Future flooding tolerant rice germplasm: Resilience afforded beyond Sub1A gene
Abstract Developing high‐yielding, flood‐tolerant rice (Oryza sativa L.) varieties is essential for enhancing productivity and livelihoods in flood‐prone ecologies. We explored genetic avenues beyond the well‐known SUB1A gene to improve flood resilience in rice. We screened a collection of 6274 elit...
Saved in:
| Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Wiley
2025-06-01
|
| Series: | The Plant Genome |
| Online Access: | https://doi.org/10.1002/tpg2.70040 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1850121324595249152 |
|---|---|
| author | Mahender Anumalla Apurva Khanna Margaret Catolos Joie Ramos Ma Teresa Sta. Cruz Challa Venkateshwarlu Jaswanth Konijerla Sharat Kumar Pradhan Sushanta Kumar Dash Yater Das Dhiren Chowdhury Sanjay Kumar Chetia Janardan das Phuleswar Nath Girija Rani Merugumala Bidhan Roy Navin Pradhan Monoranjan Jana Indrani Dana Suman Debnath Anirban Nath Suresh Prasad Singh Khandakar Md Iftekharuddaula Sharmistha Ghosal Mohammad Ali Sakina Khanam Md Mizan Ul Islam Muhiuddin Faruquee Hosna Jannat Tonny Md Rokebul Hasan Anisar Rahman Jauhar Ali Pallavi Sinha Vikas Kumar Singh Mohammad Rafiqul Islam Sankalp Bhosale Ajay Kohli Hans Bhardwaj Waseem Hussain |
| author_facet | Mahender Anumalla Apurva Khanna Margaret Catolos Joie Ramos Ma Teresa Sta. Cruz Challa Venkateshwarlu Jaswanth Konijerla Sharat Kumar Pradhan Sushanta Kumar Dash Yater Das Dhiren Chowdhury Sanjay Kumar Chetia Janardan das Phuleswar Nath Girija Rani Merugumala Bidhan Roy Navin Pradhan Monoranjan Jana Indrani Dana Suman Debnath Anirban Nath Suresh Prasad Singh Khandakar Md Iftekharuddaula Sharmistha Ghosal Mohammad Ali Sakina Khanam Md Mizan Ul Islam Muhiuddin Faruquee Hosna Jannat Tonny Md Rokebul Hasan Anisar Rahman Jauhar Ali Pallavi Sinha Vikas Kumar Singh Mohammad Rafiqul Islam Sankalp Bhosale Ajay Kohli Hans Bhardwaj Waseem Hussain |
| author_sort | Mahender Anumalla |
| collection | DOAJ |
| description | Abstract Developing high‐yielding, flood‐tolerant rice (Oryza sativa L.) varieties is essential for enhancing productivity and livelihoods in flood‐prone ecologies. We explored genetic avenues beyond the well‐known SUB1A gene to improve flood resilience in rice. We screened a collection of 6274 elite genotypes from IRRI's germplasm repository for submergence and stagnant flooding tolerance over multiple seasons and years. This rigorous screening identified 89 outstanding elite genotypes, among which 37 exhibited high submergence tolerance, surpassing the survival rate of SUB1A introgression genotypes by 40%–50%. Thirty‐five genotypes showed significant tolerance to stagnant flooding, and 17 demonstrated dual tolerance capabilities, highlighting their adaptability to varying flood conditions. The genotypes identified have a broader genetic diversity and harbor 86 key quantitative trait loci (QTLs) and genes related to traits such as grain quality, grain yield, herbicide resistance, and various biotic and abiotic traits, highlighting the richness of the identified elite collection. Besides germplasm, we introduce an innovative breeding approach called “Transition from Trait to Environment” (TTE). TTE leverages a parental pool of high‐performing genotypes with complete submergence tolerance to drive population improvement and enable genomic selection in the flood breeding program. Our approach of TTE achieved a remarkable 65% increase in genetic gain for submergence tolerance, with the resulting fixed breeding genotypes demonstrating exceptional performance in flood‐prone environments of India and Bangladesh. The elite genotypes identified herein represent invaluable genetic resources for the global rice research community. By adopting the TTE approach, which is trait agonistic, we establish a robust framework for developing more resilient genotypes using advanced breeding tools. |
| format | Article |
| id | doaj-art-5d61ef030c614409bdf8b299cbec5ea2 |
| institution | OA Journals |
| issn | 1940-3372 |
| language | English |
| publishDate | 2025-06-01 |
| publisher | Wiley |
| record_format | Article |
| series | The Plant Genome |
