocks P,Pinches R,Rowe JA,Newbold CI

    更新日期:2003-06-01 00:00:00

  • A dual role of the transcriptional regulator TstR provides insights into cyanide detoxification in Lactobacillus brevis.

    abstract::In this study we uncover two genes in Lactobacillus brevis ATCC 367, tstT and tstR, encoding for a rhodanese and a transcriptional regulator involved in cyanide detoxification. TstT (LVIS_0852) belongs to a new class of thiosulphate:cyanide sulphurtransferases. We found that TstR (LVIS_0853) modulates both the express...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/mmi.12598

    authors: Pagliai FA,Murdoch CC,Brown SM,Gonzalez CF,Lorca GL

    更新日期:2014-05-01 00:00:00

  • An alternative pathway for reduced folate biosynthesis in bacteria and halophilic archaea.

    abstract::Whereas tetrahydrofolate is an essential cofactor in all bacteria, the gene that encodes the enzyme dihydrofolate reductase (DHFR) could not be identified in many of the bacteria whose genomes have been entirely sequenced. In this communication we show that the halophilic archaea Halobacterium salinarum and Haloarcula...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2958.2004.04339.x

    authors: Levin I,Giladi M,Altman-Price N,Ortenberg R,Mevarech M

    更新日期:2004-12-01 00:00:00

  • A network of net-workers: report of the Euresco conference on 'Bacterial Neural Networks' held at San Feliu (Spain) from 8 to 14 May 2004.

    abstract::In May 2004, over 100 bacteriologists from 19 different countries discussed recent progress in identification and understanding of individual signal transfer mechanisms in bacteria and in the mutual interactions between these systems to form a functional living cell. The meeting was held in San Feliu and supported by ...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2958.2004.04321.x

    authors: Hellingwerf KJ

    更新日期:2004-10-01 00:00:00

  • Retrotransposition strategies of the Lactococcus lactis Ll.LtrB group II intron are dictated by host identity and cellular environment.

    abstract::Group II introns are mobile retroelements that invade their cognate intron-minus gene in a process known as retrohoming. They can also retrotranspose to ectopic sites at low frequency. Previous studies of the Lactococcus lactis intron Ll.LtrB indicated that in its native host, as in Escherichia coli, retrohoming occur...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2958.2005.04554.x

    authors: Coros CJ,Landthaler M,Piazza CL,Beauregard A,Esposito D,Perutka J,Lambowitz AM,Belfort M

    更新日期:2005-04-01 00:00:00

  • Listeria monocytogenes virulence proteins induce surface expression of Fas ligand on T lymphocytes.

    abstract::Virulence factors secreted by Listeria monocytogenes are known to interfere with host cellular signalling pathways. We investigated whether L. monocytogenes modulates T-cell receptor signalling by examining surface expression of proteins known to be upregulated on activated T cells. In vitro culture of murine splenocy...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2958.2003.03931.x

    authors: Zenewicz LA,Skinner JA,Goldfine H,Shen H

    更新日期:2004-03-01 00:00:00

  • Direct observation of speed fluctuations of flagellar motor rotation at extremely low load close to zero.

    abstract::The bacterial flagellar motor accommodates ten stator units around the rotor to produce large torque at high load. But when external load is low, some previous studies showed that a single stator unit can spin the rotor at the maximum speed, suggesting that the maximum speed does not depend on the number of active sta...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/mmi.14440

    authors: Nakamura S,Hanaizumi Y,Morimoto YV,Inoue Y,Erhardt M,Minamino T,Namba K

    更新日期:2020-04-01 00:00:00

  • A magnesium-dependent mreB null mutant: implications for the role of mreB in Bacillus subtilis.

    abstract::MreB shares a common prokaryotic ancestor with actin and is present in almost all rod-shaped bacteria. MreB proteins have been implicated in a range of important cell processes, including cell morphogenesis, chromosome segregation and cell polarity. The mreB gene frequently lies at the beginning of a cluster of genes,...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2958.2005.04506.x

    authors: Formstone A,Errington J

    更新日期:2005-03-01 00:00:00

  • A membrane-bound FtsH protease is involved in osmoregulation in Synechocystis sp. PCC 6803: the compatible solute synthesizing enzyme GgpS is one of the targets for proteolysis.

    abstract::Protein quality control and proteolysis are involved in cell maintenance and environmental acclimatization in bacteria and eukaryotes. The AAA protease FtsH2 of the cyanobacterium Synechocystis sp. PCC 6803 was identified during a screening for mutants impaired in osmoregulation. The ftsH2(-) mutant was salt sensitive...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2958.2006.05495.x

    authors: Stirnberg M,Fulda S,Huckauf J,Hagemann M,Krämer R,Marin K

    更新日期:2007-01-01 00:00:00

  • PilO of Pseudomonas aeruginosa 1244: subcellular location and domain assignment.

