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[PMID]:28968942
[Au] Autor:Tran TAT; Dinh QT; Cui Z; Huang J; Wang D; Wei T; Liang D; Sun X; Ning P
[Ad] Endereço:College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China.
[Ti] Título:Comparing the influence of selenite (Se ) and selenate (Se ) on the inhibition of the mercury (Hg) phytotoxicity to pak choi.
[So] Source:Ecotoxicol Environ Saf;147:897-904, 2018 Jan.
[Is] ISSN:1090-2414
[Cp] País de publicação:Netherlands
[La] Idioma:eng
[Ab] Resumo:Selenite (Se (IV)) and selenate (Se (IV)) have recently been demonstrated to be equally effective in inhibiting mercury (Hg) phytotoxicity to plants. This assertion is still unclear. In this study, we aimed to explore the potential effects of Se species (Se and Se ) on the inhibition of the mercury (Hg) bioavailability to pak choi in dry land. Pot experiments with exposure to different dosages of mercuric chloride (HgCl ) and selenite (Na SeO ) or selenate (Na SeO ) were treated. To compare the influence of Se (IV) and Se (VI) on the bioaccumulation and bioavailability of Hg, the levels of total Hg in different pak choi (Brassica chinensis L.) tissues (roots and shoots) and the distribution changes of Hg fractions in soil before planting and after harvest were determined as well as the Hg I values in soils (relative binding intensity) were analyzed. Results showed that application Se (IV) reduced the concentrations of Hg in pak choi roots more than Se (VI). Hg concentrations were also decreased in pak choi shoots in Se (IV) treatments, while which notably increased in Se (VI) treatments. Thus, Se (IV) plays a more important role than Se (VI) in limiting the absorption and bioaccumulation of Hg in pak choi. Moreover, this inhibition may only significantly occur when Se (IV) is at an appropriate level (2.5mg/kg). In addition, the good correlations between the proportions of mobile Hg fractions (soluble and exchangeable fractions), I values with the Hg concentrations in plants were observed. This affirmed the importance of the Hg fractions transformation and the I indicator of Hg in the assessment of their bioavailability. Our findings regarding the importance of Se (IV) influence in reducing Hg bioaccumulation not only provided the correct appraisal about the effect of Se species on the inhibition of the Hg phytotoxicity to pak choi in dry land, but also be a good reference for selecting Se fertilizer forms (Se or Se ).
[Mh] Termos MeSH primário: Brassica/efeitos dos fármacos
Mercúrio/toxicidade
Ácido Selênico/farmacologia
Ácido Selenioso/farmacologia
Poluentes do Solo/toxicidade
Solo/química
[Mh] Termos MeSH secundário: Disponibilidade Biológica
Brassica/metabolismo
China
Fertilizantes
Mercúrio/metabolismo
Raízes de Plantas/efeitos dos fármacos
Raízes de Plantas/metabolismo
Poluentes do Solo/metabolismo
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Fertilizers); 0 (Soil); 0 (Soil Pollutants); F6A27P4Q4R (Selenious Acid); FXS1BY2PGL (Mercury); HV0Y51NC4J (Selenic Acid)
[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:171004
[St] Status:MEDLINE


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[PMID]:28658976
[Au] Autor:Haddar W; Ben Ticha M; Meksi N; Guesmi A
[Ad] Endereço:a Faculté des Sciences , Université de Monastir, Unité Chimie Appliquée - Environnement UR13ES63 , Monastir , Tunisia.
[Ti] Título:Application of anthocyanins as natural dye extracted from Brassica oleracea L. var. capitata f. rubra: dyeing studies of wool and silk  fibres.
[So] Source:Nat Prod Res;32(2):141-148, 2018 Jan.
