Mapping Genomic Regions for Grain Protein Content and Quality Traits in Milled Rice (<i>Oryza sativa</i> L.)
Grain protein content (GPC) is gaining attention due to increasing consumer demand for nutritious foods. The present study carried out at ICAR-IIRR, Hyderabad, focused on the identification of quantitative trait loci (QTLs) linked with GPC and other quality traits. We utilized a population of 188 F&...
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MDPI AG
2025-03-01
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| author | Violina Bharali Suneetha Yadla Srinivas Thati Bhargavi Bitra Divya Karapati Neeraja Naga Chirravuri Jyothi Badri Raman Meenakshi Sundaram Aravind Kumar Jukanti |
| author_facet | Violina Bharali Suneetha Yadla Srinivas Thati Bhargavi Bitra Divya Karapati Neeraja Naga Chirravuri Jyothi Badri Raman Meenakshi Sundaram Aravind Kumar Jukanti |
| author_sort | Violina Bharali |
| collection | DOAJ |
| description | Grain protein content (GPC) is gaining attention due to increasing consumer demand for nutritious foods. The present study carried out at ICAR-IIRR, Hyderabad, focused on the identification of quantitative trait loci (QTLs) linked with GPC and other quality traits. We utilized a population of 188 F<sub>2</sub> individuals developed from BPT 5204 (low GPC) X JAK 686 (high GPC) for QTL analysis. QTL analysis yielded four significant QTLs for GPC, three for amylose content, and multiple QTLs for other quality traits. <i>qPC1.2</i>, a major QTL in milled rice, was located in the marker interval RM562-RM11307 on chromosome 1 with an LOD value of 4.4. <i>qPC1.2</i> explained 15.71% of the phenotypic variance (PVE). Additionally, the Interval Mapping for Epistatic QTLs (IM-EPI) method detected 332 pairs of di-genic epistatic QTLs. Fifteen QTLs exhibited a positive additive effect, indicating that the contributing allele(s) was from JAK 686. Five F<sub>2</sub> plants, <i>viz</i>., F<sub>2</sub>-140, F<sub>2</sub>-12, F<sub>2</sub>-7, F<sub>2</sub>-147, and F<sub>2</sub>-41, exhibited a high GPC of 14.67%, 14.36%, 14.32%, 13.60%, and 13.36%, respectively. Additionally, these plants also exhibited high per-plant grain yield (~17.0–29.0 g) with desirable agronomic traits. The QTLs identified are valuable resources for developing high-grain-protein varieties with high grain yield and desirable quality traits. |
| format | Article |
| id | doaj-art-c9be8f0567724f7aa2b14acbd2f206ce |
| institution | DOAJ |
| issn | 2223-7747 |
| language | English |
| publishDate | 2025-03-01 |
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| spelling | doaj-art-c9be8f0567724f7aa2b14acbd2f206ce2025-08-20T02:42:28ZengMDPI AGPlants2223-77472025-03-0114690510.3390/plants14060905Mapping Genomic Regions for Grain Protein Content and Quality Traits in Milled Rice (<i>Oryza sativa</i> L.)Violina Bharali0Suneetha Yadla1Srinivas Thati2Bhargavi Bitra3Divya Karapati4Neeraja Naga Chirravuri5Jyothi Badri6Raman Meenakshi Sundaram7Aravind Kumar Jukanti8Agricultural College, Acharya NG Ranga Agricultural University, Bapatla 522101, IndiaRegional Agricultural Research Station (RARS), Maruteru 534122, IndiaRegional Agricultural Research Station (RARS), Maruteru 534122, IndiaAgricultural College, Acharya NG Ranga Agricultural University, Bapatla 522101, IndiaICAR—Indian Institute of Rice Research, Rajendranagar, Hyderabad 500030, IndiaICAR—Indian Institute of Rice Research, Rajendranagar, Hyderabad 500030, IndiaICAR—Indian Institute of Rice Research, Rajendranagar, Hyderabad 500030, IndiaICAR—Indian Institute of Rice Research, Rajendranagar, Hyderabad 500030, IndiaICAR—Indian Institute of Rice Research, Rajendranagar, Hyderabad 500030, IndiaGrain protein content (GPC) is gaining attention due to increasing consumer demand for nutritious foods. The present study carried out at ICAR-IIRR, Hyderabad, focused on the identification of quantitative trait loci (QTLs) linked with GPC and other quality traits. We utilized a population of 188 F<sub>2</sub> individuals developed from BPT 5204 (low GPC) X JAK 686 (high GPC) for QTL analysis. QTL analysis yielded four significant QTLs for GPC, three for amylose content, and multiple QTLs for other quality traits. <i>qPC1.2</i>, a major QTL in milled rice, was located in the marker interval RM562-RM11307 on chromosome 1 with an LOD value of 4.4. <i>qPC1.2</i> explained 15.71% of the phenotypic variance (PVE). Additionally, the Interval Mapping for Epistatic QTLs (IM-EPI) method detected 332 pairs of di-genic epistatic QTLs. Fifteen QTLs exhibited a positive additive effect, indicating that the contributing allele(s) was from JAK 686. Five F<sub>2</sub> plants, <i>viz</i>., F<sub>2</sub>-140, F<sub>2</sub>-12, F<sub>2</sub>-7, F<sub>2</sub>-147, and F<sub>2</sub>-41, exhibited a high GPC of 14.67%, 14.36%, 14.32%, 13.60%, and 13.36%, respectively. Additionally, these plants also exhibited high per-plant grain yield (~17.0–29.0 g) with desirable agronomic traits. The QTLs identified are valuable resources for developing high-grain-protein varieties with high grain yield and desirable quality traits.https://www.mdpi.com/2223-7747/14/6/905grain protein contentQTL mappingF<sub>2</sub> populationvariability |
| spellingShingle | Violina Bharali Suneetha Yadla Srinivas Thati Bhargavi Bitra Divya Karapati Neeraja Naga Chirravuri Jyothi Badri Raman Meenakshi Sundaram Aravind Kumar Jukanti Mapping Genomic Regions for Grain Protein Content and Quality Traits in Milled Rice (<i>Oryza sativa</i> L.) Plants grain protein content QTL mapping F<sub>2</sub> population variability |
| title | Mapping Genomic Regions for Grain Protein Content and Quality Traits in Milled Rice (<i>Oryza sativa</i> L.) |
| title_full | Mapping Genomic Regions for Grain Protein Content and Quality Traits in Milled Rice (<i>Oryza sativa</i> L.) |
| title_fullStr | Mapping Genomic Regions for Grain Protein Content and Quality Traits in Milled Rice (<i>Oryza sativa</i> L.) |
| title_full_unstemmed | Mapping Genomic Regions for Grain Protein Content and Quality Traits in Milled Rice (<i>Oryza sativa</i> L.) |
| title_short | Mapping Genomic Regions for Grain Protein Content and Quality Traits in Milled Rice (<i>Oryza sativa</i> L.) |
| title_sort | mapping genomic regions for grain protein content and quality traits in milled rice i oryza sativa i l |
| topic | grain protein content QTL mapping F<sub>2</sub> population variability |
| url | https://www.mdpi.com/2223-7747/14/6/905 |
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