    abstract::PilO of Pseudomonas aeruginosa 1244 catalyses the attachment of an O-antigen repeating unit to the beta-carbon of the pilin C-terminal residue, a serine. The present study was conducted to locate the regions of this enzyme important in catalysis and to establish the cellular location of the pilin glycosylation reactio...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2958.2007.06001.x

    authors: Qutyan M,Paliotti M,Castric P

    更新日期:2007-12-01 00:00:00

  • Genome-wide identification of target genes of a mating-type α-domain transcription factor reveals functions beyond sexual development.

    abstract::Penicillium chrysogenum is the main industrial producer of the β-lactam antibiotic penicillin, the most commonly used drug in the treatment of bacterial infections. Recently, a functional MAT1-1 locus encoding the α-box transcription factor MAT1-1-1 was discovered to control sexual development in P. chrysogenum. As on...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/mmi.12987

    authors: Becker K,Beer C,Freitag M,Kück U

    更新日期:2015-06-01 00:00:00

  • Alkaline shock induces the Bacillus subtilis sigma(W) regulon.

    abstract::When confronted with a stress factor, bacteria react with a specific stress response, a genetically encoded programme resulting in the transiently enhanced expression of a subset of genes. One of these stress factors is a sudden increase in the external pH. As a first step to understand the response of Bacillus subtil...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1046/j.1365-2958.2001.02489.x

    authors: Wiegert T,Homuth G,Versteeg S,Schumann W

    更新日期:2001-07-01 00:00:00

  • Pili with strong attachments: Gram-positive bacteria do it differently.

    abstract::Bacteria attach to their appropriate environmental niche by using adhesins. To maximize their contact with the environment, adhesins are often present on the ends of long hairlike structures called pili. Recently, attention has focused on pili of Gram-positive bacteria because they may be vaccine candidates in importa...

    journal_title:Molecular microbiology

    pub_type: 杂志文章,评审

    doi:10.1111/j.1365-2958.2006.05279.x

    authors: Scott JR,Zähner D

    更新日期:2006-10-01 00:00:00

  • Recently differentiated epimastigotes from Trypanosoma cruzi are infective to the mammalian host.

    abstract::Trypanosoma cruzi, the etiologic agent of Chagas disease, has a complex life cycle in which four distinct developmental forms alternate between the insect vector and the mammalian host. It is assumed that replicating epimastigotes present in the insect gut are not infective to mammalian host, a paradigm corroborated b...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/mmi.13653

    authors: Kessler RL,Contreras VT,Marliére NP,Aparecida Guarneri A,Villamizar Silva LH,Mazzarotto GACA,Batista M,Soccol VT,Krieger MA,Probst CM

    更新日期:2017-06-01 00:00:00

  • Repression of tonB transcription during anaerobic growth requires Fur binding at the promoter and a second factor binding upstream.

    abstract::Although iron is an essential nutrient, its toxicity at high levels necessitates regulated transport. In Gram-negative bacteria a central target for regulation is the TonB protein, an energy transducer that couples the cytoplasmic membrane proton motive force to active transport of (FeIII)-siderophore complexes across...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2958.1994.tb00373.x

    authors: Young GM,Postle K

    更新日期:1994-03-01 00:00:00

  • The SoxRS response of Escherichia coli is directly activated by redox-cycling drugs rather than by superoxide.

    abstract::When Escherichia coli is exposed to redox-cycling drugs, its SoxR transcription factor is activated by oxidation of its [2Fe-2S] cluster. In aerobic cells these drugs generate superoxide, and because superoxide dismutase (SOD) is a member of the SoxRS regulon, superoxide was initially thought to be the activator of So...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2958.2010.07520.x

    authors: Gu M,Imlay JA

    更新日期:2011-03-01 00:00:00

  • Mapping of the msDNA operon in the chromosome of Escherichia coli B.

    abstract::An msDNA operon, consisting of genes for msDNA and a reverse transcriptase, is present in Escherichia coliB and absent from E. coliK12. We have found that the msDNA operon is located on a DNA fragment, longer than 15kb, that is absent from E. coliK12. Using conjugation, P1 transduction, and nucleic acid hybridization ...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2958.1990.tb00582.x

    authors: Lim D,Maas WK

    更新日期:1990-12-01 00:00:00

  • Expression of the Escherichia coli pcnB gene is translationally limited using an inefficient start codon: a second chromosomal example of translation initiated at AUU.

    abstract::Expression of the gene pcnB, encoding the dispensable Escherichia coli poly(A) polymerase (PAPI), which is toxic when overproduced, was investigated. Its promoter was identified and found to be moderately strong when used to express a beta-galactosidase reporter. Expression levels were not affected by increasing or de...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1046/j.1365-2958.2002.02945.x

    authors: Binns N,Masters M

    更新日期:2002-06-01 00:00:00

  • Characterization of the CheAS/CheZ complex: a specific interaction resulting in enhanced dephosphorylating activity on CheY-phosphate.

    abstract::The cheA gene encodes two overlapping polypeptides with a common carboxyl terminus: CheAL and CheAS. CheAL plays a central role in the Escherichia coli chemotaxis signalling pathway by autophosphorylation and transferring the phosphate to both CheY and CheB. On the other hand, the physiological functions of CheAS rema...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1046/j.1365-2958.1996.393934.x

    authors: Wang H,Matsumura P

    更新日期:1996-02-01 00:00:00

  • Nifs and Sufs in malaria.

