Genotyping By Sequencing For Crop Improvement

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Genotyping by Sequencing for Crop Improvement

Humira Sonah,Vinod Goyal,S. M. Shivaraj,Rupesh K. Deshmukh
Genotyping by Sequencing for Crop Improvement Book PDF

Author : Humira Sonah,Vinod Goyal,S. M. Shivaraj,Rupesh K. Deshmukh
Publisher : John Wiley & Sons
Page : 404 pages
File Size : 51,9 Mb
Release : 2022-03-29
Category : Science
ISBN : 9781119745679

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Genotyping by Sequencing for Crop Improvement by Humira Sonah,Vinod Goyal,S. M. Shivaraj,Rupesh K. Deshmukh Pdf

OGENOTYPING BY SEQUENCING FOR CROP IMPROVEMENT A thoroughly up-to-date exploration of genotyping-by-sequencing technologies and related methods in plant science In Genotyping by Sequencing for Crop Improvement, a team of distinguished researchers delivers an in-depth and current exploration of the latest advances in genotyping-by-sequencing (GBS) methods, the statistical approaches used to analyze GBS data, and its applications, including quantitative trait loci (QTL) mapping, genome-wide association studies (GWAS), and genomic selection (GS) in crop improvement. This edited volume includes insightful contributions on a variety of relevant topics, like advanced molecular markers, high-throughput genotyping platforms, whole genome resequencing, QTL mapping with advanced mapping populations, analytical pipelines for GBS analysis, and more. The distinguished contributors explore traditional and advanced markers used in plant genotyping in extensive detail, and advanced genotyping platforms that cater to unique research purposes are discussed, as is the whole-genome resequencing (WGR) methodology. The included chapters also examine the applications of these technologies in several different crop categories, including cereals, pulses, oilseeds, and commercial crops. Genotyping by Sequencing for Crop Improvement also offers: A thorough introduction to molecular marker techniques and recent advancements in the technology Comprehensive explorations of the genotyping of seeds while preserving their viability, as well as advances in genomic selection Practical discussions of opportunities and challenges relating to high throughput genotyping in polyploid crops In-depth examinations of recent advances and applications of GBS, GWAS, and GS in cereals, pulses, oilseeds, millets, and commercial crops Perfect for practicing plant scientists with an interest in genotyping-by-sequencing technology, Genotyping by Sequencing for Crop Improvement will also earn a place in the libraries of researchers and students seeking a one-stop reference on the foundational aspects of – and recent advances in – genotyping-by-sequencing, genome-wide association studies, and genomic selection.

Next Generation Sequencing

Jerzy Kulski
Next Generation Sequencing Book PDF

Author : Jerzy Kulski
Publisher : BoD – Books on Demand
Page : 466 pages
File Size : 52,5 Mb
Release : 2016-01-14
Category : Medical
ISBN : 9789535122401

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Next Generation Sequencing by Jerzy Kulski Pdf

Next generation sequencing (NGS) has surpassed the traditional Sanger sequencing method to become the main choice for large-scale, genome-wide sequencing studies with ultra-high-throughput production and a huge reduction in costs. The NGS technologies have had enormous impact on the studies of structural and functional genomics in all the life sciences. In this book, Next Generation Sequencing Advances, Applications and Challenges, the sixteen chapters written by experts cover various aspects of NGS including genomics, transcriptomics and methylomics, the sequencing platforms, and the bioinformatics challenges in processing and analysing huge amounts of sequencing data. Following an overview of the evolution of NGS in the brave new world of omics, the book examines the advances and challenges of NGS applications in basic and applied research on microorganisms, agricultural plants and humans. This book is of value to all who are interested in DNA sequencing and bioinformatics across all fields of the life sciences.

Genomic Selection for Crop Improvement

Rajeev K. Varshney,Manish Roorkiwal,Mark E. Sorrells
Genomic Selection for Crop Improvement Book PDF

Author : Rajeev K. Varshney,Manish Roorkiwal,Mark E. Sorrells
Publisher : Springer
Page : 258 pages
File Size : 53,6 Mb
Release : 2017-12-05
Category : Technology & Engineering
ISBN : 9783319631707

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Genomic Selection for Crop Improvement by Rajeev K. Varshney,Manish Roorkiwal,Mark E. Sorrells Pdf

Genomic Selection for Crop Improvement serves as handbook for users by providing basic as well as advanced understandings of genomic selection. This useful review explains germplasm use, phenotyping evaluation, marker genotyping methods, and statistical models involved in genomic selection. It also includes examples of ongoing activities of genomic selection for crop improvement and efforts initiated to deploy the genomic selection in some important crops. In order to understand the potential of GS breeding, it is high time to bring complete information in the form of a book that can serve as a ready reference for geneticist and plant breeders.