[Is] ISSN:1478-6427
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:Brassica oleracea L. var. capitata f. rubra (Red Cabbage) dye is composed mainly of natural pigment called anthocyanins used as a natural colourant. Wool and silk fibres were dyed with the aqueous extract obtained from red cabbage. The dyeing process was investigated and the combined effects of dyeing conditions on the colour yield parameter (K/S) were studied. Resulted fastness to wash, rubbing and light of the dyed fabrics were evaluated. Chemical Oxygen Demand (COD) and Biological Oxygen Demand (BOD of the residual effluent were measured. Best dyeing conditions were found to be: 50 g/100 mL, pH 2, 60 min and 100 °C, respectively, for the red cabbage weight, pH, dyeing duration and temperature. Good fastnesses properties were found in both cases: for wool and silk fabrics. It was found also that the calculated biodegradability ratio (COD/BOD ) of the residual bath of dyeing wool and silk with red cabbage extract are lower than 1.5 which means that these baths are biodegradable.
[Mh] Termos MeSH primário: Antocianinas/química
Brassica/química
Corantes/isolamento & purificação
Seda

[Mh] Termos MeSH secundário: Animais
Antocianinas/isolamento & purificação
Biodegradação Ambiental
Análise da Demanda Biológica de Oxigênio
Corantes/química
Temperatura Ambiente
Têxteis
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Anthocyanins); 0 (Coloring Agents); 0 (Silk)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180228
[Lr] Data última revisão:
180228
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170630
[St] Status:MEDLINE
[do] DOI:10.1080/14786419.2017.1342080


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[PMID]:28455260
[Au] Autor:Mikolajczyk-Stecyna J; Malinowska AM; Chmurzynska A
[Ad] Endereço:Molecular Metabolism Laboratory, Department of Human Nutrition and Hygiene, Faculty of Food Sciences, Poznan University of Life Sciences, Wojska Polskiego 31, 60-624 Poznan, Poland. Electronic address: joanstec@up.poznan.pl.
[Ti] Título:TAS2R38 and CA6 genetic polymorphisms, frequency of bitter food intake, and blood biomarkers among elderly woman.
[So] Source:Appetite;116:57-64, 2017 09 01.
[Is] ISSN:1095-8304
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:OBJECTIVE: Taste sensitivity is one of the most important biological determinants of food choice. Three SNPs of the TAS2R38 gene (rs713598, rs1726866, and rs10246939) give rise to two common haplotypes: PAV and AVI. These haplotypes, as well as an SNP within the CA6 gene (rs2274333) that encodes carbonic anhydrase VI (CA6), correlate with bitterness perception. The extent of consumption of bitter food may influence some health outcomes. The aim of this study is thus to investigate the impact of the TAS2R38 and CA6 genetic polymorphisms on the choice of bitter food, BMI, blood lipoprotein, and glucose concentrations as well as systemic inflammation in elderly women. METHODS: The associations between the TAS2R38 diplotype, CA6 genotype, and the intake of bitter-tasting foods were studied in a group of 118 Polish women over 60 years of age. The intake of Brassica vegetables, grapefruit, and coffee was assessed using a food frequency questionnaire. Biochemical parameters were measured using the spectrophotometric method. Genotyping was performed using the high resolution melting method. RESULTS: We found a correlation between lipid profile, glucose and CRP levels, and frequency of bitter food intake. The AVI/AVI subjects drank coffee more frequently than did the PAV/PAV homozygotes, as did the A carriers of CA6 in comparison with the GG homozygotes. We also observed that simultaneous carriers of the PAV haplotype and A allele of TAS2R38 and CA6, respectively, choose white cabbage more frequent and had lower plasma levels of CRP and glucose than did AVI/AVI and GG homozygotes. CONCLUSIONS: In elderly women, the TAS2R38 and CA6 polymorphisms may affect the frequency of consumption of coffee and white cabbage, but not of other bitter-tasting foods.
