Abstract:
:The activities of DNA methyltransferases are important for a variety of cellular functions in bacteria. In this study, we developed a modified high-throughput technique called methyl homopolymer tail mediated sequencing (methyl HTM-seq) to identify the undermethylated sites in the Vibrio cholerae genome for the two DNA methyltransferases, Dam, an adenine methyltransferase, and VchM, a cytosine methyltransferase, during growth in rich medium in vitro. Many of the undermethylated sites occurred in intergenic regions, and for most of these sites, we identified the transcription factors responsible for undermethylation. This confirmed the presence of previously hypothesized DNA-protein interactions for these transcription factors and provided insight into the biological state of these cells during growth in vitro. DNA adenine methylation has previously been shown to mediate heritable epigenetic switches in gene regulation. However, none of the undermethylated Dam sites tested showed evidence of regulation by this mechanism. This study is the first to identify undermethylated adenines and cytosines genomewide in a bacterium using second-generation sequencing technology.
journal_name
J Bacterioljournal_title
Journal of bacteriologyauthors
Dalia AB,Lazinski DW,Camilli Adoi
10.1128/JB.02112-12subject
Has Abstractpub_date
2013-05-01 00:00:00pages
2389-99issue
10eissn
0021-9193issn
1098-5530pii
JB.02112-12journal_volume
195pub_type
杂志文章abstract::Three groups of linked markers were mapped in Bacillus thuringiensis 4042B by using two-, three-, and four-factor crosses mediated by the temperate bacteriophages TP-13 and TP-18. The order of markers was (trp-11, trp-2)-(leu-1, leu-2)-his-1-(lys-1, lys-2)-cys-1 in the first group; met-1-(argCl, argOl)-met-2-(pyr-1, p...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.157.3.746-750.1984
更新日期:1984-03-01 00:00:00
abstract::The ligated loop of the rabbit intestine was investigated as a possible experimental model for the study of Clostridium perfringens food poisoning. The method of preparation of the challenge inoculum was important in determining whether a given strain would provoke a response. When cultures were grown for 4 hr at 37 C...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.95.5.1560-1566.1968
更新日期:1968-05-01 00:00:00
abstract::Two isoleucine analogues and two leucine analogues were examined for their ability to replace the natural amino acid preventing the accumulation of threonine deaminase-forming potential. The procedure used to study repression by the analogues distinguishes between true repression and the formation of inactive enzyme b...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.116.2.562-570.1973
更新日期:1973-11-01 00:00:00
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journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/jb.175.23.7515-7522.1993
更新日期:1993-12-01 00:00:00
abstract::Yersinia pestis is an important human pathogen that is maintained in flea-rodent enzootic cycles in many parts of the world. During its life cycle, Y. pestis senses host-specific environmental cues such as temperature and regulates gene expression appropriately to adapt to the insect or mammalian host. For example, Y....
