Donor Identification, Genetic Diversity, Population Structure and Marker–Trait Association Analyses for Iron Toxicity Tolerance Using Rice Landraces
Uptake of excess iron by lowland rice plants causes iron toxicity, which is a major problem in the affected areas. This study investigated molecular diversity, genetic structure, and marker–trait associations for tolerance to iron toxicity in a panel of germplasm lines using microsatellite markers....
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MDPI AG
2024-12-01
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| author | Debanjana Saha Udit Nandan Mishra Chittaranjan Sahoo Seema Tripathy Uttam Kumar Behera Susmita Das Chandrasekhar Sahu Shiv Datt Manoj Kumar Rout Tanmaya Lalitendu Mohanty Shakti Prakash Mohanty Saumya Ranjan Barik Ishwar Chandra Mohanty Sharat Kumar Pradhan |
| author_facet | Debanjana Saha Udit Nandan Mishra Chittaranjan Sahoo Seema Tripathy Uttam Kumar Behera Susmita Das Chandrasekhar Sahu Shiv Datt Manoj Kumar Rout Tanmaya Lalitendu Mohanty Shakti Prakash Mohanty Saumya Ranjan Barik Ishwar Chandra Mohanty Sharat Kumar Pradhan |
| author_sort | Debanjana Saha |
| collection | DOAJ |
| description | Uptake of excess iron by lowland rice plants causes iron toxicity, which is a major problem in the affected areas. This study investigated molecular diversity, genetic structure, and marker–trait associations for tolerance to iron toxicity in a panel of germplasm lines using microsatellite markers. The studied population showed a moderate to high degree of genetic diversity, as revealed by the estimated molecular diversity parameters and principal component, cluster and box plot analyses. The landraces Mahipal, Dhusura, Dhabalabhuta, Champa, Sunapani and Kusuma were identified as suitable for cultivation in the areas affected by high iron levels. The landraces Dhusura, Kusuma, Kendrajhali, Ranisaheba, Panjabaniswarna, Mahipal, Dhinkisiali, Champa, Kalamara and Ratanmali, which showed low scores for tolerance, were considered good donors for iron toxicity tolerance improvement programs. Utilizing STRUCTURE software, a total of four genetic structure groups were detected in the panel germplasm of lines. These structural subgroups exhibited good correlations among their members for iron toxicity tolerance and other yield-related traits. Marker–trait association analysis validated the reported iron toxicity tolerance QTLs <i>qFeTox 4.2</i> and <i>qFeTox 4.3</i>, which are useful for marker-assisted improvement. A new QTL, <i>qFeTox 7.1</i>, located on chromosome 7, was detected as controlling iron toxicity tolerance in rice. |
| format | Article |
| id | doaj-art-f3f2c970c5664a9fbf8bd6466b73a35c |
| institution | Kabale University |
| issn | 1424-2818 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | MDPI AG |
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| series | Diversity |
| spelling | doaj-art-f3f2c970c5664a9fbf8bd6466b73a35c2025-01-24T13:29:25ZengMDPI AGDiversity1424-28182024-12-011713310.3390/d17010033Donor Identification, Genetic Diversity, Population Structure and Marker–Trait Association Analyses for Iron Toxicity Tolerance Using Rice LandracesDebanjana Saha0Udit Nandan Mishra1Chittaranjan Sahoo2Seema Tripathy3Uttam Kumar Behera4Susmita Das5Chandrasekhar Sahu6Shiv Datt7Manoj Kumar Rout8Tanmaya Lalitendu Mohanty9Shakti Prakash Mohanty10Saumya Ranjan Barik11Ishwar Chandra Mohanty12Sharat Kumar Pradhan13Department of Agricultural Biotechnology, OUAT, Bhubaneswar 751003, Odisha, IndiaFaculty of Agriculture, Sri Sri University, Cuttack 754006, Odisha, IndiaDirectorate of Research, OUAT, Bhubaneswar 751003, Odisha, IndiaFaculty of Agriculture, Sri Sri University, Cuttack 754006, Odisha, IndiaDirectorate of Research, OUAT, Bhubaneswar 751003, Odisha, IndiaFaculty of Agriculture, Sri Sri University, Cuttack 754006, Odisha, IndiaM.S