[Mh] Termos MeSH primário: Anidrases Carbônicas/genética
Fenômenos Fisiológicos da Nutrição do Idoso
Preferências Alimentares
Polimorfismo de Nucleotídeo Único
Receptores Acoplados a Proteínas-G/genética
Percepção Gustatória/genética
[Mh] Termos MeSH secundário: Idoso
Alelos
Biomarcadores/sangue
Brassica
Anidrases Carbônicas/metabolismo
Citrus paradisi
Café
Feminino
Frutas
Frequência do Gene
Estudos de Associação Genética
Seres Humanos
Meia-Idade
Polônia
Receptores Acoplados a Proteínas-G/metabolismo
Autorrelato
Paladar
Verduras
[Pt] Tipo de publicação:COMPARATIVE STUDY; JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Biomarkers); 0 (Coffee); 0 (Receptors, G-Protein-Coupled); 0 (taste receptors, type 2); EC 4.2.1.1 (Carbonic Anhydrases); EC 4.2.1.1 (carbonic anhydrase VI)
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180301
[Lr] Data última revisão:
180301
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170430
[St] Status:MEDLINE


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[PMID]:29223047
[Au] Autor:Upadhyaya P; Zarth AT; Fujioka N; Fritz VA; Hecht SS
[Ad] Endereço:Masonic Cancer Center, University of Minnesota, 2231 6th Street SE, Minneapolis, MN 55455, USA.
[Ti] Título:Identification and analysis of a mercapturic acid conjugate of indole-3-methyl isothiocyanate in the urine of humans who consumed cruciferous vegetables.
[So] Source:J Chromatogr B Analyt Technol Biomed Life Sci;1072:341-346, 2018 Jan 01.
[Is] ISSN:1873-376X
[Cp] País de publicação:Netherlands
[La] Idioma:eng
[Ab] Resumo:Glucobrassicin, a quantitatively significant constituent of Brassica vegetables, gives rise to indole-3-carbinol (I3C) and its dimer di-indolylmethane (DIM) when the vegetables are chewed. I3C and DIM have been extensively studied with respect to their anti-carcinogenic properties. However, the presumed intermediate isothiocyanate in their formation, indole-3-methyl isothiocyanate (IMITC), has to our knowledge never been observed, despite the fact that isothiocyanates derived from cruciferous vegetables are known to have anti-carcinogenic properties. Therefore, we investigated the formation and presence in human urine of IMITC by analyzing for its N-acetylcysteine conjugate, IMITC-NAC, in order to gain a more complete understanding of the biochemical pathways leading to formation of I3C and DIM upon consumption of vegetables rich in glucobrassicin. Standard IMITC-NAC was synthesized and its structure confirmed by NMR and MS. IMITC-NAC was identified in extracts of Brussels sprouts chopped in the presence of N-acetylcysteine. An LC-ESI-MS/MS-SRM method for analysis of IMITC-NAC, with [ C, N]IMITC-NAC as internal standard, was developed and validated. Then, ten subjects (7 females) consumed a salad of Brussels sprouts and cabbage (containing 100-500µmol glucobrassicin) once daily for 3days. Urine was collected at intervals up to 24h after vegetable consumption. Levels of IMITC-NAC in the urine of these 10 subjects ranged from 0.2 to 30.2pmol/mL urine. These results provide the first evidence for the presumed intermediacy of IMITC in the formation of I3C and DIM in humans who consumed Brussels sprouts and cabbage as a source of glucobrassicin.
[Mh] Termos MeSH primário: Acetilcisteína/urina
Brassica
Indóis/urina
Isocianatos/urina
Verduras
[Mh] Termos MeSH secundário: Acetilcisteína/química
Adolescente
Adulto
Feminino
Glucosinolatos
Seres Humanos
Indóis/química
Isocianatos/química
Masculino
Meia-Idade
Adulto Jovem
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Glucosinolates); 0 (Indoles); 0 (Isocyanates); EA6EH0IU89 (glucobrassicin); WYQ7N0BPYC (Acetylcysteine)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180221
[Lr] Data última revisão:
180221
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171210
[St] Status:MEDLINE


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[PMID]:29307179
[Au] Autor:Morroni F; Sita G; Djemil A; D'Amico M; Pruccoli L; Cantelli-Forti G; Hrelia P; Tarozzi A
[Ad] Endereço:Department of Pharmacy and Biotechnology, Alma Mater Studiorum-University of Bologna , Bologna, Italy.
