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Pesquisa : B03.353 [Categoria DeCS]
Referências encontradas : 347 [refinar]
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[PMID]:29458537
[Au] Autor:Frolov EN; Zayulina KS; Kopitsyn DS; Kublanov IV; Bonch-Osmolovskaya EA; Chernyh NA
[Ad] Endereço:1​Winogradsky Institute of Microbiology, Research Centre of Biotechnology RAS, 33-2 Leninsky prospect, 119071, Moscow, Russia.
[Ti] Título:Desulfothermobacter acidiphilus gen. nov., sp. nov., a thermoacidophilic sulfate-reducing bacterium isolated from a terrestrial hot spring.
[So] Source:Int J Syst Evol Microbiol;68(3):871-875, 2018 Mar.
[Is] ISSN:1466-5034
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:An anaerobic sulfate-reducing micro-organism, strain 3408-1 , was isolated from a terrestrial hot spring in Kamchatka peninsula (Russia). The cells were spore-forming rods with a Gram-positive type of cell wall. The new isolate was a moderately thermoacidophilic anaerobe able to grow either by sulfate or thiosulfate respiration with H2 or formate as substrates, or by fermenting yeast extract, maltose, sucrose, glucose and pyruvate. The fermentation products were acetate, CO2 and H2. The pH range for growth was 2.9-6.5, with an optimum at 4.5. The temperature range for growth was 42-70 °C, with an optimum at 55 °C. The G+C content of DNA was 58 mol%. Phylogenetic analysis of the 16S rRNA gene showed that strain 3408-1 belongs to the family Thermoanaerobacteraceae, order Thermoanaerobacterales and was distantly related to the species of the genus Ammonifex(93-94 % sequence similarity). On the basis of physiological properties and results of phylogenetic analysis, strain 3408-1 is considered to represent a novel species of a new genus, for which the name Desulfothermobacter acidiphilus gen. nov., sp. nov. is proposed. The type strain is 3408-1 (=DSM 105356 =VKM B-3183 ).
[Mh] Termos MeSH primário: Firmicutes/classificação
Fontes Termais/microbiologia
Filogenia
[Mh] Termos MeSH secundário: Técnicas de Tipagem Bacteriana
Composição de Bases
DNA Bacteriano/genética
Ácidos Graxos/química
Fermentação
Firmicutes/genética
Firmicutes/isolamento & purificação
Oxirredução
RNA Ribossômico 16S/genética
Federação Russa
Análise de Sequência de DNA
Sulfatos/metabolismo
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (DNA, Bacterial); 0 (Fatty Acids); 0 (RNA, Ribosomal, 16S); 0 (Sulfates)
[Em] Mês de entrada:1803
[Cu] Atualização por classe:180308
[Lr] Data última revisão:
180308
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180221
[St] Status:MEDLINE
[do] DOI:10.1099/ijsem.0.002599


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[PMID]:29362365
[Au] Autor:Zhang Y; Kastman EK; Guasto JS; Wolfe BE
[Ad] Endereço:Department of Biology, Tufts University, 200 Boston Avenue, Medford, MA, 02155, USA.
[Ti] Título:Fungal networks shape dynamics of bacterial dispersal and community assembly in cheese rind microbiomes.
[So] Source:Nat Commun;9(1):336, 2018 01 23.
[Is] ISSN:2041-1723
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:Most studies of bacterial motility have examined small-scale (micrometer-centimeter) cell dispersal in monocultures. However, bacteria live in multispecies communities, where interactions with other microbes may inhibit or facilitate dispersal. Here, we demonstrate that motile bacteria in cheese rind microbiomes use physical networks created by filamentous fungi for dispersal, and that these interactions can shape microbial community structure. Serratia proteamaculans and other motile cheese rind bacteria disperse on fungal networks by swimming in the liquid layers formed on fungal hyphae. RNA-sequencing, transposon mutagenesis, and comparative genomics identify potential genetic mechanisms, including flagella-mediated motility, that control bacterial dispersal on hyphae. By manipulating fungal networks in experimental communities, we demonstrate that fungal-mediated bacterial dispersal can shift cheese rind microbiome composition by promoting the growth of motile over non-motile community members. Our single-cell to whole-community systems approach highlights the interactive dynamics of bacterial motility in multispecies microbiomes.
