Genetic mapping of regions associated with root system architecture in rice using MutMap QTL-seq.

Autor: Magar ND; ICAR-Indian Institute of Rice Research, Hyderabad, 500030, India; Chaudhary Charan Singh University, Meerut, 250005, India., Barbadikar KM; ICAR-Indian Institute of Rice Research, Hyderabad, 500030, India. Electronic address: Kalyaniaau@gmail.com., Reddy V; ICAR-Indian Institute of Rice Research, Hyderabad, 500030, India., Revadi P; ICAR-Indian Institute of Rice Research, Hyderabad, 500030, India., Guha P; ICAR-Indian Institute of Rice Research, Hyderabad, 500030, India., Gangatire D; ICAR-Indian Institute of Rice Research, Hyderabad, 500030, India., Balakrishnan D; ICAR-Indian Institute of Rice Research, Hyderabad, 500030, India., Sharma S; Chaudhary Charan Singh University, Meerut, 250005, India., Madhav MS; ICAR-Central Tobacco Research Institute, Rajahmundry, 533106, India., Sundaram RM; ICAR-Indian Institute of Rice Research, Hyderabad, 500030, India.
Jazyk: angličtina
Zdroj: Plant physiology and biochemistry : PPB [Plant Physiol Biochem] 2024 Aug; Vol. 213, pp. 108836. Date of Electronic Publication: 2024 Jun 17.
DOI: 10.1016/j.plaphy.2024.108836
Abstrakt: The root system architecture is an important complex trait in rice. With changing climatic conditions and soil nutrient deficiencies, there is an immediate need to breed nutrient-use-efficient rice varieties with robust root system architectural (RSA) traits. To map the genomic regions associated with crucial component traits of RSA viz. root length and root volume, a biparental F 2 mapping population was developed using TI-128, an Ethyl Methane Sulphonate (EMS) mutant of a mega variety BPT-5204 having high root length (RL) and root volume (RV) with wild type BPT-5204. Extreme bulks having high RL and RV and low RL and RV were the whole genome re-sequenced along with parents. Genetic mapping using the MutMap QTL-Seq approach elucidated two genomic intervals on Chr.12 (3.14-3.74 Mb, 18.11-20.85 Mb), and on Chr.2 (23.18-23.68 Mb) as potential regions associated with both RL and RV. The Kompetitive Allele Specific PCR (KASP) assays for SNPs with delta SNP index near 1 were associated with higher RL and RV in the panel of sixty-two genotypes varying in root length and volume. The KASP_SNPs viz. Chr12_S4 (C→T; Chr12:3243938), located in the 3' UTR region of LOC_Os12g06670 encoding a protein kinase domain-containing protein and Chr2_S6 (C→T; Chr2:23181622) present upstream in the regulator of chromosomal condensation protein LOC_Os2g38350. Validation of these genes using qRT-PCR and in-silico studies using various online tools and databases revealed higher expression in TI-128 as compared to BPT- 5204 at the seedling and panicle initiation stages implying the functional role in enhancing RL and RV.
Competing Interests: Declaration of competing interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper.
(Copyright © 2024 Elsevier Masson SAS. All rights reserved.)
Databáze: MEDLINE
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