Bioinformatics in Rice Research


Book Description

This book provides an up-to-date review of classic and advanced bioinformatics approaches and their utility in rice research. It summarizes databases and tools for analyzing DNA, proteins and gene expression profiles, mapping genetic variations, annotation of protein and RNA molecules, phylogenetic analysis, and pathway enrichment. In addition, it presents high-throughput technologies that are widely used to provide deep insights into the genetic architecture of important traits in the rice genome. The book subsequently discusses techniques for identifying RNA-protein, DNA-protein interactions, and molecular markers, including SNP and microsatellites, in the contexts of rice breeding and genetics. Lastly, it explores various tools that are used to identify and characterize non-coding RNA in rice and their potential role in rice research.




Applications of Bioinformatics in Rice Research


Book Description

This book summarizes the advanced computational methods for mapping high-density linkages and quantitative trait loci in the rice genome. It also discusses the tools for analyzing metabolomics, identifying complex polyploidy genomes, and decoding the extrachromosomal genome in rice. Further, the book highlights the application of CRISPR-Cas technology and methods for understanding the evolutionary development and the de novo evolution of genes in rice. Lastly, it discusses the role of artificial intelligence and machine learning in rice research and computational tools to analyze plant-pathogen co-evolution in rice crops.




Applications of Bioinformatics in Rice Research


Book Description

This book summarizes the advanced computational methods for mapping high-density linkages and quantitative trait loci in the rice genome. It also discusses the tools for analyzing metabolomics, identifying complex polyploidy genomes, and decoding the extrachromosomal genome in rice. Further, the book highlights the application of CRISPR-Cas technology and methods for understanding the evolutionary development and the de novo evolution of genes in rice. Lastly, it discusses the role of artificial intelligence and machine learning in rice research and computational tools to analyze plant-pathogen co-evolution in rice crops.




Advances in Genetics, Genomics and Control of Rice Blast Disease


Book Description

Rice blast, caused by the fungal pathogen Magnaporthe grisea, is one of the most destructive rice diseases worldwide and destroys enough rice to feed more than 60 million people annually. Due to high variability of the fungal population in the field, frequent loss of resistance of newly-released rice cultivars is a major restraint in sustainable rice production. In the last few years, significant progress has been made in understanding the defense mechanism of rice and pathogenicity of the fungus. The rice blast system has become a model pathosystem for understanding the molecular basis of plant-fungal interactions due to the availability of both genomes of rice and M. grisea and a large collection of genetic resources. This book provides a complete review of the recent progress and achievements on genetic, genomic and disease control of the disease. Most of the chapters were presented at the 4th International Rice Blast Conference held on October 9-14, 2007 in Changsha, China. This book is a valuable reference not only for plant pathologists and breeders working on rice blast but also for those working on other pathysystems in crop plants.




Evolutionary Genomics


Book Description

Together with early theoretical work in population genetics, the debate on sources of genetic makeup initiated by proponents of the neutral theory made a solid contribution to the spectacular growth in statistical methodologies for molecular evolution. Evolutionary Genomics: Statistical and Computational Methods is intended to bring together the more recent developments in the statistical methodology and the challenges that followed as a result of rapidly improving sequencing technologies. Presented by top scientists from a variety of disciplines, the collection includes a wide spectrum of articles encompassing theoretical works and hands-on tutorials, as well as many reviews with key biological insight. Volume 2 begins with phylogenomics and continues with in-depth coverage of natural selection, recombination, and genomic innovation. The remaining chapters treat topics of more recent interest, including population genomics, -omics studies, and computational issues related to the handling of large-scale genomic data. Written in the highly successful Methods in Molecular BiologyTM series format, this work provides the kind of advice on methodology and implementation that is crucial for getting ahead in genomic data analyses. Comprehensive and cutting-edge, Evolutionary Genomics: Statistical and Computational Methods is a treasure chest of state-of the-art methods to study genomic and omics data, certain to inspire both young and experienced readers to join the interdisciplinary field of evolutionary genomics.




The Role of Bioinformatics in Agriculture


Book Description

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.




Rice Genomics, Genetics and Breeding


Book Description

This book presents the latest advances in rice genomics, genetics and breeding, with a special focus on their importance for rice biology and how they are breathing new life into traditional genetics. Rice is the main staple food for more than half of the world’s population. Accordingly, sustainable rice production is a crucial issue, particularly in Asia and Africa, where the population continues to grow at an alarming rate. The book’s respective chapters offer new and timely perspectives on the synergistic effects of genomics and genetics in novel rice breeding approaches, which can help address the urgent issue of providing enough food for a global population that is expected to reach 9 billion by 2050.




A Holistic Approach to Rice Research and Genetic Engineering


Book Description

The aim of this book series is to familiarize scientists, students and the general public with exciting new discoveries and developments in rice genomics. Leading scientists in rice genomics and related fields are invited to write articles in a cohesive format that appeals to both researchers and laypersons with an interest in genomics and biotechnology. The first volume provides the background information and highlights the major achievements in rice genomics; ongoing developments in this exciting field are also discussed. This volume promotes genomics as a holistic approach to rice research and genetic engineering. The chief editor of the series is Prof Huanming Yang of the Beijing Genomics Institute. As one of the most distinguished scientists in rice research today, Prof Yang led a team of researchers who successfully sequenced and analyzed the draft sequence of the indica rice subspecies. In Vol 1 of the series, he co-authors an article entitled ?An International Campaign for Agricultural and Livestock Genomics?.




Rice Functional Genomics


Book Description

Rice has been chosen as a model cereal for functional genomics because of its well understood genetics. In addition, there is great similarities among all the cereals and grasses: any understanding of rice genes is directly applicable to the genes of other cereals. This book details rice functional genomics. It takes a multi-pronged genome-wide approach using structural similarities, expression profiles, and mutant phenotypes. Coverage includes the current status of genome sequencing and annotation, various tools, and resources being developed worldwide.




Advances in Rice Research for Abiotic Stress Tolerance


Book Description

Advances in Rice Research for Abiotic Stress Tolerance provides an important guide to recognizing, assessing and addressing the broad range of environmental factors that can inhibit rice yield. As a staple food for nearly half of the world's population, and in light of projected population growth, improving and increasing rice yield is imperative. This book presents current research on abiotic stresses including extreme temperature variance, drought, hypoxia, salinity, heavy metal, nutrient deficiency and toxicity stresses. Going further, it identifies a variety of approaches to alleviate the damaging effects and improving the stress tolerance of rice. Advances in Rice Research for Abiotic Stress Tolerance provides an important reference for those ensuring optimal yields from this globally important food crop. - Covers aspects of abiotic stress, from research, history, practical field problems faced by rice, and the possible remedies to the adverse effects of abiotic stresses - Provides practical insights into a wide range of management and crop improvement practices - Presents a valuable, single-volume sourcebook for rice scientists dealing with agronomy, physiology, molecular biology and biotechnology