scholarly journals Selecting SNP markers reflecting population origin for cacao (Theobroma cacao L.) germplasm identification

2021 ◽  
Vol 1 (0) ◽  
pp. 1-9
Author(s):  
Osman A. Gutiérrez ◽  
◽  
Kathleen Martinez ◽  
Dapeng Zhang ◽  
Donald S. Livingstone ◽  
...  
Keyword(s):  
Theobroma Cacao ◽  
Snp Markers ◽  
Germplasm Identification ◽  
Population Origin

scholarly journals Assessing hidden parentage and genetic integrity of the “United Fruit Clones” of cacao (Theobroma cacao) from Costa Rica using SNP markers

2018 ◽  
Vol 68 (5) ◽  
pp. 545-553 ◽  
Author(s):  
Allan Mata-Quirós ◽  
Adriana Arciniegas-Leal ◽  
Wilbert Phillips-Mora ◽  
Lyndel W. Meinhardt ◽  
Lambert Motilal ◽  
...  
Keyword(s):  
Costa Rica ◽  
Theobroma Cacao ◽  
Snp Markers ◽  
Genetic Integrity

Molecular Characterization of Cacao (Theobroma cacao) Germplasm from Jamaica Using Single Nucleotide Polymorphism (SNP) Markers

2018 ◽  
Vol 11 (3-4) ◽  
pp. 93-106 ◽  
Author(s):  
Aliza A. Lindo ◽  
Dwight E. Robinson ◽  
Paula F. Tennant ◽  
Lyndel W. Meinhardt ◽  
Dapeng Zhang
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Molecular Characterization ◽  
Theobroma Cacao ◽  
Snp Markers ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide

scholarly journals Genome wide association study reveals novel candidate genes associated with productivity and disease resistance to Moniliophthora spp. in cacao (Theobroma cacao L.)

2019 ◽  
Author(s):  
Jaime A. Osorio-Guarín ◽  
Jhon A. Berdugo-Cely ◽  
Roberto A. Coronado-Silva ◽  
Eliana Baez ◽  
Yeirme Jaimes ◽  
...  
Keyword(s):  
Disease Resistance ◽  
Association Study ◽  
Theobroma Cacao ◽  
Genome Wide Association Study ◽  
Economic Benefits ◽  
Snp Markers ◽  
Genome Wide Association ◽  
Moniliophthora Perniciosa ◽  
Genome Wide ◽  
A Genome

ABSTRACTCacao (Theobroma cacao L.), the source of chocolate, is one the most important commodity products for farmers to improve their economic benefits. However, diseases such as frosty pod rot (FPRD) caused by Moniliophthora roreri and witches’ broom (WBD) caused by Moniliophthora perniciosa, limits the increase in yields. Molecular tools can help to develop more rapidly cacao varieties with disease resistance. In the present study, we sequenced by genotyping-by-sequencing (GBS), 229 cacao accessions to examine their genetic diversity and population structure. From those accessions, 102 have been evaluated for disease resistance and productivity to conduct a genome-wide association study (GWAS) based on 9,003 and 8,131 SNPs recovered by mapping against to the annotated cacao genomes (Criollo and Matina). Three promissory accessions for productivity and 10 accessions showing good tolerance to the evaluated diseases were found in the phenotypic evaluation. The work presented herein provides the first association mapping study in cacao using SNP markers based on GBS data. The GWAS identified two genes associated to productivity and seven to disease resistance. The results enriched the knowledge of the genetic regions associated to important traits in cacao that can have significant implications for conservation and breeding strategies such as marker-assisted selection (MAS).

scholarly journals DEVELOPMENT OF SNP MARKERS PRESENT IN EXPRESSED GENES OF THE PLANT-PATHOGEN INTERACTION: Theobroma cacao - Moniliophtora perniciosa

2017 ◽  
Vol 29 (2) ◽  
pp. 111-118
Author(s):  
Livia Santos Lima Lemos ◽  
Karina Peres Gramacho ◽  
Jose Luis Pires ◽  
Rogerio Merces Ferreira Santos ◽  
Rodrigo Sousa Ganem ◽  
...  
Keyword(s):  
Plant Pathogen ◽  
Theobroma Cacao ◽  
Snp Markers ◽  
Plant Pathogen Interaction

scholarly journals SNP markers associated with resistance to frosty pod and black pod rot diseases in an F1 population of Theobroma cacao L.