[Mh] Termos MeSH primário: Queijo/microbiologia
DNA Bacteriano/genética
Fungos/crescimento & desenvolvimento
Hifas/crescimento & desenvolvimento
Interações Microbianas/genética
Microbiota/genética
Serratia/genética
[Mh] Termos MeSH secundário: Actinobacteria/classificação
Actinobacteria/genética
Actinobacteria/crescimento & desenvolvimento
Elementos de DNA Transponíveis
Firmicutes/classificação
Firmicutes/genética
Firmicutes/crescimento & desenvolvimento
Flagelos/genética
Flagelos/ultraestrutura
Fungos/ultraestrutura
Sequenciamento de Nucleotídeos em Larga Escala
Hifas/ultraestrutura
Movimento/fisiologia
Mucor/crescimento & desenvolvimento
Mucor/ultraestrutura
Mutação
Penicillium/crescimento & desenvolvimento
Penicillium/ultraestrutura
Proteobactérias/classificação
Proteobactérias/genética
Proteobactérias/crescimento & desenvolvimento
Serratia/crescimento & desenvolvimento
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T; RESEARCH SUPPORT, U.S. GOV'T, NON-P.H.S.
[Nm] Nome de substância:
0 (DNA Transposable Elements); 0 (DNA, Bacterial)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180227
[Lr] Data última revisão:
180227
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180125
[St] Status:MEDLINE
[do] DOI:10.1038/s41467-017-02522-z


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[PMID]:29236500
[Au] Autor:Liu X; Liu T; Zhang Y; Xin F; Mi S; Wen B; Gu T; Shi X; Wang F; Sun L
[Ad] Endereço:Laboratory of Biomanufacturing and Food Engineering, Institute of Food Science and Technology, Chinese Academy of Agricultural Sciences , Beijing 100193, P.R. China.
[Ti] Título:Structural Insights into the Thermophilic Adaption Mechanism of Endo-1,4-ß-Xylanase from Caldicellulosiruptor owensensis.
[So] Source:J Agric Food Chem;66(1):187-193, 2018 Jan 10.
[Is] ISSN:1520-5118
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Xylanases (EC 3.2.1.8) are a kind of enzymes degrading xylan to xylooligosaccharides (XOS) and have been widely used in a variety of industrial applications. Among them, xylanases from thermophilic microorganisms have distinct advantages in industries that require high temperature conditions. The CoXynA gene, encoding a glycoside hydrolase (GH) family 10 xylanase, was identified from thermophilic Caldicellulosiruptor owensensis and was overexpressed in Escherichia coli. Recombinant CoXynA showed optimal activity at 90 °C with a half-life of about 1 h at 80 °C and exhibited highest activity at pH 7.0. The activity of CoXynA activity was affected by a variety of cations. CoXynA showed distinct substrate specificities for beechwood xylan and birchwood xylan. The crystal structure of CoXynA was solved and a molecular dynamics simulation of CoXynA was performed. The relatively high thermostability of CoXynA was proposed to be due to the increased overall protein rigidity resulting from the reduced length and fluctuation of Loop 7.
[Mh] Termos MeSH primário: Proteínas de Bactérias/química
Endo-1,4-beta-Xilanases/química
Endo-1,4-beta-Xilanases/metabolismo
Firmicutes/enzimologia
[Mh] Termos MeSH secundário: Proteínas de Bactérias/genética
Proteínas de Bactérias/metabolismo
Betula/química
Cristalografia por Raios X
Endo-1,4-beta-Xilanases/genética
Estabilidade Enzimática
Escherichia coli/genética
Fagus/química
Concentração de Íons de Hidrogênio
Cinética
Simulação de Dinâmica Molecular
Conformação Proteica
Proteínas Recombinantes/química
Proteínas Recombinantes/genética
Proteínas Recombinantes/metabolismo
Especificidade por Substrato
Madeira/química
Xilanos/metabolismo
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Bacterial Proteins); 0 (Recombinant Proteins); 0 (Xylans); EC 3.2.1.8 (Endo-1,4-beta Xylanases)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180215
[Lr] Data última revisão:
180215
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171214
[St] Status:MEDLINE
[do] DOI:10.1021/acs.jafc.7b03607


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[PMID]:29364604
[Au] Autor:Galach'yants AD; Bel'kova NL; Sukhanova EV; Romanovskaya VA; Gladka GV; Bedoshvili ED; Parfenova VV
[Ti] Título:[Diversity and Physiological and Biochemical Properties of Heterotrophic Bacteria. Isolated from Lake Baikal Neuston.]
