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Modelling Of Genotype By Environment Interaction And Prediction Of Complex Traits Across Multiple Environments As A Synthesis Of Crop Growth Modelling Genetics And Statistics
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Book Synopsis Modelling of Genotype by Environment Interaction and Prediction of Complex Traits Across Multiple Environments as a Synthesis of Crop Growth Modelling, Genetics and Statistics by :
Download or read book Modelling of Genotype by Environment Interaction and Prediction of Complex Traits Across Multiple Environments as a Synthesis of Crop Growth Modelling, Genetics and Statistics written by and published by . This book was released on 2017 with total page 340 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Genotype X Environment Interactions by : Paolo Annicchiarico
Download or read book Genotype X Environment Interactions written by Paolo Annicchiarico and published by Food & Agriculture Org.. This book was released on 2002 with total page 136 pages. Available in PDF, EPUB and Kindle. Book excerpt: The projected increase in world population levels and the subsequent rise in food demand represents a huge challenge for agricultural production systems worldwide. This publication examines the opportunities and challenges raised by the use of plant genetic resources and highlights the contribution that data from multi-environment yield trials can provide for the definition of adaptation strategies and yield stability targets in plant breeding programmes. It contains a case study about a durum wheat crop programme in Algeria, and also includes a CD-ROM with data from IRRISTAT, a programme developed by the International Rice Research Institute (IRRI).
Book Synopsis Handbook of Statistical Genomics by : David J. Balding
Download or read book Handbook of Statistical Genomics written by David J. Balding and published by John Wiley & Sons. This book was released on 2019-07-09 with total page 1828 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.
Book Synopsis High-Throughput Field Phenotyping to Advance Precision Agriculture and Enhance Genetic Gain by : Urs Schmidhalter
Download or read book High-Throughput Field Phenotyping to Advance Precision Agriculture and Enhance Genetic Gain written by Urs Schmidhalter and published by Frontiers Media SA. This book was released on 2021-08-10 with total page 399 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Crop Systems Biology by : Xinyou Yin
Download or read book Crop Systems Biology written by Xinyou Yin and published by Springer. This book was released on 2015-11-11 with total page 241 pages. Available in PDF, EPUB and Kindle. Book excerpt: The sequencing of genomes has been completed for an increasing number of crop species, and researchers have now succeeded in isolating and characterising many important QTLs/genes. High expectations from genomics, however, are waving back toward the recognition that crop physiology is also important for realistic improvement of crop productivity. Complex processes and networks along various hierarchical levels of crop growth and development can be thoroughly understood with the help of their mathematical description – modelling. The further practical application of these understandings also requires quantitative predictions. In order to better support design, engineering and breeding for new crops and cultivars for improving agricultural production under global warming and climate change, there is an increasing call for an interdisciplinary research approach, which combines modern genetics and genomics, traditional physiology and biochemistry, and advanced bioinformatics and modelling. Such an interdisciplinary approach has been practised in various research groups for many years. However, it does not seem to be fully covered in the format of book publications. We want to initiate a book project on crop systems biology - narrowing the gaps between genotypes and phenotypes and the gaps between crop modelling and genetics/genomics, for publication in 2013/2014. The book will be meant for those scientists and graduate students from fundamental plant biology and applied crop science who are interested in bridging the gap between these two fields. We have invited a group of scientists (who have very good track records in publishing excellent papers in this field or in a closely related area) to contribute chapters to this new book, and they have agreed to do so.
Book Synopsis Quantitative Genetics, Genomics and Plant Breeding, 2nd Edition by : Manjit S. Kang
Download or read book Quantitative Genetics, Genomics and Plant Breeding, 2nd Edition written by Manjit S. Kang and published by CABI. This book was released on 2020-04-01 with total page 433 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents state-of-the-art, authoritative chapters on contemporary issues in the broad areas of quantitative genetics, genomics and plant breeding. Section 1 (Chapters 2 to 12) emphasizes the application of genomics, and genome and epigenome editing techniques, in plant breeding; bioinformatics; quantitative trait loci mapping; and the latest approaches of examining and exploiting genotype-environment interactions. Section 2 (Chapters 13 to 20) represents the intersection of breeding, genetics and genomics. This section describes the use of cutting-edge molecular breeding and quantitative genetics techniques in wheat, rice, maize, root and tuber crops and pearl millet. Overall, the book focuses on using genomic information to help evaluate traits that can combat biotic/abiotic stresses, genome-wide association mapping, high-throughput genotyping/phenotyping, biofortification, use of big data, orphan crops, and gene editing techniques. The examples featured are taken from across crop science research and cover a wide geographical base.