| spelling | doaj-art-5d61ef030c614409bdf8b299cbec5ea22025-08-20T02:35:07ZengWileyThe Plant Genome1940-33722025-06-01182n/an/a10.1002/tpg2.70040Future flooding tolerant rice germplasm: Resilience afforded beyond Sub1A geneMahender Anumalla0Apurva Khanna1Margaret Catolos2Joie Ramos3Ma Teresa Sta. Cruz4Challa Venkateshwarlu5Jaswanth Konijerla6Sharat Kumar Pradhan7Sushanta Kumar Dash8Yater Das9Dhiren Chowdhury10Sanjay Kumar Chetia11Janardan das12Phuleswar Nath13Girija Rani Merugumala14Bidhan Roy15Navin Pradhan16Monoranjan Jana17Indrani Dana18Suman Debnath19Anirban Nath20Suresh Prasad Singh21Khandakar Md Iftekharuddaula22Sharmistha Ghosal23Mohammad Ali24Sakina Khanam25Md Mizan Ul Islam26Muhiuddin Faruquee27Hosna Jannat Tonny28Md Rokebul Hasan29Anisar Rahman30Jauhar Ali31Pallavi Sinha32Vikas Kumar Singh33Mohammad Rafiqul Islam34Sankalp Bhosale35Ajay Kohli36Hans Bhardwaj37Waseem Hussain38Rice Breeding Innovation Platform, International Rice Research Institute (IRRI) Los Baños PhilippinesRice Breeding Innovation Platform, International Rice Research Institute (IRRI) Los Baños PhilippinesRice Breeding Innovation Platform, International Rice Research Institute (IRRI) Los Baños PhilippinesRice Breeding Innovation Platform, International Rice Research Institute (IRRI) Los Baños PhilippinesRice Breeding Innovation Platform, International Rice Research Institute (IRRI) Los Baños PhilippinesInternational Rice Research Institute (IRRI)‐South‐Asia Hub, ICRISAT Hyderabad IndiaInternational Rice Research Institute (IRRI)‐South‐Asia Hub, ICRISAT Hyderabad IndiaICAR‐National Rice Research Institute Cuttack IndiaICAR‐National Rice Research Institute Cuttack IndiaAssam Agricultural University (AAU), Zonal Research Station (ZRS) North Lakhimpur IndiaAAU‐Horticultural Research Station, Assam Agricultural University Guwahati IndiaDirectorate of Research (Agriculture) Assam Agricultural University (AAU) Jorhat IndiaAAU‐Assam Rice Research Institute Titabar IndiaAAU‐Assam Rice Research Institute Titabar IndiaDepartment of Plant Breeding and Genetics ANGRAU‐Acharya N.G. Ranga Agricultural University West Godavari IndiaUttar Banga Krishi Vishwavidyalaya, Department of Seed Science and Technology Pundibari IndiaAgriculture Department Government of West Bengal, State Agricultural Farm Malda IndiaRice Research Station, Government of West Bengal Hooghly IndiaRice Research Station, Government of West Bengal Hooghly IndiaRice Research Station, Government of West Bengal Hooghly IndiaInternational Rice Research Institute‐South Asia Regional Centre (ISARC) Varanasi IndiaDepartment of Plant Breeding and Genetics Bihar Agricultural University Sabour IndiaBangladesh Rice Research Institute Gazipur BangladeshBangladesh Rice Research Institute Gazipur BangladeshBangladesh Institute of Nuclear Agriculture Rangpur BangladeshBangladesh Institute of Nuclear Agriculture Mymensingh BangladeshIRRI Bangladesh Dhaka BangladeshIRRI Bangladesh Dhaka BangladeshIRRI Bangladesh Dhaka BangladeshBangladesh Rice Research Institute‐Regional Station Rangpur BangladeshBangladesh Rice Research Institute Gazipur BangladeshRice Breeding Innovation Platform, International Rice Research Institute (IRRI) Los Baños PhilippinesRice Breeding Innovation Platform, International Rice Research Institute (IRRI) Los Baños PhilippinesRice Breeding Innovation Platform, International Rice Research Institute (IRRI) Los Baños PhilippinesIRRI Bangladesh Dhaka BangladeshRice Breeding Innovation Platform, International Rice Research Institute (IRRI) Los Baños PhilippinesRice Breeding Innovation Platform, International Rice Research Institute (IRRI) Los Baños PhilippinesRice Breeding Innovation Platform, International Rice Research Institute (IRRI) Los Baños PhilippinesRice Breeding Innovation Platform, International Rice Research Institute (IRRI) Los Baños PhilippinesAbstract Developing high‐yielding, flood‐tolerant rice (Oryza sativa L.) varieties is essential for enhancing productivity and livelihoods in flood‐prone ecologies. We explored genetic avenues beyond the well‐known SUB1A gene to improve flood resilience in rice. We screened a collection of 6274 elite genotypes from IRRI's germplasm repository for submergence and stagnant flooding tolerance over multiple seasons and years. This rigorous screening identified 89 outstanding elite genotypes, among which 37 exhibited high submergence tolerance, surpassing the survival rate of SUB1A introgression genotypes by 40%–50%. Thirty‐five genotypes showed significant tolerance to stagnant flooding, and 17 demonstrated dual tolerance capabilities, highlighting their adaptability to varying flood conditions. The genotypes identified have a broader genetic diversity and harbor 86 key quantitative trait loci (QTLs) and genes related to traits such as grain quality, grain yield, herbicide resistance, and various biotic and abiotic traits, highlighting the richness of the identified elite collection. Besides germplasm, we introduce an innovative breeding approach called “Transition from Trait to Environment” (TTE). TTE leverages a parental pool of high‐performing genotypes with complete submergence tolerance to drive population improvement and enable genomic selection in the flood breeding program. Our approach of TTE achieved a remarkable 65% increase in genetic gain for submergence tolerance, with the resulting fixed breeding genotypes demonstrating exceptional performance in flood‐prone environments of India and Bangladesh. The elite genotypes identified herein represent invaluable genetic resources for the global rice research community. By adopting the TTE approach, which is trait agonistic, we establish a robust framework for developing more resilient genotypes using advanced breeding tools.https://doi.org/10.1002/tpg2.70040 |
