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[PMID]:29320820
[Au] Autor:Ahmed H; Sousa SR; Simsek S; Anastácio S; Kilinc SG
[Ad] Endereço:Department of Biosciences, COMSATS Institute of Information Technology (CIIT), Park Road, Chakh Shazad, Islamabad, Pakistan.
[Ti] Título:First Molecular Characterization of Hypoderma actaeon in Cattle and Red Deer (Cervus elaphus) in Portugal.
[So] Source:Korean J Parasitol;55(6):653-658, 2017 Dec.
[Is] ISSN:1738-0006
[Cp] País de publicação:Korea (South)
[La] Idioma:eng
[Ab] Resumo:Hypoderma spp. larvae cause subcutaneous myiasis in several animal species. The objective of the present investigation was to identify and characterize morphologically and molecularly the larvae of Hypoderma spp. collected from cattle (Bos taurus taurus) and red deer (Cervus elaphus) in the district of Castelo Branco, Portugal. For this purpose, a total of 8 larvae were collected from cattle (n=2) and red deer (n=6). After morphological identification of Hypoderma spp. larvae, molecular characterization was based on PCR-RFLP and mitochondrial CO1 gene sequence analysis. All larvae were morphologically characterized as the third instar larvae (L3) of H. actaeon. Two restriction enzymes were used for molecular identification of the larvae. TaqI restriction enzyme was not able to cut H. actaeon. However, MboII restriction enzyme differentiated Hypoderma species showing 210 and 450 bp bands in H. actaeon. Furthermore, according to the alignment of the mt-CO1 gene sequences of Hypoderma species and to PCR-RFLP findings, all the identified Hypoderma larvae were confirmed as H. actaeon. This is the first report of identification of Hypoderma spp. (Diptera; Oestridae) from cattle and red deer in Portugal, based on morphological and molecular analyses.
[Mh] Termos MeSH primário: Doenças dos Bovinos/parasitologia
Cervos/parasitologia
Dípteros/classificação
Dípteros/genética
Larva
Miíase/parasitologia
Miíase/veterinária
[Mh] Termos MeSH secundário: Animais
Bovinos
Dípteros/anatomia & histologia
Complexo IV da Cadeia de Transporte de Elétrons/genética
Larva/anatomia & histologia
Filogenia
Reação em Cadeia da Polimerase
Polimorfismo de Fragmento de Restrição
Portugal
Análise de Sequência/métodos
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
EC 1.9.3.1 (Electron Transport Complex IV)
[Em] Mês de entrada:1803
[Cu] Atualização por classe:180309
[Lr] Data última revisão:
180309
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180112
[St] Status:MEDLINE
[do] DOI:10.3347/kjp.2017.55.6.653


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[PMID]:29325310
[Au] Autor:Li CY; Yang HH; Lyu RJ; Wang Q
[Ti] Título:[Clinical characteristics and whole exon sequence study of a Chinese family with autosomal dominant lateral temporal lobe epilepsy].
[So] Source:Zhonghua Nei Ke Za Zhi;57(1):44-47, 2018 Jan 01.
[Is] ISSN:0578-1426
[Cp] País de publicação:China
[La] Idioma:chi
[Ab] Resumo:To explore the genetic characteristics in a Chinese family with autosomal dominant lateral temporal lobe epilepsy (ADLTE) and analyze the correlation between genotype and phenotype. The natural history, clinical data and peripheral blood sample were collected in all patients and two healthy members of this ADLTE family. Whole exon sequence (WES) analysis strategy was used to explore the underlying mutations. Possible causative genetic variation was further confirmed by direct PCR and Sanger sequencing. The genotype-phenotype features were compared with previously reported cases. A novel pathogenetic LGI1 frameshift mutation p.T134fs was identified in this study. The clinical phenotype was different from reported. This study reports a pathogenic LGI1 mutation in a Chinese ADLTE family for the first time, which suggests that LGI1 is a new genetic abnormality of ADLTE in Chinese.
