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PubMed2003

Characterization of a ComE3 homologue essential for DNA transformation in Helicobacter pylori.

To find genes involved in natural competence in Helicobacter pylori, we used a bioinformatics database search and found two transformation-related open reading frames (ORFs): a comE3 homologue (HP1361 ORF) of Bacillus subtilis and a comL homologue (HP1378 ORF) of Neisseria gonorrhoeae. We failed to obtain an HP1378 ORF knockout mutant, while an HP1361 ORF knockout mutant was obtained by transposon shuttle mutagenesis. The DNA transformation abilities of both natural transformation and electroporation were severely impaired (frequency, <10(-9)) in the HP1361(-) mutant. Complementation with a pHel2 vector carrying the HP1361 ORF restored the capabilities of natural competence (to a frequency of 4.21 x 10(-7)) and electroporation (to 3.62 x 10(-7)). The HP1361(-) mutant showed impairment in DNA binding and uptake. The results suggest that HP1361 is a comE3 homologue and is required for DNA binding and uptake during DNA transformation.

Amino Acid Sequence↗
PubMed1994

Sequence of the rec-2 locus of Haemophilus influenzae: homologies to comE-ORF3 of Bacillus subtilis and msbA of Escherichia coli.

The nucleotide sequence of a 4243-bp PstI fragment containing the rec-2 gene of Haemophilus influenzae was determined. The amino acid (aa) sequences of four putative proteins were deduced from the corresponding open reading frames (ORFs). The 2400-bp ORF2 accounted for rec-2, based on the sequences of DNA fragments that contained rec-2::mini-Tn10 mutations. The rec-2 gene encoded a putative 800-aa protein with a M(r) of 90,561. Sequence analysis suggested that the rec-2 product contained nine highly probable integral membrane-spanning segments. Database searches showed that rec-2 was homologous to the comE-ORF3 gene of Bacillus subtilis. This hypothesis is consistent with the known involvement of both of these genes in the passage of transforming DNA through the competent-cell envelope. Although the sequences of the other three ORFs were incomplete, sufficient data were available to allow inferences about their homologies to other genes. ORF4, which overlapped ORF1, was homologous to the Escherichia coli dnaK suppressor gene, dksA, and therefore was named dsh-1 (dnaK suppressor homolog). Mutations in dsh-1 and its putative promoter region caused a mild sensitivity to UV light, but did not affect DNA recombination. ORF3, located downstream from rec-2, was homologous to msbA, an essential gene of E. coli with extensive similarity to the ATP-dependent translocators. ORF3 was named msh-1 (msbA homolog). Mutations in msh-1 had no effects on genetic transformation. The close juxtaposition of rec-2 and msh-1 implied that the expression of msh-1 could be linked to the translation of the rec-2 ORF.

ATP-Binding Cassette Transporters↗
PubMed2003

Molecular analysis of Phr peptide processing in Bacillus subtilis.

In Bacillus subtilis, an export-import pathway regulates production of the Phr pentapeptide inhibitors of Rap proteins. Processing of the Phr precursor proteins into the active pentapeptide form is a key event in the initiation of sporulation and competence development. The PhrA (ARNQT) and PhrE (SRNVT) peptides inhibit the RapA and RapE phosphatases, respectively, whose activity is directed toward the Spo0F approximately P intermediate response regulator of the sporulation phosphorelay. The PhrC (ERGMT) peptide inhibits the RapC protein acting on the ComA response regulator for competence with regard to DNA transformation. The structural organization of PhrA, PhrE, and PhrC suggested a role for type I signal peptidases in the processing of the Phr preinhibitor, encoded by the phr genes, into the proinhibitor form. The proinhibitor was then postulated to be cleaved to the active pentapeptide inhibitor by an additional enzyme. In this report, we provide evidence that Phr preinhibitor proteins are subject to only one processing event at the peptide bond on the amino-terminal end of the pentapeptide. This processing event is most likely independent of type I signal peptidase activity. In vivo and in vitro analyses indicate that none of the five signal peptidases of B. subtilis (SipS, SipT, SipU, SipV, and SipW) are indispensable for Phr processing. However, we show that SipV and SipT have a previously undescribed role in sporulation, competence, and cell growth.

Bacillus subtilis↗
PubMed1982

[Bacillus subtilis BSA 170 trp- ura-: a new nutritional mutant with absolute requirements for exogenous tryptophan and uracil for its growth].

