Resistance to Plum Pox Virus (PPV) in apricot (Prunus armeniaca L.) is associated with down-regulation of two MATHd genes
Background: Plum pox virus (PPV), causing Sharka disease, is one of the main limiting factors for Prunus production worldwide. In apricot (Prunus armeniaca L.) the major PPV resistance locus (PPVres), comprising ~ 196 kb, has been mapped to the upper part of linkage group 1. Within the PPVres, 68 ge...
| Autores principales: | , , , |
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| Formato: | publishedVersion |
| Lenguaje: | Inglés |
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Springer Nature
2018
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| Acceso en línea: | http://hdl.handle.net/20.500.11939/6131 https://bmcplantbiol.biomedcentral.com/articles/10.1186/s12870-018-1237-1 |
| _version_ | 1855032372353826816 |
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| author | Zuriaga, Elena Romero, Carlos Blanca, Jose Miguel Badenes, María L. |
| author_browse | Badenes, María L. Blanca, Jose Miguel Romero, Carlos Zuriaga, Elena |
| author_facet | Zuriaga, Elena Romero, Carlos Blanca, Jose Miguel Badenes, María L. |
| author_sort | Zuriaga, Elena |
| collection | ReDivia |
| description | Background: Plum pox virus (PPV), causing Sharka disease, is one of the main limiting factors for Prunus production worldwide. In apricot (Prunus armeniaca L.) the major PPV resistance locus (PPVres), comprising ~ 196 kb, has been mapped to the upper part of linkage group 1. Within the PPVres, 68 genomic variants linked in coupling to PPV resistance were identified within 23 predicted transcripts according to peach genome annotation. Taking into account the predicted functions inferred from sequence homology, some members of a cluster of meprin and TRAF-C homology domain (MATHd)-containing genes were pointed as PPV resistance candidate genes. Results: Here, we have characterized the global apricot transcriptome response to PPV-D infection identifying six PPVres locus genes (ParP-1 to ParP-6) differentially expressed in resistant/susceptible cultivars. Two of them (ParP-3 and ParP-4), that encode MATHd proteins, appear clearly down-regulated in resistant cultivars, as confirmed by qRT-PCR. Concurrently, variant calling was performed using whole-genome sequencing data of 24 apricot cultivars (10 PPV-resistant and 14 PPV-susceptible) and 2 wild relatives (PPV-susceptible). ParP-3 and ParP-4, named as Prunus armeniaca PPVres MATHd-containing genes (ParPMC), are the only 2 genes having allelic variants linked in coupling to PPV resistance. ParPMC1 has 1 nsSNP, while ParPMC2 has 15 variants, including a 5-bp deletion within the second exon that produces a frameshift mutation. ParPMC1 and ParPMC2 are adjacent and highly homologous (87.5% identity) suggesting they are paralogs originated from a tandem duplication. Cultivars carrying the ParPMC2 resistant (mutated) allele show lack of expression in both ParPMC2 and especially ParPMC1. Conclusions: Accordingly, we hypothesize that ParPMC2 is a pseudogene that mediates down-regulation of its functional paralog ParPMC1 by silencing. As a whole, results strongly support ParPMC1 and/or ParPMC2 as host susceptibility genes required for PPV infection which silencing may confer PPV resistance trait. This finding may facilitate resistance breeding by marker-assisted selection and pave the way for gene edition approaches in Prunus. |
| format | publishedVersion |
| id | ReDivia6131 |
| institution | Instituto Valenciano de Investigaciones Agrarias (IVIA) |
| language | Inglés |
| publishDate | 2018 |
| publishDateRange | 2018 |
| publishDateSort | 2018 |
| publisher | Springer Nature |
| publisherStr | Springer Nature |
| record_format | dspace |