[Mh] Termos MeSH primário: Grupo com Ancestrais do Continente Asiático/genética
Epilepsia do Lobo Frontal/genética
Éxons/genética
Proteínas/genética
Transtornos do Sono-Vigília/genética
[Mh] Termos MeSH secundário: Epilepsia do Lobo Frontal/diagnóstico
Epilepsia do Lobo Temporal
Genótipo
Seres Humanos
Mutação
Linhagem
Fenótipo
Análise de Sequência
Deleção de Sequência
Transtornos do Sono-Vigília/diagnóstico
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Proteins)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180222
[Lr] Data última revisão:
180222
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180112
[St] Status:MEDLINE
[do] DOI:10.3760/cma.j.issn.0578-1426.2018.01.008


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[PMID]:29298003
[Au] Autor:Alifirova VM; Zhukova NG; Zhukova IA; Mironova YS; Petrov VA; Izhboldina OP; Titova MA; Latypova AV; Nikitina MA; Dorofeeva YB; Saltykova IV; Tyakht AV; Kostryukova ES; Sazonov AE
[Ti] Título:Correlation Between Emotional-Affective Disorders and Gut Microbiota Composition in Patients with Parkinson's Disease.
[So] Source:Vestn Ross Akad Med Nauk;71(6):427-35, 2016.
[Is] ISSN:0869-6047
[Cp] País de publicação:Russia (Federation)
[La] Idioma:eng
[Ab] Resumo:Background: Despite the efforts of scientific community the data available on the correlation between emotional-affective symptoms of Parkinson's disease and changes in microbiome is still scarce. Deeper studies of nonmotor symptoms evident in premotor stages of the disease and the reciprocal influence of microbiota may help to understand the etiology and pathogenesis of PD neurodegeneration better. Aim of the Study: Discover the relations between emotional-affective disorders prevalent in PD population and changes in gut microbiota composition. Methods: 51 patient diagnosed with PD participated in the study. Every participant's emotional-affective state was examined using Beck's Depression Inventory (BDI) and Hospital Anxiety and Depression Scale (HADS). Taxonomic richness of microbiome was studied using 16S ribosomal RNA gene sequencing, bioinformatics, and statistical analysis. Results: Anxiety and depression are prevalent affective disorders in patients with PD. In our study, most of the subjects demonstrated certain anxiety and depression. Taxonomic diversity of gut microbiota in BP was increasing with the increase in anxiety levels, reaching the maximum in the group with subclinical anxiety, and decreasing in the group with clinically significant anxiety disorder. At the species level, patients with clinically significant anxiety had higher abundance of Clostridium clariflavum compared to the anxiety-free patients. Patients with moderate depression were characterized by the higher prevalence of Christensenella minuta, Clostridium disporicum, and Oscillibacter valericigenes compared to subjects without depression or with mild depression. Conclusion: The data we received in our study allow better understanding of PD pathogenesis.
[Mh] Termos MeSH primário: Ansiedade
Depressão
Microbioma Gastrointestinal/genética
Doença de Parkinson
[Mh] Termos MeSH secundário: Idoso
Ansiedade/diagnóstico
Ansiedade/fisiopatologia
Depressão/diagnóstico
Depressão/fisiopatologia
Feminino
Trato Gastrointestinal/microbiologia
Seres Humanos
Masculino
Meia-Idade
Doença de Parkinson/microbiologia
Doença de Parkinson/fisiopatologia
Doença de Parkinson/psicologia
Escalas de Graduação Psiquiátrica
RNA Ribossômico 16S/análise
Análise de Sequência
Estatística como Assunto
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (RNA, Ribosomal, 16S)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180220
[Lr] Data última revisão:
180220
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180104
[St] Status:MEDLINE
[do] DOI:10.15690/vramn734


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[PMID]:28457901
[Au] Autor:Haghighat S; Siadat SD; Rezayat Sorkhabadi SM; Akhavan Sepahi A; Sadat SM; Yazdi MH; Mahdavi M
[Ad] Endereço:Department of Microbiology, Faculty of Advanced Sciences and Technology, Pharmaceutical Sciences Branch, Islamic Azad University (IAUPS), Tehran, Iran. Electronic address: Haghighat.s@iaups.ac.ir.