A new Bacillus subtilis mutant was prepared, with a double nutritional requirement for uracil and tryptophan. The mutant, designed Bacillus subtilis BSA 170 trp- ura-, was constructed by transformation method, acting B. subtilis strain PB 168 trp- as recipient and B. subtilis strain PB 3308 ura- as transforming DNA donor cells. The BSA 170 trp- ura- strain was selected by replication of transformed population on nutritionally selective media. Competence development induction and genetic markers transformability were tested. The new mutant was competent by Young and Spizizen's methodology. Furthermore, both markers, uracil and tryptophan, may be transformed when B. subtilis BSA 170 trp- ura- competent cells are treated with transforming DNA isolated from B. subtilis PB 19, prototroph. Transformation frequency rate for each marker alone was far larger than that reached for both taken together.

Bacillus subtilis↗
PubMed1995

Ectopic integration of transforming DNA is rare among neurospora transformants selected for gene replacement.

In a variety of organisms, DNA-mediated transformation experiments commonly produce transformants with multiple copies of the transforming DNA, including both selected and unselected molecules. Such "cotransformants" are much more common than expected from the individual transformation frequencies, suggesting that subpopulations of cells, or nuclei, are particularly competent for transformation. We found that Neurospora crassa transformants selected for gene replacement at the am gene had not efficiently incorporated additional DNA, suggesting that nuclei that undergo transformation by homologous recombination are not highly competent at integration of DNA by illegitimate recombination. Spheroplasts were treated with DNA fragments homologous to am and with an Escherichia coli hph plasmid. Transformants were initially selected for hph (hygromycinR), allowed to conidiate to generate homokaryons and then selected for either Am- (gene replacements) or hph. Surprisingly, most am replacement strains were hygromycinS (124/140) and carried no extraneous DNA (116/140). Most transformants selected for hph also had ectopic copies of am DNA and/or multiple copies of hph sequences (32/35), generally at multiple sites, confirming that efficient cotransformation could occur. To test the implication that cotransformation involving gene replacement and ectopic integration is rare, we compared the yields of am replacement strains with or without prior selection for hph. The initial selection did not appreciably help (or hinder) recovery of strains with replacements.

Blotting, Southern↗
PubMed1981

Mutagenesis during transformation of Bacillus subtilis. II. An increase in chemically-induced mutations during competency.

During the development of competency in Bacillus subtilis there was an increased sensitivity to methyl methanesulfonate (MMS) treatments. The frequency of reverse mutation also increased among the MMS-revertible markers by a factor of 100 as compared to vegetative cultures. The frequency of 2-aminopurine(AP)-induced mutagenesis was the same in competent and noncompetent cultures. Studies with DNA-polymerase-deficient mutants showed a direct involvement of DNA polymerase I in promoting MMS and transformation-induced mutagenesis in competent cells.

2-Aminopurine↗
PubMed1989

DNA repair and the evolution of transformation in Bacillus subtilis. II. Role of inducible repair.

In Bacillus subtilis, DNA repair and recombination are intimately associated with competence, the physiological state in which the bacterium can bind, take up and recombine exogenous DNA. Previously, we have shown that the homologous DNA transformation rate (ratio of transformants to total cells) increases with increasing UV dosage if cells are transformed after exposure to UV radiation (UV-DNA), whereas the transformation rate decreases if cells are transformed before exposure to UV (DNA-UV). In this report, by using different DNA repair-deficient mutants, we show that the greater increase in transformation rate in UV-DNA experiments than in DNA-UV experiments does not depend upon excision repair or inducible SOS-like repair, although certain quantitative aspects of the response do depend upon these repair systems. We also show that there is no increase in the transformation rate in a UV-DNA experiment when repair and recombination proficient cells are transformed with nonhomologous plasmid DNA, although the results in a DNA-UV experiment are essentially unchanged by using plasmid DNA. We have used din operon fusions as a sensitive means of assaying for the expression of genes under the control of the SOS-like regulon in both competent and noncompetent cell subpopulations as a consequence of competence development and our subsequent experimental treatments. Results indicate that the SOS-like system is induced in both competent and noncompetent subpopulations in our treatments and so should not be a major factor in the differential response in transformation rate observed in UV-DNA and DNA-UV treatments. These results provide further support to the hypothesis that the evolutionary function of competence is to bring DNA into the cell for use as template in the repair of DNA damage.

