Development of RGA-CAPS markers and genetic mapping of candidate genes for sugarcane mosaic virus resistance in maize

Quint, Marcel; Mihaljevic, Renata; Dußle, C. M.; Xu, Ming; Melchinger, Albrecht E.; Lübberstedt, Thomas

doi:10.1007/s00122-002-0953-x

Cited by 38 publications

(18 citation statements)

References 29 publications

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“…Three minor QTLs were located on chromosomes 1, 5 and 10. Quint et al (2002) mapped pic19 in PopB to the Scmv1 region on chromosome 6.00/01. Therefore, it was expected that at least one pic19 homologue maps to this region.…”

Section: Discussionmentioning

confidence: 99%

“…Scmv1 candidate pic19 was previously elongated to 624 bp (Quint et al 2002). It was used as a probe to screen a B73 BAC library, purchased from Texas A & M BAC Center (http://hbz.tamu.edu/ bac.html), covering the genome approximately 4 x. Labelling was performed by a-32P-dATP/dCTP random priming.…”

Section: Bac Screeningmentioning

confidence: 99%

“…Furthermore, RGAs were shown to be highly polymorphic and the rate of success of converting RGAs into codominant CAPS or dominant SNP markers is high compared to other genomic sequences (Quint et al 2002).…”

Section: Consequences For Gene Isolation and Development Of Closely Lmentioning

confidence: 99%

“…Collins et al (1998) isolated and mapped several RGAs to the maize genome. One of them, pic19, was mapped as a single-copy RGA to the Scmv1 region on chromosome 6, and more intense investigations in SCMV-specific materials suggested pic19 to be a candidate gene for Scmv1 (Quint et al 2002). Hence, RGAs cosegregating or linked to a target R gene may provide a tool for the isolation of further linked RGAs based on homology to members of the same gene cluster.…”

Section: Introductionmentioning

confidence: 99%

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Identification of genetically linked RGAs by BAC screening in maize and implications for gene cloning, mapping and MAS

et al. 2003

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The resistance gene analogue (RGA) pic19 in maize, a candidate for sugarcane mosaic virus (SCMV) resistance gene (R gene) Scmv1, was used to screen a maize BAC library to identify homologous sequences in the maize genome and to investigate their genomic organisation. Fifteen positive BAC clones were identified and could be classified into five physically independent contigs consisting of overlapping clones. Genetic mapping clustered three contigs into the same genomic region as Scmv1 on chromosome 6S. The two remaining contigs mapped to the same region as a QTL for SCMV resistance on chromosome 1. Thus, RGAs mapping to a target region can be successfully used to identify further-linked candidate sequences. The pic19 homologous sequences of these clones revealed a sequence similarity of 94-98% on the nucleotide level. The high sequence similarity reveals potential problems for the use of RGAs as molecular markers. Their application in marker-assisted selection (MAS) and the construction of high-density genetic maps is complicated by the existence of closely linked homologues resulting in 'ghost' marker loci analogous to 'ghost' QTLs. Therefore, implementation of genomic library screening, including genetic mapping of potential homologues, seems necessary for the safe application of RGA markers in MAS and gene isolation.

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Section: Discussionmentioning

confidence: 99%

Section: Bac Screeningmentioning

confidence: 99%

Section: Consequences For Gene Isolation and Development Of Closely Lmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Identification of genetically linked RGAs by BAC screening in maize and implications for gene cloning, mapping and MAS

et al. 2003

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“…

One of the long-term aims of molecular marker technology in plant breeding is the selection of superior individuals directly at the level of DNA (Zheng and Wolff 2000;Quint et al 2002). Marker-assisted selection (MAS) provides significant advantages over traditional phenotypic screening (Zheng et al 1999;Andersen and Lübberstedt 2003).

…”

mentioning

confidence: 99%

Development of loop-mediated isothermal amplification (LAMP)-based SNP markers for shelf-life in melon (Cucumis melo L.)

Fukuta¹,

Mizukami²,

Ishida³

et al. 2006

J Appl Genet

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In this study, LAMP markers linked to shelf-life in melon (Cucumis melo L.) were developed by converting a cleaved amplified polymorphic sequences (CAPS) marker (C2). The CAPS-PCR fragments from the long-shelf-life melon (O-3) and short-shelf-life melon (Nat-2) were cloned and sequenced to construct LAMP primers. A single nucleotide polymorphism (SNP) was identified between O-3 and Nat-2. LAMP primers were designed to detect the SNP. In the LAMP reaction to detect long-shelf-life melon, the turbidity of the templates using O-3, F1, homozygous long-shelf-life F2 lines and heterozygous long-shelf-life F2 lines started to increase after 40 min. In contrast, the turbidity of Nat-2 and homozygous short-shelf-life F2 lines did not increase even after 90 min. In the LAMP reaction to detect short-shelf-life melon, the turbidity of the templates using Nat-2, F1, homozygous short-shelf-life F2 lines and heterozygous long-shelf-life F2 lines started to increase after 40 min. But the turbidity of O-3 and homozygous long-shelf-life F2 lines did not increase after 90 min. This attests to the high reliability and usefulness of LAMP for marker-assisted selection.

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Molecular Mapping and Marker Assisted Selection of Traits for Crop Improvement

Varshney

Mohapatra

Sharma

Plant Biotechnology and Molecular Markers

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Development of RGA-CAPS markers and genetic mapping of candidate genes for sugarcane mosaic virus resistance in maize

Cited by 38 publications

References 29 publications

Identification of genetically linked RGAs by BAC screening in maize and implications for gene cloning, mapping and MAS

Identification of genetically linked RGAs by BAC screening in maize and implications for gene cloning, mapping and MAS

Development of loop-mediated isothermal amplification (LAMP)-based SNP markers for shelf-life in melon (Cucumis melo L.)

Molecular Mapping and Marker Assisted Selection of Traits for Crop Improvement

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