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.188.4.1381-1388.2006
更新日期:2006-02-01 00:00:00
abstract::Escherichia coli MutY and MutS increase replication fidelity by removing adenines that were misincorporated opposite 7,8-dihydro-8-oxo-deoxyguanines (8-oxoG), G, or C. MutY DNA glycosylase removes adenines from these mismatches through a short-patch base excision repair pathway and thus prevents G:C-to-T:A and A:T-to-...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.01513-06
更新日期:2007-02-01 00:00:00
abstract::After thermal denaturation, an in vivo-labeled RNA was found in a temperature-sensitive initiation mutant of Bacillus subtilis (dna-37) associated with high-molecular-weight DNA. This RNA could be clearly distinguished from other RNA species by different techniques of separation, such as Sepharose 2B filtration, chrom...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.149.1.79-91.1982
更新日期:1982-01-01 00:00:00
abstract::Pseudomonas cepacia mutants deficient in either 6-phosphogluconate (6PGA) dehydratase (Edd-) or 2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase (Eda-) failed to utilize glucose or gluconate despite the prominence of of 6-phosphogluconate dehydrogenase (6PGAD) ii this bacterium and the potential for utilizing the pen...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.150.3.1340-1347.1982
更新日期:1982-06-01 00:00:00
abstract::A search by subtractive hybridization for sequences present in only certain strains of Helicobacter pylori led to the discovery of a 2-kb transposable element to be called IS607, which further PCR and hybridization tests indicated was present in about one-fifth of H. pylori strains worldwide. IS607 contained two open ...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/jb.182.19.5300-5308.2000
更新日期:2000-10-01 00:00:00
abstract::The region of plasmid NR1 concerned with resistance to Hg2+ and organomercurials consists of sequences found on restriction endonuclease fragments EcoRI-H and EcoRI-I. When both fragments were cloned together into a derivative of plasmid ColE1, the hybrid plasmid conferred properties indistinguishable from those of th...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.140.1.161-166.1979
更新日期:1979-10-01 00:00:00
abstract::Clusters of cytoplasmic vesicles resembling those in growing hyphal apices of mycelial fungi are found near the tips of buds in three heterobasidiomycetous yeasts, Rhodotorula glutinis, Candida scottii, and Sporobolomyces salmonicolor. ...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.109.2.922-926.1972
更新日期:1972-02-01 00:00:00
abstract::Rod-shaped bacteria grow by a repetitive cycle of elongation followed by division, and the mechanisms responsible for these two processes have been studied for decades. However, little is known about what happens during the transition between the two activities. At least one event occurs after elongation ends and befo...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.00859-12
更新日期:2012-10-01 00:00:00
abstract::Open reading frame orf192, which is located immediately upstream of the aerobic repressor gene crtJ, was genetically and biochemically demonstrated to code for a second aerobic repressor (AerR) of photosynthesis gene expression in Rhodobacter capsulatus. Promoter-mapping studies indicate that crtJ has its own promoter...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/jb.184.10.2805-2814.2002
更新日期:2002-05-01 00:00:00
abstract::The bacterial second messenger cyclic di-GMP (c-di-GMP) regulates the transition between sessility and motility. In Salmonella enterica serovar Typhimurium, the expression of CsgD, the regulator of multicellular rdar morphotype behavior, is a major target of c-di-GMP signaling. CsgD expression is positively regulated ...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.00290-09
更新日期:2009-06-01 00:00:00
abstract::Aronson, John N. (Arizona State University, Tempe), and Gerald R. Wermus. Effects of m-tyrosine on growth and sporulation of Bacillus species. J. Bacteriol. 90:38-46. 1965.-The aromatic amino acid analogue, dl-beta-(3-hydroxyphenyl)alanine (m-tyrosine), reduced sporulation of a strain of Bacillus subtilis to less than...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.90.1.38-46.1965
更新日期:1965-07-01 00:00:00
abstract::HlyD, a member of the membrane fusion protein family, is essential for the secretion of the RTX hemolytic toxin HlyA from Escherichia coli. Random point mutations affecting HlyA secretion were obtained, distributed in most periplasmic regions of the HlyD molecule. Analysis of the secretion phenotypes of different muta...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.187.21.7471-7480.2005
更新日期:2005-11-01 00:00:00
