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Autor:Bidet P; Basmaci R; Guglielmini J; Doit C; Jost C; Birgy A; Bonacorsi SEndere?o:INSERM, IAME, UMR 1137, Paris, France Université Paris Diderot, Sorbonne Paris Cité, IAME, UMR 1137, Paris, France AP-HP, Laboratoire de Microbiologie, H?pital Robert-Debré, Paris, France.
Título:Genome Analysis of Kingella kingae Strain KWG1 Reveals How a ss-Lactamase Gene Inserted in the Chromosome of This Species.
Fonte:Antimicrob Agents C 60(1):703-8, 2016 Jan.
ISSN:País de publica??o:United States
Idioma:engResumo:We describe the genome of a penicillinase-producing Kingella kingae strain (KWG1), the first to be isolated in continental Europe, whose bla(TEM-1) gene was, for the first time in this species, found to be chromosomally inserted. The bla(TEM) gene is located in an integrative and conjugative element (ICE) inserted in Met-tRNA and comprising genes that encode resistance to sulfonamides, streptomycin, and tetracycline. This ICE is homologous to resistance-conferring plasmids of K. kingae and other Gram-negative bacteria.
Tipo de publica??o: JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
Nome de subst?ncia:0 (Anti-Bacterial Agents); 0 (Bacterial Proteins); 0 (Sulfonamides); EC 3.5.2.6 (beta-Lactamases); F8VB5M810T (Tetracycline); Y45QSO73OB (Streptomycin)
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Autor:Dettman JR; Sztepanacz JL; Kassen REndere?o:Department of Biology and Centre for Advanced Research in Environmental Genomics, University of Ottawa, Ottawa, ON, K1N 6N5, Canada. jdettman@uottawa.ca.
Título:The properties of spontaneous mutations in the opportunistic pathogen Pseudomonas aeruginosa.
Fonte:BMC G 17:27, 2016.
ISSN:País de publica??o:England
Idioma:engResumo:BACKGROUND: Natural genetic variation ultimately arises from the process of mutation. Knowledge of how the raw material for evolution is produced is necessary for a full understanding of several fundamental evolutionary concepts. We performed a mutation accumulation experiment with wild-type and mismatch-repair deficient, mutator lines of the pathogenic bacterium Pseudomonas aeruginosa, and used whole-genome sequencing to reveal the genome-wide rate, spectrum, distribution, leading/lagging bias, and context-dependency of spontaneous mutations. RESULTS: Wild-type base-pair mutation and indel rates were ~10(-10) and ~10(-11) per nucleotide per generation, respectively, and deficiencies in the mismatch-repair system caused rates to increase by over two orders of magnitude. A universal bias towards AT was observed in wild-type lines, but was reversed in mutator lines to a bias towards GC. Biases for which types of mutations occurred during replication of the leading versus lagging strand were detected reciprocally in both replichores. The distribution of mutations along the chromosome was non-random, with peaks near the terminus of replication and at positions intermediate to the replication origin and terminus. A similar distribution bias was observed along the chromosome in natural populations of P. aeruginosa. Site-specific mutation rates were higher when the focal nucleotide was immediately flanked by C:G pairings. CONCLUSIONS: Whole-genome sequencing of mutation accumulation lines allowed the comprehensive identification of mutations and revealed what factors of molecular and genomic architecture affect the mutational process. Our study provides a more complete view of how several mechanisms of mutation, mutation repair, and bias act simultaneously to produce the raw material for evolution.
Tipo de publica??o: JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
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Autor:Zawadzki P; Stracy M; Ginda K; Zawadzka K; Lesterlin C; Kapanidis AN; Sherratt DJEndere?o:Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, UK.
Título:The Localization and Action of Topoisomerase IV in Escherichia coli Chromosome Segregation Is Coordinated by the SMC Complex, MukBEF.
Fonte:Cell R 13(11):15 Dec 22.
