Genome-wide association study to identify novel loci and genes for Fusarium root rot resistance in sweet potato using genotyping-by-sequencing
Fusarium root rot, caused by Fusarium solani, is a major post-harvest disease in sweet potatoes (Ipomoea batatas (L.) Lam.). An effective strategy for controlling this disease is the development of resistant varieties. In this study, a genome-wide association study (GWAS) was conducted on 96 sweet p...
| Main Authors: | , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2023-10-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2023.1251157/full |
| _version_ | 1797666391857299456 |
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| author | Tae Hwa Kim Sujung Kim Won Park Koan Sik Woo Keunpyo Lee Mi Nam Chung Young Hoon Lee Hyeong-Un Lee Kyo Hwui Lee Sang-Sik Nam Hyun Jo Jeong-Dong Lee |
| author_facet | Tae Hwa Kim Sujung Kim Won Park Koan Sik Woo Keunpyo Lee Mi Nam Chung Young Hoon Lee Hyeong-Un Lee Kyo Hwui Lee Sang-Sik Nam Hyun Jo Jeong-Dong Lee |
| author_sort | Tae Hwa Kim |
| collection | DOAJ |
| description | Fusarium root rot, caused by Fusarium solani, is a major post-harvest disease in sweet potatoes (Ipomoea batatas (L.) Lam.). An effective strategy for controlling this disease is the development of resistant varieties. In this study, a genome-wide association study (GWAS) was conducted on 96 sweet potato genotypes to identify novel candidate loci and dissect the genetic basis of Fusarium root rot resistance. Genotyping was performed using genotyping-by-sequencing (GBS), and 44,255 SNPs were identified after filtering. The genotypes (n = 96) were evaluated through resistance tests in 2021 and 2022, separately and combined. The GWAS identified two significant SNP markers (LG3_22903756 and LG4_2449919) on chromosomes 3 and 4 associated with Fusarium root rot resistance, respectively. Lesion length showed significant differences between homozygous A and G alleles of LG3_22903756, which can potentially be used to develop molecular markers for selecting accessions resistant to Fusarium root rot. Expression analysis of 11 putative genes flanking the significant SNPs revealed the alteration in the expression of nine genes, indicating their possible involvement in Fusarium root rot resistance. The results of this study will aid in the marker-assisted selection and functional analysis of candidate genes for Fusarium root rot resistance in sweet potatoes. |
| first_indexed | 2024-03-11T19:58:57Z |
| format | Article |
| id | doaj.art-db47cc6fa27e49509ebf91f17835a2dc |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-03-11T19:58:57Z |
| publishDate | 2023-10-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-db47cc6fa27e49509ebf91f17835a2dc2023-10-04T13:48:09ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2023-10-011410.3389/fpls.2023.12511571251157Genome-wide association study to identify novel loci and genes for Fusarium root rot resistance in sweet potato using genotyping-by-sequencingTae Hwa Kim0Sujung Kim1Won Park2Koan Sik Woo3Keunpyo Lee4Mi Nam Chung5Young Hoon Lee6Hyeong-Un Lee7Kyo Hwui Lee8Sang-Sik Nam9Hyun Jo10Jeong-Dong Lee11Bioenergy Crop Research Institute, National Institute of Crop Science, Rural Development Administration, Muan, Republic of KoreaBioenergy Crop Research Institute, National Institute of Crop Science, Rural Development Administration, Muan, Republic of KoreaBioenergy Crop Research Institute, National Institute of Crop Science, Rural Development Administration, Muan, Republic of KoreaBioenergy Crop Research Institute, National Institute of Crop Science, Rural Development Administration, Muan, Republic of KoreaInternational Technology Cooperation Center, Technology Cooperation Bureau, Rural Development Administration, Jeonju, Republic of KoreaBioenergy Crop Research Institute, National Institute of Crop Science, Rural Development Administration, Muan, Republic of KoreaPlanning and Coordination Division, National Institute of Crop Science, Rural Development Administration, Jeonju, Republic of KoreaBioenergy Crop Research Institute, National Institute of Crop Science, Rural Development Administration, Muan, Republic of KoreaBioenergy Crop Research Institute, National Institute of Crop Science, Rural Development Administration, Muan, Republic of KoreaBioenergy Crop Research Institute, National Institute of Crop Science, Rural Development Administration, Muan, Republic of KoreaDepartment of Applied Biosciences, Kyungpook National University, Daegu, Republic of KoreaDepartment of Applied Biosciences, Kyungpook National University, Daegu, Republic of KoreaFusarium root rot, caused by Fusarium solani, is a major post-harvest disease in sweet potatoes (Ipomoea batatas (L.) Lam.). An effective strategy for controlling this disease is the development of resistant varieties. In this study, a genome-wide association study (GWAS) was conducted on 96 sweet potato genotypes to identify novel candidate loci and dissect the genetic basis of Fusarium root rot resistance. Genotyping was performed using genotyping-by-sequencing (GBS), and 44,255 SNPs were identified after filtering. The genotypes (n = 96) were evaluated through resistance tests in 2021 and 2022, separately and combined. The GWAS identified two significant SNP markers (LG3_22903756 and LG4_2449919) on chromosomes 3 and 4 associated with Fusarium root rot resistance, respectively. Lesion length showed significant differences between homozygous A and G alleles of LG3_22903756, which can potentially be used to develop molecular markers for selecting accessions resistant to Fusarium root rot. Expression analysis of 11 putative genes flanking the significant SNPs revealed the alteration in the expression of nine genes, indicating their possible involvement in Fusarium root rot resistance. The results of this study will aid in the marker-assisted selection and functional analysis of candidate genes for Fusarium root rot resistance in sweet potatoes.https://www.frontiersin.org/articles/10.3389/fpls.2023.1251157/fullsweet potatoFusarium root rotresistancegenome-wide association studygenotyping-by-sequencing |
| spellingShingle | Tae Hwa Kim Sujung Kim Won Park Koan Sik Woo Keunpyo Lee Mi Nam Chung Young Hoon Lee Hyeong-Un Lee Kyo Hwui Lee Sang-Sik Nam Hyun Jo Jeong-Dong Lee Genome-wide association study to identify novel loci and genes for Fusarium root rot resistance in sweet potato using genotyping-by-sequencing Frontiers in Plant Science sweet potato Fusarium root rot resistance genome-wide association study genotyping-by-sequencing |
| title | Genome-wide association study to identify novel loci and genes for Fusarium root rot resistance in sweet potato using genotyping-by-sequencing |
| title_full | Genome-wide association study to identify novel loci and genes for Fusarium root rot resistance in sweet potato using genotyping-by-sequencing |
| title_fullStr | Genome-wide association study to identify novel loci and genes for Fusarium root rot resistance in sweet potato using genotyping-by-sequencing |
| title_full_unstemmed | Genome-wide association study to identify novel loci and genes for Fusarium root rot resistance in sweet potato using genotyping-by-sequencing |
| title_short | Genome-wide association study to identify novel loci and genes for Fusarium root rot resistance in sweet potato using genotyping-by-sequencing |
| title_sort | genome wide association study to identify novel loci and genes for fusarium root rot resistance in sweet potato using genotyping by sequencing |
| topic | sweet potato Fusarium root rot resistance genome-wide association study genotyping-by-sequencing |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2023.1251157/full |
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