Conversion of the random amplified polymorphic DNA (RAPD) marker UBC#116 linked to Fusarium crown and root rot resistance gene (Frl) into a co-dominant sequence characterized amplified region (SCAR) marker for marker-assisted selection of tomato

Hai, Thi Hong Truong; Choi, Hyosun; Myoung, Cheoul Cho; Hye, Eun Lee

doi:10.5897/ajb11.1520

Cited by 5 publications

(3 citation statements)

References 14 publications

(6 reference statements)

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“…We then used the published tomato reference genome sequence (Tomato Genome Consortium 2012) (GenBank: GCA_000188115.2 Solyc2.50) as a reference to map sequence reads from both resistant and susceptible parents, and as well as sequences from both bulks. We concentrated on chromosome 9 around the previously published markers that were claimed to be linked to Frl (Truong et al 2011; Mutlu et al 2015). Initially, 1.2 Mb region covering some of the previous markers was taken into account and some of the identified SNVs at the flanking regions were converted to CAPS marker and were then used to map the Frl locus.…”

Section: Resultsmentioning

confidence: 99%

“…Genetic studies showed that Frl is a single dominant locus on chromosome 9 and several molecular markers including the RFLP-based marker TG101 have been shown to be linked to Frl (Truong et al 2011). As thousands of plant lines are screened in a given breeding programmes, marker-assisted selection (MAS) offers advantages over classic phenotype-based selection.…”

Section: Introductionmentioning

confidence: 99%

“…This is due to the fact that it can save time, resources and efforts and selection can be done at the seedling stages (Collard and Mackill 2008). Further molecular studies resulted in the development of RAPD (Truong et al 2011) and SCAR (Mutlu et al 2015) markers that are linked to the Frl . We have tried some of these markers but none of these have proven to be close enough to be successfully used in high throughput breeding programmes as they are several cM away from the Frl locus allowing the high number of recombination events to occur, which is not desirable for commercial breeding activities.…”

Section: Introductionmentioning

confidence: 99%

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Identifying molecular markers suitable for Frl selection in tomato breeding

et al. 2018

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Modern plant breeding heavily relies on the use of molecular markers. In recent years, next generation sequencing (NGS) emerged as a powerful technology to discover DNA sequence polymorphisms and generate molecular markers very rapidly and cost effectively, accelerating the plant breeding programmes. A single dominant locus, Frl, in tomato provides resistance to the fungal pathogen Fusarium oxysporum f. sp. radicis-lycopersici (FORL), causative agent of Fusarium crown and root rot. In this study, we describe the generation of molecular markers associated with the Frl locus. An F2 mapping population between an FORL resistant and a susceptible cultivar was generated. NGS technology was then used to sequence the genomes of a susceptible and a resistant parent as well the genomes of bulked resistant and susceptible F2 lines. We zoomed into the Frl locus and mapped the locus to a 900 kb interval on chromosome 9. Polymorphic single-nucleotide polymorphisms (SNPs) within the interval were identified and markers co-segregating with the resistant phenotype were generated. Some of these markers were tested successfully with commercial tomato varieties indicating that they can be used for marker-assisted selection in large-scale breeding programmes.Electronic supplementary materialThe online version of this article (10.1007/s00122-018-3136-0) contains supplementary material, which is available to authorized users.

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Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Identifying molecular markers suitable for Frl selection in tomato breeding

et al. 2018

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Development of co-dominant SCAR markers linked to resistant gene against the Fusarium oxysporum f. sp. radicis-lycopersici

Mutlu

Demirelli²,

İlbi

et al. 2015

Theor Appl Genet

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We developed highly reliable co-dominant SCAR markers linked to the Frl gene. FORL testing is difficult. The marker is expected to be quickly adapted for MAS by tomato breeders. Fusarium oxysporum f. sp. radicis-lycopersici causes Fusarium crown and root rot (FCR), an economically important soil-borne disease of tomato. The resistance against FCR is conferred by a single dominant gene (Frl) located on chromosome 9. The aim of this study was to develop molecular markers linked to the Frl gene for use in marker-assisted breeding (MAS) programs. The FCR-resistant 'Fla. 7781' and susceptible 'B560' lines were crossed, and F1 was both selfed and backcrossed to 'B560' to generate segregating F2 and BC1 populations. The two conserved set II (COSII) markers were found linked to the Frl gene, one co-segregated with FCR resistance in both F2 and BC1 populations and the other was 8.5 cM away. Both COSII markers were converted into co-dominant SCAR markers. SCARFrl marker produced a 950 and a 1000 bp fragments for resistant and susceptible alleles, respectively. The linkage of SCARFrl marker was confirmed in BC2F3 populations developed by backcrossing the resistant 'Fla. 7781' to five different susceptible lines. The SCARFrl marker has been in use in the tomato breeding programs in BATEM, Antalya, Turkey, since 2012 and has proved highly reliable. The SCARFrl marker is expected to aid in the development of FCR-resistant lines via marker-assisted selection (MAS).

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Identification of a new molecular marker C2-25 linked to the Fusarium oxysporum f.sp. radicis-lycopersici resistance Frl gene in tomato

Staniaszek¹,

Szczechura²,

Marczewski³

2014

CZECH J GENET PLANT

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Fusarium oxysporum Schlecht. f.sp. radicis-lycopersici Jarvis & Schoemaker (FORL) is a saprophytic fungus, responsible for the fusarium crown and root rot disease in tomato (Solanum lycopersicum L.). This is one of the most destructive pathogens of this species. A new cleaved amplified polymorphic sequence (CAPS) marker C2-25 was developed for the detection of the dominant gene Frl, which confers tomato resistance to FORL. C2-25 was amplified from a conserved ortholog set II (COSII) sequence C2_At2g38025. The XapI-derived restriction product of 700 bp was informative for the identification of FORL resistant tomato genotypes and can be used as a diagnostic marker in tomato breeding programmes and hybrid seed production.

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Conversion of the random amplified polymorphic DNA (RAPD) marker UBC#116 linked to Fusarium crown and root rot resistance gene (Frl) into a co-dominant sequence characterized amplified region (SCAR) marker for marker-assisted selection of tomato

Cited by 5 publications

References 14 publications

Identifying molecular markers suitable for Frl selection in tomato breeding

Identifying molecular markers suitable for Frl selection in tomato breeding

Development of co-dominant SCAR markers linked to resistant gene against the Fusarium oxysporum f. sp. radicis-lycopersici

Identification of a new molecular marker C2-25 linked to the Fusarium oxysporum f.sp. radicis-lycopersici resistance Frl gene in tomato

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