ISSN:País de publica??o:United States
Idioma:engResumo:The type II topoisomerase TopoIV, which has an essential role in Escherichia coli chromosome decatenation, interacts with MukBEF, an SMC (structural maintenance of chromosomes) complex that acts in chromosome segregation. We have characterized the intracellular dynamics of individual TopoIV molecules and the consequences of their interaction with MukBEF clusters by using photoactivated-localization microscopy. We show that ~15 TopoIV molecules per cell are associated with MukBEF clusters that are preferentially localized to the replication origin region (ori), close to the long axis of the cell. A replication-dependent increase in the fraction of immobile molecules, together with a proposed catalytic cycle of ~1.8 s, is consistent with the majority of active TopoIV molecules catalyzing decatenation, with a minority maintaining steady-state DNA supercoiling. Finally, we show that the MukB-ParC interaction is crucial for timely decatenation and segregation of newly replicated ori DNA.
Tipo de publica??o: JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
Nome de subst?ncia:0 (Catenanes); 0 (Chromosomal Proteins, Non-Histone); 0 (Escherichia coli Proteins); 0 (MukB protein, E coli); 0 (Repressor Proteins); 0 (mukE protein, E coli); 0 (mukF protein, E coli); EC 5.99.1.- (DNA Topoisomerase IV)
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Autor:Wang X; Li S; Lu X; Hu P; Chen H; Li Z; Bu Z; Lang X; Wang XEndere?o:Key Laboratory of Jilin Province for Zoonosis Prevention and Control, Institute of Military Veterinary Medicine, Academy of Military Medical Sciences, Changchun, Jilin 130122, P.R. China.
Título:Rapid method of luxS and pfs gene inactivation in enterotoxigenic Escherichia coli and the effect on biofilm formation.
Fonte:Mol Med R 13(1):257-64, 2016 Jan.
ISSN:País de publica??o:Greece
Idioma:engResumo:Rapid and efficient inactivation of a target gene in Escherichia coli chromosomes is required to investigate metabolic engineering. In the present study, a multiple gene inactivation approach was demonstrated in four strains of enterotoxigenic E. coli (ETEC), which are the predominant pathogenic bacteria causing piglet diarrhea, mediated by λ Red and Xer recombination. The chromosomal genes, luxS and pfs were inactivated using the multiple gene inactivation approach in the wild-type strains of E. coli, K88, K99, 987P and F41. This indicated that dif sites may be reused to inactivate multiple chromosomal genes when no antibiotic-resistant selectable markers remain. Following inactivation of luxS and pfs, the ability of ETEC to produce the quorum sensing signal, and induce auto-inducer 2 activity and biofilm formation were significantly reduced. Furthermore, the multiple gene inactivation approach also exhibits a high recombination efficiency and follows a simple process.
Tipo de publica??o: JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
Nome de subst?ncia:0 (Genetic Markers); 0 (Lactones); 0 (N-octanoylhomoserine lactone); 6KA95X0IVO (Homoserine)
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Autor:Choe H; Kim S; Oh J; Nasir A; Kim BK; Kim KMEndere?o:Microbial Resource Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea.
Título:Complete genome of Kangiella geojedonensis KCTC 23420(T), putative evidence for recent genome reduction in marine environments.
Fonte:Mar G 24 Pt 3:215-7, 2015 Dec.
ISSN:País de publica??o:Netherlands
Idioma:engResumo:Kangiella geojedonensis KCTC 23420(T) is an aerobic, Gram-negative, non-motile, non-spore-forming, rod-shaped bacterium that was isolated from seawater off the southern coast of Korea. We here report the complete genome of K. geojedonensis KCTC 23420(T), which consists of 2,495,242 bp (G+C content of 43.78%) with 2,257 protein-coding genes, 41 tRNAs, 2 rRNA operons. The genome is smaller than the other closely related genomes, indicating that K. geojedonensis has recently experienced reductive evolution.
Tipo de publica??o: JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
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Autor:Valdes KM; Sundar GS; Vega LA; Belew AT; Islam E; Binet R; El-Sayed NM; Le Breton Y; McIver KSEndere?o:Department of Cell Biology & Molecular Genetics and Maryland Pathogen Research Institute, University of Maryland, College Park, Maryland, USA.
