Selecting a core set of nuclear SNP markers for molecular characterization of Arabica coffee (Coffea arabica L.) genetic resources

Coffee is one of the most economically important agricultural commodities in the world. Labeling accuracy and conservation efficiency are essential for coffee germplasm management and for the exchange and utilization in breeding new varieties. However, due to its homogenous genetic background, accur...

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Main Authors:	Zhang, Dapeng, Vega, Fernando E., Solano, William, Su, Fuyuan, Infante, Francisco, Meinhardt, Lyndel W.
Format:	Artículo
Language:	Inglés
Published:	Springer, Nueva York (Estados Unidos) 2021
Subjects:	RECURSOS GENETICOS CAFE ARABICA GERMOPLASMAS MARCADORES MOLECULARES AGRICULTURA TROPICAL PRODUCTORES CONSERVACION GENOTIPOS MEJORA DE CULTIVOS LABORATORIOS
Online Access:	https://doi.org/10.1007/s12686-021-01201-y https://repositorio.catie.ac.cr/handle/11554/10489

id	RepoCATIE10489
record_format	dspace
spelling	RepoCATIE104892022-08-05T18:44:55Z Selecting a core set of nuclear SNP markers for molecular characterization of Arabica coffee (Coffea arabica L.) genetic resources Zhang, Dapeng Vega, Fernando E. Solano, William Su, Fuyuan Infante, Francisco Meinhardt, Lyndel W. RECURSOS GENETICOS CAFE ARABICA GERMOPLASMAS MARCADORES MOLECULARES AGRICULTURA TROPICAL PRODUCTORES CONSERVACION GENOTIPOS MEJORA DE CULTIVOS LABORATORIOS Coffee is one of the most economically important agricultural commodities in the world. Labeling accuracy and conservation efficiency are essential for coffee germplasm management and for the exchange and utilization in breeding new varieties. However, due to its homogenous genetic background, accurate identification of Coffea arabica germplasm has not been fully achieved. Specifically, data comparison across different laboratories and genotyping platforms has not been available. Here, we report the screening of 672 candidate SNPs using Nano-Fluidic Array genotyping. Based on call rate, Minor Allele Frequency and Linkage Disequilibrium, a set of 96 SNPs were selected for genotyping C. arabica. This validated panel is suitable for use in coffee germplasm conservation and crop improvement, including varietal identification, seeds and nursery accreditation, and coffee bean authentication. 2021-03-15T17:52:35Z 2021-03-15T17:52:35Z 2021 Artículo https://doi.org/10.1007/s12686-021-01201-y https://repositorio.catie.ac.cr/handle/11554/10489 en Conservation Genetics Resources info:eu-repo/semantics/restrictedAccess application/pdf Springer, Nueva York (Estados Unidos)
institution	Centro Agronómico Tropical de Investigación y Enseñanza
collection	Repositorio CATIE
language	Inglés
topic	RECURSOS GENETICOS CAFE ARABICA GERMOPLASMAS MARCADORES MOLECULARES AGRICULTURA TROPICAL PRODUCTORES CONSERVACION GENOTIPOS MEJORA DE CULTIVOS LABORATORIOS
spellingShingle	RECURSOS GENETICOS CAFE ARABICA GERMOPLASMAS MARCADORES MOLECULARES AGRICULTURA TROPICAL PRODUCTORES CONSERVACION GENOTIPOS MEJORA DE CULTIVOS LABORATORIOS Zhang, Dapeng Vega, Fernando E. Solano, William Su, Fuyuan Infante, Francisco Meinhardt, Lyndel W. Selecting a core set of nuclear SNP markers for molecular characterization of Arabica coffee (Coffea arabica L.) genetic resources
description	Coffee is one of the most economically important agricultural commodities in the world. Labeling accuracy and conservation efficiency are essential for coffee germplasm management and for the exchange and utilization in breeding new varieties. However, due to its homogenous genetic background, accurate identification of Coffea arabica germplasm has not been fully achieved. Specifically, data comparison across different laboratories and genotyping platforms has not been available. Here, we report the screening of 672 candidate SNPs using Nano-Fluidic Array genotyping. Based on call rate, Minor Allele Frequency and Linkage Disequilibrium, a set of 96 SNPs were selected for genotyping C. arabica. This validated panel is suitable for use in coffee germplasm conservation and crop improvement, including varietal identification, seeds and nursery accreditation, and coffee bean authentication.
format	Artículo
author	Zhang, Dapeng Vega, Fernando E. Solano, William Su, Fuyuan Infante, Francisco Meinhardt, Lyndel W.
author_facet	Zhang, Dapeng Vega, Fernando E. Solano, William Su, Fuyuan Infante, Francisco Meinhardt, Lyndel W.
author_sort	Zhang, Dapeng
title	Selecting a core set of nuclear SNP markers for molecular characterization of Arabica coffee (Coffea arabica L.) genetic resources
title_short	Selecting a core set of nuclear SNP markers for molecular characterization of Arabica coffee (Coffea arabica L.) genetic resources
title_full	Selecting a core set of nuclear SNP markers for molecular characterization of Arabica coffee (Coffea arabica L.) genetic resources
title_fullStr	Selecting a core set of nuclear SNP markers for molecular characterization of Arabica coffee (Coffea arabica L.) genetic resources
title_full_unstemmed	Selecting a core set of nuclear SNP markers for molecular characterization of Arabica coffee (Coffea arabica L.) genetic resources
title_sort	selecting a core set of nuclear snp markers for molecular characterization of arabica coffee (coffea arabica l.) genetic resources
publisher	Springer, Nueva York (Estados Unidos)
publishDate	2021
url	https://doi.org/10.1007/s12686-021-01201-y https://repositorio.catie.ac.cr/handle/11554/10489
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Selecting a core set of nuclear SNP markers for molecular characterization of Arabica coffee (Coffea arabica L.) genetic resources

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