[Ti] Título:Recombinant PBP2a as a vaccine candidate against methicillin-resistant Staphylococcus aureus: Immunogenicity and protectivity.
[So] Source:Microb Pathog;108:32-39, 2017 Jul.
[Is] ISSN:1096-1208
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:Methicillin-resistant Staphylococcus aureus infections are focal and development of an effective vaccine can help to control this infection. Here, recombinant PBP2a was studied in mouse model. Following the preparation of recombinant PBP2a, Balb/c mice were injected subcutaneously with 20 µg of r-PBP2a formulated in Freund's adjuvant three times with three weeks intervals with proper control group. Total and specific isotype antibodies were evaluated on sera by ELISA. Opsonophagocytic activity was also investigated on the sera samples. Intraperitonealchallenge with a sub-lethal dose of MRSA (5 × 10 CFU) was done in experimental mice. Following that, the number of bacteria from kidneys of experimental mice were determined. Survival rate was recorded for 60 days. Significant increase of antibody with high level of IgG1, IgG2a and IgG2b isotypes was demonstrated in vaccinated mice versus the control group (P < 0.005). The bacterial load in the kidneys from immunized mice was 1000 times less thancontrol group (PBS) and opsonophagocytic activity of immunized mice sera significantly increased (P < 0.0001). Finally the life span of immunized mice after bacterial challenge was extended versus control mice. These results may indicate the capacity of PBP2a as a candidate vaccine to control the MRSA infections.
[Mh] Termos MeSH primário: Proteínas de Bactérias/genética
Proteínas de Bactérias/imunologia
Staphylococcus aureus Resistente à Meticilina/genética
Staphylococcus aureus Resistente à Meticilina/imunologia
Proteínas de Ligação às Penicilinas/genética
Proteínas de Ligação às Penicilinas/imunologia
Infecções Estafilocócicas/imunologia
Vacinas Antiestafilocócicas/genética
Vacinas Antiestafilocócicas/imunologia
Vacinas Sintéticas/uso terapêutico
[Mh] Termos MeSH secundário: Animais
Anticorpos Antibacterianos/sangue
Antígenos de Bactérias/genética
Antígenos de Bactérias/imunologia
Carga Bacteriana
Clonagem Molecular
Modelos Animais de Doenças
Ensaio de Imunoadsorção Enzimática
Feminino
Imunidade Humoral/imunologia
Imunoglobulina G/sangue
Isotipos de Imunoglobulinas/imunologia
Rim/efeitos dos fármacos
Rim/microbiologia
Camundongos
Camundongos Endogâmicos BALB C
Alinhamento de Sequência
Análise de Sequência
Infecções Estafilocócicas/microbiologia
Infecções Estafilocócicas/prevenção & controle
Taxa de Sobrevida
Vacinação
Vacinas Sintéticas/genética
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Antibodies, Bacterial); 0 (Antigens, Bacterial); 0 (Bacterial Proteins); 0 (Immunoglobulin G); 0 (Immunoglobulin Isotypes); 0 (Penicillin-Binding Proteins); 0 (Staphylococcal Vaccines); 0 (Vaccines, Synthetic); 0 (mecA protein, Staphylococcus aureus)
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180108
[Lr] Data última revisão:
180108
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170502
[St] Status:MEDLINE


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[PMID]:28449639
[Au] Autor:Agrawal S; Arze C; Adkins RS; Crabtree J; Riley D; Vangala M; Galens K; Fraser CM; Tettelin H; White O; Angiuoli SV; Mahurkar A; Fricke WF
[Ad] Endereço:Institute for Genome Sciences, Baltimore, MD, USA.
