Agriculture & Allied Sciences

The Role of Bioinformatics in Agriculture
Editor: Santosh Kumar, PhD

The Role of Bioinformatics in Agriculture

Published. Available now.
Pub Date: February 2014
Hardback Price: see ordering info
Hard ISBN: 9781771880039
Paperback ISBN: 978-1-77463-320-5
E-Book ISBN: 9781482239072
Pages: 490pp
Binding Type: hardbound / ebook / paperback

Now Available in Paperback


This title includes a number of Open Access chapters.

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.

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. The challenge is now to make sense and use of this wealth of data. The aim of this book is report on some of the developments in the field.

The book covers a wide range of topics in this field, including
  • functioning, accuracy, and cost of sequencing from second generation sequencers
  • development of several protocols for the application of next generation sequencing technologies
  • advances in wheat, maize, and rice genomics
  • a concise list of plant genome databases and other resoures for individual crop improvement
  • the computational tools that are required to understand the large amount of complex small RNA data generated through high throughput sequencing
  • the heritability of epigenetic changes and the potential to drive natural variation
  • more

CONTENTS:
Introduction
Part I: Genome Data Mining Through Modern Sequencing Technologies

Chapter 1. Comparison of Next-Generation Sequencing Systems

Lin Liu, Yinhu Li, Siliang Li, Ni Hu, Yimin He, Ray Pong, Danni Lin, Lihua Lu, and Maggie Law

Chapter 2. Why Assembling Plant Genome Sequences Is So Challenging

Manuel Gonzalo Claros, Rocío Bautista, Darìo Guerrero-Fernández, Hicham Benzerki, Pedro Seoane, and Noé Fernández-Pozo

Chapter 3. Genome Walking by Next Generation Sequencing Approaches

Mariateresa Volpicella, Claudia Leoni, Alessandra Costanza, Immacolata Fanizza, Antonio Placido, and Luigi R. Ceci

Chapter 4. Molecular Tools for Exploring Polyploid Genomes in Plants

Riccardo Aversano, Maria Raffaella Ercolano, Immacolata Caruso, Carlo Fasano, Daniele Rosellini, and Domenico Carputo

Chapter 5. Wheat Genomics: Present Status and Future Prospects

P. K. Gupta, R. R. Mir, A. Mohan, and J. Kumar

Chapter 6. Development in Rice Genome Research Based on Accurate Genome Sequence

Takashi Matsumoto, Jianzhong Wu, Baltazar A. Antonio, and Takuji Sasaki

Chapter 7. Genomic Databases for Crop Improvement

Kaitao Lai, Micha T. Lorenc, and David Edwards
Part II: Going Beyond DNA Variations to Understand Environmental Adaptations

Chapter 8. Uncovering the Complexity of Transcriptomes with RNA-Seq

Valerio Costa, Claudia Angelini, Italia De Feis, and Alfredo Ciccodicola

Chapter 9. Efficient Experimental Design and Analysis Strategies for the Detection of Differential Expression Using RNA-Sequencing

José A. Robles, Sumaira E. Qureshi, Stuart J. Stephen, Susan R. Wilson, Conrad J. Burden, and Jennifer M. Taylor

Chapter 10. Analyzing the microRNA Transcriptome in Plants Using Deep Sequencing Data

Xiaozeng Yang and Lei Li

Chapter 11. Maize (Zea mays L.) Genome Diversity as Revealed by RNA-Sequencing

Candice N. Hansey, Brieanne Vaillancourt, Rajandeep S. Sekhon, Natalia de Leon, Shawn M. Kaeppler, and C. Robin Buell

Chapter 12. Molecular Mechanisms of Epigenetic Variation in Plants

Ryo Fujimoto, Taku Sasaki, Ryo Ishikawa, Kenji Osabe, Takahiro Kawanabe, and Elizabeth S. Dennis

Chapter 13. Metagenomics: A Guide from Sampling to Data Analysis

Torsten Thomas, Jack Gilbert, and Folker Meyer
Part III: Single Nucleotide Polymorphism is the Ideal Marker

Chapter 14. SNP Markers and Their Impact on Plant Breeding

Jafar Mammadov, Rajat Aggarwal, Ramesh Buyyarapu, and Siva Kumpatla

Chapter 15. Genotyping-by-Sequencing in Plants

Stéphane Deschamps , Victor Llaca, and Gregory D. May

Index


About the Authors / Editors:
Editor: Santosh Kumar, PhD
Research Associate in Plant Science, University of Manitoba, Canada

Dr. Santosh Kumar obtained his BSc agriculture degree in plant breeding from Punjab Agricultural University, Ludhiana, India. He obtained his MSc working on wheat phytosiderophores from the Indian Agricultural Research Institute, New Delhi, India, and PhD working on control of flowering and germination in barley from the University of Manitoba, Canada. At present, Dr. Kumar is stationed at the Cereal Research Centre, Manitoba, Canada, working for the University of Manitoba. Dr. Kumar has studied various disciplines in plant sciences and received many awards throughout his academic career. His current interests include crop genomics and bioinformatics. Dr. Kumar is member of various plant science societies in Canada and the US. Dr. Kumar has publications that include research articles, a review paper, and a book chapter in areas of plant physiology, genetics, and bioinformatics.




Follow us for the latest from Apple Academic Press:
Copyright © 2025 Apple Academic Press Inc. All Rights Reserved.