Título:The fruRBA Operon Is Necessary for Group A Streptococcal Growth in Fructose and for Resistance to Neutrophil Killing during Growth in Whole Human Blood.
Fonte:Infect I 84(4):16 Apr.
ISSN:País de publica??o:United States
Idioma:engResumo:Bacterial pathogens rely on the availability of nutrients for survival in the host environment. The phosphoenolpyruvate-phosphotransferase system (PTS) is a global regulatory network connecting sugar uptake with signal transduction. Since the fructose PTS has been shown to impact virulence in several streptococci, including the human pathogen Streptococcus pyogenes(the group A Streptococcus[GAS]), we characterized its role in carbon metabolism and pathogenesis in the M1T1 strain 5448. Growth in fructose as a sole carbon source resulted in 103 genes affected transcriptionally, where the frulocus (fruRBA) was the most induced. Reverse transcriptase PCR showed that fruRBA formed an operon which was repressed by FruR in the absence of fructose, in addition to being under carbon catabolic repression. Growth assays and carbon utilization profiles revealed that although the entire fruoperon was required for growth in fructose, FruA was the main transporter for fructose and also was involved in the utilization of three additional PTS sugars: cellobiose, mannitol, and N-acetyl-D-galactosamine. The inactivation of sloR, a fruA homolog that also was upregulated in the presence of fructose, failed to reveal a role as a secondary fructose transporter. Whereas the ability of both ΔfruR and ΔfruB mutants to survive in the presence of whole human blood or neutrophils was impaired, the phenotype was not reproduced in murine whole blood, and those mutants were not attenuated in a mouse intraperitoneal infection. Since the ΔfruA mutant exhibited no phenotype in the human or mouse assays, we propose that FruR and FruB are important for GAS survival in a human-specific environment.
Tipo de publica??o: JOURNAL ARTICLE; RESEARCH SUPPORT, N.I.H., EXTRAMURAL
Nome de subst?ncia:0 (Bacterial Proteins);
(Fructose)
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Autor:Zobel S; Benedetti I; Eisenbach L; de Lorenzo V; Wierckx N; Blank LMEndere?o:Institute of Applied Microbiology, RWTH Aachen University , Worringerweg 1, 52074 Aachen, Germany.
Título:Tn7-Based Device for Calibrated Heterologous Gene Expression in Pseudomonas putida.
Fonte:ACS Synth B 4(12):15 Dec 18.
ISSN:País de publica??o:United States
Idioma:engResumo:The soil bacterium Pseudomonas putida is increasingly attracting considerable interest as a platform for advanced metabolic engineering through synthetic biology approaches. However, genomic context, gene copy number, and transcription/translation interplay often introduce considerable uncertainty to the design of reliable genetic constructs. In this work, we have established a standardized heterologous expression device in which the promoter strength
the remaining parameters of the flow have stable default values. To this end, we tailored a mini-Tn7 delivery transposon vector that inserts the constructs in a single genomic locus of P. putida's chromosome. This was then merged with a promoter insertion site, an unvarying translational coupler, and a downstream location for placing the gene(s) of interest under fixed assembly rules. This arrangement was exploited to benchmark a collection of synthetic promoters with low transcriptional noise in this bacterial host. Growth experiments and flow cytometry with single-copy promoter-GFP constructs revealed a robust, constitutive behavior of these promoters, whose strengths and properties could be faithfully compared. This standardized expression device significantly extends the repertoire of tools available for reliable metabolic engineering and other genetic enhancements of P. putida.
Tipo de publica??o: JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
Nome de subst?ncia:0 (DNA Transposable Elements); 0 (Recombinant Proteins)
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Autor:Wu YH; Cheng H; Zhou P; Huo YY; Wang CS; Xu XWEndere?o:Laboratory of Marine Ecosystem and Biogeochemistry, Second Institute of Oceanography, State Oceanic Administration, Hangzhou, PR China.
Título:Complete genome sequence of the heavy metal resistant bacterium Altererythrobacter atlanticus 26DY36(T), isolated from deep-sea sediment of the North Atlantic Mid-ocean ridge.