[So] Source:Mikrobiologiia;85(5):568-579, 2016 Sep.
[Is] ISSN:0026-3656
[Cp] País de publicação:Russia (Federation)
[La] Idioma:rus
[Ab] Resumo:For heterotrophic microorganisms (44 strains) isolated-from the surface film of Lake Baikal, iden- tification was carried out and their. physiological and biochemical characteristics were determined. Com- pared to the water column, diversity of cultured heterotrophs was low, indicating formation of stable micro- bial communities at the air-water interphase interface. Heterotrophic bacteria isolated from the surface mi- crolayer exhibited the enzymatic activity comparable to that for strains form other biofilm associations. Deinococcusfi6us strain NA202 'vas the most active component of the community, capable of utilization of the broadest spectrum of mono- and disaccharides,'sugars, and amino acids. This strain possessed the highest diversity of extracellular enzymes and was the most resistant to UV radiation. The physiological and bio- chemical properties of this strain may-be responsible for its adaptation to survival in extreme conditions of the surface microlayer. Our results improve our understanding of occurrence of UV-resistant strains in freshwater ecosystems.
[Mh] Termos MeSH primário: Deinococcus/metabolismo
Processos Heterotróficos/fisiologia
Lagos/microbiologia
Consórcios Microbianos/fisiologia
Filogenia
RNA Ribossômico 16S/genética
[Mh] Termos MeSH secundário: Alphaproteobacteria/classificação
Alphaproteobacteria/genética
Alphaproteobacteria/isolamento & purificação
Alphaproteobacteria/efeitos da radiação
Aminoácidos/metabolismo
Bacteroidetes/classificação
Bacteroidetes/genética
Bacteroidetes/isolamento & purificação
Bacteroidetes/efeitos da radiação
Betaproteobacteria/classificação
Betaproteobacteria/genética
Betaproteobacteria/isolamento & purificação
Betaproteobacteria/efeitos da radiação
Biodiversidade
Deinococcus/classificação
Deinococcus/isolamento & purificação
Deinococcus/efeitos da radiação
Deltaproteobacteria/classificação
Deltaproteobacteria/genética
Deltaproteobacteria/isolamento & purificação
Deltaproteobacteria/efeitos da radiação
Dissacarídeos/metabolismo
Ecossistema
Firmicutes/classificação
Firmicutes/genética
Firmicutes/isolamento & purificação
Firmicutes/efeitos da radiação
Gammaproteobacteria/classificação
Gammaproteobacteria/genética
Gammaproteobacteria/isolamento & purificação
Gammaproteobacteria/efeitos da radiação
Processos Heterotróficos/efeitos da radiação
Consórcios Microbianos/efeitos da radiação
Monossacarídeos/metabolismo
Proteobactérias/classificação
Proteobactérias/genética
Proteobactérias/isolamento & purificação
Proteobactérias/efeitos da radiação
Sibéria
Propriedades de Superfície
Raios Ultravioleta
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Amino Acids); 0 (Disaccharides); 0 (Monosaccharides); 0 (RNA, Ribosomal, 16S)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180208
[Lr] Data última revisão:
180208
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180125
[St] Status:MEDLINE


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[PMID]:29364603
[Au] Autor:Kashkak ES; Bel'kova NL; Danilova EV; Dagurova OP; Namsaraev BB; Gorlenko VM
[Ti] Título:Phylogenetic and Functional Prokaryotic Diversity in the Hoito-Gol Mesothermal Mineral Spring (Eastern Savan Mountains. Buryat Renuhlie).
