Advances In Statistical Methods For The Genetic Dissection Of Complex Traits In Plants
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Advances In Statistical Methods For The Genetic Dissection Of Complex Traits In Plants
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Author : Yuan-Ming Zhang
language : en
Publisher: Frontiers Media SA
Release Date : 2024-01-26
Advances In Statistical Methods For The Genetic Dissection Of Complex Traits In Plants written by Yuan-Ming Zhang and has been published by Frontiers Media SA this book supported file pdf, txt, epub, kindle and other format this book has been release on 2024-01-26 with Science categories.
Genome-wide association studies (GWAS) have been widely used in the genetic dissection of complex traits. However, there are still limits in current GWAS statistics. For example, (1) almost all the existing methods do not estimate additive and dominance effects in quantitative trait nucleotide (QTN) detection; (2) the methods for detecting QTN-by-environment interaction (QEI) are not straightforward and do not estimate additive and dominance effects as well as additive-by-environment and dominance-by-environment interaction effects, leading to unreliable results; and (3) no or too simple polygenic background controls have been employed in QTN-by-QTN interaction (QQI) detection. As a result, few studies of QEI and QQI for complex traits have been reported based on multiple-environment experiments. Recently, new statistical tools, including 3VmrMLM, have been developed to address these needs in GWAS. In 3VmrMLM, all the trait-associated effects, including QTN, QEI and QQI related effects, are compressed into a single effect-related vector, while all the polygenic backgrounds are compressed into a single polygenic effect matrix. These compressed parameters can be accurately and efficiently estimated through a unified mixed model analysis. To further validate these new GWAS methods, particularly 3VmrMLM, they should be rigorously tested in real data of various plants and a wide range of other species.
The Applications Of New Multi Locus Gwas Methodologies In The Genetic Dissection Of Complex Traits
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Author : Yuan-Ming Zhang
language : en
Publisher: Frontiers Media SA
Release Date : 2019-06-19
The Applications Of New Multi Locus Gwas Methodologies In The Genetic Dissection Of Complex Traits written by Yuan-Ming Zhang and has been published by Frontiers Media SA this book supported file pdf, txt, epub, kindle and other format this book has been release on 2019-06-19 with categories.
Genome-Wide Association Studies (GWAS) are widely used in the genetic dissection of complex traits. Most existing methods are based on single-marker association in genome-wide scans with population structure and polygenic background controls. To control the false positive rate, the Bonferroni correction for multiple tests is frequently adopted. This stringent correction results in the exclusion of important loci, especially for GWAS in crop genetics. To address this issue, multi-locus GWAS methodologies have been recommended, i.e., FASTmrEMMA, ISIS EM-BLASSO, mrMLM, FASTmrMLM, pLARmEB, pKWmEB and FarmCPU. In this Research Topic, our purpose is to clarify some important issues in the application of multi-locus GWAS methods. Here we discuss the following subjects: First, we discuss the advantages of new multi-locus GWAS methods over the widely-used single-locus GWAS methods in the genetic dissection of complex traits, metabolites and gene expression levels. Secondly, large experiment error in the field measurement of phenotypic values for complex traits in crop genetics results in relatively large P-values in GWAS, indicating the existence of small number of significantly associated SNPs. To solve this issue, a less stringent P-value critical value is often adopted, i.e., 0.001, 0.0001 and 1/m (m is the number of markers). Although lowering the stringency with which an association is made could identify more hits, confidence in these hits would significantly drop. In this Research Topic we propose a new threshold of significant QTN (LOD=3.0 or P-value=2.0e-4) in multi-locus GWAS to balance high power and low false positive rate. Thirdly, heritability missing in GWAS is a common phenomenon, and a series of scientists have explained the reasons why the heritability is missing. In this Research Topic, we also add one additional reason and propose the joint use of several GWAS methodologies to capture more QTNs. Thus, overall estimated heritability would be increased. Finally, we discuss how to select and use these multi-locus GWAS methods.
Molecular Dissection Of Complex Traits
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Author : Andrew H. Paterson
language : en
Publisher: CRC Press
Release Date : 2019-09-17
Molecular Dissection Of Complex Traits written by Andrew H. Paterson and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2019-09-17 with Science categories.
In the past 10 years, contemporary geneticists using new molecular tools have been able to resolve complex traits into individual genetic components and describe each such component in detail. Molecular Dissection of Complex Traits summarizes the state of the art in molecular analysis of complex traits (QTL mapping), placing new developments in thi
Genetic Dissection Of Complex Traits
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Author : Dabeeru C. Rao
language : en
Publisher:
Release Date : 2001
Genetic Dissection Of Complex Traits written by Dabeeru C. Rao and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 2001 with Gene mapping categories.
Molecular Dissection Of Complex Traits
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Author : Andrew H. Paterson
language : en
Publisher: CRC Press
Release Date : 2019-09-17
Molecular Dissection Of Complex Traits written by Andrew H. Paterson and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2019-09-17 with Science categories.
In the past 10 years, contemporary geneticists using new molecular tools have been able to resolve complex traits into individual genetic components and describe each such component in detail. Molecular Dissection of Complex Traits summarizes the state of the art in molecular analysis of complex traits (QTL mapping), placing new developments in thi
Plant Genetics And Molecular Biology
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Author : Rajeev K. Varshney
language : en
Publisher: Springer
Release Date : 2018-09-04
Plant Genetics And Molecular Biology written by Rajeev K. Varshney and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2018-09-04 with Science categories.
