QTL Mapping of Tiller Number in Korean <i>Japonica</i> Rice Varieties
Tiller number is an important trait associated with yield in rice. Tiller number in Korean <i>japonica</i> rice was analyzed under greenhouse conditions in 160 recombinant inbred lines (RILs) derived from a cross between the temperate <i>japonica</i> varieties Odae and Unbong...
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MDPI AG
2023-08-01
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| Series: | Genes |
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| Online Access: | https://www.mdpi.com/2073-4425/14/8/1593 |
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| author | Dong-Kyung Yoon Inchan Choi Yong Jae Won Yunji Shin Kyeong-Seong Cheon Hyoja Oh Chaewon Lee Seoyeon Lee Mi Hyun Cho Soojin Jun Yeongtae Kim Song Lim Kim Jeongho Baek HwangWeon Jeong Jae Il Lyu Gang-Seob Lee Kyung-Hwan Kim Hyeonso Ji |
| author_facet | Dong-Kyung Yoon Inchan Choi Yong Jae Won Yunji Shin Kyeong-Seong Cheon Hyoja Oh Chaewon Lee Seoyeon Lee Mi Hyun Cho Soojin Jun Yeongtae Kim Song Lim Kim Jeongho Baek HwangWeon Jeong Jae Il Lyu Gang-Seob Lee Kyung-Hwan Kim Hyeonso Ji |
| author_sort | Dong-Kyung Yoon |
| collection | DOAJ |
| description | Tiller number is an important trait associated with yield in rice. Tiller number in Korean <i>japonica</i> rice was analyzed under greenhouse conditions in 160 recombinant inbred lines (RILs) derived from a cross between the temperate <i>japonica</i> varieties Odae and Unbong40 to identify quantitative trait loci (QTLs). A genetic map comprising 239 kompetitive allele-specific PCR (KASP) and 57 cleaved amplified polymorphic sequence markers was constructed. <i>qTN3</i>, a major QTL for tiller number, was identified at 132.4 cm on chromosome 3. This QTL was also detected under field conditions in a backcross population; thus, <i>qTN3</i> was stable across generations and environments. <i>qTN3</i> co-located with QTLs associated with panicle number per plant and culm diameter, indicating it had pleiotropic effects. The <i>qTN3</i> regions of Odae and Unbong40 differed in a known functional variant (4 bp TGTG insertion/deletion) in the 5ʹ UTR of <i>OsTB1</i>, a gene underlying variation in tiller number and culm strength. Investigation of variation in genotype and tiller number revealed that varieties with the insertion genotype had lower tiller numbers than those with the reference genotype. A high-resolution melting marker was developed to enable efficient marker-assisted selection. The QTL <i>qTN3</i> will therefore be useful in breeding programs developing <i>japonica</i> varieties with optimal tiller numbers for increased yield. |
| first_indexed | 2024-03-10T23:55:43Z |
| format | Article |
| id | doaj.art-cfdae289c0344e898f6e46e33e647af9 |
| institution | Directory Open Access Journal |
| issn | 2073-4425 |
| language | English |
| last_indexed | 2024-03-10T23:55:43Z |
| publishDate | 2023-08-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Genes |
| spelling | doaj.art-cfdae289c0344e898f6e46e33e647af92023-11-19T01:15:35ZengMDPI AGGenes2073-44252023-08-01148159310.3390/genes14081593QTL Mapping of Tiller Number in Korean <i>Japonica</i> Rice VarietiesDong-Kyung Yoon0Inchan Choi1Yong Jae Won2Yunji Shin3Kyeong-Seong Cheon4Hyoja Oh5Chaewon Lee6Seoyeon Lee7Mi Hyun Cho8Soojin Jun9Yeongtae Kim10Song Lim Kim11Jeongho Baek12HwangWeon Jeong13Jae Il Lyu14Gang-Seob Lee15Kyung-Hwan Kim16Hyeonso Ji17Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Republic of KoreaDepartment of Agricultural Engineering, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54875, Republic of KoreaCheorwon Branch, National Institute of Crop Science, Rural Development Administration (RDA), Cheorwon 24010, Republic of KoreaGenecell Biotech Inc., Wanju 55322, Republic of KoreaDepartment of Forest Bioresources, National Institute of Forest Science, Suwon 16631, Republic of KoreaDepartment of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Republic of KoreaDepartment of Central Area Crop Science, National Institute of Crop Science, Rural Development Administration (RDA), Suwon 16429, Republic of KoreaDepartment of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Republic of KoreaDepartment of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Republic of KoreaDepartment of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Republic of KoreaDepartment of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Republic of KoreaDepartment of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Republic of KoreaDepartment of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Republic of KoreaDepartment of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Republic of KoreaDepartment of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Republic of KoreaDepartment of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Republic of KoreaDepartment of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Republic of KoreaDepartment of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Republic of KoreaTiller number is an important trait associated with yield in rice. Tiller number in Korean <i>japonica</i> rice was analyzed under greenhouse conditions in 160 recombinant inbred lines (RILs) derived from a cross between the temperate <i>japonica</i> varieties Odae and Unbong40 to identify quantitative trait loci (QTLs). A genetic map comprising 239 kompetitive allele-specific PCR (KASP) and 57 cleaved amplified polymorphic sequence markers was constructed. <i>qTN3</i>, a major QTL for tiller number, was identified at 132.4 cm on chromosome 3. This QTL was also detected under field conditions in a backcross population; thus, <i>qTN3</i> was stable across generations and environments. <i>qTN3</i> co-located with QTLs associated with panicle number per plant and culm diameter, indicating it had pleiotropic effects. The <i>qTN3</i> regions of Odae and Unbong40 differed in a known functional variant (4 bp TGTG insertion/deletion) in the 5ʹ UTR of <i>OsTB1</i>, a gene underlying variation in tiller number and culm strength. Investigation of variation in genotype and tiller number revealed that varieties with the insertion genotype had lower tiller numbers than those with the reference genotype. A high-resolution melting marker was developed to enable efficient marker-assisted selection. The QTL <i>qTN3</i> will therefore be useful in breeding programs developing <i>japonica</i> varieties with optimal tiller numbers for increased yield.https://www.mdpi.com/2073-4425/14/8/1593mappingmarkerQTLricetiller numberyield |
| spellingShingle | Dong-Kyung Yoon Inchan Choi Yong Jae Won Yunji Shin Kyeong-Seong Cheon Hyoja Oh Chaewon Lee Seoyeon Lee Mi Hyun Cho Soojin Jun Yeongtae Kim Song Lim Kim Jeongho Baek HwangWeon Jeong Jae Il Lyu Gang-Seob Lee Kyung-Hwan Kim Hyeonso Ji QTL Mapping of Tiller Number in Korean <i>Japonica</i> Rice Varieties Genes mapping marker QTL rice tiller number yield |
| title | QTL Mapping of Tiller Number in Korean <i>Japonica</i> Rice Varieties |
| title_full | QTL Mapping of Tiller Number in Korean <i>Japonica</i> Rice Varieties |
| title_fullStr | QTL Mapping of Tiller Number in Korean <i>Japonica</i> Rice Varieties |
| title_full_unstemmed | QTL Mapping of Tiller Number in Korean <i>Japonica</i> Rice Varieties |
| title_short | QTL Mapping of Tiller Number in Korean <i>Japonica</i> Rice Varieties |
| title_sort | qtl mapping of tiller number in korean i japonica i rice varieties |
| topic | mapping marker QTL rice tiller number yield |
| url | https://www.mdpi.com/2073-4425/14/8/1593 |
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