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Analysis of diversity and expression of actives retrotransposons in Coffea species

Grant number: 11/18226-0
Support type:Scholarships in Brazil - Doctorate
Effective date (Start): December 01, 2011
Effective date (End): July 31, 2015
Field of knowledge:Biological Sciences - Genetics
Principal Investigator:Claudia Marcia Aparecida Carareto
Grantee:Elaine Silva Dias
Home Institution: Instituto de Biociências, Letras e Ciências Exatas (IBILCE). Universidade Estadual Paulista (UNESP). Campus de São José do Rio Preto. São José do Rio Preto , SP, Brazil


The utilization of retrotransposons (RTs) as molecular marker contributes in the understanding of the organization and dynamic in large scale of the genome. Several characteristics make the RTs good molecular makers, as integration activity, persistence and dispersion in the genome, as well as, the presence of conserved motifs. The use these repeats as molecular marker has contributed for a better understanding of the evolutionary dynamics of genomes, especially the polyploidy genomes, and evolution of these transposable elements. The species of the genus Coffea stand out by economic importance and by wide variety of species and cultivars. Some active RTs have been identified in the genus Coffea, and can be investigate as potential marker of genetic diversity. This project aim at evaluating the use of six actives RTs, with different activity rates (pre-selected: Melmoth, Dea1, Tst1, Clem2, Clem6 and Rom13), as molecular marker in six Coffea species: the allotetraploid hybrid C. arabica and in its potential parental species, C. canephora and C. eugenioides; and three closer related species (C. heterocalyx, C. pseudozanguebariae and C. congensis). Additionally, it will be investigated C. arabica cultivars exposed to different stress conditions. For this, the selected RTs will have characterized both their structure and expression, and their availability molecular markers will be investigated by the molecular techniques of RBIP, SSAP, REMAP and IRAP. Then, the current project will contribute for characterizing actives RTs in Coffea species, evaluate their genetic diversity, and understanding of probable effects of hydric stress on the RTs activity and, their functional and evolutionary dynamics in polyploid genomes.

Scientific publications
(References retrieved automatically from Web of Science and SciELO through information on FAPESP grants and their corresponding numbers as mentioned in the publications by the authors)
DIAS, ELAINE SILVA; HATT, CLEMENCE; HAMON, SERGE; HAMON, PERLA; RIGOREAU, MICHEL; CROUZILLAT, DOMINIQUE; CARARETO, CLAUDIA MARCIA APARECIDA; DE KOCHKO, ALEXANDRE; GUYOT, ROMAIN. Large distribution and high sequence identity of a Copia-type retrotransposon in angiosperm families. Plant Molecular Biology, v. 89, n. 1-2, p. 83-97, SEP 2015. Web of Science Citations: 4.
Academic Publications
(References retrieved automatically from State of São Paulo Research Institutions)
DIAS, Elaine Silva. Análise de diversidade e expressão de retrotransposons ativos em espécies de Coffea. 2015. 175 f. Doctoral Thesis - Universidade Estadual Paulista "Júlio de Mesquita Filho" Instituto de Biociências, Letras e Ciências Exatas..

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