2021 ◽  
Vol 17 (3) ◽  
Author(s):  
Osman A. Gutiérrez ◽  
Alina S. Puig ◽  
Wilbert Phillips-Mora ◽  
Bryan A. Bailey ◽  
Shahin S. Ali ◽  
...  
Keyword(s):  
Theobroma Cacao ◽  
Mapping Population ◽  
Snp Markers ◽  
Chromosome 2 ◽  
Linkage Groups ◽  
Expression Of Genes ◽  
Black Pod ◽  
Moniliophthora Roreri ◽  
Frosty Pod Rot ◽  
Theobroma Cacao L

AbstractEconomically, cacao (Theobroma cacao L.) is a major tropical commodity for the Americas; however, severe losses due to Moniliophthora roreri (Cif. and Par.), which causes frosty pod rot (FPR), and Phytophthora spp., which causes black pod rot (BPR), have reduced cacao production in the Americas. The objectives of this study are to (i) re-confirm the QTL using different marker set; (ii) discover new QTL associated with FPR and BPR resistance using SNP markers; and (iii) find genes in the candidate QTL regions. At CATIE in Turrialba, Costa Rica, an F1 mapping population of cacao was obtained by crossing “POUND 7,” a clone moderately susceptible to FPR and resistant to BPR, with “UF 273,” resistant to FPR and highly susceptible to BPR. A total of 179 F1 progeny were fingerprinted with 5149 SNP markers and a dense linkage map composed of 10 linkage groups was developed using 2910 polymorphic SNP markers. Also segregating F1 trees were screened for resistance to FPR and BPR diseases. Seven QTL previously reported on chromosomes 2, 7, and 8 for FPR resistance and on chromosomes 4, 8, and 10 for BPR resistance were confirmed. Additionally, eight QTL were identified for FPR resistance (chromosomes 4, 9, and 10) and BPR resistance (chromosome 2). The expression of genes commonly associated with plant defense and disease resistance that are located within the identified QTL was confirmed.

Genetic diversity and ancestry of cacao (Theobroma cacao L.) in Dominica revealed by single nucleotide polymorphism markers

Genome ◽  
2020 ◽  
Vol 63 (12) ◽  
pp. 583-595
Author(s):  
David Gopaulchan ◽  
Lambert A. Motilal ◽  
Rena K. Kalloo ◽  
Amrita Mahabir ◽  
Marissa Moses ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Theobroma Cacao ◽  
Gene Diversity ◽  
Germplasm Collection ◽  
Snp Markers ◽  
Regional Differentiation ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Geographical Regions ◽  
Theobroma Cacao L

Cacao (Theobroma cacao L.), an introduced tree crop in Dominica, is important for foreign exchange earnings from fine or flavour cocoa. The genetic structure of farmed cacao in Dominica was examined to identify varieties for conservation, breeding, and propagation to improve their cocoa industry. Cacao trees (156) from 73 sites over seven geographical regions were genotyped at 192 single nucleotide polymorphism (SNP) markers. Identity, regional differentiation, phylogenetic, multi-variate, ancestry, and core collection analyses were performed. Farmed cacao germplasm had moderate gene diversity (He = 0.320 ± 0.005) from generally unique trees, but cocoa growing regions were genetically similar. Synonymous matching (16.3%) showed that some clonal material was supplied to farmers. Cacao trees were mainly mixed from Amelonado, Criollo, Iquitos, Contamana, and Marañon ancestries, with predominantly Amelonado–Criollo hybrids. Criollo ancestry, linked to fine or flavour cocoa, was found at more than 30% in 28 unique trees. Forty-five trees, containing the SNP diversity of cacao in Dominica, are recommended as a core germplasm collection. This study identifies promising trees for improving cocoa quality; provides genetic evidence that community, regional, or country-wide pooling would not compromise the exclusive fine or flavour cocoa industry; and discusses other implications towards improving the Dominican cocoa industry.

scholarly journals Traditional varieties of cacao (Theobroma cacao) in Madagascar: their origin and dispersal revealed by SNP markers

2021 ◽  
Vol 1 (1) ◽  
pp. 1-7
Author(s):  
Yanmei Li ◽  
◽  
Dapeng Zhang ◽  
Lambert A. Motilal ◽  
Philippe Lachenaud ◽  
...  
Keyword(s):  
Theobroma Cacao ◽  
Snp Markers
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