[Ti] Título:CloVR-Comparative: automated, cloud-enabled comparative microbial genome sequence analysis pipeline.
[So] Source:BMC Genomics;18(1):332, 2017 04 27.
[Is] ISSN:1471-2164
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:BACKGROUND: The benefit of increasing genomic sequence data to the scientific community depends on easy-to-use, scalable bioinformatics support. CloVR-Comparative combines commonly used bioinformatics tools into an intuitive, automated, and cloud-enabled analysis pipeline for comparative microbial genomics. RESULTS: CloVR-Comparative runs on annotated complete or draft genome sequences that are uploaded by the user or selected via a taxonomic tree-based user interface and downloaded from NCBI. CloVR-Comparative runs reference-free multiple whole-genome alignments to determine unique, shared and core coding sequences (CDSs) and single nucleotide polymorphisms (SNPs). Output includes short summary reports and detailed text-based results files, graphical visualizations (phylogenetic trees, circular figures), and a database file linked to the Sybil comparative genome browser. Data up- and download, pipeline configuration and monitoring, and access to Sybil are managed through CloVR-Comparative web interface. CloVR-Comparative and Sybil are distributed as part of the CloVR virtual appliance, which runs on local computers or the Amazon EC2 cloud. Representative datasets (e.g. 40 draft and complete Escherichia coli genomes) are processed in <36 h on a local desktop or at a cost of <$20 on EC2. CONCLUSIONS: CloVR-Comparative allows anybody with Internet access to run comparative genomics projects, while eliminating the need for on-site computational resources and expertise.
[Mh] Termos MeSH primário: Computação em Nuvem
Genômica/métodos
Software
[Mh] Termos MeSH secundário: Automação
Genoma Microbiano/genética
Alinhamento de Sequência
Análise de Sequência
[Pt] Tipo de publicação:COMPARATIVE STUDY; JOURNAL ARTICLE; RESEARCH SUPPORT, N.I.H., EXTRAMURAL; RESEARCH SUPPORT, U.S. GOV'T, P.H.S.
[Em] Mês de entrada:1712
[Cu] Atualização por classe:180104
[Lr] Data última revisão:
180104
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170429
[St] Status:MEDLINE
[do] DOI:10.1186/s12864-017-3717-3


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[PMID]:29237418
[Au] Autor:Cattaneo M; La Sala L; Rondinelli M; Errichiello E; Zuffardi O; Puca AA; Genovese S; Ceriello A
[Ad] Endereço:Cardiovascular Research Unit, IRCCS MultiMedica, Via G. Fantoli 16/15, 20138, Milan, Italy. monica.cattaneo@multimedica.it.
[Ti] Título:A donor splice site mutation in CISD2 generates multiple truncated, non-functional isoforms in Wolfram syndrome type 2 patients.
[So] Source:BMC Med Genet;18(1):147, 2017 12 13.
[Is] ISSN:1471-2350
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:BACKGROUND: Mutations in the gene that encodes CDGSH iron sulfur domain 2 (CISD2) are causative of Wolfram syndrome type 2 (WFS2), a rare autosomal recessive neurodegenerative disorder mainly characterized by diabetes mellitus, optic atrophy, peptic ulcer bleeding and defective platelet aggregation. Four mutations in the CISD2 gene have been reported. Among these mutations, the homozygous c.103 + 1G > A substitution was identified in the donor splice site of intron 1 in two Italian sisters and was predicted to cause a exon 1 to be skipped. METHODS: Here, we employed molecular assays to characterize the c.103 + 1G > A mutation using the patient's peripheral blood mononuclear cells (PBMCs). 5'-RACE coupled with RT-PCR were used to analyse the effect of the c.103 + 1G > A mutation on mRNA splicing. Western blot analysis was used to analyse the consequences of the CISD2 mutation on the encoded protein. RESULTS: We demonstrated that the c.103 + 1G > A mutation functionally impaired mRNA splicing, producing multiple splice variants characterized by the whole or partial absence of exon 1, which introduced amino acid changes and a premature stop. The affected mRNAs resulted in either predicted targets for nonsense mRNA decay (NMD) or non-functional isoforms. CONCLUSIONS: We concluded that the c.103 + 1G > A mutation resulted in the loss of functional CISD2 protein in the two Italian WFS2 patients.