| spelling | ReDivia61312025-04-25T14:46:16Z Resistance to Plum Pox Virus (PPV) in apricot (Prunus armeniaca L.) is associated with down-regulation of two MATHd genes Zuriaga, Elena Romero, Carlos Blanca, Jose Miguel Badenes, María L. Plum Pox virus Potyvirus MATHd Silencing PPV resistance apricot Sharka Prunus Background: Plum pox virus (PPV), causing Sharka disease, is one of the main limiting factors for Prunus production worldwide. In apricot (Prunus armeniaca L.) the major PPV resistance locus (PPVres), comprising ~ 196 kb, has been mapped to the upper part of linkage group 1. Within the PPVres, 68 genomic variants linked in coupling to PPV resistance were identified within 23 predicted transcripts according to peach genome annotation. Taking into account the predicted functions inferred from sequence homology, some members of a cluster of meprin and TRAF-C homology domain (MATHd)-containing genes were pointed as PPV resistance candidate genes. Results: Here, we have characterized the global apricot transcriptome response to PPV-D infection identifying six PPVres locus genes (ParP-1 to ParP-6) differentially expressed in resistant/susceptible cultivars. Two of them (ParP-3 and ParP-4), that encode MATHd proteins, appear clearly down-regulated in resistant cultivars, as confirmed by qRT-PCR. Concurrently, variant calling was performed using whole-genome sequencing data of 24 apricot cultivars (10 PPV-resistant and 14 PPV-susceptible) and 2 wild relatives (PPV-susceptible). ParP-3 and ParP-4, named as Prunus armeniaca PPVres MATHd-containing genes (ParPMC), are the only 2 genes having allelic variants linked in coupling to PPV resistance. ParPMC1 has 1 nsSNP, while ParPMC2 has 15 variants, including a 5-bp deletion within the second exon that produces a frameshift mutation. ParPMC1 and ParPMC2 are adjacent and highly homologous (87.5% identity) suggesting they are paralogs originated from a tandem duplication. Cultivars carrying the ParPMC2 resistant (mutated) allele show lack of expression in both ParPMC2 and especially ParPMC1. Conclusions: Accordingly, we hypothesize that ParPMC2 is a pseudogene that mediates down-regulation of its functional paralog ParPMC1 by silencing. As a whole, results strongly support ParPMC1 and/or ParPMC2 as host susceptibility genes required for PPV infection which silencing may confer PPV resistance trait. This finding may facilitate resistance breeding by marker-assisted selection and pave the way for gene edition approaches in Prunus. 2018-07-11T14:55:16Z 2018-07-11T14:55:16Z 2018 publishedVersion Zuriaga, E., Romero, C., Blanca, J. M. & Badenes, M. L. (2018). Resistance to Plum Pox Virus (PPV) in apricot (Prunus armeniaca L.) is associated with down-regulation of two MATHd genes. BMC plant biology, 18(1), 25. 1471-2229 http://hdl.handle.net/20.500.11939/6131 10.1186/s12870-018-1237-1 https://bmcplantbiol.biomedcentral.com/articles/10.1186/s12870-018-1237-1 en info:eu-repo/grantAgreement/MINECO/Programa estatal de i+D+i Orientada a los Retos de la Sociedad/RTA2013-00026-C03-01//Mejora sostenible de albaricoquero y melocotonero Spanish Ministry of Economy, Industry and Competitiveness, RTA2013–00026-C03–01 Springer Nature electronico |
| spellingShingle | Plum Pox virus Potyvirus MATHd Silencing PPV resistance apricot Sharka Prunus Zuriaga, Elena Romero, Carlos Blanca, Jose Miguel Badenes, María L. Resistance to Plum Pox Virus (PPV) in apricot (Prunus armeniaca L.) is associated with down-regulation of two MATHd genes |
| title | Resistance to Plum Pox Virus (PPV) in apricot (Prunus armeniaca L.) is associated with down-regulation of two MATHd genes |
| title_full | Resistance to Plum Pox Virus (PPV) in apricot (Prunus armeniaca L.) is associated with down-regulation of two MATHd genes |
| title_fullStr | Resistance to Plum Pox Virus (PPV) in apricot (Prunus armeniaca L.) is associated with down-regulation of two MATHd genes |
| title_full_unstemmed | Resistance to Plum Pox Virus (PPV) in apricot (Prunus armeniaca L.) is associated with down-regulation of two MATHd genes |
| title_short | Resistance to Plum Pox Virus (PPV) in apricot (Prunus armeniaca L.) is associated with down-regulation of two MATHd genes |
| title_sort | resistance to plum pox virus ppv in apricot prunus armeniaca l is associated with down regulation of two mathd genes |
| topic | Plum Pox virus Potyvirus MATHd Silencing PPV resistance apricot Sharka Prunus |
| url | http://hdl.handle.net/20.500.11939/6131 https://bmcplantbiol.biomedcentral.com/articles/10.1186/s12870-018-1237-1 |
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