[Ti] Título:Comparison of Adaptive Neuroprotective Mechanisms of Sulforaphane and its Interconversion Product Erucin in in Vitro and in Vivo Models of Parkinson's Disease.
[So] Source:J Agric Food Chem;66(4):856-865, 2018 Jan 31.
[Is] ISSN:1520-5118
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Several studies suggest that an increase of glutathione (GSH) through activation of the transcriptional nuclear factor (erythroid-derived 2)-like 2 (Nrf2) in the dopaminergic neurons may be a promising neuroprotective strategy in Parkinson's disease (PD). Among Nrf2 activators, isothiocyanate sulforaphane (SFN), derived from precursor glucosinolate present in Brassica vegetables, has gained attention as a potential neuroprotective compound. Bioavailability studies also suggest the contribution of SFN metabolites, including erucin (ERN), to the neuroprotective effects of SFN. Therefore, we compared the in vitro neuroprotective effects of SFN and ERN at the same dose level (5 µM) and oxidative treatment with 6-hydroxydopamine (6-OHDA) in SH-SY5Y cells. The pretreatment of SH-SY5Y cells with SFN recorded a higher (p < 0.05) active nuclear Nrf2 protein (12.0 ± 0.4 vs 8.0 ± 0.2 fold increase), mRNA Nrf2 (2.0 ± 0.3 vs 1.4 ± 0.1 fold increase), total GSH (384.0 ± 9.0 vs 256.0 ± 8.0 µM) levels, and resistance to neuronal apoptosis elicited by 6-OHDA compared to ERN. By contrast, the simultaneous treatment of SH-SY5Y cells with either SFN or ERN and 6-OHDA recorded similar neuroprotective effects with both the isothiocyanates (Nrf2 protein 2.2 ± 0.2 vs 2.1 ± 0.1 and mRNA Nrf2 2.1 ± 0.3 vs 1.9 ± 0.2 fold increase; total GSH 384.0 ± 4.8 vs 352.0 ± 6.4 µM). Finally, in vitro finding was confirmed in a 6-OHDA-PD mouse model. The metabolic oxidation of ERN to SFN could account for their similar neuroprotective effects in vivo, raising the possibility of using vegetables containing a precursor of ERN for systemic antioxidant benefits in a similar manner to SFN.
[Mh] Termos MeSH primário: Neurônios Dopaminérgicos/efeitos dos fármacos
Isotiocianatos/farmacologia
Fármacos Neuroprotetores/farmacologia
Doença de Parkinson/prevenção & controle
Sulfetos/farmacologia
Tiocianatos/farmacologia
[Mh] Termos MeSH secundário: Animais
Brassica/química
Linhagem Celular Tumoral
Neurônios Dopaminérgicos/química
Glutationa/análise
Seres Humanos
Isotiocianatos/metabolismo
Isotiocianatos/uso terapêutico
Masculino
Camundongos
Camundongos Endogâmicos C57BL
Fator 2 Relacionado a NF-E2/análise
Fator 2 Relacionado a NF-E2/genética
Neuroblastoma
Fármacos Neuroprotetores/uso terapêutico
Oxirredução
Oxidopamina/administração & dosagem
RNA Mensageiro/análise
Sulfetos/metabolismo
Sulfetos/uso terapêutico
Tiocianatos/metabolismo
Tiocianatos/uso terapêutico
[Pt] Tipo de publicação:COMPARATIVE STUDY; JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Isothiocyanates); 0 (NF-E2-Related Factor 2); 0 (NFE2L2 protein, human); 0 (Neuroprotective Agents); 0 (RNA, Messenger); 0 (Sulfides); 0 (Thiocyanates); 8HW4YBZ748 (Oxidopamine); CTE370DL3U (erucin); GA49J4310U (sulforafan); GAN16C9B8O (Glutathione)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180212
[Lr] Data última revisão:
180212
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180109
[St] Status:MEDLINE
[do] DOI:10.1021/acs.jafc.7b04641


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[PMID]:28450774
[Au] Autor:Akinbo F; Eze G
[Ad] Endereço:Department of Medical Laboratory Science, University of Benin, Benin City, Nigeria.