Book Synopsis Accelerated Plant Breeding, Volume 1 by : Satbir Singh Gosal
Download or read book Accelerated Plant Breeding, Volume 1 written by Satbir Singh Gosal and published by Springer Nature. This book was released on 2020-05-23 with total page 455 pages. Available in PDF, EPUB and Kindle. Book excerpt: Plant improvement has shifted its focus from yield, quality and disease resistance to factors that will enhance commerical export, such as early maturity, shelf life and better processing quality. Conventional plant breeding methods aiming at the improvement of a self-pollinating crop, such as wheat, usually take 10-12 years to develop and release of the new variety. During the past 10 years, significant advances have been made and accelerated methods have been developed for precision breeding and early release of crop varieties. This work summarizes concepts dealing with germplasm enhancement and development of improved varieties based on innovative methodologies that include doubled haploidy, marker assisted selection, marker assisted background selection, genetic mapping, genomic selection, high-throughput genotyping, high-throughput phenotyping, mutation breeding, reverse breeding, transgenic breeding, shuttle breeding, speed breeding, low cost high-throughput field phenotyping, etc. It is an important reference with special focus on accelerated development of improved crop varieties.
Book Synopsis The Maize Genome by : Jeffrey Bennetzen
Download or read book The Maize Genome written by Jeffrey Bennetzen and published by Springer. This book was released on 2018-11-24 with total page 390 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book discusses advances in our understanding of the structure and function of the maize genome since publication of the original B73 reference genome in 2009, and the progress in translating this knowledge into basic biology and trait improvement. Maize is an extremely important crop, providing a large proportion of the world’s human caloric intake and animal feed, and serving as a model species for basic and applied research. The exceptionally high level of genetic diversity within maize presents opportunities and challenges in all aspects of maize genetics, from sequencing and genotyping to linking genotypes to phenotypes. Topics covered in this timely book range from (i) genome sequencing and genotyping techniques, (ii) genome features such as centromeres and epigenetic regulation, (iii) tools and resources available for trait genomics, to (iv) applications of allele mining and genomics-assisted breeding. This book is a valuable resource for researchers and students interested in maize genetics and genomics.
Book Synopsis Genomic Selection in Plants by : Ani A. Elias
Download or read book Genomic Selection in Plants written by Ani A. Elias and published by CRC Press. This book was released on 2022-08-18 with total page 265 pages. Available in PDF, EPUB and Kindle. Book excerpt: Genomic selection (GS) is a promising tool in the field of breeding especially in the era where genomic data is becoming cheaper. The potential of this tool has not been realized due to its limited adaptation in various crops. Marker Assisted Selection (MAS) has been the method of choice for plant breeders while using the genomic information in the breeding pipeline. MAS, however, fails to capture vital minor gene effects while focusing only on the major genes, which is not ideal for breeding advancement especially for quantitative traits such as yield. The main aim of statistical methodologies coming under the umbrella of GS on using the whole genome information is to predict potential candidates for breeding advancement while optimizing the use of resources such as land, manpower, and most importantly time. Lack of proper understanding of the methods and their applications is one of the reasons why breeders shy away from this tool. The book is meant for biologists, especially breeders, and provides a comprehensive idea of the statistical methodologies used in GS, guidance on the choice of models, and design of datasets. The book also encourages the readers to adopt GS by demonstrating the current scenarios of these models in some of the important crops among oilseeds, vegetables, legumes, tuber crops, and cereals. For ease of implementation of GS, the book also provides hands-on scripts on GS data design and modeling in a popular open-source statistical program. Additionally, prospective in GS model development and thereby enhancement in crop improvement programs is discussed.
