The aim of this study was to identify single nucleotide polymorphism (SNP) markers genetically linked to root elongation rate (RER) in sugar beet (Beta vulgaris L.). A population of 244 F3 individuals, obtained from the cross between lines L01 (low RER) and L18 (high RER), was phenotyped by measuring RER of 11-d-old seedlings grown in hydroponic culture. Two DNA bulks of 50 F3 individuals with extremes phenotypes were used for bulk segregant analysis (BSA) by restriction-associated DNA (RAD) sequencing. A total of 20 376 SNP were identified. SNPs were filtered to reduce the number of false positive and mapped on candidate chromosomal regions the B. vulgaris reference genome. A total of SNPs were selected one of which, SNP10139, was strongly linked (P < 0.01) to RER. The pattern of association between SNP10139 genotype and RER was also evaluated on a breeding line panel comprising 40 low and 40 high RER individuals with different allele frequencies between groups (P < 0.01). The SNP10139 sequence was mapped the B. vulgaris peptide transporter (PTR) gene, a carrier that influences root elongation in Arabidopsis thaliana. Our results suggest that SNP10139 influences RER in sugar beet and sequence information can be used in marker- assisted selection programs.

Single nucleotide polymorphism markers linked to root elongation rate in sugar beet

STEVANATO, PIERGIORGIO;SACCOMANI, MASSIMO
2016

Abstract

The aim of this study was to identify single nucleotide polymorphism (SNP) markers genetically linked to root elongation rate (RER) in sugar beet (Beta vulgaris L.). A population of 244 F3 individuals, obtained from the cross between lines L01 (low RER) and L18 (high RER), was phenotyped by measuring RER of 11-d-old seedlings grown in hydroponic culture. Two DNA bulks of 50 F3 individuals with extremes phenotypes were used for bulk segregant analysis (BSA) by restriction-associated DNA (RAD) sequencing. A total of 20 376 SNP were identified. SNPs were filtered to reduce the number of false positive and mapped on candidate chromosomal regions the B. vulgaris reference genome. A total of SNPs were selected one of which, SNP10139, was strongly linked (P < 0.01) to RER. The pattern of association between SNP10139 genotype and RER was also evaluated on a breeding line panel comprising 40 low and 40 high RER individuals with different allele frequencies between groups (P < 0.01). The SNP10139 sequence was mapped the B. vulgaris peptide transporter (PTR) gene, a carrier that influences root elongation in Arabidopsis thaliana. Our results suggest that SNP10139 influences RER in sugar beet and sequence information can be used in marker- assisted selection programs.
2016
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/11577/3212734
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