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|Research center of Embrapa/Collection:||Embrapa Café - Artigo em periódico indexado (ALICE)|
|Type of Material:||Artigo em periódico indexado (ALICE)|
|Authors:||VIDAL, R. O.|
MONDEGO, J. M. C.
AMBRÓSIO, A. B.
ANDRADE, A. C.
PEREIRA, L. F. P.
COLOMBO, C. A.
VIEIRA, L. G. E.
CARAZZOLLE, M. F.
PEREIRA, G. A. G.
|Additional Information:||RAMON OLIVEIRA VIDAL, UNICAMP/Instituto de Biologia; JORGE MAURÍCIO COSTA MONDEGO, Instituto Agronômico de Campinas; DAVID POT, Centre de Coopération Internationale en Recherche Agronomique pour le Développement; ALINNE BATISTA AMBRÓSIO, UNICAMP/Instituto de Biologia; ALAN CARVALHO ANDRADE, CENARGEN; LUIZ FILIPE PROTASIO PEREIRA, SAPC; CARLOS AUGUSTO COLOMBO, Instituto Agronômico de Campinas; LUIZ GONZAGA ESTEVES VIEIRA, Instituo Agronômico do Pará; MARCELO FALSARELLA CARAZZOLLE, UNICAMP/Instituto de Biologia; GONÇALO AMARANTE GUIMARÃES PEREIRA, UNICAMP/Instituto de Biologia.|
|Title:||A high-throughput data mining of single nucleotide polymorphisms in Coffea species expresed sequence tags suggests differential homeologous gene expression in the allotetrapoloid Coffea arabica.|
|Publisher:||PLANT PHYSIOLOGY, v. 154, p. 1053-1066. 2010.|
|Description:||Polyploidization constitutes a common mode of evolution in flowering plants. This event provides the raw material for the divergence of function in homeologous genes, leading to phenotypic novelty that can contribute to the success of polyploids in nature or their selection for use in agriculture. Mounting evidence underlined the existence of homeologous expression biases in polyploid genomes; however, strategies to analyze such transcriptome regulation remained scarce. Important factors regarding homeologous expression biases remain to be explored, such as whether this phenomenon influences specific genes, how paralogs are affected by genome doubling, and what is the importance of the variability of homeologous expression bias to genotype differences. This study reports the expressed sequence tag assembly of the allopolyploid Coffea arabica and one of its direct ancestors, Coffea canephora. The assembly was used for the discovery of single nucleotide polymorphisms through the identification of high-quality discrepancies in overlapped expressed sequence tags and for gene expression information indirectly estimated by the transcript redundancy. Sequence diversity profiles were evaluated within C. arabica (Ca) and C. canephora (Cc) and used to deduce the transcript contribution of the Coffea eugenioides (Ce) ancestor. The assignment of the C. arabica haplotypes to the C. canephora (CaCc) or C. eugenioides (CaCe) ancestral genomes allowed us to analyze gene expression contributions of each subgenome in C. arabica. In silico data were validated by the quantitative polymerase chain reaction and allele-specific combination TaqMAMA-based method. The presence of differential expression of C. arabica homeologous genes and its implications in coffee gene expression, ontology, and physiology are discussed.|
|Appears in Collections:||Artigo em periódico indexado (SAPC)|