Next Article in Journal
A Comparative Bryo-Ecological Study of Habitat 3170*: Sites of Particular Phytogeographic Interest in the Mediterranean Area
Previous Article in Journal
Comparative Effects of Water Scarcity on the Growth and Development of Two Common Bean (Phaseolus vulgaris L.) Genotypes with Different Geographic Origin (Mesoamerica/Andean)
Previous Article in Special Issue
An Improved and Simplified Agrobacterium-Mediated Genetic Transformation Protocol for Solanum nigrum with a Shorter Growth Time
 
 
Font Type:
Arial Georgia Verdana
Font Size:
Aa Aa Aa
Line Spacing:
Column Width:
Background:
This is an early access version, the complete PDF, HTML, and XML versions will be available soon.
Article

Genome-Wide Association Analysis Identifies Candidate Loci for Callus Induction in Rice (Oryza sativa L.)

by
Wintai Kamolsukyeunyong
*,
Yeetoh Dabbhadatta
,
Aornpilin Jaiprasert
,
Burin Thunnom
,
Wasin Poncheewin
,
Samart Wanchana
,
Vinitchan Ruanjaichon
,
Theerayut Toojinda
and
Parichart Burns
*
National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency (NSTDA), Pathum Thani 12120, Thailand
*
Authors to whom correspondence should be addressed.
Plants 2024, 13(15), 2112; https://doi.org/10.3390/plants13152112 (registering DOI)
Submission received: 29 June 2024 / Revised: 19 July 2024 / Accepted: 26 July 2024 / Published: 30 July 2024
(This article belongs to the Special Issue Plant Tissue Culture and Plant Regeneration)

Abstract

Callus induction (CI) is a critical trait for transforming desirable genes in plants. A genome-wide association study (GWAS) analysis was conducted on the rice germplasms of 110 Indica rice accessions, in which three tissue culture media, B5, MS, and N6, were used for the CI of those rice panels’ mature seeds. Seven quantitative trait loci (QTLs) on rice chromosomes 2, 6, 7, and 11 affected the CI percentage in the three media. For the B5 medium, one QTL (qCI–B5–Chr6) was identified on rice chromosome 6; for the MS medium, two QTLs were identified on rice chromosomes 2 and 6 (qCI–MS–Chr2 and qCI–MS–Chr6, respectively); for the N6 medium, four QTLs were identified on rice chromosomes 6, 7, and 11 (qCI–N6–Chr6.1 and qCI–N6–Chr6.2, qCI–N6–Chr7, and qCI–N6–Chr11, respectively). Fifty-five genes were identified within the haplotype blocks corresponding to these QTLs, thirty-one of which showed haplotypes associated with different CI percentages in those media. qCI–B5–Chr6 was located in the same region as qCI–N6–Chr6.2, and the Caleosin-related family protein was also identified in this region. Analysis of the gene-based haplotype revealed the association of this gene with different CI percentages in both B5 and N6 media, suggesting that the gene may play a critical role in the CI mechanism. Moreover, several genes, including those that encode the beta-tubulin protein, zinc finger protein, RNP–1 domain-containing protein, and lysophosphatidic acid acyltransferase, were associated with different CI percentages in the N6 medium. The results of this study provide insights into the potential QTLs and candidate genes for callus induction in rice that contribute to our understanding of the physiological and biochemical processes involved in callus formation, which is an essential tool in the molecular breeding of rice.
Keywords: rice; GWAS; QTLs; callus induction; gene rice; GWAS; QTLs; callus induction; gene

Share and Cite

MDPI and ACS Style

Kamolsukyeunyong, W.; Dabbhadatta, Y.; Jaiprasert, A.; Thunnom, B.; Poncheewin, W.; Wanchana, S.; Ruanjaichon, V.; Toojinda, T.; Burns, P. Genome-Wide Association Analysis Identifies Candidate Loci for Callus Induction in Rice (Oryza sativa L.). Plants 2024, 13, 2112. https://doi.org/10.3390/plants13152112

AMA Style

Kamolsukyeunyong W, Dabbhadatta Y, Jaiprasert A, Thunnom B, Poncheewin W, Wanchana S, Ruanjaichon V, Toojinda T, Burns P. Genome-Wide Association Analysis Identifies Candidate Loci for Callus Induction in Rice (Oryza sativa L.). Plants. 2024; 13(15):2112. https://doi.org/10.3390/plants13152112

Chicago/Turabian Style

Kamolsukyeunyong, Wintai, Yeetoh Dabbhadatta, Aornpilin Jaiprasert, Burin Thunnom, Wasin Poncheewin, Samart Wanchana, Vinitchan Ruanjaichon, Theerayut Toojinda, and Parichart Burns. 2024. "Genome-Wide Association Analysis Identifies Candidate Loci for Callus Induction in Rice (Oryza sativa L.)" Plants 13, no. 15: 2112. https://doi.org/10.3390/plants13152112

Note that from the first issue of 2016, this journal uses article numbers instead of page numbers. See further details here.

Article Metrics

Article metric data becomes available approximately 24 hours after publication online.
Back to TopTop