Identification of QTLs conferring resistance to begomovirus isolate of PepYLCIV in Capsicum chinense
Pepper yellow leaf curl disease caused by begomoviruses has emerged as a major limitation to the cultivation of pepper ( Capsicum spp.) production in a number of regions around the world. Although begomovirus resistance has been reported in several accessions, pepy-1 derived from BaPep-5 ( C. annuum...
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| Veröffentlicht in: | Euphytica 2022-02, Vol.218 (2), Article 20 |
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| creator | Mori, Namiko Hasegawa, Shota Takimoto, Ryota Horiuchi, Ryo Watanabe, Chiho Onizaki, Daiki Shiragane, Hayato Nagano, Atsushi J. Kesumawati, Elly Koeda, Sota |
| description | Pepper yellow leaf curl disease caused by begomoviruses has emerged as a major limitation to the cultivation of pepper (
Capsicum
spp.) production in a number of regions around the world. Although begomovirus resistance has been reported in several accessions,
pepy-1
derived from BaPep-5 (
C. annuum
) is the only begomovirus resistance gene cloned to date. In this study, we evaluated the resistance of a
C. chinense
accession GR1 against pepper yellow leaf curl Indonesia virus (PepYLCIV), which is one of the predominant begomovirus species infecting pepper plants in Indonesia. Infection of PepYLCIV to susceptible Habanero (
C. chinense
) plants induced typical yellowing symptoms, whereas the GR1 plant showed symptoms with very low severity. Moreover, the accumulation of viral DNA was restricted in GR1 compared to Habanero. Phenotypic analyses of F
1
and F
2
populations obtained by crossing Habanero with GR1 inferred that the resistance is a dominant trait controlled by multiple genes. Linkage analysis in the F
2
population using restriction site-associated DNA sequencing data detected two significant quantitative trait loci (QTLs), one on chromosome 4 and another on chromosome 11, which explained 31.6 and 19.7% of the phenotypic variation, respectively. Moreover, QTL-seq conducted using F
3
population partially confirmed the result of F
2
population, which detected QTLs on chromosome 3 and 11, respectively. The QTLs identified for PepYLCIV resistance in this research are novel since no other resistance causing QTLs have ever been reported in these genomic regions. GR1 is a highly valuable genetic resource for the breeding of begomovirus resistance in peppers. |
| doi_str_mv | 10.1007/s10681-022-02970-9 |
| format | Article |
| fullrecord | <record><control><sourceid>gale_proqu</sourceid><recordid>TN_cdi_proquest_journals_2624034765</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><galeid>A710300769</galeid><sourcerecordid>A710300769</sourcerecordid><originalsourceid>FETCH-LOGICAL-c452t-7590b56586341760508a34f9293f1e86c5aca59cb80b4c25432d63e1f9730a183</originalsourceid><addsrcrecordid>eNp9kUFrGzEQhUVpoG6SP9CTIOdNRtJKWh2NaRuDIQmkgZyELI9cGa-0kdaF_vus60IolCAGwfC-meE9Qr4wuGYA-qYyUB1rgPOpjIbGfCAzJrVoJCj4SGYArG24EOoT-VzrDgCMljAjm-UG0xhD9G6MOdEc6MPjqlKfU8BSYtrSgjXW0SWPdMx0jdvc51-xHCqNNe_diEfoHofn1WL5RGOiCzfU6A899T9jwlTxgpwFt694-fc_Jz--fX1c3Daru-_LxXzV-FbysdHSwFoq2SnRMq1AQudEGww3IjDslJfOO2n8uoN167lsBd8ogSwYLcCxTpyTq9PcoeSXA9bR7vKhpGml5Yq3IFqt5Jtq6_ZoYwp5LM73sXo71wzE5Kcyk-r6P6rpbbCPkzsY4tT_B-AnwJdca8FghxJ7V35bBvYYkj2FZKeQ7J-Q7BESJ6gOR6-xvF38DvUKXviR_A</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2624034765</pqid></control><display><type>article</type><title>Identification of QTLs conferring resistance to begomovirus isolate of PepYLCIV in Capsicum chinense</title><source>SpringerNature Journals</source><creator>Mori, Namiko ; Hasegawa, Shota ; Takimoto, Ryota ; Horiuchi, Ryo ; Watanabe, Chiho ; Onizaki, Daiki ; Shiragane, Hayato ; Nagano, Atsushi J. ; Kesumawati, Elly ; Koeda, Sota</creator><creatorcontrib>Mori, Namiko ; Hasegawa, Shota ; Takimoto, Ryota ; Horiuchi, Ryo ; Watanabe, Chiho ; Onizaki, Daiki ; Shiragane, Hayato ; Nagano, Atsushi J. ; Kesumawati, Elly ; Koeda, Sota</creatorcontrib><description>Pepper yellow leaf curl disease caused by begomoviruses has emerged as a major limitation to the cultivation of pepper (