| spellingShingle | Mahender Anumalla Apurva Khanna Margaret Catolos Joie Ramos Ma Teresa Sta. Cruz Challa Venkateshwarlu Jaswanth Konijerla Sharat Kumar Pradhan Sushanta Kumar Dash Yater Das Dhiren Chowdhury Sanjay Kumar Chetia Janardan das Phuleswar Nath Girija Rani Merugumala Bidhan Roy Navin Pradhan Monoranjan Jana Indrani Dana Suman Debnath Anirban Nath Suresh Prasad Singh Khandakar Md Iftekharuddaula Sharmistha Ghosal Mohammad Ali Sakina Khanam Md Mizan Ul Islam Muhiuddin Faruquee Hosna Jannat Tonny Md Rokebul Hasan Anisar Rahman Jauhar Ali Pallavi Sinha Vikas Kumar Singh Mohammad Rafiqul Islam Sankalp Bhosale Ajay Kohli Hans Bhardwaj Waseem Hussain Future flooding tolerant rice germplasm: Resilience afforded beyond Sub1A gene The Plant Genome |
| title | Future flooding tolerant rice germplasm: Resilience afforded beyond Sub1A gene |
| title_full | Future flooding tolerant rice germplasm: Resilience afforded beyond Sub1A gene |
| title_fullStr | Future flooding tolerant rice germplasm: Resilience afforded beyond Sub1A gene |
| title_full_unstemmed | Future flooding tolerant rice germplasm: Resilience afforded beyond Sub1A gene |
| title_short | Future flooding tolerant rice germplasm: Resilience afforded beyond Sub1A gene |
| title_sort | future flooding tolerant rice germplasm resilience afforded beyond sub1a gene |
| url | https://doi.org/10.1002/tpg2.70040 |
| work_keys_str_mv | AT mahenderanumalla futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT apurvakhanna futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT margaretcatolos futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT joieramos futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT materesastacruz futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT challavenkateshwarlu futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT jaswanthkonijerla futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT sharatkumarpradhan futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT sushantakumardash futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT yaterdas futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT dhirenchowdhury futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT sanjaykumarchetia futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT janardandas futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT phuleswarnath futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT girijaranimerugumala futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT bidhanroy futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT navinpradhan futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT monoranjanjana futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT indranidana futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT sumandebnath futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT anirbannath futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT sureshprasadsingh futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT khandakarmdiftekharuddaula futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT sharmisthaghosal futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT mohammadali futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT sakinakhanam futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT mdmizanulislam futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT muhiuddinfaruquee futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT hosnajannattonny futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT mdrokebulhasan futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT anisarrahman futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT jauharali futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT pallavisinha futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT vikaskumarsingh futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT mohammadrafiqulislam futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT sankalpbhosale futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT ajaykohli futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT hansbhardwaj futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene AT waseemhussain futurefloodingtolerantricegermplasmresilienceaffordedbeyondsub1agene |