Abstract:
:Haloarchaea in their natural environment are exposed to hypersalinity, intense solar radiation, and desiccation, all of which generate high levels of oxidative stress. Previous work has shown that haloarchaea are an order of magnitude more resistant to oxidative stress than most mesophilic organisms. Despite this resistance, the pathways haloarchaea use to respond to oxidative stress damage are similar to those of nonresistant organisms, suggesting that regulatory processes might be key to their robustness. Recently, small regulatory noncoding RNAs (sRNAs) were discovered in Archaea under a variety of environmental conditions. We report here the transcriptional landscape and functional roles of sRNAs in the regulation of the oxidative stress response of the model haloarchaeon Haloferax volcanii Thousands of sRNAs, both intergenic and antisense, were discovered using strand-specific sRNA sequencing (sRNA-seq), comprising 25 to 30% of the total transcriptome under no-challenge and oxidative stress conditions, respectively. We identified hundreds of differentially expressed sRNAs in response to hydrogen peroxide-induced oxidative stress in H. volcanii The targets of a group of antisense sRNAs decreased in expression when these sRNAs were upregulated, suggesting that sRNAs are potentially playing a negative regulatory role on mRNA targets at the transcript level. Target enrichment of these antisense sRNAs included mRNAs involved in transposon mobility, chemotaxis signaling, peptidase activity, and transcription factors.IMPORTANCE While a substantial body of experimental work has been done to uncover the functions of small regulatory noncoding RNAs (sRNAs) in gene regulation in Bacteria and Eukarya, the functional roles of sRNAs in Archaea are still poorly understood. This study is the first to establish the regulatory effects of sRNAs on mRNAs during the oxidative stress response in the haloarchaeon Haloferax volcanii Our work demonstrates that common principles for the response to a major cellular stress exist across the 3 domains of life while uncovering pathways that might be specific to the Archaea This work also underscores the relevance of sRNAs in adaptation to extreme environmental conditions.
journal_name
J Bacterioljournal_title
Journal of bacteriologyauthors
Gelsinger DR,DiRuggiero Jdoi
10.1128/JB.00779-17subject
Has Abstractpub_date
2018-04-09 00:00:00issue
9eissn
0021-9193issn
1098-5530pii
JB.00779-17journal_volume
200pub_type
杂志文章abstract::In this study, we cloned the Pseudomonas aeruginosa zwf gene, encoding glucose-6-phosphate dehydrogenase (G6PDH), an enzyme that catalyzes the NAD+- or NADP+-dependent conversion of glucose-6-phosphate to 6-phosphogluconate. The predicted zwf gene product is 490 residues, which could form a tetramer with a molecular m...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.180.7.1741-1749.1998
更新日期:1998-04-01 00:00:00
abstract::Transcriptional and enzymatic analyses of Pyrococcus furiosus previously indicated that three proteins play key roles in the metabolism of elemental sulfur (S(0)): a membrane-bound oxidoreductase complex (MBX), a cytoplasmic coenzyme A-dependent NADPH sulfur oxidoreductase (NSR), and sulfur-induced protein A (SipA). D...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.05445-11
更新日期:2011-12-01 00:00:00
abstract::Despite the considerable knowledge of bacterial high-molecular-weight (HMW) polycyclic aromatic hydrocarbon (PAH) metabolism, the key enzyme(s) and its pleiotropic and epistatic behavior(s) responsible for low-molecular-weight (LMW) PAHs in HMW PAH-metabolic networks remain poorly understood. In this study, a phenotyp...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.01945-14
更新日期:2014-10-01 00:00:00
abstract::Weaver, Judith R. (Iowa State University, Ames), and P. A. Pattee. Inducible resistance to erythromycin in Staphylococcus aureus. J. Bacteriol. 88:574-580. 1964.-The dissociated resistance of Staphylococcus aureus to erythromycin was examined and was found to possess the characteristics of an inducible enzyme. The ind...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.88.3.574-580.1964
更新日期:1964-09-01 00:00:00
abstract::Extracytoplasmic function σ factors that are stress inducible are often sequestered in an inactive complex with a membrane-associated anti-σ factor. Mycobacterium tuberculosis membrane-associated anti-σ factors have a small, stable RNA gene A (ssrA)-like degron for targeted proteolysis. Interaction between the unfolda...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.00748-18
更新日期:2019-02-25 00:00:00
abstract::Desulfurococcus kamchatkensis is an anaerobic organotrophic hyperthermophilic crenarchaeon isolated from a terrestrial hot spring. Its genome consists of a single circular chromosome of 1,365,223 bp with no extrachromosomal elements. A total of 1,474 protein-encoding genes were annotated, among which 205 are exclusive...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.01525-08