Capsicum
spp.) production in a number of regions around the world. Although begomovirus resistance has been reported in several accessions,
pepy-1
derived from BaPep-5 (
C. annuum
) is the only begomovirus resistance gene cloned to date. In this study, we evaluated the resistance of a
C. chinense
accession GR1 against pepper yellow leaf curl Indonesia virus (PepYLCIV), which is one of the predominant begomovirus species infecting pepper plants in Indonesia. Infection of PepYLCIV to susceptible Habanero (
C. chinense
) plants induced typical yellowing symptoms, whereas the GR1 plant showed symptoms with very low severity. Moreover, the accumulation of viral DNA was restricted in GR1 compared to Habanero. Phenotypic analyses of F
1
and F
2
populations obtained by crossing Habanero with GR1 inferred that the resistance is a dominant trait controlled by multiple genes. Linkage analysis in the F
2
population using restriction site-associated DNA sequencing data detected two significant quantitative trait loci (QTLs), one on chromosome 4 and another on chromosome 11, which explained 31.6 and 19.7% of the phenotypic variation, respectively. Moreover, QTL-seq conducted using F
3
population partially confirmed the result of F
2
population, which detected QTLs on chromosome 3 and 11, respectively. The QTLs identified for PepYLCIV resistance in this research are novel since no other resistance causing QTLs have ever been reported in these genomic regions. GR1 is a highly valuable genetic resource for the breeding of begomovirus resistance in peppers.</description><identifier>ISSN: 0014-2336</identifier><identifier>EISSN: 1573-5060</identifier><identifier>DOI: 10.1007/s10681-022-02970-9</identifier><language>eng</language><publisher>Dordrecht: Springer Netherlands</publisher><subject>Analysis ; Begomovirus ; Biomedical and Life Sciences ; Biotechnology ; Capsicum annuum ; Capsicum chinense ; Chromosome 11 ; Chromosome 3 ; Chromosome 4 ; Chromosomes ; Deoxyribonucleic acid ; Disease susceptibility ; DNA ; DNA sequencing ; Gene mapping ; Genetic resources ; Health aspects ; Infection ; Leaf-curl ; Leaves ; Life Sciences ; Linkage analysis ; Nucleotide sequencing ; Peppers ; Phenotypic variations ; Plant diseases ; Plant Genetics and Genomics ; Plant Pathology ; Plant Physiology ; Plant Sciences ; Plant virus diseases ; Plant viruses ; Quantitative genetics ; Quantitative trait loci ; Signs and symptoms ; Vegetables ; Yellow leaf ; Yellowing</subject><ispartof>Euphytica, 2022-02, Vol.218 (2), Article 20</ispartof><rights>The Author(s), under exclusive licence to Springer Nature B.V. 2022</rights><rights>COPYRIGHT 2022 Springer</rights><rights>The Author(s), under exclusive licence to Springer Nature B.V. 2022.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c452t-7590b56586341760508a34f9293f1e86c5aca59cb80b4c25432d63e1f9730a183</citedby><cites>FETCH-LOGICAL-c452t-7590b56586341760508a34f9293f1e86c5aca59cb80b4c25432d63e1f9730a183</cites><orcidid>0000-0001-7891-5049 ; 0000-0001-5921-8432</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s10681-022-02970-9$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s10681-022-02970-9$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,780,784,27924,27925,41488,42557,51319</link.rule.ids></links><search><creatorcontrib>Mori, Namiko</creatorcontrib><creatorcontrib>Hasegawa, Shota</creatorcontrib><creatorcontrib>Takimoto, Ryota</creatorcontrib><creatorcontrib>Horiuchi, Ryo</creatorcontrib><creatorcontrib>Watanabe, Chiho</creatorcontrib><creatorcontrib>Onizaki, Daiki</creatorcontrib><creatorcontrib>Shiragane, Hayato</creatorcontrib><creatorcontrib>Nagano, Atsushi J.