Molecular-Assisted Distinctness and Uniformity Testing Using SLAF-Sequencing Approach in Soybean
Distinctness, uniformity and stability (DUS) testing of cultivars through morphological descriptors is an important and compulsory part of soybean breeding. Molecular markers are usually more effective and accurate in describing the genetic features for the identification and purity assessment of cu...
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doaj-cabf39076db74eb180beb31e75bc619c2020-11-25T03:32:00ZengMDPI AGGenes2073-44252020-02-0111217510.3390/genes11020175genes11020175Molecular-Assisted Distinctness and Uniformity Testing Using SLAF-Sequencing Approach in SoybeanShengrui Zhang0Bin Li1Ying Chen2Abdulwahab S. Shaibu3Hongkun Zheng4Junming Sun5The National Engineering Laboratory for Crop Molecular Breeding, MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing 100081, ChinaThe National Engineering Laboratory for Crop Molecular Breeding, MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing 100081, ChinaThe National Engineering Laboratory for Crop Molecular Breeding, MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing 100081, ChinaThe National Engineering Laboratory for Crop Molecular Breeding, MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing 100081, ChinaBiomarker Technologies Corporation, Beijing 101300, ChinaThe National Engineering Laboratory for Crop Molecular Breeding, MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing 100081, ChinaDistinctness, uniformity and stability (DUS) testing of cultivars through morphological descriptors is an important and compulsory part of soybean breeding. Molecular markers are usually more effective and accurate in describing the genetic features for the identification and purity assessment of cultivars. In the present study, we assessed the distinctness and uniformity of five soybean cultivars using both single nucleotide polymorphism (SNP) markers developed by specific-locus amplified fragment sequencing (SLAF-seq) technology, and simple sequence repeat (SSR) markers. The phylogenetic tree and principal component analysis (PCA) from both the SLAF-seq and SSR methods showed a clear distinction among cultivars Zhonghuang 18, Zhonghuang 68 and Zhonghuang 35, while no clear distinction was observed between cultivars Zhonghuang 13 and Hedou 13. Using the SLAF-seq method, we determined the proportion of homozygous loci for the five soybean cultivars. The heterozygosity of each individual plant was estimated for the assessment of cultivar purity and the purity levels of the five soybean cultivars ranged from 91.89% to 93.96%. To further validate the applicability of the SLAF-seq approach for distinctness testing, we used the SNP information of 150 soybean cultivars with different origins. The cultivars were also distinguished clearly. Taken together, SLAF-seq can be used as an accurate and reliable method in the assessment of the distinctness and uniformity of soybean cultivars.https://www.mdpi.com/2073-4425/11/2/175soybean (<i>glycine max</i> (l.) merrill)ssrsnpslaf-seqfingerprintcultivar identification |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Shengrui Zhang Bin Li Ying Chen Abdulwahab S. Shaibu Hongkun Zheng Junming Sun |
spellingShingle |
Shengrui Zhang Bin Li Ying Chen Abdulwahab S. Shaibu Hongkun Zheng Junming Sun Molecular-Assisted Distinctness and Uniformity Testing Using SLAF-Sequencing Approach in Soybean Genes soybean (<i>glycine max</i> (l.) merrill) ssr snp slaf-seq fingerprint cultivar identification |
author_facet |
Shengrui Zhang Bin Li Ying Chen Abdulwahab S. Shaibu Hongkun Zheng Junming Sun |
author_sort |
Shengrui Zhang |
title |
Molecular-Assisted Distinctness and Uniformity Testing Using SLAF-Sequencing Approach in Soybean |
title_short |
Molecular-Assisted Distinctness and Uniformity Testing Using SLAF-Sequencing Approach in Soybean |
title_full |
Molecular-Assisted Distinctness and Uniformity Testing Using SLAF-Sequencing Approach in Soybean |
title_fullStr |
Molecular-Assisted Distinctness and Uniformity Testing Using SLAF-Sequencing Approach in Soybean |
title_full_unstemmed |
Molecular-Assisted Distinctness and Uniformity Testing Using SLAF-Sequencing Approach in Soybean |
title_sort |
molecular-assisted distinctness and uniformity testing using slaf-sequencing approach in soybean |
publisher |
MDPI AG |
series |
Genes |
issn |
2073-4425 |
publishDate |
2020-02-01 |
description |
Distinctness, uniformity and stability (DUS) testing of cultivars through morphological descriptors is an important and compulsory part of soybean breeding. Molecular markers are usually more effective and accurate in describing the genetic features for the identification and purity assessment of cultivars. In the present study, we assessed the distinctness and uniformity of five soybean cultivars using both single nucleotide polymorphism (SNP) markers developed by specific-locus amplified fragment sequencing (SLAF-seq) technology, and simple sequence repeat (SSR) markers. The phylogenetic tree and principal component analysis (PCA) from both the SLAF-seq and SSR methods showed a clear distinction among cultivars Zhonghuang 18, Zhonghuang 68 and Zhonghuang 35, while no clear distinction was observed between cultivars Zhonghuang 13 and Hedou 13. Using the SLAF-seq method, we determined the proportion of homozygous loci for the five soybean cultivars. The heterozygosity of each individual plant was estimated for the assessment of cultivar purity and the purity levels of the five soybean cultivars ranged from 91.89% to 93.96%. To further validate the applicability of the SLAF-seq approach for distinctness testing, we used the SNP information of 150 soybean cultivars with different origins. The cultivars were also distinguished clearly. Taken together, SLAF-seq can be used as an accurate and reliable method in the assessment of the distinctness and uniformity of soybean cultivars. |
topic |
soybean (<i>glycine max</i> (l.) merrill) ssr snp slaf-seq fingerprint cultivar identification |
url |
https://www.mdpi.com/2073-4425/11/2/175 |
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