[So] Source:Mikrobiologiia;85(5):555-567, 2016 Sep.
[Is] ISSN:0026-3656
[Cp] País de publicação:Russia (Federation)
[La] Idioma:eng
[Ab] Resumo:High-throughput sequencing was used for comparative analysis of microbial communities of the water and mat from the Hoito-Gol mesothermal mineral sulfide spring (Eastern Sayan Mountains, Buryat Republic). Activity of microbial communities was determined. While both spring biotopes were dominated by members of three bacterial phyla, Proteobacteria, Bacteroidetes, and Firmicutes, they differed drastically in the composition of predominant phylotypes (at the genus level). In the water, the organisms wide spread in aquatic'environments were predominant, mostly aerobic chemoorganotrophs of the generaAcinetobacter, Pe- dobacter, and Flavobacterium. In the microbial mat,;the organisms actively involved in the sulfur cycle predominated, including sulfur-reducing bacteria Sulfurospirillum, sulfate-reducing deltaproteobacteria, sulfur- oxidizing chemoautotrophic bacteria, anoxygenic phototrophic bacteria of,the phyla Chloroflexi and Chloro- bi, as well as purple bacteria belonging to the Q-, P--, and y-Proteobacteria. Microbial mats of the spring exhibited higher phylogenetic diversity compared to high-temperature mats containing photosynthetic microorganisms.
[Mh] Termos MeSH primário: Água Subterrânea/microbiologia
Consórcios Microbianos/fisiologia
Águas Minerais/microbiologia
Filogenia
RNA Ribossômico 16S/genética
[Mh] Termos MeSH secundário: Bacteroidetes/classificação
Bacteroidetes/genética
Bacteroidetes/isolamento & purificação
Biodiversidade
Campylobacteraceae/classificação
Campylobacteraceae/genética
Campylobacteraceae/isolamento & purificação
Deltaproteobacteria/classificação
Deltaproteobacteria/genética
Deltaproteobacteria/isolamento & purificação
Ecossistema
Firmicutes/classificação
Firmicutes/genética
Firmicutes/isolamento & purificação
Metano/química
Metano/metabolismo
Proteobactérias/classificação
Proteobactérias/genética
Proteobactérias/isolamento & purificação
Estações do Ano
Sibéria
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Mineral Waters); 0 (RNA, Ribosomal, 16S); OP0UW79H66 (Methane)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180208
[Lr] Data última revisão:
180208
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180125
[St] Status:MEDLINE


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[PMID]:28466260
[Au] Autor:Singh SB; Wilson M; Ritz N; Lin HC
[Ad] Endereço:Section of Gastroenterology, Medicine Service, New Mexico VA Health Care System, 1501 San Pedro SE, Albuquerque, NM, 87108, USA.
[Ti] Título:Autophagy Genes of Host Responds to Disruption of Gut Microbial Community by Antibiotics.
[So] Source:Dig Dis Sci;62(6):1486-1497, 2017 06.
[Is] ISSN:1573-2568
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:BACKGROUND: Defective autophagic machinery, such as that in Crohn's disease patients homozygous for ATG16L1 risk allele, is associated with alteration of resident gut bacterial communities. However, whether or not host autophagy responds to changes in the resident gut microbial community is not known. Here, we investigated the effect of antibiotic-induced disruption of the gut microbiome (dysbiosis) on autophagy gene expression and the expression of antimicrobial peptides/protein (AMP) over time. AIM: To test the hypothesis that antibiotic treatment may cause time-dependent changes in gut bacterial density, autophagy genes, and antimicrobial protein/peptide gene expression. METHODS: Mice (n = 8 per group) were treated with antibiotic cocktail and sacrificed at different intervals of recovery (days 3, 7, 10, 14, 21, 28, 35, and 42) post-antibiotics. DNA and RNA were extracted from small intestinal tissues. Bacterial density, expression of host autophagy genes, and AMP genes were analyzed by relative quantitative PCR. Fold change difference in comparison with untreated control group was calculated using 2 method. Statistical analysis was performed using nonparametric Mann-Whitney test. RESULTS: Gut bacterial density changed in a time-dependent fashion in response to antibiotic treatment. These changes were concurrent with upregulation of autophagy genes and antimicrobial peptide/protein gene expression. We further showed that an oral gavage of a resident microbe Desulfovibrio, which bloomed in antibiotic-treated animals, induced Atg5 and lysozyme (Lyz) gene expression. CONCLUSION: Autophagy genes respond to dysbiosis induced by antibiotics. This response may be a host mechanism to detect and possibly correct dysbiosis by activating antimicrobial peptides/proteins that control the microbial load in the gut.