Bacillus subtilis↗
PubMed2001

The Drosophila maternal gene sésame is required for sperm chromatin remodeling at fertilization.

The spermatozoon features an extremely condensed and inactive nucleus. The unique sperm chromatin organization is acquired during the late stages of spermatid differentiation by the replacement of somatic histones with sperm-specific chromosomal proteins. At fertilization, the inactive sperm nucleus must be rapidly transformed into a DNA replication competent male pronucleus before the formation of the zygote. The sequential events of this crucial process are well conserved among animals and are controlled by molecules present in the egg. We have previously identified a Drosophila maternal effect mutation called sésame, which specifically arrests male pronucleus formation at a late stage of chromatin decondensation. In this study, we show that sésame affects maternal histone incorporation in the male pronucleus, a situation that is expected to prevent nucleosomal organization of the paternal chromatin. As an apparent consequence, the male pronucleus is arrested before the first S-phase and does not condense mitotic chromosomes. However, centromeric heterochromatin is present on paternal centromeres, which occasionally interact with microtubules. The abnormal chromatin organization of the male pronucleus does not prevent the formation of a male pronuclear envelope, which breaks down and reassembles in synchrony with maternally derived nuclei present in the same cytoplasm.

Animals↗
PubMed2000

Characteristics of Helicobacter pylori natural transformation.

For Helicobacter pylori, which exhibits substantial genetic diversity, many strains are naturally competent for transformation by exogenous DNA. To better understand the mechanism of natural transformation and its role in the generation of diversity, we sought to systematically identify factors important for natural transformation in H. pylori. We now show that the highest frequency of H. pylori transformation occurs when DNA is introduced prior to exponential phase growth, and that it is a saturable phenomenon. That transformation can be inhibited by DNA from Helicobacter (H. pylori and Helicobacter bilis) but not Escherichia coli suggests specificity based on DNA source. Finally, the cag island was determined to be unnecessary for high-frequency transformation.

Chromosomes, Bacterial↗
PubMed1999

The genes degQ, pps, and lpa-8 (sfp) are responsible for conversion of Bacillus subtilis 168 to plipastatin production.

Bacillus subtilis YB8 produces the lipopeptide antibiotic plipastatin. B. subtilis MI113, which is a derivative of strain 168, was converted into a new plipastatin producer, strain 406, by competence transformation with the chromosomal DNA of YB8. Transposon mini-Tn10 insertional mutagenesis was applied to strain 406, which revealed that lpa-8 (sfp) (encoding 4'-phosphopantetheinyl transferase) and the pps operon (located between 167 and 171 degrees ) are essential for plipastatin production. The pps operon was previously suggested to encode putative peptide synthetases (A. Tognoni, E. Franchi, C. Magistrelli, E. Colombo, P. Cosmina, and G. Grandi, Microbiology 141:645-648, 1995) and was thought to be the fengycin operon (V. Tosato, A. M. Albertini, M. Zotti, S. Sonda, and C. V. Bruschi, Microbiology 143:3443-3450, 1997). We claim that the pps operon is the pli operon, encoding plipastatin synthetase. By using a new high-performance liquid chromatography system, we revealed that strain 168 expressing only lpa-8 can also produce plipastatin, although the yield is very low. However, the introduction of the pleiotropic regulator degQ of strain YB8 into strain 168 expressing lpa-8 resulted in a 10-fold increase in the production of plipastatin.

Bacillus subtilis↗
PubMed1971

Bacterial inactivation of transforming deoxyribonucleate.

Competent and noncompetent bacteria are able to bind deoxyribonucleate (DNA). The consequence of this binding is different for the two types of bacteria. Competent bacteria are able to utilize the DNA for transformation. DNA exposed to noncompetent bacteria loses its biological activity with a coincident reduction in the double-stranded molecular weight. The reduction in molecular weight does not appear to be sufficient to account for the loss of biological activity observed.

Bacillus subtilis↗
PubMedDate not supplied

[Stress-induced breakdown of chained cells in Bacillus subtilis filaments].

