Your browser doesn't support javascript.
loading
Mostrar: 20 | 50 | 100
Resultados 1 - 3 de 3
Filtrar
Mais filtros










Base de dados
Intervalo de ano de publicação
1.
Database (Oxford) ; 2013: bat035, 2013.
Artigo em Inglês | MEDLINE | ID: mdl-23707967

RESUMO

Banana is one of the world's favorite fruits and one of the most important crops for developing countries. The banana reference genome sequence (Musa acuminata) was recently released. Given the taxonomic position of Musa, the completed genomic sequence has particular comparative value to provide fresh insights about the evolution of the monocotyledons. The study of the banana genome has been enhanced by a number of tools and resources that allows harnessing its sequence. First, we set up essential tools such as a Community Annotation System, phylogenomics resources and metabolic pathways. Then, to support post-genomic efforts, we improved banana existing systems (e.g. web front end, query builder), we integrated available Musa data into generic systems (e.g. markers and genetic maps, synteny blocks), we have made interoperable with the banana hub, other existing systems containing Musa data (e.g. transcriptomics, rice reference genome, workflow manager) and finally, we generated new results from sequence analyses (e.g. SNP and polymorphism analysis). Several uses cases illustrate how the Banana Genome Hub can be used to study gene families. Overall, with this collaborative effort, we discuss the importance of the interoperability toward data integration between existing information systems. Database URL: http://banana-genome.cirad.fr/


Assuntos
Bases de Dados Genéticas , Genoma de Planta/genética , Musa/genética , Mapeamento Cromossômico , Elementos de DNA Transponíveis/genética , Duplicação Gênica/genética , Genes de Plantas/genética , Funções Verossimilhança , Redes e Vias Metabólicas/genética , Anotação de Sequência Molecular , Família Multigênica/genética , Oryza/genética , Filogenia , Polimorfismo de Nucleotídeo Único/genética , Homologia de Sequência do Ácido Nucleico , Transcriptoma/genética
2.
BMC Plant Biol ; 12: 18, 2012 Feb 13.
Artigo em Inglês | MEDLINE | ID: mdl-22330773

RESUMO

BACKGROUND: Plants respond to external stimuli through fine regulation of gene expression partially ensured by small RNAs. Of these, microRNAs (miRNAs) play a crucial role. They negatively regulate gene expression by targeting the cleavage or translational inhibition of target messenger RNAs (mRNAs). In Hevea brasiliensis, environmental and harvesting stresses are known to affect natural rubber production. This study set out to identify abiotic stress-related miRNAs in Hevea using next-generation sequencing and bioinformatic analysis. RESULTS: Deep sequencing of small RNAs was carried out on plantlets subjected to severe abiotic stress using the Solexa technique. By combining the LeARN pipeline, data from the Plant microRNA database (PMRD) and Hevea EST sequences, we identified 48 conserved miRNA families already characterized in other plant species, and 10 putatively novel miRNA families. The results showed the most abundant size for miRNAs to be 24 nucleotides, except for seven families. Several MIR genes produced both 20-22 nucleotides and 23-27 nucleotides. The two miRNA class sizes were detected for both conserved and putative novel miRNA families, suggesting their functional duality. The EST databases were scanned with conserved and novel miRNA sequences. MiRNA targets were computationally predicted and analysed. The predicted targets involved in "responses to stimuli" and to "antioxidant" and "transcription activities" are presented. CONCLUSIONS: Deep sequencing of small RNAs combined with transcriptomic data is a powerful tool for identifying conserved and novel miRNAs when the complete genome is not yet available. Our study provided additional information for evolutionary studies and revealed potentially specific regulation of the control of redox status in Hevea.


Assuntos
Biologia Computacional , Genes de Plantas , Hevea/genética , MicroRNAs/genética , RNA de Plantas/genética , Temperatura Baixa , Sequência Conservada , Bases de Dados de Ácidos Nucleicos , Secas , Evolução Molecular , Etiquetas de Sequências Expressas , Regulação da Expressão Gênica de Plantas , Hevea/metabolismo , Sequenciamento de Nucleotídeos em Larga Escala , Homeostase , MicroRNAs/metabolismo , Oxirredução , Edição de RNA , RNA de Plantas/metabolismo , Análise de Sequência de RNA , Especificidade da Espécie , Estresse Fisiológico , Transcrição Gênica
3.
Nat Genet ; 43(2): 101-8, 2011 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-21186351

RESUMO

We sequenced and assembled the draft genome of Theobroma cacao, an economically important tropical-fruit tree crop that is the source of chocolate. This assembly corresponds to 76% of the estimated genome size and contains almost all previously described genes, with 82% of these genes anchored on the 10 T. cacao chromosomes. Analysis of this sequence information highlighted specific expansion of some gene families during evolution, for example, flavonoid-related genes. It also provides a major source of candidate genes for T. cacao improvement. Based on the inferred paleohistory of the T. cacao genome, we propose an evolutionary scenario whereby the ten T. cacao chromosomes were shaped from an ancestor through eleven chromosome fusions.


Assuntos
Cacau/genética , Genoma de Planta , Núcleo Celular/genética , DNA/genética , Elementos de DNA Transponíveis , Evolução Molecular , Regulação da Expressão Gênica de Plantas , Genes de Plantas , Genótipo , Homozigoto , Hibridização In Situ , Modelos Genéticos , Locos de Características Quantitativas
SELEÇÃO DE REFERÊNCIAS
DETALHE DA PESQUISA
...