High-Throughput RAD-SNP Genotyping for Characterization of Sugar Beet Genotypes

被引：0

作者：

Piergiorgio Stevanato

Chiara Broccanello

Filippo Biscarini

Marcello Del Corvo

Gaurav Sablok

Lee Panella

Alessandra Stella

Giuseppe Concheri

机构：

[1] Università degli Studi di Padova,Dipartimento di Agronomia Animali Alimenti Risorse Naturali e Ambiente (DAFNAE)

[2] Fondazione Parco Tecnologico Padano (FPTP),Department of Biodiversity and Molecular Ecology

[3] Fondazione Edmund Mach,Sugar beet Research Unit, Crops Research Laboratory

[4] USDA-ARS,undefined

[5] NPA,undefined

来源：

Plant Molecular Biology Reporter | 2014年 / 32卷

关键词：

Sugar beet; Genetic diversity; SNP genotyping; QuantStudio platform;

D O I：

暂无

中图分类号：

学科分类号：

摘要：

High-throughput single-nucleotide polymorphism (SNP) genotyping provides a rapid way of developing resourceful sets of markers for delineating genetic structure and for understanding the basis of the taxonomic discrimination. In this paper, we present a panel of 192 SNPs for effective genotyping in sugar beet using a high-throughput marker array technology, QuantStudio 12K Flex system, coupled with Taqman OpenArray technology. The selected SNPs were evaluated for genetic diversity among a set of 150 individuals representing 15 genotypes (10 individuals each) from five cytoplasmic male steriles (CMSs), five pollinators, and five commercial varieties. We demonstrated that the proposed panel of 192 SNPs effectively differentiated the studied genotypes. A higher degree of polymorphism was observed among the CMSs as compared to pollinators and commercial varieties. PCoA and STRUCTURE analysis revealed that CMSs, pollinators, and varieties clustered into three distinct subpopulations. Our results demonstrate the utility of the identified panel of 192 SNPs coupled with TaqMan OpenArray technology as a wide set of markers for high-throughput SNP genotyping in sugar beet.

引用

页码：691 / 696

页数：5

共 50 条

[11] Automated SNP Genotype Clustering Algorithm to Improve Data Completeness in High-Throughput SNP Genotyping Datasets from Custom Arrays [J].

Edward M.Smith ;

Jack Littrell ;

Michael Olivier .

Genomics Proteomics & Bioinformatics, 2007, (Z1) :256-259

[12] Development and characterization of 21 SNP markers in Manis javanica based on high-throughput sequencing [J].

Linmiao Li ;

Li Wei ;

Jinge Ma ;

Jinping Chen .

Conservation Genetics Resources, 2018, 10 :351-353

[13] High-Density Genetic Map Construction in Sugar Beet (Beta vulgaris L.) by High-Throughput Technology [J].

Wang, Maoqian ;

Xu, Yuhui ;

Wu, Zedong ;

Wang, Huazhong ;

Zhang, Hanguo .

SUGAR TECH, 2018, 20 (02) :212-219

[14] High-Density Genetic Map Construction in Sugar Beet (Beta vulgaris L.) by High-Throughput Technology [J].

Maoqian Wang ;

Yuhui Xu ;

Zedong Wu ;

Huazhong Wang ;

Hanguo Zhang .

Sugar Tech, 2018, 20 :212-219

[15] High throughput SNP genotyping with two mini-sequencing assays [J].

Luo, CQ ;

Deng, LB ;

Zeng, CQ .

ACTA BIOCHIMICA ET BIOPHYSICA SINICA, 2004, 36 (06) :379-384

[16] High Throughput SNP Genotyping with Two Mini-sequencing Assays [J].

Chunqing LUO Libin DENG and Changqing ZENG The Institute of Genetic and Developmental Biology the Chinese Academy of Sciences Beijing ChinaBeijing Genomics Institute the Chinese Academy of Sciences Beijing China .

Acta Biochimica et Biophysica Sinica, 2004, (06) :379-384

[17] The PhenoBob-High Throughput Phenotyping in Sugar Beet Fields [J].

Huegel, Christian .

GESUNDE PFLANZEN, 2023, 75 (01) :5-11

[18] Empirical evaluation of DArT, SNP, and SSR marker-systems for genotyping, clustering, and assigning sugar beet hybrid varieties into populations [J].

Simko, Ivan ;

Eujayl, Imad ;

van Hintum, Theo J. L. .

PLANT SCIENCE, 2012, 184 :54-62

[19] Development and characterization of 21 SNP markers in Manis java']javanica based on high-throughput sequencing [J].

Li, Linmiao ;

Wei, Li ;

Ma, Jinge ;

Chen, Jinping .

CONSERVATION GENETICS RESOURCES, 2018, 10 (03) :351-353

[20] High-throughput SNP genotyping of modern and wild emmer wheat for yield and root morphology using a combined association and linkage analysis [J].

Lucas, Stuart J. ;

Salantur, Ayten ;

Yazar, Selami ;

Budak, Hikmet .

FUNCTIONAL & INTEGRATIVE GENOMICS, 2017, 17 (06) :667-685

← 1 2 3 4 5 →