[Ti] Título:Combined Effects of Medicinal Plants on Induced Upper Gastrointestinal Tract Injury in Wistar Rats.
[So] Source:Ethiop J Health Sci;26(6):573-580, 2016 Nov.
[Is] ISSN:2413-7170
[Cp] País de publicação:Ethiopia
[La] Idioma:eng
[Ab] Resumo:BACKGROUND: Herbal medicines are now recently used as treatment options. This study was conducted to determine the effect of the combination therapy of medicinal herbs in the treatment of induced gastrointestinal injury among albino wistar rats. METHODS: A total of 60 Albino Wistar rats of both sexes weighing between 130g-150g were used. The control groups which consisted of negative control groups received 1ml of normal saline while the positive control group was given 20mg/kg of indomethacin and sacrificed after 6 hours. Those in the test group were given 20mg/kg of indomethacin, treated in different doses of single and combined extracts of Allium sativum, Brassica oleracea and Aloe barbadensis at 100mg/kg, 200mg/kg and 300mg/kg body weights, twice daily for 8 days and sacrificed. RESULTS: There was no visible sign of ulceration or perforation observed on the stomach and duodenum when compared with the control. The combination of all three plant extracts at different concentrations ranging from 100 - 300mg/kg cleared all visible ulcers and perforations on the stomach of wistar rats. Similarly, all ulcers in the duodenum of indomethacin induced wistar rats were cleared by the combination of the three extracts. The sections of rat stomach and duodenum given 100mg/kg herbal cocktail and indomethacin showed normal mucosa. CONCLUSIONS: A mixture of the three herbs at 300mg/kg was better in healing gastric and duodenal ulcers. The mixture of the three plants extracts exhibit good anti-ulcer activity that warrants further studies.
[Mh] Termos MeSH primário: Úlcera Duodenal/tratamento farmacológico
Extratos Vegetais/farmacologia
Plantas Medicinais
Úlcera Gástrica/tratamento farmacológico
[Mh] Termos MeSH secundário: Aloe
Animais
Brassica
Relação Dose-Resposta a Droga
Úlcera Duodenal/patologia
Feminino
Alho
Indometacina/farmacologia
Masculino
Extratos Vegetais/administração & dosagem
Ratos
Ratos Wistar
Úlcera Gástrica/patologia
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Plant Extracts); XXE1CET956 (Indomethacin)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180205
[Lr] Data última revisão:
180205
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170429
[St] Status:MEDLINE


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[PMID]:29320498
[Au] Autor:Rahman H; Bennett RA; Kebede B
[Ad] Endereço:Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, Canada.
[Ti] Título:Molecular mapping of QTL alleles of Brassica oleracea affecting days to flowering and photosensitivity in spring Brassica napus.
[So] Source:PLoS One;13(1):e0189723, 2018.
