Narrowing down the apricot Plum pox virus resistance locus and comparative analysis with the peach genome syntenic region

Elsa María Vera Ruiz, José Miguel Soriano, Carlos Romero, Tetyana Zhebentyayeva, Javier Terol, Elena Zuriaga, Gerardo Llácer, Albert Glenn Abbott, María Luisa Badenes

Research output: Contribution to journalArticle

27 Citations (Scopus)

Abstract

Sharka disease, caused by the Plum pox virus (PPV), is one of the main limiting factors for stone fruit crops worldwide. Only a few resistance sources have been found in apricot (Prunus armeniaca L.), and most studies have located a major PPV resistance locus (PPVres) on linkage group 1 (LG1). However, the mapping accuracy was not sufficiently reliable and PPVres was predicted within a low confidence interval. In this study, we have constructed two high-density simple sequence repeat (SSR) improved maps with 0.70 and 0.68 markers/cm, corresponding to LG1 of 'Lito' and 'Goldrich' PPV-resistant cultivars, respectively. Using these maps, and excluding genotype-phenotype incongruent individuals, a new binary trait locus (BTL) analysis for PPV resistance was performed, narrowing down the PPVres support intervals to 7.3 and 5.9cm in 'Lito' and 'Goldrich', respectively. Subsequently, 71 overlapping oligonucleotides (overgo) probes were hybridized against an apricot bacterial artificial chromosome (BAC) library, identifying 870 single BACs from which 340 were anchored onto a map region of approximately 30-40cm encompassing PPVres. Partial BAC contigs assigned to the two allelic haplotypes (resistant/susceptible) of the PPVres locus were built by high-information content fingerprinting (HICF). In addition, a total of 300 BAC-derived sequences were obtained, and 257 showed significant homology with the peach genome scaffold-1 corresponding to LG1. According to the peach syntenic genome sequence, PPVres was predicted within a region of 2.16Mb in which a few candidate resistance genes were identified.

Original languageEnglish (US)
Pages (from-to)535-547
Number of pages13
JournalMolecular plant pathology
Volume12
Issue number6
DOIs
StatePublished - Aug 1 2011

Fingerprint

Plum Pox Virus
Prunus simonii
Plum pox virus
Bacterial Artificial Chromosomes
peaches
virus
genome
Genome
chromosome
loci
bacterial artificial chromosomes
linkage groups
Oligonucleotide Probes
apricots
homology
Microsatellite Repeats
limiting factor
confidence interval
Haplotypes
phenotype

All Science Journal Classification (ASJC) codes

  • Molecular Biology
  • Agronomy and Crop Science
  • Soil Science
  • Plant Science

Cite this

Vera Ruiz, Elsa María ; Soriano, José Miguel ; Romero, Carlos ; Zhebentyayeva, Tetyana ; Terol, Javier ; Zuriaga, Elena ; Llácer, Gerardo ; Abbott, Albert Glenn ; Badenes, María Luisa. / Narrowing down the apricot Plum pox virus resistance locus and comparative analysis with the peach genome syntenic region. In: Molecular plant pathology. 2011 ; Vol. 12, No. 6. pp. 535-547.
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abstract = "Sharka disease, caused by the Plum pox virus (PPV), is one of the main limiting factors for stone fruit crops worldwide. Only a few resistance sources have been found in apricot (Prunus armeniaca L.), and most studies have located a major PPV resistance locus (PPVres) on linkage group 1 (LG1). However, the mapping accuracy was not sufficiently reliable and PPVres was predicted within a low confidence interval. In this study, we have constructed two high-density simple sequence repeat (SSR) improved maps with 0.70 and 0.68 markers/cm, corresponding to LG1 of 'Lito' and 'Goldrich' PPV-resistant cultivars, respectively. Using these maps, and excluding genotype-phenotype incongruent individuals, a new binary trait locus (BTL) analysis for PPV resistance was performed, narrowing down the PPVres support intervals to 7.3 and 5.9cm in 'Lito' and 'Goldrich', respectively. Subsequently, 71 overlapping oligonucleotides (overgo) probes were hybridized against an apricot bacterial artificial chromosome (BAC) library, identifying 870 single BACs from which 340 were anchored onto a map region of approximately 30-40cm encompassing PPVres. Partial BAC contigs assigned to the two allelic haplotypes (resistant/susceptible) of the PPVres locus were built by high-information content fingerprinting (HICF). In addition, a total of 300 BAC-derived sequences were obtained, and 257 showed significant homology with the peach genome scaffold-1 corresponding to LG1. According to the peach syntenic genome sequence, PPVres was predicted within a region of 2.16Mb in which a few candidate resistance genes were identified.",
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Narrowing down the apricot Plum pox virus resistance locus and comparative analysis with the peach genome syntenic region. / Vera Ruiz, Elsa María; Soriano, José Miguel; Romero, Carlos; Zhebentyayeva, Tetyana; Terol, Javier; Zuriaga, Elena; Llácer, Gerardo; Abbott, Albert Glenn; Badenes, María Luisa.

In: Molecular plant pathology, Vol. 12, No. 6, 01.08.2011, p. 535-547.

Research output: Contribution to journalArticle

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AU - Vera Ruiz, Elsa María

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AU - Terol, Javier

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AU - Abbott, Albert Glenn

AU - Badenes, María Luisa

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AB - Sharka disease, caused by the Plum pox virus (PPV), is one of the main limiting factors for stone fruit crops worldwide. Only a few resistance sources have been found in apricot (Prunus armeniaca L.), and most studies have located a major PPV resistance locus (PPVres) on linkage group 1 (LG1). However, the mapping accuracy was not sufficiently reliable and PPVres was predicted within a low confidence interval. In this study, we have constructed two high-density simple sequence repeat (SSR) improved maps with 0.70 and 0.68 markers/cm, corresponding to LG1 of 'Lito' and 'Goldrich' PPV-resistant cultivars, respectively. Using these maps, and excluding genotype-phenotype incongruent individuals, a new binary trait locus (BTL) analysis for PPV resistance was performed, narrowing down the PPVres support intervals to 7.3 and 5.9cm in 'Lito' and 'Goldrich', respectively. Subsequently, 71 overlapping oligonucleotides (overgo) probes were hybridized against an apricot bacterial artificial chromosome (BAC) library, identifying 870 single BACs from which 340 were anchored onto a map region of approximately 30-40cm encompassing PPVres. Partial BAC contigs assigned to the two allelic haplotypes (resistant/susceptible) of the PPVres locus were built by high-information content fingerprinting (HICF). In addition, a total of 300 BAC-derived sequences were obtained, and 257 showed significant homology with the peach genome scaffold-1 corresponding to LG1. According to the peach syntenic genome sequence, PPVres was predicted within a region of 2.16Mb in which a few candidate resistance genes were identified.

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