    abstract::This review assembles data from three bodies of literature (bacterial genetics, plastid biogenesis and parasitology) that seldom have much direct cross-talk. After overcoming terminological complications to sort out microbial nifS from sufS genes, we connect a bacterial operon, recently found to be involved in iron me...

    journal_title:Molecular microbiology

    pub_type: 杂志文章,评审

    doi:10.1046/j.1365-2958.2001.02588.x

    authors: Ellis KE,Clough B,Saldanha JW,Wilson RJ

    更新日期:2001-09-01 00:00:00

  • Organization of supercoil domains and their reorganization by transcription.

    abstract::During a normal cell cycle, chromosomes are exposed to many biochemical reactions that require specific types of DNA movement. Separation forces move replicated chromosomes into separate sister cell compartments during cell division, and the contemporaneous acts of DNA replication, RNA transcription and cotranscriptio...

    journal_title:Molecular microbiology

    pub_type: 杂志文章,评审

    doi:10.1111/j.1365-2958.2005.04796.x

    authors: Deng S,Stein RA,Higgins NP

    更新日期:2005-09-01 00:00:00

  • PerC and GrlA independently regulate Ler expression in enteropathogenic Escherichia coli.

    abstract::Ler, encoded by the locus of enterocyte effacement (LEE) of attaching and effacing (A/E) pathogens, induces the expression of LEE genes by counteracting the silencing exerted by H-NS. Ler expression is modulated by several global regulators, and is activated by GrlA, which is also LEE-encoded. Typical enteropathogenic...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2958.2011.07819.x

    authors: Bustamante VH,Villalba MI,García-Angulo VA,Vázquez A,Martínez LC,Jiménez R,Puente JL

    更新日期:2011-10-01 00:00:00

  • Regulated proteolysis of a transcription factor complex is critical to cell cycle progression in Caulobacter crescentus.

    abstract::Cell cycle transitions are often triggered by the proteolysis of key regulatory proteins. In Caulobacter crescentus, the G1-S transition involves the degradation of an essential DNA-binding response regulator, CtrA, by the ClpXP protease. Here, we show that another critical cell cycle regulator, SciP, is also degraded...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/mmi.12166

    authors: Gora KG,Cantin A,Wohlever M,Joshi KK,Perchuk BS,Chien P,Laub MT

    更新日期:2013-03-01 00:00:00

  • RuvABC-dependent double-strand breaks in dnaBts mutants require recA.

    abstract::Replication fork arrest can cause DNA double-strand breaks (DSBs). These DSBs are caused by the action of the Holliday junction resolvase RuvABC, indicating that they are made by resolution of Holliday junctions formed at blocked forks. In this work, we study the homologous recombination functions required for RuvABC-...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1046/j.1365-2958.2000.02152.x

    authors: Seigneur M,Ehrlich SD,Michel B

    更新日期:2000-11-01 00:00:00

  • Expression of the Escherichia coli dam gene.

    abstract::The Escherichia coli dam gene and upstream sequences were cloned from the Kohara phage 4D4. Five promoters were found to contribute to dam gene transcription. P1 and P2 (the major promoter) were situated approximately 3.5 kb upstream of the structural gene, P3 was within the aroB gene, P4 was within the urf74.3 gene, ...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2958.1992.tb01356.x

    authors: Løbner-Olesen A,Boye E,Marinus MG

    更新日期:1992-07-01 00:00:00

  • Structural insights into the enzyme catalysis from comparison of three forms of dissimilatory sulphite reductase from Desulfovibrio gigas.

    abstract::The crystal structures of two active forms of dissimilatory sulphite reductase (Dsr) from Desulfovibrio gigas, Dsr-I and Dsr-II, are compared at 1.76 and 2.05 Å resolution respectively. The dimeric α2β2γ2 structure of Dsr-I contains eight [4Fe-4S] clusters, two saddle-shaped sirohaems and two flat sirohydrochlorins. I...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2958.2010.07390.x

    authors: Hsieh YC,Liu MY,Wang VC,Chiang YL,Liu EH,Wu WG,Chan SI,Chen CJ

    更新日期:2010-12-01 00:00:00

  • Tripartite efflux pumps: energy is required for dissociation, but not assembly or opening of the outer membrane channel of the pump.

    abstract::The MtrCDE multidrug pump, from Neisseria gonorrhoeae, is assembled from the inner and outer membrane proteins MtrD and MtrE, which are connected by the periplasmic membrane fusion protein MtrC. Although it is clear that MtrD delivers drugs to the channel of MtrE, it remains unclear how drug delivery and channel openi...

    journal_title:Molecular microbiology

    pub_type: 杂志文章

    doi:10.1111/mmi.12211

    authors: Janganan TK,Bavro VN,Zhang L,Borges-Walmsley MI,Walmsley AR

    更新日期:2013-05-01 00:00:00