Development of a locus-specific, co-dominant SCAR marker for assisted-selection of the Sw-5 (Tospovirus resistance) gene cluster in a wide range of tomato accessions

E.C. Dianese, M.E.N. Fonseca, R.W. Goldbach, R.J.M. Kormelink, A.K. Inoue-Nagata, R.O. de Resende, L.S. Boiteux

Research output: Contribution to journalArticleAcademicpeer-review

26 Citations (Scopus)

Abstract

The best levels of broad-spectrum Tospovirus resistance reported in tomatoes thus far are conferred by the Sw-5 locus. This locus contains at least five paralogues (denoted Sw-5a through Sw-5e), of which Sw-5b represents the actual resistance gene. Here we evaluated a panel of seven PCR primer pairs matching different sequences within a genomic region spanning the Sw-5a and Sw-5b gene cluster. Primer efficiency evaluation was done employing tomato isolines with and without the Sw-5 locus. One primer pair produced a single and co-dominant polymorphism between susceptible and resistant isolines. Sequence analysis of these amplicons indicated that they were specific for the Sw-5 locus and their differences were due to insertions/deletions. The polymorphic SCAR amplicon encompass a conserved sequence of the promoter region of the functional Sw-5b gene, being located in the position -31 from its open reading frame. This primer pair was also evaluated in field assays and with a collection of accessions known to be either susceptible or resistant to tospoviruses. An almost complete correlation was found between resistance under greenhouse/field conditions and the presence of the marker. Therefore, this primer pair is a very useful tool in marker-assisted selection systems in a large range of tomato accessions.
Original languageEnglish
Pages (from-to)133-142
JournalMolecular Breeding
Volume25
Issue number1
DOIs
Publication statusPublished - 2010

Fingerprint

Tospovirus
Lycopersicon esculentum
Multigene Family
multigene family
marker-assisted selection
tomatoes
loci
isogenic lines
Conserved Sequence
Genetic Promoter Regions
Open Reading Frames
Genes
Sequence Analysis
conserved sequences
open reading frames
Polymerase Chain Reaction
genes
sequence analysis
promoter regions
genetic polymorphism

Keywords

  • spotted-wilt-virus
  • lycopersicon-esculentum
  • thrips transmission
  • tswv resistance
  • rapd markers
  • peruvianum
  • sw5

Cite this

Dianese, E.C. ; Fonseca, M.E.N. ; Goldbach, R.W. ; Kormelink, R.J.M. ; Inoue-Nagata, A.K. ; de Resende, R.O. ; Boiteux, L.S. / Development of a locus-specific, co-dominant SCAR marker for assisted-selection of the Sw-5 (Tospovirus resistance) gene cluster in a wide range of tomato accessions. In: Molecular Breeding. 2010 ; Vol. 25, No. 1. pp. 133-142.
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abstract = "The best levels of broad-spectrum Tospovirus resistance reported in tomatoes thus far are conferred by the Sw-5 locus. This locus contains at least five paralogues (denoted Sw-5a through Sw-5e), of which Sw-5b represents the actual resistance gene. Here we evaluated a panel of seven PCR primer pairs matching different sequences within a genomic region spanning the Sw-5a and Sw-5b gene cluster. Primer efficiency evaluation was done employing tomato isolines with and without the Sw-5 locus. One primer pair produced a single and co-dominant polymorphism between susceptible and resistant isolines. Sequence analysis of these amplicons indicated that they were specific for the Sw-5 locus and their differences were due to insertions/deletions. The polymorphic SCAR amplicon encompass a conserved sequence of the promoter region of the functional Sw-5b gene, being located in the position -31 from its open reading frame. This primer pair was also evaluated in field assays and with a collection of accessions known to be either susceptible or resistant to tospoviruses. An almost complete correlation was found between resistance under greenhouse/field conditions and the presence of the marker. Therefore, this primer pair is a very useful tool in marker-assisted selection systems in a large range of tomato accessions.",
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Development of a locus-specific, co-dominant SCAR marker for assisted-selection of the Sw-5 (Tospovirus resistance) gene cluster in a wide range of tomato accessions. / Dianese, E.C.; Fonseca, M.E.N.; Goldbach, R.W.; Kormelink, R.J.M.; Inoue-Nagata, A.K.; de Resende, R.O.; Boiteux, L.S.

In: Molecular Breeding, Vol. 25, No. 1, 2010, p. 133-142.

Research output: Contribution to journalArticleAcademicpeer-review

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T1 - Development of a locus-specific, co-dominant SCAR marker for assisted-selection of the Sw-5 (Tospovirus resistance) gene cluster in a wide range of tomato accessions

AU - Dianese, E.C.

AU - Fonseca, M.E.N.

AU - Goldbach, R.W.

AU - Kormelink, R.J.M.

AU - Inoue-Nagata, A.K.

AU - de Resende, R.O.

AU - Boiteux, L.S.

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N2 - The best levels of broad-spectrum Tospovirus resistance reported in tomatoes thus far are conferred by the Sw-5 locus. This locus contains at least five paralogues (denoted Sw-5a through Sw-5e), of which Sw-5b represents the actual resistance gene. Here we evaluated a panel of seven PCR primer pairs matching different sequences within a genomic region spanning the Sw-5a and Sw-5b gene cluster. Primer efficiency evaluation was done employing tomato isolines with and without the Sw-5 locus. One primer pair produced a single and co-dominant polymorphism between susceptible and resistant isolines. Sequence analysis of these amplicons indicated that they were specific for the Sw-5 locus and their differences were due to insertions/deletions. The polymorphic SCAR amplicon encompass a conserved sequence of the promoter region of the functional Sw-5b gene, being located in the position -31 from its open reading frame. This primer pair was also evaluated in field assays and with a collection of accessions known to be either susceptible or resistant to tospoviruses. An almost complete correlation was found between resistance under greenhouse/field conditions and the presence of the marker. Therefore, this primer pair is a very useful tool in marker-assisted selection systems in a large range of tomato accessions.

AB - The best levels of broad-spectrum Tospovirus resistance reported in tomatoes thus far are conferred by the Sw-5 locus. This locus contains at least five paralogues (denoted Sw-5a through Sw-5e), of which Sw-5b represents the actual resistance gene. Here we evaluated a panel of seven PCR primer pairs matching different sequences within a genomic region spanning the Sw-5a and Sw-5b gene cluster. Primer efficiency evaluation was done employing tomato isolines with and without the Sw-5 locus. One primer pair produced a single and co-dominant polymorphism between susceptible and resistant isolines. Sequence analysis of these amplicons indicated that they were specific for the Sw-5 locus and their differences were due to insertions/deletions. The polymorphic SCAR amplicon encompass a conserved sequence of the promoter region of the functional Sw-5b gene, being located in the position -31 from its open reading frame. This primer pair was also evaluated in field assays and with a collection of accessions known to be either susceptible or resistant to tospoviruses. An almost complete correlation was found between resistance under greenhouse/field conditions and the presence of the marker. Therefore, this primer pair is a very useful tool in marker-assisted selection systems in a large range of tomato accessions.

KW - spotted-wilt-virus

KW - lycopersicon-esculentum

KW - thrips transmission

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KW - rapd markers

KW - peruvianum

KW - sw5

U2 - 10.1007/s11032-009-9313-8

DO - 10.1007/s11032-009-9313-8

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JO - Molecular Breeding

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SN - 1380-3743

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