[Mh] Termos MeSH primário: Senilidade Prematura/genética
Perda Auditiva Neurossensorial/genética
Proteínas de Membrana/genética
Doenças Mitocondriais/genética
Mutação
Atrofia Óptica/genética
Sítios de Splice de RNA/genética
[Mh] Termos MeSH secundário: Sequência de Bases
Células Sanguíneas
Códon sem Sentido
Éxons/genética
Feminino
Seres Humanos
Íntrons/genética
Leucócitos Mononucleares
Proteínas de Membrana/química
Isoformas de Proteínas/genética
Sítios de Splice de RNA/fisiologia
Processamento de RNA
RNA Mensageiro/genética
Análise de Sequência
Deleção de Sequência
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Nm] Nome de substância:
0 (Codon, Nonsense); 0 (ERIS protein, human); 0 (Membrane Proteins); 0 (Protein Isoforms); 0 (RNA Splice Sites); 0 (RNA, Messenger)
[Em] Mês de entrada:1712
[Cu] Atualização por classe:171231
[Lr] Data última revisão:
171231
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171215
[St] Status:MEDLINE
[do] DOI:10.1186/s12881-017-0508-2


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[PMID]:28464816
[Au] Autor:Shahinyan G; Margaryan A; Panosyan H; Trchounian A
[Ad] Endereço:Research Institute of Biology, Yerevan State University, 0025, Yerevan, Armenia.
[Ti] Título:Identification and sequence analyses of novel lipase encoding novel thermophillic bacilli isolated from Armenian geothermal springs.
[So] Source:BMC Microbiol;17(1):103, 2017 05 02.
[Is] ISSN:1471-2180
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:BACKGROUND: Among the huge diversity of thermophilic bacteria mainly bacilli have been reported as active thermostable lipase producers. Geothermal springs serve as the main source for isolation of thermostable lipase producing bacilli. Thermostable lipolytic enzymes, functioning in the harsh conditions, have promising applications in processing of organic chemicals, detergent formulation, synthesis of biosurfactants, pharmaceutical processing etc. RESULTS: In order to study the distribution of lipase-producing thermophilic bacilli and their specific lipase protein primary structures, three lipase producers from different genera were isolated from mesothermal (27.5-70 °C) springs distributed on the territory of Armenia and Nagorno Karabakh. Based on phenotypic characteristics and 16S rRNA gene sequencing the isolates were identified as Geobacillus sp., Bacillus licheniformis and Anoxibacillus flavithermus strains. The lipase genes of isolates were sequenced by using initially designed primer sets. Multiple alignments generated from primary structures of the lipase proteins and annotated lipase protein sequences, conserved regions analysis and amino acid composition have illustrated the similarity (98-99%) of the lipases with true lipases (family I) and GDSL esterase family (family II). A conserved sequence block that determines the thermostability has been identified in the multiple alignments of the lipase proteins. CONCLUSIONS: The results are spreading light on the lipase producing bacilli distribution in geothermal springs in Armenia and Nagorno Karabakh. Newly isolated bacilli strains could be prospective source for thermostable lipases and their genes.