</creatorcontrib><creatorcontrib>Kesumawati, Elly</creatorcontrib><creatorcontrib>Koeda, Sota</creatorcontrib><title>Identification of QTLs conferring resistance to begomovirus isolate of PepYLCIV in Capsicum chinense</title><title>Euphytica</title><addtitle>Euphytica</addtitle><description>Pepper yellow leaf curl disease caused by begomoviruses has emerged as a major limitation to the cultivation of pepper (
Capsicum
spp.) production in a number of regions around the world. Although begomovirus resistance has been reported in several accessions,
pepy-1
derived from BaPep-5 (
C. annuum
) is the only begomovirus resistance gene cloned to date. In this study, we evaluated the resistance of a
C. chinense
accession GR1 against pepper yellow leaf curl Indonesia virus (PepYLCIV), which is one of the predominant begomovirus species infecting pepper plants in Indonesia. Infection of PepYLCIV to susceptible Habanero (
C. chinense
) plants induced typical yellowing symptoms, whereas the GR1 plant showed symptoms with very low severity. Moreover, the accumulation of viral DNA was restricted in GR1 compared to Habanero. Phenotypic analyses of F
1
and F
2
populations obtained by crossing Habanero with GR1 inferred that the resistance is a dominant trait controlled by multiple genes. Linkage analysis in the F
2
population using restriction site-associated DNA sequencing data detected two significant quantitative trait loci (QTLs), one on chromosome 4 and another on chromosome 11, which explained 31.6 and 19.7% of the phenotypic variation, respectively. Moreover, QTL-seq conducted using F
3
population partially confirmed the result of F
2
population, which detected QTLs on chromosome 3 and 11, respectively. The QTLs identified for PepYLCIV resistance in this research are novel since no other resistance causing QTLs have ever been reported in these genomic regions. GR1 is a highly valuable genetic resource for the breeding of begomovirus resistance in peppers.</description><subject>Analysis</subject><subject>Begomovirus</subject><subject>Biomedical and Life Sciences</subject><subject>Biotechnology</subject><subject>Capsicum annuum</subject><subject>Capsicum chinense</subject><subject>Chromosome 11</subject><subject>Chromosome 3</subject><subject>Chromosome 4</subject><subject>Chromosomes</subject><subject>Deoxyribonucleic acid</subject><subject>Disease susceptibility</subject><subject>DNA</subject><subject>DNA sequencing</subject><subject>Gene mapping</subject><subject>Genetic resources</subject><subject>Health aspects</subject><subject>Infection</subject><subject>Leaf-curl</subject><subject>Leaves</subject><subject>Life Sciences</subject><subject>Linkage analysis</subject><subject>Nucleotide sequencing</subject><subject>Peppers</subject><subject>Phenotypic variations</subject><subject>Plant diseases</subject><subject>Plant Genetics and Genomics</subject><subject>Plant Pathology</subject><subject>Plant Physiology</subject><subject>Plant Sciences</subject><subject>Plant virus diseases</subject><subject>Plant viruses</subject><subject>Quantitative genetics</subject><subject>Quantitative trait loci</subject><subject>Signs and symptoms</subject><subject>Vegetables</subject><subject>Yellow