Book Synopsis Plant Speed Breeding and High-throughput Technologies by : Jen-Tsung Chen
Download or read book Plant Speed Breeding and High-throughput Technologies written by Jen-Tsung Chen and published by CRC Press. This book was released on 2024-08-26 with total page 410 pages. Available in PDF, EPUB and Kindle. Book excerpt: The research field of “plant speed breeding" is promising to meet the future demand for crop improvement in an efficient and effective manner. The process accelerates breeding and research programs through the shortening of the generation time of crops. Plant Speed Breeding and High-Throughput Technologies explores and analyzes a range of innovations from CRISPR/Cas9-based genome editing to state-of-the-art controlled-environment growth chambers. The book integrates achievements of plant speed breeding technologies with an emphasis on the fundamental and advanced systems for genome editing, functional genomics, controlled-environment growth chambers, genomic and phenotypic selection methods, and high-throughput technologies. It examines the applications of technologies across major model plants and key crops such as cereals, vegetables, and fruit trees. The book explores high-throughput genotyping using next-generation sequencing systems, enabling precise single nucleotide polymorphism markers, quantitative trait loci mapping, and genome-wide association studies . These tools are used in identifying candidate genes that will revolutionize crop breeding, as they are capable of tolerating complex abiotic and biotic stresses induced by global climate change. Serving as an ideal reference on plant speed breeding technologies, this book is for graduate students, teachers, researchers, and experts in the fields of plant sciences and plant breeding as well as agronomy and agriculture.
Book Synopsis Climate Change and Agriculture by : Noureddine Benkeblia
Download or read book Climate Change and Agriculture written by Noureddine Benkeblia and published by John Wiley & Sons. This book was released on 2022-10-11 with total page 500 pages. Available in PDF, EPUB and Kindle. Book excerpt: Climate Change and Agriculture Authoritative and comprehensive resource covering climate-smart agriculture with key insights into its implementation Climate Change and Agriculture provides a complete overview of the development of sustainable agroecosystems and cropping systems and details how to improve the resilience of cultivated crops and cropping systems to the adverse conditions of the climate, such as drought, increasing levels of carbon dioxide, global warming, and many other secondary effects such as soils fertility depletion, uncommon disease, and pests. Additionally, the text suggests different agricultural practices to face the severity of frequency of the natural events. Climate Change and Agriculture also delves into the different climate-resilient methods and climate-smarter agriculture (CSA) for food production by building healthier soils through different sustainable practices, redesigning diverse agroecosystems, and developing new crop varieties, livestock breeds, and farm practices. Insight into how modern technology has affected the field, and how it may affect the field in the future, is included. Other topics discussed in Climate Change and Agriculture include: Climate change and agriculture (state of the art, challenges, and perspectives), plus studies on crop yields and their extreme value analysis over India Symbiosis for food security and sustainability in changing climate and emerging issues related to conservation agriculture in Africa The role of periurban agriculture in sustainability and climate change, with additional information on nutrient management in agro-ecosystems Soil fertility management and biofertilization in changing climate and biochar mitigating abiotic stress-induced damages under changing climate For academics and students; seed, fertilizer, and chemical producers; farmers and farming communities; and policy makers, Climate Change and Agriculture contains invaluable insights into the subject that are helpful in understanding the current state of the field and preparing for potential future developments.
Book Synopsis Advances in Wheat Genetics: From Genome to Field by : Yasunari Ogihara
Download or read book Advances in Wheat Genetics: From Genome to Field written by Yasunari Ogihara and published by Springer. This book was released on 2015-09-15 with total page 421 pages. Available in PDF, EPUB and Kindle. Book excerpt: This proceedings is a collection of 46 selected papers that were presented at the 12th International Wheat Genetics Symposium (IWGS). Since the launch of the wheat genome sequencing project in 2005, the arrival of draft genome sequences has marked a new era in wheat genetics and genomics, catalyzing rapid advancement in the field. This book provides a comprehensive review of the forefront of wheat research, across various important topics such as germplasm and genetic diversity, cytogenetics and allopolyploid evolution, genome sequencing, structural and functional genomics, gene function and molecular biology, biotic stress, abiotic stress, grain quality, and classical and molecular breeding. Following an introduction, 9 parts of the book are dedicated to each of these topics. A final, 11th part entitled “Toward Sustainable Wheat Production” contains 7 excellent papers that were presented in the 12th IWGS Special Session supported by the OECD. With rapid population growth and radical climate changes, the world faces a global food crisis and is in need of another Green Revolution to boost yields of wheat and other widely grown staple crops. Although this book focuses on wheat, many of the newly developed techniques and results presented here can be applied to other plant species with large and complex genomes. As such, this volume is highly recommended for all students and researchers in wheat sciences and related plant sciences and for those who are interested in stable food production and food security.
