This title includes a number of Open Access chapters.
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.
Introduction
Genome Data Mining Through Modern Sequencing Technologies
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
Why Assembling Plant Genome Sequences Is So Challenging, Manuel Gonzalo Claros, Rocío Bautista, Darío Guerrero-Fernández, Hicham Benzerki, Pedro Seoane, and Noé Fernández-Pozo
Genome Walking by Next Generation Sequencing Approaches, Mariateresa Volpicella, Claudia Leoni, Alessandra Costanza, Immacolata Fanizza, Antonio Placido, and Luigi R. Ceci
Molecular Tools for Exploring Polyploid Genomes in Plants, Riccardo Aversano, Maria Raffaella Ercolano, Immacolata Caruso, Carlo Fasano, Daniele Rosellini, and Domenico Carputo
Wheat Genomics: Present Status and Future Prospects, P. K. Gupta, R. R. Mir, A. Mohan, and J. Kumar
Development in Rice Genome Research Based on Accurate Genome Sequence, Takashi Matsumoto, Jianzhong Wu, Baltazar A. Antonio, and Takuji Sasaki
Genomic Databases for Crop Improvement, Kaitao Lai, Michal T. Lorenc, and David Edwards
Going Beyond DNA Variations to Understand Environmental Adaptations
Uncovering the Complexity of Transcriptomes with RNA-Seq, Valerio Costa, Claudia Angelini, Italia De Feis, and Alfredo Ciccodicola
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
Analyzing the microRNA Transcriptome in Plants Using Deep Sequencing Data, Xiaozeng Yang and Lei Li
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
Molecular Mechanisms of Epigenetic Variation in Plants, Ryo Fujimoto, Taku Sasaki, Ryo Ishikawa, Kenji Osabe, Takahiro Kawanabe, and Elizabeth S. Dennis
Metagenomics: A Guide from Sampling to Data Analysis, Torsten Thomas, Jack Gilbert, and Folker Meyer
Single Nucleotide Polymorphism is the Ideal Marker
SNP Markers and Their Impact on Plant Breeding , Jafar Mammadov, Rajat Aggarwal, Ramesh Buyyarapu, and Siva Kumpatla
Genotyping-by-Sequencing in Plants, Stéphane Deschamps , Victor Llaca, and Gregory D. May
Index
Biography
Kumar, Santosh|