[Mh] Termos MeSH primário: Bacillus/enzimologia
Bacillus/isolamento & purificação
Proteínas de Bactérias/química
Proteínas de Bactérias/isolamento & purificação
Fontes Termais/microbiologia
Lipase/química
Lipase/isolamento & purificação
Análise de Sequência
[Mh] Termos MeSH secundário: Sequência de Aminoácidos
Armênia
Bacillus/genética
Proteínas de Bactérias/classificação
Proteínas de Bactérias/genética
Estabilidade Enzimática
Esterases
Temperatura Alta
Concentração de Íons de Hidrogênio
Lipase/classificação
Lipase/genética
Fenótipo
Filogenia
RNA Ribossômico 16S/genética
Alinhamento de Sequência
Especificidade por Substrato
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Nm] Nome de substância:
0 (Bacterial Proteins); 0 (RNA, Ribosomal, 16S); EC 3.1.- (Esterases); EC 3.1.1.3 (Lipase); EC 3.1.1.3 (thermostable lipase)
[Em] Mês de entrada:1711
[Cu] Atualização por classe:171220
[Lr] Data última revisão:
171220
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170504
[St] Status:MEDLINE
[do] DOI:10.1186/s12866-017-1016-4


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[PMID]:29036229
[Au] Autor:Wang J; Du J; Mu X; Wang P
[Ad] Endereço:Department of Pomology, College of Horticulture, Shanxi Agricultural University, Taigu, China.
[Ti] Título:Cloning and characterization of the Cerasus humilis sucrose phosphate synthase gene (ChSPS1).
[So] Source:PLoS One;12(10):e0186650, 2017.
[Is] ISSN:1932-6203
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Sucrose is crucial to the growth and development of plants, and sucrose phosphate synthase (SPS) plays a key role in sucrose synthesis. To understand the genetic and molecular mechanisms of sucrose synthesis in Cerasus humilis, ChSPS1, a homologue of SPS, was cloned using RT-PCR. Sequence analysis showed that the open reading frame (ORF) sequence of ChSPS1 is 3174 bp in length, encoding a predicted protein of 1057 amino acids. The predicted protein showed a high degree of sequence identity with SPS homologues from other species. Real-time RT-PCR analysis showed that ChSPS1 mRNA was detected in all tissues and the transcription level was the highest in mature fruit. There is a significant positive correlation between expression of ChSPS1 and sucrose content. Prokaryotic expression of ChSPS1 indicated that ChSPS1 protein was expressed in E. coli and it had the SPS activity. Overexpression of ChSPS1 in tobacco led to upregulation of enzyme activity and increased sucrose contents in transgenic plants. Real-time RT-PCR analysis showed that the expression of ChSPS1 in transgenic tobacco was significantly higher than in wild type plants. These results suggested that ChSPS1 plays an important role in sucrose synthesis in Cerasus humilis.
[Mh] Termos MeSH primário: Glucosiltransferases/genética
Prunus/enzimologia
Prunus/genética
[Mh] Termos MeSH secundário: Sequência de Aminoácidos
Clonagem Molecular
Regulação da Expressão Gênica de Plantas
Glucosiltransferases/química
Glucosiltransferases/metabolismo
Análise de Sequência
Sacarose/metabolismo
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
57-50-1 (Sucrose); EC 2.4.1.- (Glucosyltransferases); EC 2.4.1.14 (sucrose-phosphate synthase)
[Em] Mês de entrada:1711
[Cu] Atualização por classe:171106
[Lr] Data última revisão:
171106
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171017
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0186650


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[PMID]:28937988
[Au] Autor:Rubinelli PM; Kim SA; Park SH; Roto SM; Nealon NJ; Ryan EP; Ricke SC
[Ad] Endereço:Center for Food Safety and Department of Food Science, University of Arkansas, Fayetteville, Arkansas, United States of America.
[Ti] Título:Differential effects of rice bran cultivars to limit Salmonella Typhimurium in chicken cecal in vitro incubations and impact on the cecal microbiome and metabolome.
[So] Source:PLoS One;12(9):e0185002, 2017.