Triple auxotroph of Bacillus subtilis 168 grew as chains of unseparated cells of normal morphology at 30 degrees C. The strain displayed reduced competence for DNA-mediated transformation and showed strong interbacterial aggregation in liquid media. On the solid media the colonies had a typical rough appearance. Environmental stresses (heat shock, UV light, gamma-rays, and methylating agent) resulted in gradual dechaining during extended incubation of the bacteria in the static liquid medium with or without required amino acids at room temperature. Simultaneously with this process, the suspensions of cells acquired homogeneity and a new pattern of electrophoretic mobility. These phenomena may be interpreted in terms of stress-inducible RS-dissociation. Alternative explanations are also discussed.

Bacillus subtilis↗
PubMed1996

Constitutive activation of NF-kappa B is essential for transformation of rat fibroblasts by the human T-cell leukemia virus type I Tax protein.

Human T-cell leukemia virus type I (HTLV-I) encodes a 40 kDa trans-acting protein, Tax, that regulates transcription of both the proviral and cellular genes, and can transform rat fibroblasts. To determine the functional importance of its trans-acting capacities in cell transformation, we have examined two representative pathways of transcriptional activation--HTLV-I long terminal repeat (LTR) mediated and NF-kappa B dependent--by mutational analysis of Tax. In contrast to a previous report, mutants lacking the ability to activate an NF-kappaB-dependent promoter failed to transform rat fibroblasts, whereas a mutation which abolishes the HTLV-I LTR-mediated trans-activation demonstrated a wild-type capacity for cell transformation. Stable expression of Tax competent for transformation caused enhanced DNA binding of NF-kappa B in rat fibroblasts. We also demonstrate that stable co-expression of the NFKB2 precursor, known as a member of the I kappa B proteins, with wild-type Tax blocked transformation as well as eliminated aberrant NF-kappaB activation by Tax without interference with the HTLV-I LTR-mediated trans-activation. Our results indicate that constitutive activation of NF-kappa B is essential for Tax-mediated transformation of rat fibroblasts.

Amino Acid Sequence↗
PubMed1963

INTERSPECIFIC TRANSFORMATION IN BACILLUS.

Marmur, J. (Brandeis University, Waltham, Mass.), E. Seaman, and J. Levine. Interspecific transformation in Bacillus. J. Bacteriol. 85:461-467. 1963.-Deoxyribonucleic acids (DNA) from various species of the taxonomic group Bacillaceae were examined for base composition, ability to carry out interspecific transformation, and formation of molecular hybrids in vitro. The minimal requirement for genetic compatibility among different species and for DNA interaction (both reflecting base sequence homologies) is the similarity of the guanine plus cytosine contents of the DNA. The close correlation between the ability of DNA to be competent in interspecific transformation and to form hybrid molecules on denaturation and annealing provided a rational approach to the study of genetic relationship among organisms for which no genetic exchange has yet been demonstrated. Any or all of the criteria (base composition of DNA, transformation, molecular hybrid formation) can be used as tools in the taxonomic assessment of closely related microorganisms.

Journal Article↗
PubMed1965

Relationship between the competence antigen and the competence-activator substance in pneumococci.

Tomasz, Alexander (The Rockefeller Institute, New York, N.Y.), and Samuel M. Beiser. Relationship between the competence antigen and the competence-activator substance in pneumococci. J. Bacteriol. 90:1226-1232. 1965.-Antisera prepared against pneumococci in their competent phase inhibit deoxyribonuoleic acid (DNA)-mediated genetic transformation as well as binding of radioactive DNA by the cells. The same sera do not inhibit transformation of competent Haemophilus influenzae and Bacillus subtilis cells, but transformation of a Streptococcus strain genetically related to pneumococci is inhibited. The kinetics of immune inhibition of transformation resembles the inactivation of bacteriophage by phage-neutralizing antisera. The appearance of the competence antigen on the surface of pneumococci can be induced by the competence-activator substance. Antisera prepared against competent pneumococci can also inhibit the conversion of incompetent cells to competence by the competence-activator substance. The possibility is considered that part of the new antigenic determinant appearing on the cell surface during competence may be the activator itself.

Antigens↗
PubMed1966

Integration of deoxyribonuclease-treated DNA in bacillus subtilis transformation.

