Linkage and QTL mapping for tuber shape and specific gravity in a tetraploid mapping population of potato representing the russet market class

Abstract Background Tuber shape and specific gravity (dry matter) are important agronomic traits in potato processing and impact production costs, quality, and consistency of the final processed food products such as French fries and potato chips. In this study, linkage and QTL mapping were performe...

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Autores principales:	Jaebum Park, Alicia N. Massa, David Douches, Joseph Coombs, Deniz Akdemir, G. Craig Yencho, Jonathan L. Whitworth, Richard G. Novy
Formato:	article
Lenguaje:	EN
Publicado:	BMC 2021
Materias:	Quantitative trait locus/loci (QTL) analysis Potato tuber shape Potato specific gravity MAPpoly QTLpoly Botany QK1-989
Acceso en línea:	https://doaj.org/article/95a4d0fec45a4ff496d64bb1584a8dbc
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spelling	oai:doaj.org-article:95a4d0fec45a4ff496d64bb1584a8dbc2021-11-07T12:09:28ZLinkage and QTL mapping for tuber shape and specific gravity in a tetraploid mapping population of potato representing the russet market class10.1186/s12870-021-03265-21471-2229https://doaj.org/article/95a4d0fec45a4ff496d64bb1584a8dbc2021-11-01T00:00:00Zhttps://doi.org/10.1186/s12870-021-03265-2https://doaj.org/toc/1471-2229Abstract Background Tuber shape and specific gravity (dry matter) are important agronomic traits in potato processing and impact production costs, quality, and consistency of the final processed food products such as French fries and potato chips. In this study, linkage and QTL mapping were performed for these two traits to allow for the implementation of marker-assisted selection to facilitate breeding efforts in the russet market class. Two parents, Rio Grande Russet (female) and Premier Russet (male) and their 205 F1 progenies were initially phenotyped for tuber shape and specific gravity in field trials conducted in Idaho and North Carolina in 2010 and 2011, with specific gravity also being measured in Minnesota in 2011. Progenies and parents were previously genotyped using the Illumina SolCAP Infinium 8303 Potato SNP array, with ClusterCall and MAPpoly (R-packages) subsequently used for autotetraploid SNP calling and linkage mapping in this study. The 12 complete linkage groups and phenotypic data were then imported into QTLpoly, an R-package designed for polyploid QTL analyses. Results Significant QTL for tuber shape were detected on chromosomes 4, 7, and 10, with heritability estimates ranging from 0.09 to 0.36. Significant tuber shape QTL on chromosomes 4 and 7 were specific to Idaho and North Carolina environments, respectively, whereas the QTL on chromosome 10 was significant regardless of growing environment. Single marker analyses identified alleles in the parents associated with QTL on chromosomes 4, 7, and 10 that contributed to significant differences in tuber shape among progenies. Significant QTL were also identified for specific gravity on chromosomes 1 and 5 with heritability ranging from 0.12 to 0.21 and were reflected across environments. Conclusion Fully automated linkage mapping and QTL analysis were conducted to identify significant QTL for tuber shape and dry matter in a tetraploid mapping population representing the russet market class. The findings are important for the development of molecular markers useful to potato breeders for marker-assisted selection for the long tuber shape and acceptable dry matter required by the potato industry within this important market class.Jaebum ParkAlicia N. MassaDavid DouchesJoseph CoombsDeniz AkdemirG. Craig YenchoJonathan L. WhitworthRichard G. NovyBMCarticleQuantitative trait locus/loci (QTL) analysisPotato tuber shapePotato specific gravityMAPpolyQTLpolyBotanyQK1-989ENBMC Plant Biology, Vol 21, Iss 1, Pp 1-18 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Quantitative trait locus/loci (QTL) analysis Potato tuber shape Potato specific gravity MAPpoly QTLpoly Botany QK1-989
spellingShingle	Quantitative trait locus/loci (QTL) analysis Potato tuber shape Potato specific gravity MAPpoly QTLpoly Botany QK1-989 Jaebum Park Alicia N. Massa David Douches Joseph Coombs Deniz Akdemir G. Craig Yencho Jonathan L. Whitworth Richard G. Novy Linkage and QTL mapping for tuber shape and specific gravity in a tetraploid mapping population of potato representing the russet market class
description	Abstract Background Tuber shape and specific gravity (dry matter) are important agronomic traits in potato processing and impact production costs, quality, and consistency of the final processed food products such as French fries and potato chips. In this study, linkage and QTL mapping were performed for these two traits to allow for the implementation of marker-assisted selection to facilitate breeding efforts in the russet market class. Two parents, Rio Grande Russet (female) and Premier Russet (male) and their 205 F1 progenies were initially phenotyped for tuber shape and specific gravity in field trials conducted in Idaho and North Carolina in 2010 and 2011, with specific gravity also being measured in Minnesota in 2011. Progenies and parents were previously genotyped using the Illumina SolCAP Infinium 8303 Potato SNP array, with ClusterCall and MAPpoly (R-packages) subsequently used for autotetraploid SNP calling and linkage mapping in this study. The 12 complete linkage groups and phenotypic data were then imported into QTLpoly, an R-package designed for polyploid QTL analyses. Results Significant QTL for tuber shape were detected on chromosomes 4, 7, and 10, with heritability estimates ranging from 0.09 to 0.36. Significant tuber shape QTL on chromosomes 4 and 7 were specific to Idaho and North Carolina environments, respectively, whereas the QTL on chromosome 10 was significant regardless of growing environment. Single marker analyses identified alleles in the parents associated with QTL on chromosomes 4, 7, and 10 that contributed to significant differences in tuber shape among progenies. Significant QTL were also identified for specific gravity on chromosomes 1 and 5 with heritability ranging from 0.12 to 0.21 and were reflected across environments. Conclusion Fully automated linkage mapping and QTL analysis were conducted to identify significant QTL for tuber shape and dry matter in a tetraploid mapping population representing the russet market class. The findings are important for the development of molecular markers useful to potato breeders for marker-assisted selection for the long tuber shape and acceptable dry matter required by the potato industry within this important market class.
format	article
author	Jaebum Park Alicia N. Massa David Douches Joseph Coombs Deniz Akdemir G. Craig Yencho Jonathan L. Whitworth Richard G. Novy
author_facet	Jaebum Park Alicia N. Massa David Douches Joseph Coombs Deniz Akdemir G. Craig Yencho Jonathan L. Whitworth Richard G. Novy
author_sort	Jaebum Park
title	Linkage and QTL mapping for tuber shape and specific gravity in a tetraploid mapping population of potato representing the russet market class
title_short	Linkage and QTL mapping for tuber shape and specific gravity in a tetraploid mapping population of potato representing the russet market class
title_full	Linkage and QTL mapping for tuber shape and specific gravity in a tetraploid mapping population of potato representing the russet market class
title_fullStr	Linkage and QTL mapping for tuber shape and specific gravity in a tetraploid mapping population of potato representing the russet market class
title_full_unstemmed	Linkage and QTL mapping for tuber shape and specific gravity in a tetraploid mapping population of potato representing the russet market class
title_sort	linkage and qtl mapping for tuber shape and specific gravity in a tetraploid mapping population of potato representing the russet market class
publisher	BMC
publishDate	2021
url	https://doaj.org/article/95a4d0fec45a4ff496d64bb1584a8dbc
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Linkage and QTL mapping for tuber shape and specific gravity in a tetraploid mapping population of potato representing the russet market class

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