[Mh] Termos MeSH primário: Antibacterianos/farmacologia
Peptídeos Catiônicos Antimicrobianos/genética
Autofagia/genética
Disbiose/microbiologia
Microbioma Gastrointestinal/efeitos dos fármacos
RNA Ribossômico 16S/análise
[Mh] Termos MeSH secundário: Animais
Proteína 5 Relacionada à Autofagia/genética
Proteínas Relacionadas à Autofagia/genética
Bacteroidetes
Células Cultivadas
Desulfovibrio
Desulfovibrio vulgaris
Disbiose/induzido quimicamente
Disbiose/genética
Células Epiteliais/efeitos dos fármacos
Feminino
Firmicutes
Expressão Gênica
Intestino Delgado/citologia
Intestino Delgado/microbiologia
Macrófagos/efeitos dos fármacos
Camundongos
Camundongos Endogâmicos C57BL
Muramidase/genética
Proteínas Associadas a Pancreatite
Proteínas/genética
Fatores de Tempo
Regulação para Cima
alfa-Defensinas/genética
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Nm] Nome de substância:
0 (Anti-Bacterial Agents); 0 (Antimicrobial Cationic Peptides); 0 (Atg5 protein, mouse); 0 (Autophagy-Related Protein 5); 0 (Autophagy-Related Proteins); 0 (Pancreatitis-Associated Proteins); 0 (Proteins); 0 (RNA, Ribosomal, 16S); 0 (Reg3g protein, mouse); 0 (alpha-Defensins); 0 (cryptdin 4, mouse); EC 3.2.1.17 (Muramidase)
[Em] Mês de entrada:1708
[Cu] Atualização por classe:171213
[Lr] Data última revisão:
171213
[Sb] Subgrupo de revista:AIM; IM
[Da] Data de entrada para processamento:170504
[St] Status:MEDLINE
[do] DOI:10.1007/s10620-017-4589-8


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[PMID]:28949132
[Au] Autor:Goetzl S; Teutloff C; Werther T; Hennig SE; Jeoung JH; Bittl R; Dobbek H
[Ad] Endereço:Institut für Biologie, Strukturbiologie/Biochemie, Humboldt-Universität zu Berlin , Berlin, Germany.
[Ti] Título:Protein Dynamics in the Reductive Activation of a B12-Containing Enzyme.
[So] Source:Biochemistry;56(41):5496-5502, 2017 Oct 17.
[Is] ISSN:1520-4995
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:B12-dependent proteins are involved in methyl transfer reactions ranging from the biosynthesis of methionine in humans to the formation of acetyl-CoA in anaerobic bacteria. During their catalytic cycle, they undergo large conformational changes to interact with various proteins. Recently, the crystal structure of the B12-containing corrinoid iron-sulfur protein (CoFeSP) in complex with its reductive activator (RACo) was determined, providing a first glimpse of how energy is transduced in the ATP-dependent reductive activation of corrinoid-containing methyltransferases. The thermodynamically uphill electron transfer from RACo to CoFeSP is accompanied by large movements of the cofactor-binding domains of CoFeSP. To refine the structure-based mechanism, we analyzed the conformational change of the B12-binding domain of CoFeSP by pulsed electron-electron double resonance and Förster resonance energy transfer spectroscopy. We show that the site-specific labels on the flexible B12-binding domain and the small subunit of CoFeSP move within 11 Å in the RACo:CoFeSP complex, consistent with the recent crystal structures. By analyzing the transient kinetics of formation and dissociation of the RACo:CoFeSP complex, we determined values of 0.75 µM s and 0.33 s for rate constants k and k , respectively. Our results indicate that the large movement observed in crystals also occurs in solution and that neither the formation of the protein encounter complex nor the large movement of the B12-binding domain is rate-limiting for the ATP-dependent reductive activation of CoFeSP by RACo.
