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Candidate gene association of gene expression data in sugarcane contrasting for sucrose content
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Document Title
Candidate gene association of gene expression data in sugarcane contrasting for sucrose content
Author
Khanbo S, Tangphatsornruang S, Piriyapongsa J, Wirojsirasak W, Punpee P, Klomsa-Ard P, Ukoskit K
Name from Authors Collection
Affiliations
Thammasat University; National Science & Technology Development Agency - Thailand
Type
Article
Source Title
GENOMICS
ISSN
0888-7543
Year
2021
Volume
113
Issue
6
Open Access
Bronze
Publisher
ACADEMIC PRESS INC ELSEVIER SCIENCE
DOI
10.1016/j.ygeno.2020.12.014
Format
Abstract
Association mapping of gene expression data, generated from transcriptome and proteome studies, provides a means of understanding the functional significance and trait association potential of candidate genes. In this study, we applied candidate gene association mapping to validate sugarcane genes, using data from the starch and sucrose metabolism pathway, transcriptome, and proteome. We performed multiplex PCR targeted amplicon sequencing of 109 candidate genes, using NGS technology. A range of statistical models, both single-locus and multi-locus, were compared for minimization of false positives in association mapping of four sugar-related traits with different heritability. The Fixed and random model Circulating Probability Unification model effectively suppressed false positives for both lowand high-heritability traits. We identified favorable alleles of the candidate genes involved in signalling and transcriptional regulation. The results will support genetic improvement of sugarcane and may help clarify the genetic architecture of sugar-related traits.
Industrial Classification
Knowledge Taxonomy Level 1
Knowledge Taxonomy Level 2
Knowledge Taxonomy Level 3
Funding Sponsor
National Center for Genetic Engineering and Biotechnology (BIOTEC); Mitr Phol Innovation and Research Centre, Phu Khieo, Chaiyaphum, Thailand
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Publication Source
WOS