Book Synopsis Some Methods for Analyzing Multi-trait Genotype-by-environment Interactions by : Muhammad Yaseen
Download or read book Some Methods for Analyzing Multi-trait Genotype-by-environment Interactions written by Muhammad Yaseen and published by . This book was released on 2012 with total page 156 pages. Available in PDF, EPUB and Kindle. Book excerpt: Modeling complex interactions involving multiple response variables is a difficult problem. Response variables are often correlated with each other, have causal relationships and are influenced by factor main effects, interactions and covariates. When analyzing these types of data, the covariance(s) and causal structure among the traits and the random structure due to factor and/or the experimental design should be taken into consideration. Ignoring anyone or more of them, during the analysis process, can limit the scope of the analysis and reduce the inference space. Modeling both causal structure and random structure is difficult and either totally ignored or estimated via Bayesian methods. Use of a classical mixed model framework has been avoided since causal modeling is often considered too complex. We propose a simple modification to the classical causal model that allows using restricted maximum likelihood (REML) to estimate both causal and random structures. We call this model a linear system with random effects (LSRE) and we show it has good statistical properties in that the estimates are consistent and asymptotically normal. The LSRE model is a special form of the multivariate linear mixed model that can be fitted with methods for multivariate linear mixed models using the modified Cholesky decomposition. The proposed model can account for complex covariance structures due to random effects and/or the experimental design and can fit recursive causal structures among the traits simultaneously. This model also allows incorporation of any correlation structure among the observations. This model can be used to produce BLUPs that when used with other methods, e.g. Tucker's three mode decomposition, give increased explanatory power compared to traditional fixed effects methods. Tucker's three mode decomposition breaks down the three-way interaction into a smaller number of multiplicative terms with the presumption that most of the three-way interaction can be explained by the first few meaningful components of each mode. BLUPs shrink towards their means and therefore, the predictors are smoother than means obtained using fixed effects approaches and has additional advantage over the means approaches when data are unbalanced or missing.^ The LSRE model was implemented on simulated data and a real wheat genetics data set. The analysis on simulated data gave results very close to the true parameters. The results obtained from real data set made biological sense and provided a clearer understanding than traditional methods for the analysis of genotype-by-environment interaction in wheat.
Book Synopsis Crop Physiology Case Histories for Major Crops by : Victor Sadras
Download or read book Crop Physiology Case Histories for Major Crops written by Victor Sadras and published by Academic Press. This book was released on 2020-12-05 with total page 780 pages. Available in PDF, EPUB and Kindle. Book excerpt: Crop Physiology: Case Histories of Major Crops updates the physiology of broad-acre crops with a focus on the genetic, environmental and management drivers of development, capture and efficiency in the use of radiation, water and nutrients, the formation of yield and aspects of quality. These physiological process are presented in a double context of challenges and solutions. The challenges to increase plant-based food, fodder, fiber and energy against the backdrop of population increase, climate change, dietary choices and declining public funding for research and development in agriculture are unprecedented and urgent. The proximal technological solutions to these challenges are genetic improvement and agronomy. Hence, the premise of the book is that crop physiology is most valuable when it engages meaningfully with breeding and agronomy. With contributions from 92 leading scientists from around the world, each chapter deals with a crop: maize, rice, wheat, barley, sorghum and oat; quinoa; soybean, field pea, chickpea, peanut, common bean, lentil, lupin and faba bean; sunflower and canola; potato, cassava, sugar beet and sugarcane; and cotton. A crop-based approach to crop physiology in a G x E x M context Captures the perspectives of global experts on 22 crops
Book Synopsis Genetic Data Analysis for Plant and Animal Breeding by : Fikret Isik
Download or read book Genetic Data Analysis for Plant and Animal Breeding written by Fikret Isik and published by Springer. This book was released on 2017-09-09 with total page 409 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book fills the gap between textbooks of quantitative genetic theory, and software manuals that provide details on analytical methods but little context or perspective on which methods may be most appropriate for a particular application. Accordingly this book is composed of two sections. The first section (Chapters 1 to 8) covers topics of classical phenotypic data analysis for prediction of breeding values in animal and plant breeding programs. In the second section (Chapters 9 to 13) we provide the concept and overall review of available tools for using DNA markers for predictions of genetic merits in breeding populations. With advances in DNA sequencing technologies, genomic data, especially single nucleotide polymorphism (SNP) markers, have become available for animal and plant breeding programs in recent years. Analysis of DNA markers for prediction of genetic merit is a relatively new and active research area. The algorithms and software to implement these algorithms are changing rapidly. This section represents state-of-the-art knowledge on the tools and technologies available for genetic analysis of plants and animals. However, readers should be aware that the methods or statistical packages covered here may not be available or they might be out of date in a few years. Ultimately the book is intended for professional breeders interested in utilizing these tools and approaches in their breeding programs. Lastly, we anticipate the usage of this volume for advanced level graduate courses in agricultural and breeding courses.
