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M. Z. Z. Jahufer

Bio: M. Z. Z. Jahufer is an academic researcher from AgResearch. The author has contributed to research in topics: Family-based QTL mapping & Marker-assisted selection. The author has an hindex of 2, co-authored 2 publications receiving 1419 citations.

Papers
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Journal ArticleDOI
TL;DR: 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.
Abstract: 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.

1,588 citations

Journal ArticleDOI
TL;DR: Trait associations and cluster analysis identified HS families that could be used for developing enhanced persistence in perennial ryegrass populations generated from “Persistent” plants and commercially bought seed of “Original” cultivars Grasslands Samson and Commando.
Abstract: Perennial ryegrass (Lolium perenne L.) provides a cost-effective forage species for New Zealand farms. Vegetative persistence (maintained herbage growth and survival without reseeding) is an important trait for decreasing costs of pasture establishment. Breeding for vegetative persistence is difficult because of a deficiency of long-term trials to observe the complex interactions between plant genotype and environment. Over time in a long-term trial, a shift in the genetic mean of a cultivar could occur as plants with genetically enhanced persistence traits survive. This study aimed to identify a shift in the genetic mean of two cultivars sown in a long-term trial in Hawkes Bay, New Zealand. Plots of 1 m rows were assessed in a trial for 13 months to compare changes in additive genetic variation ($$\upsigma_{\text{a}}^{2}$$), narrow-sense heritability ($${\text{h}}_{\text{n}}^{2}$$), and trait associations of half-sib (HS) populations generated from “Persistent” plants and commercially bought seed of “Original” cultivars Grasslands Samson and Commando. Significant (P < 0.05) $$\upsigma_{\text{a}}^{2}$$ and high levels of $${\text{h}}_{\text{n}}^{2}$$ for some populations were identified for scores of herbage growth, leaf width, plant habit and aftermath heading. This study found genetic shifts over time were cultivar specific. Traits that were different between Persistent and Original populations were previously associated with decreased pasture intake. Trait associations and cluster analysis identified HS families that could be used for developing enhanced persistence.

5 citations


Cited by
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29 Jan 2015
TL;DR: The current state of the genetic dissection of complex traits is summarized in this paper, which describes the methods, limitations, and recent applications to biological problems, including linkage analysis, allele-sharing methods, association studies, and polygenic analysis of experimental crosses.
Abstract: Medical genetics was revolutionized during the 1980s by the application of genetic mapping to locate the genes responsible for simple Mendelian diseases. Most diseases and traits, however, do not follow simple inheritance patterns. Geneticists have thus begun taking up the even greater challenge of the genetic dissection of complex traits. Four major approaches have been developed: linkage analysis, allele-sharing methods, association studies, and polygenic analysis of experimental crosses. This article synthesizes the current state of the genetic dissection of complex traits—describing the methods, limitations, and recent applications to biological problems.

1,805 citations

Journal ArticleDOI
TL;DR: An overview of the advantages of MAS and its most widely used applications in plant breeding, providing examples from cereal crops and ways in which the potential of MAS can be realized are suggested.
Abstract: DNA markers have enormous potential to improve the efficiency and precision of conventional plant breeding via marker-assisted selection (MAS). The large number of quantitative trait loci (QTLs) mapping studies for diverse crops species have provided an abundance of DNA marker–trait associations. In this review, we present an overview of the advantages of MAS and its most widely used applications in plant breeding, providing examples from cereal crops. We also consider reasons why MAS has had only a small impact on plant breeding so far and suggest ways in which the potential of MAS can be realized. Finally, we discuss reasons why the greater adoption of MAS in the future is inevitable, although the extent of its use will depend on available resources, especially for orphan crops, and may be delayed in less-developed countries. Achieving a substantial impact on crop improvement by MAS represents the great challenge for agricultural scientists in the next few decades.