leaf</subject><subject>Yellowing</subject><issn>0014-2336</issn><issn>1573-5060</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2022</creationdate><recordtype>article</recordtype><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNp9kUFrGzEQhUVpoG6SP9CTIOdNRtJKWh2NaRuDIQmkgZyELI9cGa-0kdaF_vus60IolCAGwfC-meE9Qr4wuGYA-qYyUB1rgPOpjIbGfCAzJrVoJCj4SGYArG24EOoT-VzrDgCMljAjm-UG0xhD9G6MOdEc6MPjqlKfU8BSYtrSgjXW0SWPdMx0jdvc51-xHCqNNe_diEfoHofn1WL5RGOiCzfU6A899T9jwlTxgpwFt694-fc_Jz--fX1c3Daru-_LxXzV-FbysdHSwFoq2SnRMq1AQudEGww3IjDslJfOO2n8uoN167lsBd8ogSwYLcCxTpyTq9PcoeSXA9bR7vKhpGml5Yq3IFqt5Jtq6_ZoYwp5LM73sXo71wzE5Kcyk-r6P6rpbbCPkzsY4tT_B-AnwJdca8FghxJ7V35bBvYYkj2FZKeQ7J-Q7BESJ6gOR6-xvF38DvUKXviR_A</recordid><startdate>20220201</startdate><enddate>20220201</enddate><creator>Mori, Namiko</creator><creator>Hasegawa, Shota</creator><creator>Takimoto, Ryota</creator><creator>Horiuchi, Ryo</creator><creator>Watanabe, Chiho</creator><creator>Onizaki, Daiki</creator><creator>Shiragane, Hayato</creator><creator>Nagano, Atsushi J.</creator><creator>Kesumawati, Elly</creator><creator>Koeda, Sota</creator><general>Springer Netherlands</general><general>Springer</general><general>Springer Nature B.V</general><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7SN</scope><scope>7SS</scope><scope>7T7</scope><scope>7TM</scope><scope>7X2</scope><scope>7XB</scope><scope>88I</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>M0K</scope><scope>M2P</scope><scope>M7N</scope><scope>P64</scope><scope>PATMY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PYCSY</scope><scope>Q9U</scope><scope>RC3</scope><orcidid>https://orcid.org/0000-0001-7891-5049</orcidid><orcidid>https://orcid.org/0000-0001-5921-8432</orcidid></search><sort><creationdate>20220201</creationdate><title>Identification of QTLs conferring resistance to begomovirus isolate of PepYLCIV in Capsicum chinense</title><author>Mori, Namiko ; Hasegawa, Shota ; Takimoto, Ryota ; Horiuchi, Ryo ; Watanabe, Chiho ; Onizaki, Daiki ; Shiragane, Hayato ; Nagano, Atsushi J. ; Kesumawati, Elly ; Koeda, Sota</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c452t-7590b56586341760508a34f9293f1e86c5aca59cb80b4c25432d63e1f9730a183</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2022</creationdate><topic>Analysis</topic><topic>Begomovirus</topic><topic>Biomedical and Life Sciences</topic><topic>Biotechnology</topic><topic>Capsicum annuum</topic><topic>Capsicum chinense</topic><topic>Chromosome 11</topic><topic>Chromosome 3</topic><topic>Chromosome 4</topic><topic>Chromosomes</topic><topic>Deoxyribonucleic acid</topic><topic>Disease susceptibility</topic><topic>DNA</topic><topic>DNA sequencing</topic><topic>Gene mapping</topic><topic>Genetic resources</topic><topic>Health aspects</topic><topic>Infection</topic><topic>Leaf-curl</topic><topic>Leaves</topic><topic>Life Sciences</topic><topic>Linkage analysis</topic><topic>Nucleotide sequencing</topic><topic>Peppers</topic><topic>Phenotypic variations</topic><topic>Plant diseases</topic><topic>Plant Genetics and Genomics</topic><topic>Plant Pathology</topic><topic>Plant Physiology</topic><topic>Plant Sciences</topic><topic>Plant virus diseases</topic><topic>Plant viruses</topic><topic>Quantitative genetics</topic><topic>Quantitative trait loci</topic><topic>Signs and symptoms</topic><topic>Vegetables</topic><topic>Yellow leaf</topic><topic>Yellowing</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Mori, Namiko</creatorcontrib><creatorcontrib>Hasegawa, Shota</creatorcontrib><creatorcontrib>Takimoto, Ryota</creatorcontrib><creatorcontrib>Horiuchi, Ryo</creatorcontrib><creatorcontrib>Watanabe, Chiho</creatorcontrib><creatorcontrib>Onizaki, Daiki</creatorcontrib><creatorcontrib>Shiragane, Hayato</creatorcontrib><creatorcontrib>Nagano, Atsushi J.