[Mh] Termos MeSH primário: Proteínas de Bactérias/metabolismo
Coenzimas/metabolismo
Ativadores de Enzimas/metabolismo
Firmicutes/enzimologia
Proteínas com Ferro-Enxofre/metabolismo
Modelos Moleculares
Vitamina B 12/metabolismo
[Mh] Termos MeSH secundário: Aldeído Oxirredutases/química
Aldeído Oxirredutases/genética
Aldeído Oxirredutases/metabolismo
Substituição de Aminoácidos
Proteínas de Bactérias/química
Proteínas de Bactérias/genética
Coenzimas/química
Cristalografia por Raios X
Bases de Dados de Proteínas
Dimerização
Ativadores de Enzimas/química
Proteínas com Ferro-Enxofre/química
Proteínas com Ferro-Enxofre/genética
Cinética
Complexos Multienzimáticos/química
Complexos Multienzimáticos/genética
Complexos Multienzimáticos/metabolismo
Mutagênese Sítio-Dirigida
Mutação
Oxirredução
Conformação Proteica
Domínios e Motivos de Interação entre Proteínas
Multimerização Proteica
Subunidades Proteicas/química
Subunidades Proteicas/genética
Subunidades Proteicas/metabolismo
Proteínas Recombinantes/química
Proteínas Recombinantes/metabolismo
Solubilidade
Vitamina B 12/química
[Pt] Tipo de publicação:COMPARATIVE STUDY; JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Bacterial Proteins); 0 (Coenzymes); 0 (Enzyme Activators); 0 (Iron-Sulfur Proteins); 0 (Multienzyme Complexes); 0 (Protein Subunits); 0 (Recombinant Proteins); EC 1.2.- (Aldehyde Oxidoreductases); EC 1.2.99.2 (carbon monoxide dehydrogenase); P6YC3EG204 (Vitamin B 12)
[Em] Mês de entrada:1710
[Cu] Atualização por classe:171024
[Lr] Data última revisão:
171024
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170927
[St] Status:MEDLINE
[do] DOI:10.1021/acs.biochem.7b00477


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[PMID]:28922412
[Au] Autor:Okubo T; Osaki T; Nozaki E; Uemura A; Sakai K; Matushita M; Matsuo J; Nakamura S; Kamiya S; Yamaguchi H
[Ad] Endereço:Department of Medical Laboratory Science, Faculty of Health Sciences, Hokkaido University, Kita-ku, Sapporo, Japan.
[Ti] Título:Walker occupancy has an impact on changing airborne bacterial communities in an underground pedestrian space, as small-dust particles increased with raising both temperature and humidity.
[So] Source:PLoS One;12(9):e0184980, 2017.
