An introduction to markers, quantitative trait loci (QTL) mapping and marker-assisted selection for crop improvement: The basic concepts

By B. Collard, M. Z. Z. Jahufer, J. Brouwer, E. Pang. Euphytica, 2005

1,733 citations recorded by the source corpus.

Recognizing the enormous potential of DNA markers in plant breeding, many agricultural research centers and plant breeding institutes have adopted the capacity for marker development and marker-assisted selection (MAS). However, due to rapid developments in marker technology, statistical methodology for identifying quantitative trait loci (QTLs) and the jargon used by molecular biologists, the utility of DNA markers in plant breeding may not be clearly understood by non-molecular biologists. This review provides an introduction to DNA markers and the concept of polymorphism, linkage analysis and map construction, the principles of QTL analysis and how markers may be applied in breeding programs using MAS. This review has been specifically written for readers who have only a basic knowledge of molecular biology and/or plant genetics. Its format is therefore ideal for conventional plant breeders, physiologists, pathologists, other plant scientists and students.

Subfields: Genetics, Plant Science

View Paper: https://www.semanticscholar.org/paper/ab5b86d33fd71ca838139387d60eeb2fa635c1fb

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Genetics

1. G. Jiang
2. Yunbi Xu
3. K. Semagn
4. Å. Bjornstad
5. F. Işık
6. S. Mitchell
7. D. Mackill
8. Stephen Kresovich

In Plant Science

1. G. Jiang
2. Yunbi Xu
3. K. Semagn
4. Å. Bjornstad
5. F. Işık
6. D. Mackill
7. B. Collard
8. A. Börner

Citations in the corpus

• Plant Genetic Resources Conservation and Utilization: The Accomplishments and Future of a Societal Insurance Policy (2006, background): “These have been reviewed before (e.g., Hamrick and Godt, 1997; Avise, 2004; Collard et al., 2005; Spooner et al., 2005; Mohammadi and Prasanna, 2003; Schlötterer, 2004; Weising et al., 2005).”
• Genetic linkage maps of Populus nigra L. including AFLPs, SSRs, SNPs, and sex trait (2007, background): “DNA markers that are tightly linked to agronomic and adaptive important genes may be used as molecular tools for marker-assisted selection (MAS) in plant breeding (Mohan et al. 1997; Collard et al. 2005).”
• Marker-assisted selection: an approach for precision plant breeding in the twenty-first century (2008, background): “These concepts and the jargon used by molecular biologists may not be clearly understood by plant breeders and other plant scientists (Collard et al. 2005).”
• EST-derived SSR markers in Jatropha curcas L.: development, characterization, polymorphism, and transferability across the species/genera (2011, background): “…be facilitated by developing DNA-based markers such as SSRs and their applications to estimate the level of genetic diversity and construction of framework linkage map and for association and QTL mapping for tagging the target traits (Varshney et al. 2005a; Gupta and Roy 2002; Collard et al. 2005).”
• Identification of QTLs for pod and kernel traits in cultivated peanut by bulked segregant analysis (2009, background): “According to Collard et al. (2005), QTLs accounting for more than 10% of phenotypic variation (R2) are major QTLs.”
• Importance of Genetic Diversity Assessment in Crop Plants and Its Recent Advances: An Overview of Its Analytical Perspectives (2015, background): “However, RFLPs are highly expensive, time consuming, labour intensive, larger amounts of DNA required, limited polymorphism especially in closely related lines [34].”
• Genetic mapping within the wheat D genome reveals QTL for germination, seed vigour and longevity, and early seedling growth (2009, background): “Along with a strong influence of the germination and subsequent growth environment, the genetic dissection of these traits is expected to require a quantitative trait locus (QTL)-based approach, in which linkage maps are combined with phenotypic data (Collard et al. 2005).”
• Genomic selection in forest tree breeding: the concept and an outlook to the future (2014, background): “High-resolution QTL mapping (at least \5 cM away from gene) was suggested to develop reliable markers for MAS (Collard et al. 2005).”
• Revisiting rice breeding methods – evaluating the use of rapid generation advance (RGA) for routine rice breeding (2017, background): “These populations are ideal for QTL mapping because they are genetically homozygous and seed can be multiplied in large amounts permitting phenotyping for many traits over many years (Collard et al., 2005).”
• Evolution of plant materials for ecological restoration: insights from the applied and basic literature (2017, background): “In recent decades, molecular and quantitative genetic techniques have been merged to answer basic evolutionary questions in native species (reviewed in Wu et al. 2008) and assist with the goals of applied sciences, such as crop improvement (reviewed in Collard et al. 2005).”
• SSR-based linkage map of flax (Linum usitatissimum L.) and mapping of QTLs underlying fatty acid composition traits (2011, methodology): “PCR markers generated with conserved flanking regions of the SSRs are preferred in linkage mapping, gene tagging and QTL studies, because of their abundance, genome-wide distribution, codominant nature and transferability to related species (Collard et al. 2005; Varshney et al. 2005).”
• Phenotypic and genotypic analysis of drought-resistance traits for development of rice cultivars adapted to rainfed environments (2008, background): “The cost of MAS will further decrease as new genotyping platforms, such as single nucleotide polymorphism (SNP) markers, become available (Collard et al., 2005).”
• Gene Pyramiding for Sustainable Crop Improvement against Biotic and Abiotic Stresses (2020, background): “It is undesirable for recombination with higher distance between a maker and a major gene [155-157].”
• The genetic dissection of quantitative traits in crops (2010, background): “…regions using molecular markers resulted in extensive QTL mapping experiments in most economically important crops, aiming at the development of molecular markers for marker assisted selection (Xu, 1998; Collard et al. 2005; Semagn et al. 2006a; Xu, 2010) and QTL cloning (Salvi and Tuberosa, 2005).”
• DNA molecular markers in plant breeding: current status and recent advancements in genomic selection and genome editing (2018, background): “Genetic markers are closely related with the target gene and they act as sign or flags [4].”