Molecular Marker Technology for Crop Improvement

José Miguel Soriano
Molecular Marker Technology for Crop Improvement Book PDF

Author : José Miguel Soriano
Publisher : MDPI
Page : 302 pages
File Size : 49,9 Mb
Release : 2021-01-15
Category : Science
ISBN : 9783039438631

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Molecular Marker Technology for Crop Improvement by José Miguel Soriano Pdf

Since the 1980s, agriculture and plant breeding have changed with the development of molecular marker technology. In recent decades, different types of molecular markers have been used for different purposes: mapping, marker-assisted selection, characterization of genetic resources, etc. These have produced effective genotyping, but the results have been costly and time-consuming due to the small number of markers that could be tested simultaneously. Recent advances in molecular marker technologies such as the development of high-throughput genotyping platforms, genotyping by sequencing, and the release of the genome sequences of major crop plants have opened new possibilities for advancing crop improvement. This Special Issue collects 16 research studies, including the application of molecular markers in 11 crop species, from the generation of linkage maps and diversity studies to the application of marker-assisted selection and genomic prediction.

Mathematical Models in Biology

Valeria Zazzu,Maria Brigida Ferraro,Mario R. Guarracino
Mathematical Models in Biology Book PDF

Author : Valeria Zazzu,Maria Brigida Ferraro,Mario R. Guarracino
Publisher : Springer
Page : 199 pages
File Size : 54,8 Mb
Release : 2015-11-26
Category : Mathematics
ISBN : 9783319234977

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Mathematical Models in Biology by Valeria Zazzu,Maria Brigida Ferraro,Mario R. Guarracino Pdf

This book presents an exciting collection of contributions based on the workshop “Bringing Maths to Life” held October 27-29, 2014 in Naples, Italy. The state-of-the art research in biology and the statistical and analytical challenges facing huge masses of data collection are treated in this Work. Specific topics explored in depth surround the sessions and special invited sessions of the workshop and include genetic variability via differential expression, molecular dynamics and modeling, complex biological systems viewed from quantitative models, and microscopy images processing, to name several. In depth discussions of the mathematical analysis required to extract insights from complex bodies of biological datasets, to aid development in the field novel algorithms, methods and software tools for genetic variability, molecular dynamics, and complex biological systems are presented in this book. Researchers and graduate students in biology, life science, and mathematics/statistics will find the content useful as it addresses existing challenges in identifying the gaps between mathematical modeling and biological research. The shared solutions will aid and promote further collaboration between life sciences and mathematics.

Genomics of Cereal Crops

Shabir Hussain Wani,Anuj Kumar
Genomics of Cereal Crops Book PDF

Author : Shabir Hussain Wani,Anuj Kumar
Publisher : Springer Nature
Page : 366 pages
File Size : 46,6 Mb
Release : 2022-06-13
Category : Science
ISBN : 9781071625330

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Genomics of Cereal Crops by Shabir Hussain Wani,Anuj Kumar Pdf

This volume details different genomic methods and resources to explore cereal genomics. Chapters guide readers through crop genomes, Next Generation Sequencing (NGS) technologies, protocol for CRISPR editing, transgenic wheat, NGS approach, virus induced gene silencing (VIGS), genomic tools, computational prediction of ncRNAs (miRNAs & ceRNAs) in cereal crops, genotyping-by-sequencing (GBS), Bayesian method, single cell sequencing, genome-wide association study (GWAS), QTL interval mapping, whole genome bisulfite sequencing, genome imprinting, and methods for study the receptor-metabolite interaction. Authoritative and cutting-edge, Genomics of Cereal Crops aims to be a useful and practical guide to new researchers and experts looking to expand their knowledge.