[Is] ISSN:1932-6203
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Earliness of flowering and maturity are important traits in spring Brassica napus canola-whether grown under long- or short-day condition. By use of a spring B. napus mapping population carrying the genome content of B. oleracea and testing this population under 10 to 18 h photoperiod and 18 to 20 0C (day) temperature conditions, we identified a major QTL on the chromosome C1 affecting flowering time without being influenced by photoperiod and temperature, and a major QTL on C9 affecting flowering time under a short photoperiod (10 h); in both cases, the QTL alleles reducing the number of days to flowering in B. napus were introgressed from the late flowering species B. oleracea. Additive effect of the C1 QTL allele at 14 to18 h photoperiod was 1.1 to 2.9 days; however, the same QTL allele exerted an additive effect of 6.2 days at 10 h photoperiod. Additive effect of the C9 QTL at 10 h photoperiod was 2.8 days. These two QTL also showed significant interaction in the control of flowering only under a short-day (10 h photoperiod) condition with an effect of 2.3 days. A few additional QTL were also detected on the chromosomes C2 and C8; however, none of these QTL could be detected under all photoperiod and temperature conditions. BLASTn search identified several putative flowering time genes on the chromosomes C1 and C9 and located the physical position of the QTL markers in the Brassica genome; however, only a few of these genes were found within the QTL region. Thus, the molecular markers and the genomic regions identified in this research could potentially be used in breeding for the development of early flowering photoinsensitive B. napus canola cultivars, as well as for identification of candidate genes involved in flowering time variation and photosensitivity.
[Mh] Termos MeSH primário: Alelos
Brassica/genética
Flores
Luz
[Mh] Termos MeSH secundário: Brassica/fisiologia
Cromossomos de Plantas
Genes de Plantas
Fotoperíodo
Locos de Características Quantitativas
Estações do Ano
Temperatura Ambiente
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180129
[Lr] Data última revisão:
180129
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180111
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0189723


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[PMID]:27770368
[Au] Autor:Ilnytskyy S; Bilichak A
[Ad] Endereço:Department of Biological Sciences, University of Lethbridge, 4401 University Drive, Lethbridge, AB, Canada, T1K 3M4. slava.ilyntskyy@uleth.ca.
[Ti] Título:Bioinformatics Analysis of Small RNA Transcriptomes: The Detailed Workflow.
[So] Source:Methods Mol Biol;1456:197-224, 2017.
[Is] ISSN:1940-6029
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Next-generation sequencing became a method of choice for the investigation of small RNA transcriptomes in plants and animals. Although a technical side of sequencing itself is becoming routine, and experimental costs are affordable, data analysis still remains a challenge, especially for researchers with limited computational experience. Here, we present a detailed description of a computational workflow designed to take raw sequencing reads as input, to obtain small RNA predictions, and to detect the differentially expressed microRNAs as a result. The exact commands and pieces of code are provided and hopefully can be adapted and used by other researchers to facilitate the study of small RNA regulation.
[Mh] Termos MeSH primário: Biologia Computacional/métodos
Perfilação da Expressão Gênica
Pequeno RNA não Traduzido/genética
Transcriptoma
[Mh] Termos MeSH secundário: Brassica/genética
Biblioteca Gênica
Genômica/métodos
MicroRNAs/genética
Controle de Qualidade
RNA Interferente Pequeno/genética
Análise de Sequência de RNA
Software
Navegador
Fluxo de Trabalho
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (MicroRNAs); 0 (RNA, Small Interfering); 0 (RNA, Small Untranslated)
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180112
[Lr] Data última revisão:
180112
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:161023
[St] Status:MEDLINE


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[PMID]:29202713
[Au] Autor:Shea DJ; Shimizu M; Nishida N; Fukai E; Abe T; Fujimoto R; Okazaki K
[Ad] Endereço:Laboratory of Plant Breeding, Graduate School of Science and Technology, Niigata University, Ikarashi-ninocho, Niigata, 950-2181, Japan.
[Ti] Título:IntroMap: a signal analysis based method for the detection of genomic introgressions.
[So] Source:BMC Genet;18(1):101, 2017 Dec 04.