[Is] ISSN:1932-6203
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:In this study, rice brans from different cultivars (Calrose, Jasmine, and Red Wells) were assessed for their ability to inhibit Salmonella enterica serovar Typhimurium using an in vitro mixed anaerobic culture system containing cecal microbiota obtained from broilers of different ages. Salmonella Typhimurium was added to controls (feed only, cecal only, and feed + cecal material) and treatments (feed + cecal + different rice brans) and S. Typhimurium populations were enumerated at 0, 24, and 48 h. Two experimental conditions were applied 1) unadapted condition in which S. Typhimurium was added at the beginning of the culture incubation and 2) adapted condition in which S. Typhimurium was added after a 24 hour pre-incubation of the cecal bacteria with the feed and/or rice bran. Among the three rice brans, only Calrose exhibited a rapid inhibition of S. Typhimurium, which decreased to undetectable levels after 24 h under the adapted incubation. Changes in microbiological composition and metabolites by addition of Calrose bran were also investigated with an Illumina MiSeq platform and gas chromatography-mass spectrometry, respectively. Addition of Calrose bran resulted in significant changes including decreased Firmicutes phylum abundance and an increased number of metabolites associated with fatty acid metabolism. In summary, it appears that rice bran from specific rice cultivars may be effective as a means to reduce Salmonella in the chicken ceca. In addition, Calrose rice bran inclusion leads to changes in cecal microbiological composition and metabolite profile.
[Mh] Termos MeSH primário: Ceco/microbiologia
Galinhas/microbiologia
Fibras na Dieta
Metaboloma
Oryza
Salmonella typhimurium/crescimento & desenvolvimento
[Mh] Termos MeSH secundário: Animais
Cromatografia Gasosa-Espectrometria de Massas
Microbioma Gastrointestinal
Masculino
Análise de Sequência
Especificidade da Espécie
Fatores de Tempo
[Pt] Tipo de publicação:COMPARATIVE STUDY; JOURNAL ARTICLE
[Em] Mês de entrada:1710
[Cu] Atualização por classe:171116
[Lr] Data última revisão:
171116
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170923
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0185002


  10 / 8564 MEDLINE  
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[PMID]:28841676
[Au] Autor:Kück P; Wilkinson M; Groß C; Foster PG; Wägele JW
[Ad] Endereço:Zoologisches Forschungsmuseum Alexander Koenig, Bonn, 53113, Germany.
[Ti] Título:Can quartet analyses combining maximum likelihood estimation and Hennigian logic overcome long branch attraction in phylogenomic sequence data?
[So] Source:PLoS One;12(8):e0183393, 2017.
[Is] ISSN:1932-6203
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Systematic biases such as long branch attraction can mislead commonly relied upon model-based (i.e. maximum likelihood and Bayesian) phylogenetic methods when, as is usually the case with empirical data, there is model misspecification. We present PhyQuart, a new method for evaluating the three possible binary trees for any quartet of taxa. PhyQuart was developed through a process of reciprocal illumination between a priori considerations and the results of extensive simulations. It is based on identification of site-patterns that can be considered to support a particular quartet tree taking into account the Hennigian distinction between apomorphic and plesiomorphic similarity, and employing corrections to the raw observed frequencies of site-patterns that exploit expectations from maximum likelihood estimation. We demonstrate through extensive simulation experiments that, whereas maximum likeilihood estimation performs well in many cases, it can be outperformed by PhyQuart in cases where it fails due to extreme branch length asymmetries producing long-branch attraction artefacts where there is only very minor model misspecification.
[Mh] Termos MeSH primário: Funções Verossimilhança
Filogenia
Análise de Sequência
[Mh] Termos MeSH secundário: Algoritmos
Modelos Teóricos
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Em] Mês de entrada:1710
[Cu] Atualização por classe:171105
[Lr] Data última revisão:
171105
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170826
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0183393



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