Genomic Designing for Biotic Stress Resistant Cereal Crops

Chittaranjan Kole
Genomic Designing for Biotic Stress Resistant Cereal Crops Book PDF

Author : Chittaranjan Kole
Publisher : Springer Nature
Page : 340 pages
File Size : 55,7 Mb
Release : 2021-08-31
Category : Science
ISBN : 9783030758790

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Genomic Designing for Biotic Stress Resistant Cereal Crops by Chittaranjan Kole Pdf

This book presents deliberations on molecular and genomic mechanisms underlying the interactions of crop plants to the biotic stresses caused by different diseases and pests that are important to develop resistant crop varieties. Knowledge on the advanced genetic and genomic crop improvement strategies including molecular breeding, transgenics, genomic-assisted breeding, and the recently emerging genome editing for developing resistant varieties in cereal crops is imperative for addressing FHNEE (food, health, nutrition, energy, and environment) security. Whole genome sequencing of these crops followed by genotyping-by-sequencing has provided precise information regarding the genes conferring resistance useful for gene discovery, allele mining, and shuttle breeding which in turn opened up the scope for 'designing' crop genomes with resistance to biotic stresses. The eight chapters each dedicated to a cereal crop in this volume elucidate on different types of biotic stresses and their effects on and interaction with the crop; enumerate on the available genetic diversity with regard to biotic stress resistance among available cultivars; illuminate on the potential gene pools for utilization in interspecific gene transfer; present brief on classical genetics of stress resistance and traditional breeding for transferring them to their cultivated counterparts; depict the success stories of genetic engineering for developing biotic stress-resistant crop varieties; discuss on molecular mapping of genes and QTLs underlying stress resistance and their marker-assisted introgression into elite varieties; enunciate on different genomics-aided techniques including genomic selection, allele mining, gene discovery, and gene pyramiding for developing adaptive crop varieties with higher quantity and quality of yields, and also elaborate some case studies on genome editing focusing on specific genes for generating biotic stress-resistant crops.

Oil Crop Genomics

Huseyin Tombuloglu,Turgay Unver,Guzin Tombuloglu,Khalid Rehman Hakeem
Oil Crop Genomics Book PDF

Author : Huseyin Tombuloglu,Turgay Unver,Guzin Tombuloglu,Khalid Rehman Hakeem
Publisher : Springer Nature
Page : 444 pages
File Size : 53,8 Mb
Release : 2021-09-20
Category : Science
ISBN : 9783030704209

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Oil Crop Genomics by Huseyin Tombuloglu,Turgay Unver,Guzin Tombuloglu,Khalid Rehman Hakeem Pdf

Plants are an important source of fats and oils, which are essential for the human diet. In recent years, genomics of oil biosynthesis in plants have attracted great interest, especially in high oil-bearing plants, such as sesame, olive, sunflower, and palm. Considering that, genome sequencing projects of these plants have been undertaken with the help of advanced genomics tools such as next generation sequencing. Several genome sequencing projects of oil crops are in progress and many others are en route. In addition to genome information, advanced genomics approaches are discussed such as transcriptomics, genomics-assisted breeding, genome-wide association study (GWAS), genotyping by sequencing (GBS), and CRISPR. These have all improved our understanding of the oil biosynthesis mechanism and breeding strategies for oil production. There is, however, no book that covers the genomes and genomics of oil crops. For this reason, in this volume we collected the most recent knowledge of oil crop genomics for researchers who study oil crop genomes, genomics, biotechnology, pharmacology, and medicine. This book covers all genome-sequenced oil crops as well as the plants producing important oil metabolites. Throughout this book, the latest genomics developments and discoveries are highlighted as well as open problems and future challenges in oil crop genomics. In doing so, we have covered the state-of-the-art of developments and trends of oil crop genomics.

Genomics Data Analysis for Crop Improvement

Priyanka Anjoy,Kuldeep Kumar,Girish Chandra,Kishor Gaikwad
Genomics Data Analysis for Crop Improvement Book PDF

Author : Priyanka Anjoy,Kuldeep Kumar,Girish Chandra,Kishor Gaikwad
Publisher : Springer Nature
Page : 378 pages
File Size : 41,7 Mb
Release : 2024-02-10
Category : Technology & Engineering
ISBN : 9789819969135

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Genomics Data Analysis for Crop Improvement by Priyanka Anjoy,Kuldeep Kumar,Girish Chandra,Kishor Gaikwad Pdf

