Novel Sources of Pre-Harvest Sprouting Resistance for Japonica Rice Improvement
Pre-harvest sprouting (PHS), induced by unexpected weather events, such as typhoons, at the late seed maturity stage, is becoming a serious threat to rice production, especially in the state of California, USA, Japan, and the Republic of Korea, where japonica varieties (mostly susceptible to PHS) ar...
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| Format: | Article |
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MDPI AG
2021-08-01
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| Series: | Plants |
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| Online Access: | https://www.mdpi.com/2223-7747/10/8/1709 |
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| author | Jae-Sung Lee Dmytro Chebotarov Kenneth L. McNally Valerien Pede Tri Deri Setiyono Rency Raquid Woong-Jo Hyun Ji-Ung Jeung Ajay Kohli Youngjun Mo |
| author_facet | Jae-Sung Lee Dmytro Chebotarov Kenneth L. McNally Valerien Pede Tri Deri Setiyono Rency Raquid Woong-Jo Hyun Ji-Ung Jeung Ajay Kohli Youngjun Mo |
| author_sort | Jae-Sung Lee |
| collection | DOAJ |
| description | Pre-harvest sprouting (PHS), induced by unexpected weather events, such as typhoons, at the late seed maturity stage, is becoming a serious threat to rice production, especially in the state of California, USA, Japan, and the Republic of Korea, where japonica varieties (mostly susceptible to PHS) are mainly cultivated. A projected economic loss by severe PHS in these three countries could range between 8–10 billion USD per year during the next 10 years. Here, we present promising rice germplasm with strong resistance to PHS that were selected from a diverse rice panel of accessions held in the International Rice Genebank (IRG) at the International Rice Research Institute (IRRI). To induce PHS, three panicle samples per accession were harvested at 20 and 30 days after flowering (DAF), respectively, and incubated at 100% relative humidity (RH), 30 °C in a growth chamber for 15 days. A genome-wide association (GWA) analysis using a 4.8 million single nucleotide polymorphisms (SNP) marker set was performed to identify loci and candidate genes conferring PHS resistance. Interestingly, two tropical japonica and four temperate japonica accessions showed outstanding PHS resistance as compared to tolerant indica accessions. Two major loci on chromosomes 1 and 4 were associated with PHS resistance. A priori candidate genes interactions with rice gene networks, which are based on the gene ontology (GO), co-expression, and other evidence, suggested that a key resistance mechanism is related to abscisic acid (ABA), gibberellic acid (GA), and auxin mediated signaling pathways. |
| first_indexed | 2024-03-10T08:27:39Z |
| format | Article |
| id | doaj.art-c0229277aef646e98e6c2403a1d85ddc |
| institution | Directory Open Access Journal |
| issn | 2223-7747 |
| language | English |
| last_indexed | 2024-03-10T08:27:39Z |
| publishDate | 2021-08-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Plants |
| spelling | doaj.art-c0229277aef646e98e6c2403a1d85ddc2023-11-22T09:20:30ZengMDPI AGPlants2223-77472021-08-01108170910.3390/plants10081709Novel Sources of Pre-Harvest Sprouting Resistance for Japonica Rice ImprovementJae-Sung Lee0Dmytro Chebotarov1Kenneth L. McNally2Valerien Pede3Tri Deri Setiyono4Rency Raquid5Woong-Jo Hyun6Ji-Ung Jeung7Ajay Kohli8Youngjun Mo9International Rice Research Institute, Los Baños 4031, PhilippinesInternational Rice Research Institute, Los Baños 4031, PhilippinesInternational Rice Research Institute, Los Baños 4031, PhilippinesInternational Rice Research Institute, Los Baños 4031, PhilippinesInternational Rice Research Institute, Los Baños 4031, PhilippinesInternational Rice Research Institute, Los Baños 4031, PhilippinesNational Institute of Crop Science, Rural Development Administration, Wanju 55365, KoreaNational Institute of Crop Science, Rural Development Administration, Wanju 55365, KoreaInternational Rice Research Institute, Los Baños 4031, PhilippinesNational Institute of Crop Science, Rural Development Administration, Wanju 55365, KoreaPre-harvest sprouting (PHS), induced by unexpected weather events, such as typhoons, at the late seed maturity stage, is becoming a serious threat to rice production, especially in the state of California, USA, Japan, and the Republic of Korea, where japonica varieties (mostly susceptible to PHS) are mainly cultivated. A projected economic loss by severe PHS in these three countries could range between 8–10 billion USD per year during the next 10 years. Here, we present promising rice germplasm with strong resistance to PHS that were selected from a diverse rice panel of accessions held in the International Rice Genebank (IRG) at the International Rice Research Institute (IRRI). To induce PHS, three panicle samples per accession were harvested at 20 and 30 days after flowering (DAF), respectively, and incubated at 100% relative humidity (RH), 30 °C in a growth chamber for 15 days. A genome-wide association (GWA) analysis using a 4.8 million single nucleotide polymorphisms (SNP) marker set was performed to identify loci and candidate genes conferring PHS resistance. Interestingly, two tropical japonica and four temperate japonica accessions showed outstanding PHS resistance as compared to tolerant indica accessions. Two major loci on chromosomes 1 and 4 were associated with PHS resistance. A priori candidate genes interactions with rice gene networks, which are based on the gene ontology (GO), co-expression, and other evidence, suggested that a key resistance mechanism is related to abscisic acid (ABA), gibberellic acid (GA), and auxin mediated signaling pathways.https://www.mdpi.com/2223-7747/10/8/1709pre-harvest sproutingjaponica riceplant hormonesABAGAGWAS |
| spellingShingle | Jae-Sung Lee Dmytro Chebotarov Kenneth L. McNally Valerien Pede Tri Deri Setiyono Rency Raquid Woong-Jo Hyun Ji-Ung Jeung Ajay Kohli Youngjun Mo Novel Sources of Pre-Harvest Sprouting Resistance for Japonica Rice Improvement Plants pre-harvest sprouting japonica rice plant hormones ABA GA GWAS |
| title | Novel Sources of Pre-Harvest Sprouting Resistance for Japonica Rice Improvement |
| title_full | Novel Sources of Pre-Harvest Sprouting Resistance for Japonica Rice Improvement |
| title_fullStr | Novel Sources of Pre-Harvest Sprouting Resistance for Japonica Rice Improvement |
| title_full_unstemmed | Novel Sources of Pre-Harvest Sprouting Resistance for Japonica Rice Improvement |
| title_short | Novel Sources of Pre-Harvest Sprouting Resistance for Japonica Rice Improvement |
| title_sort | novel sources of pre harvest sprouting resistance for japonica rice improvement |
| topic | pre-harvest sprouting japonica rice plant hormones ABA GA GWAS |
| url | https://www.mdpi.com/2223-7747/10/8/1709 |
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