更新日期:2009-04-01 00:00:00
abstract::An investigation of sulfate reduction in B tsnC*7004, a mutant of Escherichia coli lacking thioredoxin, is reported. Although thioredoxin is indispensable for the adenosine 3'-phosphate 5'-phosphosulfate (PAPS) sulfotransferase reaction under the usual conditions of assay in extracts of wild-type cells, the mutant gre...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.134.1.131-138.1978
更新日期:1978-04-01 00:00:00
abstract::Fowler, Audree V. (University of California, Los Angeles), and Irving Zabin. Effects of dimethylsulfoxide on the lactose operon in Escherichia coli. J. Bacteriol. 92:353-357. 1966.-Dimethylsulfoxide (DMSO) at a concentration of 5% (v/v) in the culture medium inhibits the growth of Escherichia coli to only a slight ext...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.92.2.353-357.1966
更新日期:1966-08-01 00:00:00
abstract::LamB-LacZ fusion proteins have classically been used in studies of the general secretion pathway of Escherichia coli. Here we describe how increasing signal sequence hydrophobicity routes LamB-LacZ Hyb42-1 to the signal recognition particle (SRP) pathway. Secretion of this hydrophobic fusion variant (H*LamB-LacZ) was ...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/jb.185.19.5697-5705.2003
更新日期:2003-10-01 00:00:00
abstract::We have examined the uptake of [14C]octopine and [14C]nopaline by Agrobacterium tumefaciens strains containing the C58 chromosomal background in medium suitable for the induction of vir genes. All strains tested could transport both of these opines, regardless of the presence or type of Ti plasmid (octopine or nopalin...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/jb.173.2.903-905.1991
更新日期:1991-01-01 00:00:00
abstract::Twenty-four Lactobacillus plantarum supermotifs (LPSMs) with lengths from approximately 800 to 1,000 nucleotides were identified in the L. plantarum genome. LPSMs were conserved in other L. plantarum strains but not in other species. Secondary structure analysis predicted that LPSMs may fold into cruciform-like struct...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.01672-08
更新日期:2009-05-01 00:00:00
abstract::Mutation of the spoVB gene in Bacillus subtilis causes the production of spores containing a defective cortex and unable to acquire heat resistance. The spoVB locus is highly linked to another spo locus, spoIIIF, characterized by a single mutation (I. L. Lamont and J. Mandelstam, J. Gen. Microbiol. 130:1253-1261, 1984...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/jb.173.24.7942-7949.1991
更新日期:1991-12-01 00:00:00
abstract::Procedures were developed to facilitate the identification of genes that belong to a given regulon and characterization of their responses to the regulator. The regulon controlled by the Escherichia coli leucine-responsive regulatory protein (Lrp) was studied by isolating random transcriptional fusions to lacZ, using ...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/jb.179.20.6254-6263.1997
更新日期:1997-10-01 00:00:00
abstract::The endophytic diazotroph Azoarcus sp. strain BH72 is capable of infecting rice roots and of expressing the nitrogenase (nif) genes there. In order to study the genetic background for nitrogen fixation in strain BH72, the structural genes of nitrogenase (nifHDK) were cloned and sequenced. The sequence analysis reveale...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.183.12.3752-3760.2001
更新日期:2001-06-01 00:00:00
abstract::Many bacterial species produce capsular polysaccharides that contribute to pathogenesis through evasion of the host innate immune system. The gram-positive pathogen Enterococcus faecalis was previously reported to produce one of four capsule serotypes (A, B, C, or D). Previous studies describing the four capsule serot...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.00592-09
更新日期:2009-10-01 00:00:00
abstract::The folded chromosome of Escherichia coli has been investigated under various lysis and physiological conditions. A new gradient system was devised that allows excellent separation between unlysed cells and envelope-associated and envelope-free chromosomes. Isotope incorporation experiments showed that the fraction of...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.127.2.904-916.1976
更新日期:1976-08-01 00:00:00
abstract::The penultimate step in the biosynthesis of riboflavin (vitamin B2) involves the condensation of 3,4-dihydroxy-2-butanone 4-phosphate with 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione, which is catalyzed by 6,7-dimethyl-8-ribityllumazine synthase (lumazine synthase). Pathogenic Brucella species adapted to an intr...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.00207-06
更新日期:2006-09-01 00:00:00
abstract::Onoue, Kaoru, (Kyushu University, Fukuoka, Japan), Masayasu Kitagawa, and Yuichi Yamamura. Chemical studies on cellular components of Bordetella pertussis. I. Purification and properties of agglutinogen. J. Bacteriol. 82:648-656. 1961.-A method is described for the preparation of the agglutinogen of Hemophilus pertuss...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.82.5.648-656.1961