</creatorcontrib><creatorcontrib>Kesumawati, Elly</creatorcontrib><creatorcontrib>Koeda, Sota</creatorcontrib><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Ecology Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Nucleic Acids Abstracts</collection><collection>Agricultural Science Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Science Database (Alumni Edition)</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni 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chinense</atitle><jtitle>Euphytica</jtitle><stitle>Euphytica</stitle><date>2022-02-01</date><risdate>2022</risdate><volume>218</volume><issue>2</issue><artnum>20</artnum><issn>0014-2336</issn><eissn>1573-5060</eissn><abstract>Pepper yellow leaf curl disease caused by begomoviruses has emerged as a major limitation to the cultivation of pepper (
Capsicum
spp.) production in a number of regions around the world. Although begomovirus resistance has been reported in several accessions,
pepy-1
derived from BaPep-5 (
C. annuum
) is the only begomovirus resistance gene cloned to date. In this study, we evaluated the resistance of a
C. chinense
accession GR1 against pepper yellow leaf curl Indonesia virus (PepYLCIV), which is one of the predominant begomovirus species infecting pepper plants in Indonesia. Infection of PepYLCIV to susceptible Habanero (
C. chinense
) plants induced typical yellowing symptoms, whereas the GR1 plant showed symptoms with very low severity. Moreover, the accumulation of viral DNA was restricted in GR1 compared to Habanero. Phenotypic analyses of F
1
and F
2
populations obtained by crossing Habanero with GR1 inferred that the resistance is a dominant trait controlled by multiple genes. Linkage analysis in the F
2
population using restriction site-associated DNA sequencing data detected two significant quantitative trait loci (QTLs), one on chromosome 4 and another on chromosome 11, which explained 31.6 and 19.7% of the phenotypic variation, respectively. Moreover, QTL-seq conducted using F
3
population partially confirmed the result of F
2
population, which detected QTLs on chromosome 3 and 11, respectively. The QTLs identified for PepYLCIV resistance in this research are novel since no other resistance causing QTLs have ever been reported in these genomic regions. GR1 is a highly valuable genetic resource for the breeding of begomovirus resistance in peppers.</abstract><cop>Dordrecht</cop><pub>Springer Netherlands</pub><doi>10.1007/s10681-022-02970-9</doi><orcidid>https://orcid.org/0000-0001-7891-5049</orcidid><orcidid>https://orcid.org/0000-0001-5921-8432</orcidid></addata></record> |
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| ispartof | Euphytica, 2022-02, Vol.218 (2), Article 20 |
| issn | 0014-2336 1573-5060 |
| language | eng |
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| source | SpringerNature Journals |
| subjects | Analysis Begomovirus Biomedical and Life Sciences Biotechnology Capsicum annuum Capsicum chinense Chromosome 11 Chromosome 3 Chromosome 4 Chromosomes Deoxyribonucleic acid Disease susceptibility DNA DNA sequencing Gene mapping Genetic resources Health aspects Infection Leaf-curl Leaves Life Sciences Linkage analysis Nucleotide sequencing Peppers Phenotypic variations Plant diseases Plant Genetics and Genomics Plant Pathology Plant Physiology Plant Sciences Plant virus diseases Plant viruses Quantitative genetics Quantitative trait loci Signs and symptoms Vegetables Yellow leaf Yellowing |
| title | Identification of QTLs conferring resistance to begomovirus isolate of PepYLCIV in Capsicum chinense |
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