[Is] ISSN:1932-6203
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Although human occupancy is a source of airborne bacteria, the role of walkers on bacterial communities in built environments is poorly understood. Therefore, we visualized the impact of walker occupancy combined with other factors (temperature, humidity, atmospheric pressure, dust particles) on airborne bacterial features in the Sapporo underground pedestrian space in Sapporo, Japan. Air samples (n = 18; 4,800L/each sample) were collected at 8:00 h to 20:00 h on 3 days (regular sampling) and at early morning / late night (5:50 h to 7:50 h / 22:15 h to 24:45 h) on a day (baseline sampling), and the number of CFUs (colony forming units) OTUs (operational taxonomic units) and other factors were determined. The results revealed that temperature, humidity, and atmospheric pressure changed with weather. The number of walkers increased greatly in the morning and evening on each regular sampling day, although total walker numbers did not differ significantly among regular sampling days. A slight increase in small dust particles (0.3-0.5µm) was observed on the days with higher temperature regardless of regular or baseline sampling. At the period on regular sampling, CFU levels varied irregularly among days, and the OTUs of 22-phylum types were observed, with the majority being from Firmicutes or Proteobacteria (γ-), including Staphylococcus sp. derived from human individuals. The data obtained from regular samplings reveled that although no direct interaction of walker occupancy and airborne CFU and OTU features was observed upon Pearson's correlation analysis, cluster analysis indicated an obvious lineage consisting of walker occupancy, CFU numbers, OTU types, small dust particles, and seasonal factors (including temperature and humidity). Meanwhile, at the period on baseline sampling both walker and CFU numbers were similarly minimal. Taken together, the results revealed a positive correlation of walker occupancy with airborne bacteria that increased with increases in temperature and humidity in the presence of airborne small particles. Moreover, the results indicated that small dust particles at high temperature and humidity may be a crucial factor responsible for stabilizing the bacteria released from walkers in built environments. The findings presented herein advance our knowledge and understanding of the relationship between humans and bacterial communities in built environments, and will help improve public health in urban communities.
[Mh] Termos MeSH primário: Ambiente Controlado
Firmicutes
Temperatura Alta
Umidade
Material Particulado/análise
Proteobactérias
Caminhada
[Mh] Termos MeSH secundário: Feminino
Seres Humanos
Japão
Masculino
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Particulate Matter)
[Em] Mês de entrada:1710
[Cu] Atualização por classe:171013
[Lr] Data última revisão:
171013
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170919
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0184980


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[PMID]:28911112
[Au] Autor:Cury J; Touchon M; Rocha EPC
[Ad] Endereço:Microbial Evolutionary Genomics, Institut Pasteur, 28, rue du Dr Roux, Paris 75015, France.
[Ti] Título:Integrative and conjugative elements and their hosts: composition, distribution and organization.
[So] Source:Nucleic Acids Res;45(15):8943-8956, 2017 Sep 06.
[Is] ISSN:1362-4962
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:Conjugation of single-stranded DNA drives horizontal gene transfer between bacteria and was widely studied in conjugative plasmids. The organization and function of integrative and conjugative elements (ICE), even if they are more abundant, was only studied in a few model systems. Comparative genomics of ICE has been precluded by the difficulty in finding and delimiting these elements. Here, we present the results of a method that circumvents these problems by requiring only the identification of the conjugation genes and the species' pan-genome. We delimited 200 ICEs and this allowed the first large-scale characterization of these elements. We quantified the presence in ICEs of a wide set of functions associated with the biology of mobile genetic elements, including some that are typically associated with plasmids, such as partition and replication. Protein sequence similarity networks and phylogenetic analyses revealed that ICEs are structured in functional modules. Integrases and conjugation systems have different evolutionary histories, even if the gene repertoires of ICEs can be grouped in function of conjugation types. Our characterization of the composition and organization of ICEs paves the way for future functional and evolutionary analyses of their cargo genes, composed of a majority of unknown function genes.
[Mh] Termos MeSH primário: Conjugação Genética
Elementos de DNA Transponíveis
DNA Bacteriano/genética
Transferência Genética Horizontal
Filogenia
Plasmídeos/química
[Mh] Termos MeSH secundário: Actinobacteria/classificação
Actinobacteria/genética
Actinobacteria/metabolismo
Archaea/classificação
Archaea/genética
Archaea/metabolismo
Replicação do DNA
DNA Bacteriano/metabolismo
Evolução Molecular
Firmicutes/classificação
Firmicutes/genética
Firmicutes/metabolismo
Genes Bacterianos
Integrases/genética
Integrases/metabolismo
Lisogenia
Plasmídeos/metabolismo
Proteobactérias/classificação
Proteobactérias/genética
Proteobactérias/metabolismo
Recombinases/genética
Recombinases/metabolismo
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (DNA Transposable Elements); 0 (DNA, Bacterial); 0 (Recombinases); EC 2.7.7.- (Integrases)
[Em] Mês de entrada:1710
[Cu] Atualização por classe:171012
[Lr] Data última revisão:
171012
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170916
[St] Status:MEDLINE
[do] DOI:10.1093/nar/gkx607


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[PMID]:28733895
[Au] Autor:Doki N; Suyama M; Sasajima S; Ota J; Igarashi A; Mimura I; Morita H; Fujioka Y; Sugiyama D; Nishikawa H; Shimazu Y; Suda W; Takeshita K; Atarashi K; Hattori M; Sato E; Watakabe-Inamoto K; Yoshioka K; Najima Y; Kobayashi T; Kakihana K; Takahashi N; Sakamaki H; Honda K; Ohashi K
[Ad] Endereço:Hematology Division, Tokyo Metropolitan Cancer and Infectious Diseases Center Komagome Hospital, 3-18-22 Honkomagome, Bunkyo-ku, Tokyo, 113-8677, Japan. n-doki@cick.jp.