1,736 citations

Journal ArticleDOI
TL;DR: Fundamental issues remain to be resolved, particularly regarding complex traits, before marker-assisted selection realizes its full potential in public sector breeding programs, including the development of high throughput precision phenotyping systems for QTL mapping, improved understanding of genotype by environment interaction and epistasis, and development of publicly available computational tools tailored to the needs of molecular breeding programs.
Abstract: The volume of publications on the development and to a lesser extent the application of molecular markers in plant breeding has increased dramatically during the last decade. However, most of the publications result from investments from donors with a strategic science quality or biotech advocacy mandate leading to insufficient emphasis on applied value in plant breeding. Converting promising publications into practical applications requires the resolution of many logistical and genetical constraints that are rarely addressed in journal publications. This results in a high proportion of published markers failing at one or more of the translation steps from research arena to application domain. The rate of success is likely to increase due to developments in gene-based marker development, more efficient quantitative trait locus (QTL) mapping procedures, and lower cost genotyping systems. However, some fundamental issues remain to be resolved, particularly regarding complex traits, before marker-assisted selection realizes its full potential in public sector breeding programs. These include the development of high throughput precision phenotyping systems for QTL mapping, improved understanding of genotype by environment interaction and epistasis, and development of publicly available computational tools tailored to the needs of molecular breeding programs.

809 citations

Journal ArticleDOI
TL;DR: It is proposed that this method could be used in conjunction with RAPD markers for applications such as genetic analysis, bulked segregant analysis, and quantitative trait loci mapping, especially in laboratories with a preference for agarose gel electrophoresis.
Abstract: Random amplified polymorphic DNA (RAPD) markers have been used for numerous applications in plant molecular genetics research despite having disadvantages of poor reproducibility and not generally being associated with gene regions. A novel method for generating plant DNA markers was developed based on the short conserved region flanking the ATG start codon in plant genes. This method uses single 18-mer primers in single primer polymerase chain reaction (PCR) and an annealing temperature of 50°C. PCR amplicons are resolved using standard agarose gel electrophoresis. This method was validated in rice using a genetically diverse set of genotypes and a backcross population. Reproducibility was evaluated by using duplicate samples and conducting PCR on different days. Start codon targeted (SCoT) markers were generally reproducible but exceptions indicated that primer length and annealing temperature are not the sole factors determining reproducibility. SCoT marker PCR amplification profiles indicated dominant marker like RAPD markers. We propose that this method could be used in conjunction with these markers for applications such as genetic analysis, bulked segregant analysis, and quantitative trait loci mapping, especially in laboratories with a preference for agarose gel electrophoresis.

589 citations

Journal ArticleDOI
TL;DR: This paper comprehensively reviews the significance of plant genetic diversity (PGD) and PGR especially on agriculturally important crops; risk associated with narrowing the genetic base of current commercial cultivars and climate change; analysis of existing PGD analytical methods in pregenomic and genomic era; and modern tools available for PGD analysis in postgenomic era.
Abstract: The importance of plant genetic diversity (PGD) is now being recognized as a specific area since exploding population with urbanization and decreasing cultivable lands are the critical factors contributing to food insecurity in developing world. Agricultural scientists realized that PGD can be captured and stored in the form of plant genetic resources (PGR) such as gene bank, DNA library, and so forth, in the biorepository which preserve genetic material for long period. However, conserved PGR must be utilized for crop improvement in order to meet future global challenges in relation to food and nutritional security. This paper comprehensively reviews four important areas; (i) the significance of plant genetic diversity (PGD) and PGR especially on agriculturally important crops (mostly field crops); (ii) risk associated with narrowing the genetic base of current commercial cultivars and climate change; (iii) analysis of existing PGD analytical methods in pregenomic and genomic era; and (iv) modern tools available for PGD analysis in postgenomic era. This discussion benefits the plant scientist community in order to use the new methods and technology for better and rapid assessment, for utilization of germplasm from gene banks to their applied breeding programs. With the advent of new biotechnological techniques, this process of genetic manipulation is now being accelerated and carried out with more precision (neglecting environmental effects) and fast-track manner than the classical breeding techniques. It is also to note that gene banks look into several issues in order to improve levels of germplasm distribution and its utilization, duplication of plant identity, and access to database, for prebreeding activities. Since plant breeding research and cultivar development are integral components of improving food production, therefore, availability of and access to diverse genetic sources will ensure that the global food production network becomes more sustainable. The pros and cons of the basic and advanced statistical tools available for measuring genetic diversity are briefly discussed and their source links (mostly) were provided to get easy access; thus, it improves the understanding of tools and its practical applicability to the researchers.

542 citations