[Is] ISSN:1471-2156
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:BACKGROUND: Breeding programs often rely on marker-assisted tests or variant calling of next generation sequence (NGS) data to identify regions of genomic introgression arising from the hybridization of two plant species. In this paper we present IntroMap, a bioinformatics pipeline for the screening of candidate plants through the application of signal processing techniques to NGS data, using alignment to a reference genome sequence (annotation is not required) that shares homology with the recurrent parental cultivar, and without the need for de novo assembly of the read data or variant calling. RESULTS: We show the accurate identification of introgressed genomic regions using both in silico simulated genomes, and a hybridized cultivar data set using our pipeline. Additionally we show, through targeted marker-based assays, validation of the IntroMap predicted regions for the hybrid cultivar. CONCLUSIONS: This approach can be used to automate the screening of large populations, reducing the time and labor required, and can improve the accuracy of the detection of introgressed regions in comparison to a marker-based approach. In contrast to other approaches that generally rely upon a variant calling step, our method achieves accurate identification of introgressed regions without variant calling, relying solely upon alignment.
[Mh] Termos MeSH primário: Brassica rapa/genética
Genoma de Planta
Software
[Mh] Termos MeSH secundário: Algoritmos
Brassica/classificação
Brassica/genética
Cruzamento
Simulação por Computador
Curva ROC
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180110
[Lr] Data última revisão:
180110
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171206
[St] Status:MEDLINE
[do] DOI:10.1186/s12863-017-0568-5


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[PMID]:29190278
[Au] Autor:Rechner O; Neugart S; Schreiner M; Wu S; Poehling HM
[Ad] Endereço:Section of Phytomedicine, Institute of Horticultural Production Systems, Hannover, Germany.
[Ti] Título:Can narrow-bandwidth light from UV-A to green alter secondary plant metabolism and increase Brassica plant defenses against aphids?
[So] Source:PLoS One;12(11):e0188522, 2017.
[Is] ISSN:1932-6203
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Light of different wavelengths is essential for plant growth and development. Short-wavelength radiation such as UV can shift the composition of flavonoids, glucosinolates, and other plant metabolites responsible for enhanced defense against certain herbivorous insects. The intensity of light-induced, metabolite-based resistance is plant- and insect species-specific and depends on herbivore feeding guild and specialization. The increasing use of light-emitting diodes (LEDs) in horticultural plant production systems in protected environments enables the creation of tailor-made light scenarios for improved plant cultivation and induced defense against herbivorous insects. In this study, broccoli (Brassica oleracea var. italica) plants were grown in a climate chamber under broad spectra photosynthetic active radiation (PAR) and were additionally treated with the following narrow-bandwidth light generated with LEDs: UV-A (365 nm), violet (420 nm), blue (470 nm), or green (515 nm). We determined the influence of narrow-bandwidth light on broccoli plant growth, secondary plant metabolism (flavonol glycosides and glucosinolates), and plant-mediated light effects on the performance and behavior of the specialized cabbage aphid Brevicoryne brassicae. Green light increased plant height more than UV-A, violet, or blue LED treatments. Among flavonol glycosides, specific quercetin and kaempferol glycosides were increased under violet light. The concentration of 3-indolylmethyl glucosinolate in plants was increased by UV-A treatment. B. brassicae performance was not influenced by the different light qualities, but in host-choice tests, B. brassicae preferred previously blue-illuminated plants (but not UV-A-, violet-, or green-illuminated plants) over control plants.
[Mh] Termos MeSH primário: Afídeos/fisiologia
Brassica/metabolismo
Raios Ultravioleta
[Mh] Termos MeSH secundário: Animais
Brassica/imunologia
Ácidos Cumáricos/metabolismo
Glucosinolatos/metabolismo
Interações Hospedeiro-Parasita
Indóis/metabolismo
Quempferóis/metabolismo
Folhas de Planta
Quercetina/metabolismo
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Coumaric Acids); 0 (Glucosinolates); 0 (Indoles); 0 (Kaempferols); 731P2LE49E (kaempferol); 9IKM0I5T1E (Quercetin)
[Em] Mês de entrada:1712
[Cu] Atualização por classe:171226
[Lr] Data última revisão:
171226
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171201
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0188522



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