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Sudan J, Urwat U, Farooq A, Pakhtoon MM, Zaffar A, Naik ZA, Batool A, Bashir S, Mansoor M, Sofi PA, Sofi NUR, Shikari AB, Khan MK, Hossain MA, Henry RJ, Zargar SM. Explicating genetic architecture governing nutritional quality in pigmented rice. PeerJ 2023; 11:e15901. [PMID: 37719119 PMCID: PMC10501373 DOI: 10.7717/peerj.15901] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2023] [Accepted: 07/25/2023] [Indexed: 09/19/2023] Open
Abstract
Rice is one of the most important staple plant foods that provide a major source of calories and nutrients for tackling the global hunger index especially in developing countries. In terms of nutritional profile, pigmented rice grains are favoured for their nutritional and health benefits. The pigmented rice varieties are rich sources of flavonoids, anthocyanin and proanthocyanidin that can be readily incorporated into diets to help address various lifestyle diseases. However, the cultivation of pigmented rice is limited due to low productivity and unfavourable cooking qualities. With the advances in genome sequencing, molecular breeding, gene expression analysis and multi-omics approaches, various attempts have been made to explore the genetic architecture of rice grain pigmentation. In this review, we have compiled the current state of knowledge of the genetic architecture and nutritional value of pigmentation in rice based upon the available experimental evidence. Future research areas that can help to deepen our understanding and help in harnessing the economic and health benefits of pigmented rice are also explored.
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Affiliation(s)
- Jebi Sudan
- Proteomics Lab, Division of Plant Biotechnology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, Srinagar, Jammu and Kashmir, India
| | - Uneeb Urwat
- Proteomics Lab, Division of Plant Biotechnology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, Srinagar, Jammu and Kashmir, India
| | - Asmat Farooq
- Proteomics Lab, Division of Plant Biotechnology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, Srinagar, Jammu and Kashmir, India
| | - Mohammad Maqbool Pakhtoon
- Proteomics Lab, Division of Plant Biotechnology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, Srinagar, Jammu and Kashmir, India
| | - Aaqif Zaffar
- Division of Genetics and Plant Breeding, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir (J&K), Srinagar, Jammu and Kashmir, India
| | - Zafir Ahmad Naik
- Division of Genetics and Plant Breeding, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir (J&K), Srinagar, Jammu and Kashmir, India
| | - Aneesa Batool
- Proteomics Lab, Division of Plant Biotechnology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, Srinagar, Jammu and Kashmir, India
| | - Saika Bashir
- Proteomics Lab, Division of Plant Biotechnology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, Srinagar, Jammu and Kashmir, India
| | - Madeeha Mansoor
- Proteomics Lab, Division of Plant Biotechnology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, Srinagar, Jammu and Kashmir, India
| | - Parvaze A. Sofi
- Division of Genetics and Plant Breeding, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir (J&K), Srinagar, Jammu and Kashmir, India
| | - Najeebul Ul Rehman Sofi
- Mountain Research Centre for Field Crops, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, Khudwani, Jammu and Kashmir, India
| | - Asif B. Shikari
- Division of Genetics and Plant Breeding, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir (J&K), Srinagar, Jammu and Kashmir, India
| | - Mohd. Kamran Khan
- Department of Soil Sciences and Plant Nutrition, Faculty of Agriculture, Selcuk University, Konya, Turkey
| | - Mohammad Anwar Hossain
- Department of Genetics and Plant Breeding, Bangladesh Agricultural University, Mymensingh, Bangladesh
| | - Robert J. Henry
- Queensland Alliance for Agriculture and Food Innovation, Queensland University, Brisbane, Australia
| | - Sajad Majeed Zargar
- Proteomics Lab, Division of Plant Biotechnology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, Srinagar, Jammu and Kashmir, India
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Yadavalli VR, Balakrishnan D, Surapaneni M, Addanki K, Mesapogu S, Beerelli K, Desiraju S, Voleti SR, Neelamraju S. Mapping QTLs for yield and photosynthesis-related traits in three consecutive backcross populations of Oryza sativa cultivar Cottondora Sannalu (MTU1010) and Oryza rufipogon. PLANTA 2022; 256:71. [PMID: 36070104 DOI: 10.1007/s00425-022-03983-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/11/2022] [Accepted: 08/25/2022] [Indexed: 06/15/2023]
Abstract
Identification of trait enhancing QTLs for yield and photosynthesis-related traits in rice using interspecific mapping population and chromosome segment substitution lines derived from a cross between Oryza sativa and Oryza rufipogon. Wild rice contains novel genes which can help in improving rice yield. Common wild rice Oryza rufipogon is a known source for enhanced photosynthesis and yield-related traits. We developed BC2F2:3:4 mapping populations using O. rufipogon IC309814 with high photosynthetic rate as donor, and elite cultivar MTU1010 as recurrent parent. Evaluation of 238 BC2F2 families for 13 yield-related traits and 208 BC2F2 families for seven photosynthesis-related physiological traits resulted in identification of significantly different lines which performed better than MTU1010 for various yield contributing traits. 49 QTLs were identified for 13 yield traits and 7 QTLs for photosynthesis-related traits in BC2F2. In addition, 34 QTLs in BC2F3 and 26 QTLs in BC2F4 were also detected for yield traits.11 common QTLs were identified in three consecutive generations and their trait-increasing alleles were derived from O. rufipogon. Significantly, one major effect common QTL qTGW3.1 for thousand grain weight with average phenotypic variance 8.1% and one novel QTL qBM7.1 for biomass were identified. Photosynthesis-related QTLs qPN9.1, qPN12.1, qPN12.2 qSPAD1.1 and qSPAD6.1 showed additive effect from O. rufipogon. A set of 145 CSSLs were identified in BC2F2 which together represented 87% of O. rufipogon genome. In addition, 87 of the 145 CSSLs were significantly different than MTU1010 for at least one trait. The major effect QTLs can be fine mapped for gene discovery. CSSLs developed in this study are a good source of novel alleles from O. rufipogon in the background of Cottondora Sannalu for rapid improvement of any trait in rice.
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Affiliation(s)
- Venkateswara Rao Yadavalli
- ICAR National Professor Project, ICAR-Indian Institute of Rice Research, Hyderabad, 500030, Telangana, India
| | - Divya Balakrishnan
- ICAR National Professor Project, ICAR-Indian Institute of Rice Research, Hyderabad, 500030, Telangana, India
- Department of Plant Breeding and Genetics, ICAR-Indian Institute of Rice Research, Hyderabad, 500030, Telangana, India
| | - Malathi Surapaneni
- ICAR National Professor Project, ICAR-Indian Institute of Rice Research, Hyderabad, 500030, Telangana, India
| | - Krishnamraju Addanki
- ICAR National Professor Project, ICAR-Indian Institute of Rice Research, Hyderabad, 500030, Telangana, India
| | - Sukumar Mesapogu
- ICAR National Professor Project, ICAR-Indian Institute of Rice Research, Hyderabad, 500030, Telangana, India
| | - Kavitha Beerelli
- ICAR National Professor Project, ICAR-Indian Institute of Rice Research, Hyderabad, 500030, Telangana, India
| | - Subrahmanyam Desiraju
- Department of Plant Physiology, ICAR-Indian Institute of Rice Research, Hyderabad, 500030, Telangana, India
| | - Sitapati Rao Voleti
- Department of Plant Physiology, ICAR-Indian Institute of Rice Research, Hyderabad, 500030, Telangana, India
| | - Sarla Neelamraju
- ICAR National Professor Project, ICAR-Indian Institute of Rice Research, Hyderabad, 500030, Telangana, India.
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