[Ti] Título:Clinical impact of pre-transplant gut microbial diversity on outcomes of allogeneic hematopoietic stem cell transplantation.
[So] Source:Ann Hematol;96(9):1517-1523, 2017 Sep.
[Is] ISSN:1432-0584
[Cp] País de publicação:Germany
[La] Idioma:eng
[Ab] Resumo:Post-transplant microbial diversity in the gastrointestinal tract is closely associated with clinical outcomes following allogeneic hematopoietic stem cell transplantation (allo-HSCT). However, little is known about the impact of the fecal microbiota before allo-HSCT. We analyzed fecal samples approximately 2 weeks before conditioning among 107 allo-HSCT recipients between 2013 and 2015. Microbial analysis was performed using 16S rRNA gene sequencing. Operational taxonomic unit-based microbial diversity was estimated by calculating the Shannon index. Patients were classified into three groups based on the diversity index: low (<2), intermediate (2, 3), and high (>3) diversity (18 (16.8%), 48 (44.9%), and 41 (38.3%) patients, respectively). There were no significant differences in the 20-month overall survival, cumulative incidence of relapse, and non-relapse mortality among three groups. The cumulative incidence of grade II to IV acute graft-versus-host disease (aGVHD) was similar among the three groups (low 55.6%; intermediate 35.4%; high 48.8%, p = 0.339, at day 100). Furthermore, we found no differences in the cumulative incidence of grade II to IV acute gastrointestinal GVHD among the three groups (low 38.9%; intermediate 21.3%; high 24.4%, p = 0.778, at day 100). Regarding the composition of microbiota before allo-HSCT, aGVHD patients showed a significantly higher abundance of phylum Firmicutes (p < 0.01) and a lower tendency for Bacteroidetes (p = 0.106) than non-aGVHD patients. Maintenance of Bacteroidetes throughout allo-HSCT may be a strategy to prevent aGVHD.
[Mh] Termos MeSH primário: Bacteroidetes
Firmicutes
Microbioma Gastrointestinal
Doença Enxerto-Hospedeiro
[Mh] Termos MeSH secundário: Doença Aguda
Adulto
Idoso
Aloenxertos
Bacteroidetes/classificação
Bacteroidetes/genética
Intervalo Livre de Doença
Feminino
Firmicutes/classificação
Firmicutes/genética
Doença Enxerto-Hospedeiro/genética
Doença Enxerto-Hospedeiro/microbiologia
Doença Enxerto-Hospedeiro/mortalidade
Transplante de Células-Tronco Hematopoéticas
Seres Humanos
Masculino
Meia-Idade
RNA Bacteriano/genética
RNA Ribossômico 16S/genética
Taxa de Sobrevida
[Pt] Tipo de publicação:CLINICAL TRIAL; JOURNAL ARTICLE
[Nm] Nome de substância:
0 (RNA, Bacterial); 0 (RNA, Ribosomal, 16S)
[Em] Mês de entrada:1708
[Cu] Atualização por classe:170817
[Lr] Data última revisão:
170817
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170723
[St] Status:MEDLINE
[do] DOI:10.1007/s00277-017-3069-8



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