Functional markers in wheat: technical and economic aspects

Bagge, M.; Lübberstedt, Thomas

doi:10.1007/s11032-008-9190-6

Cited by 32 publications

(21 citation statements)

References 46 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Gel electrophoresis methods are easy and do not require sophisticated equipment, but they can be impractical for the analysis of thousands of samples. Markers that require additional steps, such as restriction digestion, are usually avoided in plant breeding because of the time required for sample preparation before the polymorphism is detected [ 43 ]. Simple closed-tube assays are generally preferred, because they are easy to prepare and quickly assayed with little risk of cross-contamination.…”

Section: Resultsmentioning

confidence: 99%

From Genes to Markers: Exploiting Gene Sequence Information to Develop Tools for Plant Breeding

Garcia

Mather

2014

Methods in Molecular Biology

View full text Add to dashboard Cite

Once the sequence is known for a gene of interest, it is usually possible to design markers to detect polymorphisms within the gene. Such markers can be particularly useful in plant breeding, especially if they detect the causal polymorphism within the gene and are diagnostic of the phenotype. In this chapter, we (1) discuss how gene sequences are obtained and aligned and how polymorphic sites can be identified or predicted; (2) explain the principles of PCR primer design and PCR amplification and provide guidelines for their application in the design and testing of markers; (3) discuss detection methods for presence/absence (dominant) polymorphisms, length polymorphisms and single nucleotide polymorphisms (SNPs); and (4) outline some of the factors that affect the utility of markers in plant breeding and explain how markers can be evaluated (validated) for use in plant breeding.

show abstract

Section: Resultsmentioning

confidence: 99%

From Genes to Markers: Exploiting Gene Sequence Information to Develop Tools for Plant Breeding

Garcia

Mather

2014

Methods in Molecular Biology

View full text Add to dashboard Cite

show abstract

“…However, the use of such markers as diagnostic tool for MAS in plant breeding has limitations because of false positives produced by genetic recombinations [34]. Genetic recombination between the marker and target locus impairs the transfer of marker information from experimental mapping population to unrelated breeding materials [35]. The random markers are derived at random from polymorphic sites in the genome and are developed independent of their relationship to any phenotypic characters.…”

Section: Functional Markers (Fms)mentioning

confidence: 99%

The Use of Molecular Marker Methods in Plants: A Review

2017

IJCRR

View full text Add to dashboard Cite

Different DNA markers have been utilized in the last few decades as important molecular tools in plants for genetic relation studies among individuals, hybrid and varietal identification, phylogenetic relationship among species, gene mapping and tracking quantitative trait loci. These markers can be broadly classified into hybridization and PCR based markers. Restriction fragment length polymorphism (RFLP) represents the hybridization based marker; while PCR dependent includes more reliable and advanced polymorphic markers like amplified fragment length polymorphism (AFLP), inter-simple sequence repeats (ISSR), single nucleotide polymorphism (SNP), sequence related amplified polymorphism (SRAP), start codon targeted (SCoT) and interprimer binding site (iPBS) among others. Functional markers (FMs) have also been developed from functionally characterised sequence motifs which are superior to random markers due to their complete linkage to trait locus alleles. With the advent of next generation sequencing (NGS) technology, excellent opportunities are offered for generating ample structural and functional genomic information in many important crops. The novel approach of genotyping-by-sequencing (GBS) employs NGS protocols for discovering and genotyping SNPs in many important crop genomes and populations. The present review focuses on the description of varied molecular markers, their methodologies, strengths and limitations as well as applications in plant breeding and genetic research.

show abstract

“…At present more than 30 SNP genotyping assays are available and each of them is having some merits as well as constraints (Gupta et al 2001. A critical comparison of a selected SNP genotyping assays has been made recently by Bagge and Lübberstedt (2008). Instead of discussing different kinds of assays in this article, some important and/or most commonly used SNP genotyping assays are discussed.…”

Section: Genotyping Assaysmentioning

confidence: 99%

“…As a result, lots of claims have been made about what great things genomics does, but very little has been put into application (Varshney and Tuberosa 2007). One reason for this is the reduced reliability of diagnostic value of linked markers due to genetic recombination between marker and target locus (Bagge and Lübberstedt 2008). Such recombination, majority of times, impairs transfer of marker information from experimental mapping population to unrelated breeding materials.…”

Section: Superiority Of Fms Over Traditional Markers In Masmentioning

confidence: 99%

“…For example, in case of rice, the cloning of the gene xa-5 underlying the bacterial blight resistance (Iyer and McCouch 2004) has made it possible to develop functional markers for xa5-mediated resistance (Iyer-Pascuzzi and McCouch 2007). Bagge et al (2007) and Bagge and Lübberstedt (2008) have recently summarized the current status on cloning of genes in wheat and their potential for functional marker development. A list of cloned genes in some major cereals like rice, wheat, barley and sorghum is available in Varshney et al (2006) that could be used to develop FMs.…”

Section: Superiority Of Fms Over Traditional Markers In Masmentioning

confidence: 99%

See 1 more Smart Citation

Gene-Based Marker Systems in Plants: High Throughput Approaches for Marker Discovery and Genotyping

Varshney

2009

Molecular Techniques in Crop Improvement

View full text Add to dashboard Cite

Development and application of molecular markers derived from genes, commonly called genic markers or sometimes functional markers, is gaining momentum in plant genetics and breeding. Availability of large amount of sequence data coming from genome/transcriptome sequencing projects as well as advent of next generation sequencing technologies together with advances in bioinformatics tools, marker discovery is becoming cheaper and faster. The availability of inexpensive high-density SNP-genotyping arrays is encouraging the plant genetics and breeding community to undertake genome-wide marker genotyping for a variety of applications. For instance, high-throughput and low cost genotyping assays for gene-based markers offers the possibility to accelerate the trait mapping based on high-density linkage mapping as well as genome-scanning based association mapping approaches in addition to facilitate physical mapping, comparative mapping, phylogenetic studies and understanding genome organization in crop plant species. Marker discovery, genotyping and molecular breeding practices would be routine in near future for crop improvement in many crop species. Advances in the area of marker discovery and genotyping using highly parallel genomics assays and also a few applications have been discussed in this chapter.

show abstract

Functional markers in wheat: technical and economic aspects

Cited by 32 publications

References 46 publications

From Genes to Markers: Exploiting Gene Sequence Information to Develop Tools for Plant Breeding

From Genes to Markers: Exploiting Gene Sequence Information to Develop Tools for Plant Breeding

The Use of Molecular Marker Methods in Plants: A Review

Gene-Based Marker Systems in Plants: High Throughput Approaches for Marker Discovery and Genotyping

Contact Info

Product

Resources

About