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Evaluation of allelic variability, population structure and linkage desequilibrium in the rubber tree ex situ germoplasm (Hevea brasiliensis)

Grant number: 12/50491-8
Support Opportunities:Regular Research Grants
Duration: February 01, 2013 - July 31, 2015
Field of knowledge:Agronomical Sciences - Agronomy - Crop Science
Principal Investigator:Anete Pereira de Souza
Grantee:Anete Pereira de Souza
Host Institution: Centro de Biologia Molecular e Engenharia Genética (CBMEG). Universidade Estadual de Campinas (UNICAMP). Campinas , SP, Brazil


Amazon deforestation threatens the genetic resources of many native species of this region. Among the endangered species is the genus Hevea, exclusively derived from the Amazon rainforest, Hevea brasiliensis is an emblematic species in the Amazon region, due to its historic role in the economic development of the states that comprise the Amazon. The rubber tree is the basis of the natural rubber industry. However, due to a strong effect on the restriction effect of the genetic basis, more than 95% of the cultivated areas in the world has rubber tree clones originated from only 5-10 trees. The genetic diversity of the species is still present in native populations in Amazon, but is threatened by the rapid pace of deforestation. The main objective of this project is to characterize the genetic diversity of tree rubber collected from different regions of the Amazon by means of molecular markers "single base polymorphism" (SNP). These markers will be developed from the sequence comparison of a database of rubber tree ESTs (Expressed Sequence Tags) with the ones from the results of the transcriptome of rubber tree (the next-generation sequencing). The SNPs will be developed employing a mass spectrometer MALDI- TOF (Sequenom). The variability data obtained will be used in the construction of a molecular map and in the study of population structure and linkage disequilibrium of populations representing the germplasm of the Amazon, currently present in genebanks and therefore available to breeding. All results of genetic variability, the linkage disequilibrium and population structure generated as well as genomic resources (SNPs) developed in this project will be useful for genetic studies and breeding programs of H. brasiliensis, aiming to increase rubber production. The results will also be useful for efforts to conserve the species of Hevea in the Amazon, it will help to take measures in order to preserve the genetic diversity of rubber and related species. (AU)

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Scientific publications (8)
(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)
MUNYENGWA, NORMAN; GUEN, VINCENT LE; BILLE, HERMINE NGALLE; SOUZA, LIVIA M.; CLEMENT-DEMANGE, ANDRE; MOURNET, PIERRE; MASSON, AURELIEN; SOUMAHORO, MOUMAN; KOUASSI, DAOUDA; CROS, DAVID. Optimizing imputation of marker data from genotyping-by-sequencing (GBS) for genomic selection in non-model species: Rubber tree (Hevea brasiliensis) as a case study. Genomics, v. 113, n. 2, p. 655-668, . (12/05473-1, 12/50491-8)
CONSON, ANDRE R. O.; TANIGUTI, CRISTIANE H.; AMADEU, RODRIGO R.; ANDREOTTI, ISABELA A. A.; DE SOUZA, LIVIA M.; DOS SANTOS, LUCIANO H. B.; ROSA, JOAO R. B. F.; MANTELLO, CAMILA C.; DA SILVA, CARLA C.; SCALOPPI JUNIOR, ERIVALDO JOSE; et al. High-Resolution Genetic Map and QTL Analysis of Growth-Related Traits of Hevea brasiliensis Cultivated Under Suboptimal Temperature and Humidity Conditions. FRONTIERS IN PLANT SCIENCE, v. 9, . (15/24346-9, 12/50491-8, 14/11807-5, 12/05473-1, 17/07908-9, 14/18755-0)
FEIJO ROSA, JOAO RICARDO BACHEGA; MANTELLO, CAMILA CAMPOS; GARCIA, DOMINIQUE; DE SOUZA, LIVIA MOURA; DA SILVA, CARLA CRISTINA; GAZAFFI, RODRIGO; DA SILVA, CICERO CASIMIRO; TOLEDO-SILVA, GUILHERME; CUBRY, PHILIPPE; FRANCO GARCIA, ANTONIO AUGUSTO; et al. QTL detection for growth and latex production in a full-sib rubber tree population cultivated under suboptimal climate conditions. BMC PLANT BIOLOGY, v. 18, . (13/20447-0, 12/50491-8)
DE SOUZA, LIVIA MOURA; LE GUEN, VINCENT; MORENO CERQUEIRA-SILVA, CARLOS BERNARDO; SILVA, CARLA CRISTINA; MANTELLO, CAMILA CAMPOS; OLIVEIRA CONSON, ANDRE RICARDO; GOMES VIANNA, JOAO PAULO; ZUCCHI, MARIA IMACULADA; SCALOPPI JUNIOR, ERIVALDO JOSE; FIALHO, JOSEFINO DE FREITAS; et al. Genetic Diversity Strategy for the Management and Use of Rubber Genetic Resources: More than 1,000 Wild and Cultivated Accessions in a 100-Genotype Core Collection. PLoS One, v. 10, n. 7, . (12/50491-8, 12/05473-1)
MANTELLO, CAMILA CAMPOS; CARDOSO-SILVA, CLAUDIO BENICIO; DA SILVA, CARLA CRISTINA; DE SOUZA, LIVIA MOURA; SCALOPPI JUNIOR, ERIVALDO JOSE; GONCALVES, PAULO DE SOUZA; VICENTINI, RENATO; DE SOUZA, ANETE PEREIRA. De Novo Assembly and Transcriptome Analysis of the Rubber Tree (Hevea brasiliensis) and SNP Markers Development for Rubber Biosynthesis Pathways. PLoS One, v. 9, n. 7, . (07/50562-4, 12/50491-8, 12/11109-0, 12/05473-1)
MANTELLO, CAMILA CAMPOS; BOATWRIGHT, LUCAS; DA SILVA, CARLA CRISTINA; SCALOPPI, ERIVALDO JOSE; GONCALVES, PAULO DE SOUZA; BARBAZUK, W. BRAD; DE SOUZA, ANETE PEREIRA. Deep expression analysis reveals distinct cold-response strategies in rubber tree (Hevea brasiliensis). BMC Genomics, v. 20, . (14/18755-0, 15/24346-9, 12/50491-8)
DE SOUZA, LIVIA M.; DOS SANTOS, LUCIANO H. B.; ROSA, JOAO R. B. F.; DA SILVA, CARLA C.; MANTELLO, CAMILA C.; CONSON, ANDRE R. O.; SCALOPPI, JR., ERIVALDO J.; FIALHO, JOSEFINO DE F.; DE MORAES, MARIO LUIZ T.; GONCALVES, PAULO DE S.; et al. Linkage Disequilibrium and Population Structure in Wild and Cultivated Populations of Rubber Tree (Hevea brasiliensis). FRONTIERS IN PLANT SCIENCE, v. 9, . (12/50491-8, 14/11807-5, 17/07908-9, 14/18755-0, 12/05473-1)
SILVA, CARLA C.; MANTELLO, CAMILA C.; CAMPOS, TATIANA; SOUZA, LIVIA M.; GONCALVES, PAULO S.; SOUZA, ANETE P.. Leaf-, panel- and latex-expressed sequenced tags from the rubber tree (Hevea brasiliensis) under cold-stressed and suboptimal growing conditions: the development of gene-targeted functional markers for stress response. MOLECULAR BREEDING, v. 34, n. 3, p. 1035-1053, . (07/50562-4, 12/50491-8, 12/05473-1)

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