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Genetic Mapping by Sequencing More Precisely Detects Loci Responsible for Anaerobic Germination Tolerance in Rice
Published (Version of record)CC BY-NC V4.0, Open
Journal article
Genetic Mapping by Sequencing More Precisely Detects Loci Responsible for Anaerobic Germination Tolerance in Rice
Plants , Vol.10(4), p.705
06/04/2021
PMID: 33917499
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Abstract
Direct seeded rice (DSR) is a mainstay for planting rice in the Americas, and it is rapidly becoming more popular in Asia. It is essential to develop rice varieties that are suitable for this type of production system. ASD1, a landrace from India, possesses several traits desirable for direct-seeded fields, including tolerance to anaerobic germination (AG). To map the genetic basis of its tolerance, we examined a population of 200 F
2:3
families derived from a cross between IR64 and ASD1 using the restriction site-associated DNA sequencing (RAD-seq) technology. This genotyping platform enabled the identification of 1921 single nucleotide polymorphism (SNP) markers to construct a high-resolution genetic linkage map with an average interval of 0.9 cM. Two significant quantitative trait loci (QTLs) were detected on chromosomes 7 and 9,
qAG7
and
qAG9
, with LOD scores of 7.1 and 15.0 and R
2
values of 15.1 and 29.4, respectively. Here, we obtained more precise locations of the QTLs than traditional simple sequence repeat and low-density SNP genotyping methods and may help further dissect the genetic factors of these QTLs.
Details
- Title
- Genetic Mapping by Sequencing More Precisely Detects Loci Responsible for Anaerobic Germination Tolerance in Rice
- Creators
- John Carlos I Ignacio (Author) - International Rice Research Institute (Phillipines)Maricris Zaidem (Author) - Max Planck Institute for Developmental BiologyCarlos Casal (Author) - International Rice Research Institute (Phillipines)Shalabh Dixit (Author) - International Rice Research Institute (Phillipines)Tobias Kretzschmar (Author) - International Rice Research Institute (Phillipines)Jaime M Samaniego (Author) - University of the PhilippinesMerlyn S Mendioro (Author) - University of the PhilippinesDetlef Weigel (Author) - Max Planck Institute for Developmental BiologyEndang M Septiningsih (Author) - International Rice Research Institute (Phillipines)
- Publication Details
- Plants , Vol.10(4), p.705
- Publisher
- MDPI
- Identifiers
- 991012932298602368
- Academic Unit
- Faculty of Science and Engineering; Science
- Language
- English
- Resource Type
- Journal article