Fonte:Mar G 24 Pt 3:289-92, 2015 Dec.
ISSN:País de publica??o:Netherlands
Idioma:engResumo:Altererythrobacter atlanticus 26DY36(T) (CGMCC 1.12411(T)=JCM 18865(T)) was isolated from the North Atlantic Mid-Ocean Ridge. The strain is resistant to heavy metals, such as Mn(2+) (200 mM), Co(2+) (2.0mM), Cu(2+) (1mM), Zn(2+) (1mM), Hg(2+) (0.1mM) and Cd(2+) (0.5mM). Here we describe the genome sequence and annotation, as well as the features of the organism. A. atlanticus 26DY36(T) harbors a chromosome (3,386,291 bp) and a circular plasmid (88,815 bp). The genome contains 3322 protein-coding genes (2483 with predicted functions), 47 tRNA genes and 6 rRNA genes. A. atlanticus 26DY36(T) encodes dozens of genes related to heavy metal resistance and has potential applications in the bioremediation of heavy metal-contaminated environments.
Tipo de publica??o: JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
Nome de subst?ncia:0 (Bacterial Proteins); 0 (Metals, Heavy)
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Autor:Lee SH; Choe H; Kim BK; Nasir A; Kim KMEndere?o:Microbial Resource Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of K Department of Bioinformatics, University of Science and Technology, Daejeon, Republic of Korea.
Título:Complete genome of the marine bacterium Wenzhouxiangella marina KCTC 42284(T).
Fonte:Mar G 24 Pt 3:277-80, 2015 Dec.
ISSN:País de publica??o:Netherlands
Idioma:engResumo:Wenzhouxiangella marina is an obligatory aerobic, Gram-negative, non-motile, rod-shaped bacterium that was isolated from the culture broth of marine microalgae, Picochlorum sp. 122. Here we report the 3.67 MB complete genome (65.26 G+C%) of W. marina KCTC 42284(T) encoding 3,016 protein-coding genes, 43 tRNAs and one rRNA operon. The genomic information supports multiple horizontal gene transfer (HGT) events in the history of W. marina, possibly with other marine bacteria co-existing in marine habitats. Evaluation of genomic signatures revealed 19 such HGT-derived genomic islands. Of these, eight were also supported by "genomic context" that refers to the existence of integrases, transposases and tmRNA genes either inside or in near vicinity to the island. The addition of W. marina genome expands the repertoire of marine bacterial genomic diversity, especially because the strain represents the sole genomic resource of a novel taxonomic family in the bacterial order Chromatiales.
Tipo de publica??o: JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
Nome de subst?ncia:0 (RNA, Bacterial)
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Autor:Hu J; Wang F; Han SB; Wu SL; Wu M; Xu XWEndere?o:College of Life Sciences, Zhejiang University, Hangzhou, PR China.
Título:Genome sequence of facultatively anaerobic marine bacterium Maribacter thermophilus strain HT7-2(T).
Fonte:Mar G 24 Pt 3:265-8, 2015 Dec.
ISSN:País de publica??o:Netherlands
Idioma:engResumo:Maribacter thermophilus strain HT7-2(T), isolated from Ulva prolifera collected from the intertidal zone of Qingdao sea area, China. To date, M. thermophilus strain HT7-2(T) is the only one which has been found that has a relatively higher optimum temperature compared to other Maribacter species and it is also the first strain to be described that is facultatively anaerobic while other identified strains within genus Maribacter are strictly aerobic. Meanwhile, M. thermophilus strain HT7-2(T) harbors several coding genes related to heavy metal resistance and to antibiotics, which increase the robustness of the strain. Here, we report the genome sequence and annotation of M. thermophilus strain HT7-2(T), which comprises 4,050,606 bp with G+C content of 38.93%. A total of 3585 protein coding genes, 41 tRNAs and 6rRNAs were obtained. The genome annotation may provide basic information on some special traits and pathways in this strain.
Tipo de publica??o: JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
Nome de subst?ncia:0 (DNA, Bacterial); 0 (RNA, Bacterial)
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