Using Transcriptome Analysis to Explore Gray Mold Resistance-Related Genes in Onion (<i>Allium</i><i>cepa</i> L.)
Gray mold disease caused by <i>Botrytis</i> in onions (<i>Allium cepa</i> L.) during growth and storage negatively affects their yield and quality. Exploring the genes related to gray mold resistance in onion and their application to the breeding of resistant onion lines will...
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MDPI AG
2022-03-01
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| Series: | Genes |
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| Online Access: | https://www.mdpi.com/2073-4425/13/3/542 |
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| author | Hyun-Min Lee Jee-Soo Park So-Jeong Kim Seung-Gyu Kim Young-Doo Park |
| author_facet | Hyun-Min Lee Jee-Soo Park So-Jeong Kim Seung-Gyu Kim Young-Doo Park |
| author_sort | Hyun-Min Lee |
| collection | DOAJ |
| description | Gray mold disease caused by <i>Botrytis</i> in onions (<i>Allium cepa</i> L.) during growth and storage negatively affects their yield and quality. Exploring the genes related to gray mold resistance in onion and their application to the breeding of resistant onion lines will support effective and ecological control methods of the disease. Here, the genetic relationship of 54 onion lines based on random amplified polymorphic DNA (RAPD) and in vitro-cultured onion lines infected with gray mold were used for screening resistance and susceptibility traits. Two genetically related onion lines were selected, one with a resistant and one with a susceptible phenotype. In vitro gray mold infection was repeated with these two lines, and leaf samples were collected for gene expression studies in time series. Transcript sequences obtained by RNA sequencing were subjected to DEG analysis, variant analysis, and KEGG mapping. Among the KEGG pathways, ‘α-linoleic acid metabolism’ was selected because the comparison of the time series expression pattern of <i>Jasmonate resistant 1</i> (<i>JAR1</i>), <i>Coronatine-insensitive protein 1</i> (<i>COI 1</i>), and transcription factor <i>MYC2</i> (<i>MYC2</i>) genes between the resistant and susceptible lines revealed its significant relationship with gray-mold-resistant phenotypes. Expression pattern and SNP of the selected genes were verified by quantitative real-time PCR and high-resolution melting (HRM) analysis, respectively. The results of this study will be useful for the development of molecular marker and finally breeding of gray-mold-resistant onions. |
| first_indexed | 2024-03-09T19:47:06Z |
| format | Article |
| id | doaj.art-37a113f625a4470f9fc55eeb24bac75f |
| institution | Directory Open Access Journal |
| issn | 2073-4425 |
| language | English |
| last_indexed | 2024-03-09T19:47:06Z |
| publishDate | 2022-03-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Genes |
| spelling | doaj.art-37a113f625a4470f9fc55eeb24bac75f2023-11-24T01:19:52ZengMDPI AGGenes2073-44252022-03-0113354210.3390/genes13030542Using Transcriptome Analysis to Explore Gray Mold Resistance-Related Genes in Onion (<i>Allium</i><i>cepa</i> L.)Hyun-Min Lee0Jee-Soo Park1So-Jeong Kim2Seung-Gyu Kim3Young-Doo Park4Department of Horticultural Biotechnology, Kyung Hee University, 1732 Deogyoung-daero, Giheung-gu, Yongin-si 17104, Gyeonggi-do, KoreaDepartment of Horticultural Biotechnology, Kyung Hee University, 1732 Deogyoung-daero, Giheung-gu, Yongin-si 17104, Gyeonggi-do, KoreaDepartment of Horticultural Biotechnology, Kyung Hee University, 1732 Deogyoung-daero, Giheung-gu, Yongin-si 17104, Gyeonggi-do, KoreaDepartment of Horticultural Biotechnology, Kyung Hee University, 1732 Deogyoung-daero, Giheung-gu, Yongin-si 17104, Gyeonggi-do, KoreaDepartment of Horticultural Biotechnology, Kyung Hee University, 1732 Deogyoung-daero, Giheung-gu, Yongin-si 17104, Gyeonggi-do, KoreaGray mold disease caused by <i>Botrytis</i> in onions (<i>Allium cepa</i> L.) during growth and storage negatively affects their yield and quality. Exploring the genes related to gray mold resistance in onion and their application to the breeding of resistant onion lines will support effective and ecological control methods of the disease. Here, the genetic relationship of 54 onion lines based on random amplified polymorphic DNA (RAPD) and in vitro-cultured onion lines infected with gray mold were used for screening resistance and susceptibility traits. Two genetically related onion lines were selected, one with a resistant and one with a susceptible phenotype. In vitro gray mold infection was repeated with these two lines, and leaf samples were collected for gene expression studies in time series. Transcript sequences obtained by RNA sequencing were subjected to DEG analysis, variant analysis, and KEGG mapping. Among the KEGG pathways, ‘α-linoleic acid metabolism’ was selected because the comparison of the time series expression pattern of <i>Jasmonate resistant 1</i> (<i>JAR1</i>), <i>Coronatine-insensitive protein 1</i> (<i>COI 1</i>), and transcription factor <i>MYC2</i> (<i>MYC2</i>) genes between the resistant and susceptible lines revealed its significant relationship with gray-mold-resistant phenotypes. Expression pattern and SNP of the selected genes were verified by quantitative real-time PCR and high-resolution melting (HRM) analysis, respectively. The results of this study will be useful for the development of molecular marker and finally breeding of gray-mold-resistant onions.https://www.mdpi.com/2073-4425/13/3/542<i>Allium cepa</i>gene expressiongray mold resistantin vitro inoculationtranscriptome analysis |
| spellingShingle | Hyun-Min Lee Jee-Soo Park So-Jeong Kim Seung-Gyu Kim Young-Doo Park Using Transcriptome Analysis to Explore Gray Mold Resistance-Related Genes in Onion (<i>Allium</i><i>cepa</i> L.) Genes <i>Allium cepa</i> gene expression gray mold resistant in vitro inoculation transcriptome analysis |
| title | Using Transcriptome Analysis to Explore Gray Mold Resistance-Related Genes in Onion (<i>Allium</i><i>cepa</i> L.) |
| title_full | Using Transcriptome Analysis to Explore Gray Mold Resistance-Related Genes in Onion (<i>Allium</i><i>cepa</i> L.) |
| title_fullStr | Using Transcriptome Analysis to Explore Gray Mold Resistance-Related Genes in Onion (<i>Allium</i><i>cepa</i> L.) |
| title_full_unstemmed | Using Transcriptome Analysis to Explore Gray Mold Resistance-Related Genes in Onion (<i>Allium</i><i>cepa</i> L.) |
| title_short | Using Transcriptome Analysis to Explore Gray Mold Resistance-Related Genes in Onion (<i>Allium</i><i>cepa</i> L.) |
| title_sort | using transcriptome analysis to explore gray mold resistance related genes in onion i allium i i cepa i l |
| topic | <i>Allium cepa</i> gene expression gray mold resistant in vitro inoculation transcriptome analysis |
| url | https://www.mdpi.com/2073-4425/13/3/542 |
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