This book reviews the latest advances in multiple fields of plant biotechnology and the opportunities that plant genetics, genomics and molecular biology have offered for agriculture improvement. Advanced technologies can dramatically enhance our capacity in understanding the molecular basis of traits and utilizing the available resources for accelerated development of high yielding, nutritious, input-use efficient and climate-smart crop varieties. In this book, readers will discover the significant advances in plant genetics, structural and functional genomics, trait and gene discovery, transcriptomics, proteomics, metabolomics, epigenomics, nanotechnology and analytical & decision support tools in breeding. This book appeals to researchers, academics and other stakeholders of global agriculture.
Advanced Crop Improvement Volume 2
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Author : Aamir Raina
language : en
Publisher: Springer Nature
Release Date : 2023-10-12
Advanced Crop Improvement Volume 2 written by Aamir Raina and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2023-10-12 with Science categories.
As per the reports of FAO, the human population will rise to 9 billion by the end of 2050 and 70% of more food must be produced over the next three decades to feed the additional population. The breeding approaches for crop improvement programs are dependent on the availability and accessibility of genetic variation, either spontaneous or induced by the mutagens. Plant breeders, agronomists, and geneticists are under constant pressure to expand food production by employing innovative breeding strategies to enhance yield, adaptability, nutrition, resistance to biotic and abiotic stresses. In conventional breeding approaches, introgression of genes in crop varieties is laborious and time-consuming. Nowadays, new innovative plant breeding techniques such as molecular breeding and plant biotechnology, supplement the traditional breeding approaches to achieve the desired goals of enhanced food production. With the advent of recent molecular tools like genomics, transgenics, molecular marker-assisted back-crossing, TILLING, Eco-TILLING, gene editing, CRISPR CAS, non-targeted protein abundant comparative proteomics, genome wide association studies have made possible mapping of important QTLs, insertion of transgenes, reduction of linkage drags, and manipulation of genome. In general, conventional and modern plant breeding approaches would be strategically ideal for developing new elite crop varieties to meet the feeding requirement of the increasing world population. This book highlights the latest progress in the field of plant breeding, and their applicability in crop improvement. The basic concept of this 2-volume work is to assess the use of modern breeding strategies in supplementing the conventional breeding toward the development of elite crop varieties, for obtaining desired goals of food production.
Handbook Of Statistical Genomics
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Author : David J. Balding
language : en
Publisher: John Wiley & Sons
Release Date : 2019-07-09
Handbook Of Statistical Genomics written by David J. Balding and has been published by John Wiley & Sons this book supported file pdf, txt, epub, kindle and other format this book has been release on 2019-07-09 with Science categories.
A timely update of a highly popular handbook on statistical genomics This new, two-volume edition of a classic text provides a thorough introduction to statistical genomics, a vital resource for advanced graduate students, early-career researchers and new entrants to the field. It introduces new and updated information on developments that have occurred since the 3rd edition. Widely regarded as the reference work in the field, it features new chapters focusing on statistical aspects of data generated by new sequencing technologies, including sequence-based functional assays. It expands on previous coverage of the many processes between genotype and phenotype, including gene expression and epigenetics, as well as metabolomics. It also examines population genetics and evolutionary models and inference, with new chapters on the multi-species coalescent, admixture and ancient DNA, as well as genetic association studies including causal analyses and variant interpretation. The Handbook of Statistical Genomics focuses on explaining the main ideas, analysis methods and algorithms, citing key recent and historic literature for further details and references. It also includes a glossary of terms, acronyms and abbreviations, and features extensive cross-referencing between chapters, tying the different areas together. With heavy use of up-to-date examples and references to web-based resources, this continues to be a must-have reference in a vital area of research. Provides much-needed, timely coverage of new developments in this expanding area of study Numerous, brand new chapters, for example covering bacterial genomics, microbiome and metagenomics Detailed coverage of application areas, with chapters on plant breeding, conservation and forensic genetics Extensive coverage of human genetic epidemiology, including ethical aspects Edited by one of the leading experts in the field along with rising stars as his co-editors Chapter authors are world-renowned experts in the field, and newly emerging leaders. The Handbook of Statistical Genomics is an excellent introductory text for advanced graduate students and early-career researchers involved in statistical genetics.
Genetic Dissection Of Complex Traits
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Author : D.C. Rao
language : en
Publisher: Academic Press
Release Date : 2008-04-23
Genetic Dissection Of Complex Traits written by D.C. Rao and has been published by Academic Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2008-04-23 with Science categories.
The field of genetics is rapidly evolving and new medical breakthroughs are occuring as a result of advances in knowledge of genetics. This series continually publishes important reviews of the broadest interest to geneticists and their colleagues in affiliated disciplines. * Five sections on the latest advances in complex traits * Methods for testing with ethical, legal, and social implications * Hot topics include discussions on systems biology approach to drug discovery; using comparative genomics for detecting human disease genes; computationally intensive challenges, and more
Meeting The Challenges Of Global Climate Change And Food Security Through Innovative Maize Research Proceedings Of The National Maize Workshop Of Ethiopia 3 Addis Ababa Ethiopia 18 20 April 2011
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Author :
language : en
Publisher: CIMMYT
Release Date :
Meeting The Challenges Of Global Climate Change And Food Security Through Innovative Maize Research Proceedings Of The National Maize Workshop Of Ethiopia 3 Addis Ababa Ethiopia 18 20 April 2011 written by and has been published by CIMMYT this book supported file pdf, txt, epub, kindle and other format this book has been release on with categories.