Swaminathan School of Agriculture, CUTM, Paralakhemundi 761211, Odisha, IndiaIndian Council of Agricultural Research, New Delhi 110001, IndiaDirectorate of Research, OUAT, Bhubaneswar 751003, Odisha, IndiaCollege of Forestry, OUAT, Bhubaneswar 751003, Odisha, IndiaCrop Improvement Division, ICAR-NRRI, Cuttack 753006, Odisha, IndiaCrop Improvement Division, ICAR-NRRI, Cuttack 753006, Odisha, IndiaDepartment of Agricultural Biotechnology, OUAT, Bhubaneswar 751003, Odisha, IndiaIndian Council of Agricultural Research, New Delhi 110001, IndiaUptake of excess iron by lowland rice plants causes iron toxicity, which is a major problem in the affected areas. This study investigated molecular diversity, genetic structure, and marker–trait associations for tolerance to iron toxicity in a panel of germplasm lines using microsatellite markers. The studied population showed a moderate to high degree of genetic diversity, as revealed by the estimated molecular diversity parameters and principal component, cluster and box plot analyses. The landraces Mahipal, Dhusura, Dhabalabhuta, Champa, Sunapani and Kusuma were identified as suitable for cultivation in the areas affected by high iron levels. The landraces Dhusura, Kusuma, Kendrajhali, Ranisaheba, Panjabaniswarna, Mahipal, Dhinkisiali, Champa, Kalamara and Ratanmali, which showed low scores for tolerance, were considered good donors for iron toxicity tolerance improvement programs. Utilizing STRUCTURE software, a total of four genetic structure groups were detected in the panel germplasm of lines. These structural subgroups exhibited good correlations among their members for iron toxicity tolerance and other yield-related traits. Marker–trait association analysis validated the reported iron toxicity tolerance QTLs <i>qFeTox 4.2</i> and <i>qFeTox 4.3</i>, which are useful for marker-assisted improvement. A new QTL, <i>qFeTox 7.1</i>, located on chromosome 7, was detected as controlling iron toxicity tolerance in rice.https://www.mdpi.com/1424-2818/17/1/33genetic structureiron toxicityleaf bronzing indexmarker–trait associationquantitative trait loci |
| spellingShingle | Debanjana Saha Udit Nandan Mishra Chittaranjan Sahoo Seema Tripathy Uttam Kumar Behera Susmita Das Chandrasekhar Sahu Shiv Datt Manoj Kumar Rout Tanmaya Lalitendu Mohanty Shakti Prakash Mohanty Saumya Ranjan Barik Ishwar Chandra Mohanty Sharat Kumar Pradhan Donor Identification, Genetic Diversity, Population Structure and Marker–Trait Association Analyses for Iron Toxicity Tolerance Using Rice Landraces Diversity genetic structure iron toxicity leaf bronzing index marker–trait association quantitative trait loci |
| title | Donor Identification, Genetic Diversity, Population Structure and Marker–Trait Association Analyses for Iron Toxicity Tolerance Using Rice Landraces |
| title_full | Donor Identification, Genetic Diversity, Population Structure and Marker–Trait Association Analyses for Iron Toxicity Tolerance Using Rice Landraces |
| title_fullStr | Donor Identification, Genetic Diversity, Population Structure and Marker–Trait Association Analyses for Iron Toxicity Tolerance Using Rice Landraces |
| title_full_unstemmed | Donor Identification, Genetic Diversity, Population Structure and Marker–Trait Association Analyses for Iron Toxicity Tolerance Using Rice Landraces |
| title_short | Donor Identification, Genetic Diversity, Population Structure and Marker–Trait Association Analyses for Iron Toxicity Tolerance Using Rice Landraces |
| title_sort | donor identification genetic diversity population structure and marker trait association analyses for iron toxicity tolerance using rice landraces |
| topic | genetic structure iron toxicity leaf bronzing index marker–trait association quantitative trait loci |
| url | https://www.mdpi.com/1424-2818/17/1/33 |
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