This book addresses complex problems associated with crop improvement programs, using a wide range of programming solutions, for genomics data handling and sustainable agriculture. It describes important concepts in genomics data analysis and sequence-based mapping approaches along with references. The book contains 16 chapters on recent developments in several methods of genomic data analysis for crop improvements and sustainable agriculture, all authored by eminent researchers who are experts in their fields. These chapters focus on applications of a wide range of key bioinformatics topics, including assembly, annotation, and visualization of next-generation sequencing (NGS) data; expression profiles of coding and noncoding RNA; statistical and quantitative genetics; trait-based association analysis, quantitative trait loci (QTL) mapping, and artificial intelligence in genomic studies. Real examples and case studies in the book will come in handy when applying the techniques. The relative scarcity of reference materials covering bioinformatics applications as compared with the readily available books also enhances the utility of this book. The targeted readers of the book are scientists, researchers, and bioinformaticians from genomics and advanced breeding in different areas. The book will appeal to the applied researchers engaged in crop improvements and sustainable agriculture by using bioinformatics tools, students, research project leaders, and practitioners from the various marginal disciplines and interdisciplinary research.

Genomic Designing for Abiotic Stress Resistant Oilseed Crops

Chittaranjan Kole
Genomic Designing for Abiotic Stress Resistant Oilseed Crops Book PDF

Author : Chittaranjan Kole
Publisher : Springer Nature
Page : 300 pages
File Size : 48,5 Mb
Release : 2022-04-05
Category : Science
ISBN : 9783030900441

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Genomic Designing for Abiotic Stress Resistant Oilseed Crops by Chittaranjan Kole Pdf

This book presents deliberations on molecular and genomic mechanisms underlying the interactions of crop plants to the abiotic stresses caused by heat, cold, drought, flooding, submergence, salinity, acidity, etc., important to develop resistant crop varieties. Knowledge on the advanced genetic and genomic crop improvement strategies including molecular breeding, transgenics, genomic-assisted breeding, and the recently emerging genome editing for developing resistant varieties in oilseed crops is imperative for addressing FHNEE (food, health, nutrition, energy, and environment) security. Whole genome sequencing of these crops followed by genotyping-by-sequencing has provided precise information regarding the genes conferring resistance useful for gene discovery, allele mining, and shuttle breeding which in turn opened up the scope for 'designing' crop genomes with resistance to abiotic stresses. The eight chapters each dedicated to a oilseed crop in this volume elucidate on different types of abiotic stresses and their effects on and interaction with the crop; enumerate on the available genetic diversity with regard to abiotic stress resistance among available cultivars; illuminate on the potential gene pools for utilization in interspecific gene transfer; present brief on classical genetics of stress resistance and traditional breeding for transferring them to their cultivated counterparts; depict the success stories of genetic engineering for developing abiotic stress-resistant crop varieties; discuss on molecular mapping of genes and QTLs underlying stress resistance and their marker-assisted introgression into elite varieties; enunciate on different genomics-aided techniques including genomic selection, allele mining, gene discovery, and gene pyramiding for developing adaptive crop varieties with higher quantity and quality of yields, and also elaborate some case studies on genome editing focusing on specific genes for generating abiotic stress-resistant crops.

Plant Breeding: Past, Present and Future

John E. Bradshaw
Plant Breeding Past Present and Future Book PDF

Author : John E. Bradshaw
Publisher : Springer
Page : 693 pages
File Size : 50,5 Mb
Release : 2016-03-08
Category : Science
ISBN : 9783319232850

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Plant Breeding: Past, Present and Future by John E. Bradshaw Pdf

This book aims to help plant breeders by reviewing past achievements, currently successful practices, and emerging methods and techniques. Theoretical considerations are also presented to strike the right balance between being as simple as possible but as complex as necessary. The United Nations predicts that the global human population will continue rising to 9.0 billion by 2050. World food production will need to increase between 70-100 per cent in just 40 years. First generation bio-fuels are also using crops and cropland to produce energy rather than food. In addition, land area used for agriculture may remain static or even decrease as a result of degradation and climate change, despite more land being theoretically available, unless crops can be bred which tolerate associated abiotic stresses. Lastly, it is unlikely that steps can be taken to mitigate all of the climate change predicted to occur by 2050, and beyond, and hence adaptation of farming systems and crop production will be required to reduce predicted negative effects on yields that will occur without crop adaptation. Substantial progress will therefore be required in bridging the yield gap between what is currently achieved per unit of land and what should be possible in future, with the best farming methods and best storage and transportation of food, given the availability of suitably adapted cultivars, including adaptation to climate change. My book is divided into four parts: Part I is an historical introduction; Part II deals with the origin of genetic variation by mutation and recombination of DNA; Part III explains how the mating system of a crop species determines the genetic structure of its landraces; Part IV considers the three complementary options for future progress: use of sexual reproduction in further conventional breeding, base broadening and introgression; mutation breeding; and genetically modified crops.

