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Genetic Diversity and Allelic Frequency of Selected Thai and Exotic Rice Germplasm Using SSR Markers
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Document Title
Genetic Diversity and Allelic Frequency of Selected Thai and Exotic Rice Germplasm Using SSR Markers
Author
Pathaichindachote W, Panyawut N, Sikaewtung K, Patarapuwadol S, Muangprom A
Name from Authors Collection
Scopus Author ID
57194215247
Affiliations
Kasetsart University; Naresuan University; National Science & Technology Development Agency - Thailand; National Center Genetic Engineering & Biotechnology (BIOTEC); Kasetsart University
Type
Article
Source Title
RICE SCIENCE
ISSN
1672-6308
Year
2019
Volume
26
Issue
6
Page
393-403
Open Access
gold
Publisher
ELSEVIER
DOI
10.1016/j.rsci.2018.11.002
Format
Abstract
A collection of 167 Thai and exotic rice accessions was subjected for evaluation of genetic diversity and assessment of relationship by simple sequence repeat (SSR) markers. Among a total of 49 SSR markers, 13 markers distributing over 12 rice chromosomes showed clear polymorphic band patterns, and they were selected for genetic assessment. A total of 110 alleles were detected with an average of 8.46 alleles per locus. The averages of gene diversity, heterozygosity and polymorphic information content were 0.59, 0.02 and 0.56, respectively. The unweighted-pair group method with arithmetic averages (UPGMA) clustering analysis was performed for genetic distance, and phylogenetic tree was constructed. The result showed that this rice collection was divided into two major groups, classified as japonica and indica subspecies. Within the japonica group, temperate japonica and tropical japonica subgroups can be clearly separated. Three-dimensional principal component analysis projection and model-based population structure analysis showed consistent clustering results with two major groups of UPGMA analysis, supporting the classification of japonica and indica subspecies. The indica allelic frequency was also investigated to provide an indicative guide for breeders to overcome the practical problems on sterility of inter-subspecies hybrid offspring. This rice collection and information obtained in this study will be useful for rice breeding programs.
Keyword
allelic frequency | Genetic diversity | indica | japonica | Rice | simple sequence repeat
Industrial Classification
Knowledge Taxonomy Level 1
Knowledge Taxonomy Level 2
Funding Sponsor
Center of Excellence on Agricultural Biotechnology, Science and Technology Postgraduate Education and Research Development Office, Office of Higher Education Commission, Ministry of Education (AG-BIO/PERDO-CHE); Agricultural Research Development Agency (ARDA); National Science and Technology Development Agency in Thailand
License
CC BY-NC-ND
Rights
Publisher
Publication Source
WOS
Document
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Genetic Diversity and Allelic Frequency of Selected Thai and Exotic Rice Germplasm Using SSR MarkersDownload