更新日期:1961-11-01 00:00:00
abstract::Mitochondrial protein synthesis was studied during release from glucose repression in Saccharomyces cerevisiae cells bearing different mitochondrial genomes. The increase in the rate of the synthesis of mitochondrial translation products was analyzed during respiratory induction. Different kinetic patterns were found ...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.153.3.1125-1132.1983
更新日期:1983-03-01 00:00:00
abstract::This work describes the draft genome sequence of Lactococcus garvieae DCC43. The 2.2-Mb draft genome contains 2,227 predicted protein-coding genes, among which is a region encoding the bacteriocin garvicin ML. No antibiotic resistance genes or capsule-related virulence genes were identified. Two plasmid replication re...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.01864-12
更新日期:2012-12-01 00:00:00
abstract::Pili are functionally expressed during the predivisional and swarmer stages of the Caulobacter crescentus differentiation cycle. They appear on the developing swarmer pole and at the same cellular location as flagella and the phiCbK receptor sites. Pili disappear when the swarmer cell differentiates into a stalked cel...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.131.1.340-346.1977
更新日期:1977-07-01 00:00:00
abstract::A technique for identifying and characterizing staphylococcal hemolysins by first separating them electrophoretically in barbital-buffered agar gel (pH 8.4) at 5 ma/cm for 2 hr and then determining their hemolytic activities by exposing them to human, horse, rabbit, and sheep erythrocytes is described. The alpha-hemol...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.93.2.525-530.1967
更新日期:1967-02-01 00:00:00
abstract::Molecular typing of Mycobacterium tuberculosis by using IS6110 shows low discrimination when there are fewer than five copies of the insertion sequence. Using a collection of such isolates from a study of the epidemiology of tuberculosis in London, we have shown a substantial degree of congruence between IS6110 patter...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/jb.185.8.2555-2562.2003
更新日期:2003-04-01 00:00:00
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
更新日期:2012-05-01 00:00:00
abstract::Group I introns are inserted into genes of a wide variety of bacteriophages of gram-positive bacteria. However, among the phages of enteric and other gram-negative proteobacteria, introns have been encountered only in phage T4 and several of its close relatives. Here we report the insertion of a self-splicing group I ...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.186.23.8153-8155.2004
更新日期:2004-12-01 00:00:00
abstract::The diphtheria toxin repressor (DtxR) of Corynebacterium diphtheriae uses Fe(2+) as a corepressor. Holo-DtxR inhibits transcription from the iron-regulated promoters (IRPs) designated IRP1 through IRP5 as well as from the promoters for the tox and hmuO genes. DtxR binds to 19-bp operators with the consensus sequence 5...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/jb.182.2.432-438.2000
更新日期:2000-01-01 00:00:00
abstract::DNA microarrays encompassing the entire genome of Yersinia pestis were used to characterize global regulatory changes during steady-state vegetative growth occurring after shift from 26 to 37 degrees C in the presence and absence of Ca2+. Transcriptional profiles revealed that 51, 4, and 13 respective genes and open r...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.186.18.6298-6305.2004
更新日期:2004-09-01 00:00:00
abstract::The sequence of the pckA gene coding for phosphoenolpyruvate carboxykinase in Escherichia coli K-12 and previous molecular weight determinations indicate that this allosteric enzyme is a monomer of Mr 51,316. The protein is homologous to ATP-dependent phosphoenolpyruvate carboxykinases from Trypanosoma brucei and Sacc...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/jb.172.12.7151-7156.1990
更新日期:1990-12-01 00:00:00
abstract::Isolated cell envelopes of a marine bacterium, M.B.3, have been prepared which possess a nonspecific, cation-activated nucleotidase. The cell envelope comprises approximately 35% (dry weight) of the whole cell and contains protein, 60.2%; lipids, 20.7%; hexose, 3.4%; and ribonucleic acid, 4.6%. No deoxyribonucleic aci...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/JB.99.3.834-841.1969
更新日期:1969-09-01 00:00:00
abstract::Cells of the Escherichia coli dnaE(Ts) dnaE74 and dnaE486 mutants die after 4 h of incubation at 40 degrees C in Luria-Bertani medium. Cell death is preceded by elongation, is inhibited by chloramphenicol, tetracycline, or rifampin, and is dependent on cell density. Cells survive at 40 degrees C when they are incubate...
journal_title:Journal of bacteriology
pub_type: 杂志文章
doi:10.1128/jb.186.7.2147-2155.2004
更新日期:2004-04-01 00:00:00