Book Synopsis Statistical Methods for Plant Variety Evaluation by : R.A. Kempton
Download or read book Statistical Methods for Plant Variety Evaluation written by R.A. Kempton and published by Springer Science & Business Media. This book was released on 2012-12-06 with total page 203 pages. Available in PDF, EPUB and Kindle. Book excerpt: The International Centre for Advanced Mediterranean Agronomic Studies (CIHEAM), established in 1962, is an intergovernmental organization of four teen countries: Albania, Algeria, Egypt, France, Greece, Italy, Lebanon, Malta, Morocco, Portugal, Spain, Tunisia, Turkey and Yugoslavia. Four institutes (Bari, Italy; Chania, Greece; Montpellier, France and Zaragoza, Spain) provide post-graduate education at the Master of Science level. CIHEAM promotes research networks on Mediterranean agricultural priorities, supports the organization of specialized education in member countries, holds seminars and workshops bringing together technologists and scientists involved in Mediterranean agriculture and regularly produces diverse publications including the series 'Options Mediterraneennes'. Through these activities, CIHEAM promotes North/South dialogue and international co-operation for agricultural development in the Mediterranean region. Plant breeding is, since 1982, one of the fields in which CIHEAM is con ducting a programme of training and promotion of research, through its Mediterranean Agronomic Institute of Zaragoza. The programme includes a one-year advanced specialization course, a series of two-week courses for professionals, and support for collaborative research activities in Mediterranean-relevant species. Many of these activities are organized in col laboration with national and international institutions. The publication in 1993 of Plant Breeding. Principles and Prospects, which ini tiated the Chapman & Hall's Plant Breeding Series, has become an important feature of CIHEAM's plant breeding programme. We are now pleased to add a further volume to that series: the present book, Statistical Methods for Plant Variety Evaluation.
Book Synopsis Improving Precision and Modeling Genotype X Environment Interactions of Forage Yield Trials by : Raghuveer Sripathi
Download or read book Improving Precision and Modeling Genotype X Environment Interactions of Forage Yield Trials written by Raghuveer Sripathi and published by . This book was released on 2016 with total page 105 pages. Available in PDF, EPUB and Kindle. Book excerpt: Field-based yield trials are subject to several external factors that influence precision, power, and selection decisions of genotype evaluations. Long-term yield trials conducted by the Department of Agriculture, Food and Marine (DAFM) in Ireland were used as a case study to address three main research objectives: (i) quantify the effects of block size, block shape, and number of replicates on precision of yield estimation, (ii) quantify the effect of spatial variability on precision and power of forage yield estimation, and (iii) modeling genotype x environment correlation structures to predict genotypic performance across different environments and evaluate cost-reduction scenarios for resource allocation. All trials were designed with randomized complete block designs (RCBDs) across five locations and trials were harvested for a maximum of two consecutive years. The impact of block size and number of replicates on trial precision was dependent on block shape. Increasing number of replicates significantly decreased LSD only in wider (more square) blocks compared to narrow (more rectangular) blocks. Uniformity trial results indicated that row-column designs were 36% more efficient than complete block designs. Among different spatial models, the best spatial models were correlated errors (CE) models that modeled the specific correlation structure present in each trial and these models were 71% more efficient than RCBDs without spatial analysis. Comparison of the best CE models and the RCBDs without spatial analysis showed considerable differences in power and selection of genotypes for the DAFM trials. Modeling genotype x environment correlations using unstructured variance-covariance models were effective not only to classify the testing locations but also to improve the prediction of genotypic performance across locations. Cost reduction via reducing the number of harvest years was not effective for the DAFM trials. Results of this research demonstrate the wealth of information embedded within long-term yield trials to assess different experimental design-based and model-based approaches to improve the precision of genotypic evaluations and also to interpret the important and complex genotype x environment interactions. These analyses can be employed in any long-term research program with historical data accumulated over several years.