abstract::Pertussis toxin (PT) is secreted from Bordetella pertussis by a type IV secretion system, known as the Ptl transporter, that comprises nine different proteins, PtlA to PtlI. In this study, we found that PtlD is required for the stability of three Ptl proteins, PtlE, PtlF, and PtlH. A region limited to the C-terminal 7...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.01106-08
更新日期:2008-11-01 00:00:00
abstract::N15 is the only bacteriophage of Escherichia coli known to lysogenize as a linear plasmid. Clear-plaque mutations lie in at least two regions of the 46-kb genome. We have cloned, sequenced, and characterized the primary immunity region, immB. This region contains a gene, cB, whose product shows homology to lambdoid ph...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/jb.178.10.2902-2910.1996
更新日期:1996-05-01 00:00:00
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journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.154.1.429-436.1983
更新日期:1983-04-01 00:00:00
abstract::Bulen, William A. (Charles F. Kettering Foundation, Yellow Springs, Ohio). Effect of tungstate on the uptake and function of molybdate in Azotobacter agilis. J. Bacteriol. 82:130-134. 1961.-The reported competitive inhibition of molybdate by tungstate was investigated in an effort to elucidate molybdenum functions ass...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.82.1.130-134.1961
更新日期:1961-07-01 00:00:00
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journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.122.2.592-598.1975
更新日期:1975-05-01 00:00:00
abstract::The gene coding for alveolysin, the thiol-activated toxin produced by Bacillus alvei, has been cloned by means of an oligonucleotide based on the known N-terminal sequence of the secreted protein. The complete nucleotide sequence of the gene has been determined. The deduced amino acid sequence of alveolysin shows that...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/jb.172.12.7301-7305.1990
更新日期:1990-12-01 00:00:00
abstract::The fatty acid pattern in three hydrocarbon-utilizing bacteria during growth on various substrates was examined. The predominant fatty acids in acetate-grown cells were C(16), C(16:1), C(18:1), and Br-C(19) and the major fatty acids in propane-grown cells were C(15), C(17), C(17:1), C(18:1), and Br-C(18). When one org...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.94.6.1919-1923.1967
更新日期:1967-12-01 00:00:00
abstract::Penicillin-binding protein 5 in Pseudomonas aeruginosa had moderately penicillin-sensitive D-alanine carboxypeptidase activity. As in Escherichia coli, a defect in this enzyme activity was not lethal. ...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.162.2.849-851.1985
更新日期:1985-05-01 00:00:00
abstract::A Pediococcus cerevisiae mutant that actively accumulated folate (PteGlu), in contrast to the wild-type, was also found to exhibit changes in the pattern of uptake of 5-methyl-tetrahydrofolate (5-CH3-H4PteGlu) and amethopterin. Most of the 5-CH3-H4PteGlue accumulated through a glucose- and temperature-dependent proces...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.123.2.400-406.1975
更新日期:1975-08-01 00:00:00
abstract::"Roseburia inulinivorans" is an anaerobic polysaccharide-utilizing firmicute bacterium from the human colon that was identified as a producer of butyric acid during growth on glucose, starch, or inulin. R. inulinivorans A2-194 is also able to grow on the host-derived sugar fucose, following a lag period, producing pro...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.00137-06
更新日期:2006-06-01 00:00:00
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journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.135.2.318-323.1978
更新日期:1978-08-01 00:00:00
abstract::ibeA is a virulence factor found in some extraintestinal pathogenic Escherichia coli (ExPEC) strains from the B2 phylogenetic group and particularly in newborn meningitic and avian pathogenic strains. It was shown to be involved in the invasion process of the newborn meningitic strain RS218. In a previous work, we sho...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.00089-12
更新日期:2012-09-01 00:00:00
abstract::Escherichia coli mutants lacking activities of all known cytosolic ATP-dependent proteases (Lon, ClpAP, ClpXP, and HslVU), due to double deletions [DeltahslVU and Delta(clpPX-lon)], cannot grow at low (30 degrees C) or very high (45 degrees C) temperatures, unlike those carrying either of the deletions. Such growth de...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.181.12.3674-3680.1999
更新日期:1999-06-01 00:00:00
abstract::Proteus mirabilis is a dimorphic bacterium which exists in liquid cultures as a 1.5- to 2.0-microns motile swimmer cell possessing 6 to 10 peritrichous flagella. When swimmer cells are placed on a surface, they differentiate by a combination of events that ultimately produce a swarmer cell. Unlike the swimmer cell, th...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/jb.173.19.6279-6288.1991
更新日期:1991-10-01 00:00:00