Advances and Applications of Cost-Effective, High-Throughput Genotyping Technologies for Sustainable Agriculture

Nisha Singh,Sapna Langyan,Vandna Rai
Advances and Applications of Cost Effective High Throughput Genotyping Technologies for Sustainable Agriculture Book PDF

Author : Nisha Singh,Sapna Langyan,Vandna Rai
Publisher : Frontiers Media SA
Page : 196 pages
File Size : 50,7 Mb
Release : 2023-12-28
Category : Science
ISBN : 9782832541869

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Advances and Applications of Cost-Effective, High-Throughput Genotyping Technologies for Sustainable Agriculture by Nisha Singh,Sapna Langyan,Vandna Rai Pdf

Recent advances in next-generation sequencing-driven mass production of genomic data and various other integrated techniques have considerably broadened and deepened our understanding of living organisms' molecular systems. Because complex quantitative traits are difficult to select due to low heritability, conventional plant breeding relies on phenotypic selection and breeder experience, it takes longer to develop a new, improved variety. For association studies to identify DNA markers linked to these complex traits, genotyping chip arrays allow genotyping of thousands of markers in a short amount of time. Plant breeding consistency and predictability have improved thanks to advances in genomics. NGS technologies bring new tools and concepts that can enhance the precision and efficiency of plant breeding such as cost-effective, high throughput genotyping technologies for sustainable agriculture. These genotyping technologies will be lowering the time and cost of developing high-quality food crops that are stress-resistant while still having a high nutritional value. This Research Topic focuses on recent advancements in NGS-related technologies, mainly the development of cost-effective high-throughput genotyping platforms with a wide range of bioinformatics tools, and possible translational multi-omics applications in crop breeding programs for sustainable agriculture.

Plant Genotyping

Jacqueline Batley
Plant Genotyping Book PDF

Author : Jacqueline Batley
Publisher : Humana
Page : 0 pages
File Size : 48,8 Mb
Release : 2016-08-23
Category : Science
ISBN : 1493943677

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Plant Genotyping by Jacqueline Batley Pdf

The ability to produce vast amounts of DNA sequence data has enabled the discovery of molecular markers in model organisms, crops, as well as orphan species making genotyping the rate limiting factor, and this volume focuses on the different markers available and the low to high throughput genotyping of these markers. Given the diverse nature of some of these systems, an overview is provided on the identification of markers from sequence data, as well as data analysis with example applications once the genotyping data has been generated. Written in the successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible protocols, and notes on troubleshooting and avoiding known pitfalls. Authoritative and easily accessible, Plant Genotyping: Methods and Protocols is aimed at plant molecular biologists, geneticists, plant breeders and ecologists who have a target question and need to know the most suitable markers and genotyping system to use.

The Role of Bioinformatics in Agriculture

Santosh Kumar
The Role of Bioinformatics in Agriculture Book PDF

Author : Santosh Kumar
Publisher : CRC Press
Page : 492 pages
File Size : 55,9 Mb
Release : 2014-02-14
Category : Science
ISBN : 9781771880039

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The Role of Bioinformatics in Agriculture by Santosh Kumar Pdf

Advances in information technology and next generation sequencing have propelled the use of bioinformatics in agriculture, especially in the area of crop improvement. An extremely large amount of genomics data is available from plants and animals due to tremendous improvements in the field. This book acquaints readers with state-of-the-art sequencing technologies, recent developments in computing algorithms, and certain biological perspectives that influence development of bioinformatics tools by giving specific examples from model plant species. The challenge is now to make sense and use of this wealth of data.

Plant Genetics and Molecular Biology

Rajeev K. Varshney,Manish K. Pandey,Annapurna Chitikineni
Plant Genetics and Molecular Biology Book PDF

Author : Rajeev K. Varshney,Manish K. Pandey,Annapurna Chitikineni
Publisher : Springer
Page : 298 pages
File Size : 43,5 Mb
Release : 2018-09-04
Category : Science
ISBN : 9783319913131

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Plant Genetics and Molecular Biology by Rajeev K. Varshney,Manish K. Pandey,Annapurna Chitikineni Pdf

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.