Normal preparations of B. subtilis DNA have weight average native molecular weights of 10 to 30 x 10(6). For any given preparation the upper and lower 95% size limits may differ by a factor of ten or more. Single-stranded molecular weights indicate an average of 1 to 4 breaks per single strand of the native DNA. The reduction in transforming activity and viscosity following DNAase I digestion can be accounted for by a direct relationship between the transforming activity of a DNA and its single-stranded molecular weight. Uptake studies with DNAase I treated heavy ((2)H(15)N (3)H) DNA show that single strand breaks inhibit integration less than transformation. A provisional estimate of the size of the integrated region based on correlating the single strand size of the donor-recipient complex with the donor-recipient density differences following alkali denaturation came to 1530 nucleotides. Using a competent, nonleaky thymine-requiring strain of B. subtilis grown in 5-BU medium before and after transformation, it was shown that (a) No detectable amount of DNA synthesis is necessary for the initial stages of integration, (b) Cells which have recently been replicating DNA are not competent. (c) Cells containing donor DNA show a lag in DNA replication following transformation, (d) When donor DNA is replicated it initially appears in a density region between light and hybrid. This indicates that it includes the transition point formed at the time of reinitiation of DNA synthesis in the presence of 5-BU following transformation. A model is proposed in which donor DNA is integrated at the stationary growing point of the competent cell, which is in a state of suspended DNA synthesis.

Bacillus subtilis↗
PubMed1980

A specialized transducing phage constructed from Bacillus subtilis phage phi 105.

Chromosomal DNA of Bacillus subtilis 168 (trpC2) prepared from defective phage P BSX was digested by restriction endonuclease Eco RI and ligated in vitro with DNA fragments of page phi 105C digested by the same endonuclease. The ligated DNA was used to transform a competent culture of B. subtilis (trpC2 lys3 metB10) which was lysogenic for phi 105, and transformants of the auxotroph markers were selected. The bacterial DNA ligated to the phage DNA fragments could be integrated into the prophage genome by transformation. The transformants in toto were treated with mitomycin C and the lysate was used to transduce B. subtilis (trpC2 lys3 metB10). Among metB+ transductants, one clone appeared to be a double lysogen carrying both plaque forming and metB+ transducing phage genomes. The latter defective phage was designated phi 105dmetB. Physical mapping of these phages was carried out by agarose gel electrophoresis of the restriction endonuclease digests and also by electron microscopic analysis of heteroduplex DNA. These results indicate that two adjacent fragments Eco RI-G and E of phi 105 DNA had been substituted with a foreign fragment Eco RI-M in phi 105dmetB DNA. Transformation experiments showed that the metB+ gene resided on the fragment Eco RI-M. This fragment was found to have a BamHI-sensitive site. The transforming activity for the metB marker, however, was not affected by the treatmment with BamHI.

Bacillus subtilis↗
PubMed1993

Transformation of Helicobacter pylori by chromosomal metronidazole resistance and by a plasmid with a selectable chloramphenicol resistance marker.

Most strains of Helicobacter pylori are naturally competent for uptake of chromosomal DNA. Transformation frequencies for streptomycin resistance or rifampicin resistance markers ranged from 1 x 10(-4) to 1 x 10(-3) per viable cell using a plate transformation procedure. Transformation of a metronidazole resistance marker (MtrR) was demonstrated when either a laboratory-derived mutant or a MtrR clinical isolate were used as the source of donor DNA. MtrR was transformed at a frequency of 3 x 10(-5) per viable cell. All H. pylori strains tested produce large amounts of DNAase, which may reduce DNA available for transformation. Four H. pylori plasmids were isolated. DNA fragments from H. pylori plasmids were deleted or rearranged when cloned in pUC19 and propagated in Escherichia coli DH5 alpha. An H. pylori plasmid, pUOA26 which contained a chloramphenicol resistance determinant from Campylobacter coli, was constructed in H. pylori. This plasmid could be successfully introduced by natural transformation only into H. pylori recipients which contained a homologous resident plasmid. Transformation of pUOA26 into plasmid-free cells of H. pylori was achieved by electroporation. Transformation frequencies were 1 x 10(-4) transformants per viable cell when plasmid DNA was isolated from the same strain; however, introduction of pUOA26 DNA derived from H. pylori 8091 into a different H. pylori strain, NCTC 11639, resulted in transformation at much lower frequencies (< or = 1 x 10(-7) per viable cell).(ABSTRACT TRUNCATED AT 250 WORDS)

Binding, Competitive↗