Cereal Genomics: Methods and Protocols

ISBN-13: 9781493998678 / Angielski / Miękka / 2020 / 247 str.

Vaschetto, Luis M.

Opis

The objective of this volume is to detail current technologies associated with cereal genomics, providing a valuable resource for researchers working in breeding and molecular crop improvement programs. Chapters guide readers through high-throughput DNA extraction protocols, crop genetic resources, meta-Quantitative Trait Loci (QTL) analysis, association mapping, next-sequencing generation, transposable element-associated variation, transcriptomics analysis, epigenetic variation, identification of imprinted genes, noncoding RNAs (circular RNAs), genome editing technologies, and post-translational protein phosphorylation.Written in the highly 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 laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Cereal Genomics: Methods and Protocols to ensure successful results in the further study of this vital field.

Spis treści

1. A Low-Cost High-throughput Method for Plant Genomic DNA Isolation

Prateek Gupta, Hymavathi Salava, Yellamaraju Sreelakshmi, and Rameshwar Sharma

 

2. Cereal Genomics Databases and Plant Genetic Resources in Crop Improvement

Robert J Henry

 

3. Integrated Genomic Strategies for Cereal Genetic Enhancement: Combining QTL and Association Mapping

Anurag Daware, Swarup K. Parida, and Akhilesh K. Tyagi

 

4. Sequencing and Assembling Genomes and Chromosomes of Cereal Crops

Marcelo Helguera

 

5. Cost-effective Profiling of Mutator Transposon Insertions in Maize by Next-generation Sequencing

Xinyan Zhang, Meixia Zhao, and Damon Lisch

 

6. Relative Expression Analysis of target genes by using Reverse transcription-Quantitative PCR

Rocío Liliana Gómez and Lorena Noelia Sendín

 

7. DNA Methylation and Transcriptomic Next Generation Technologies in Cereal Genomics

Cynthia G. Soto-Cardinault, Fátima Duarte-Aké, Clelia De-la-Peña , and Elsa Góngora-Castillo

 

8. Genome-wide Identification of Regulatory DNA Elements in Crop Plants

Zhanjie Li and Kai Wang

 

9. Genome-wide Profiling of Histone Modifications with ChIP-seq

William A. Ricci, Laura Levin, and Xiaoyu Zhang

 

10. Whole-genome Bisulfite Sequencing and Epigenetic Variation in Cereal Methylomes

Taiji Kawakatsu

 

11. Genome-wide Identification of Allele-Specific Gene Expression in a Parent‑of‑Origin Specific Manner

Chen Chen and Kevin Begcy

 

12. Analysis of Epigenetic Modifications during Vegetative and Reproductive Development in Cereals using Chromatin Immunoprecipitation (ChIP)

Kevin Begcy and Thomas Dresselhaus

 

13. Cereal Circular RNAs (circRNAs): An Overview of the Computational Resources for Identification and Analysis

Luis María Vaschetto, Celso Gaspar Litholdo Jr., Lorena Noelia Sendín, Claudia Mabel Terenti, and María Paula Filippone

 

14. Emerging Genome Engineering Tools in Crop Research and Breeding

Andriy Bilichak, Daniel Gaudet, and John Laurie

 

15. CRISPR/Cas9-mediated Targeted Mutagenesis in Wheat Doubled Haploids

Alison M. R. Ferrie, Pankaj Bhowmik, Nandhakishore Rajagopalan, and Sateesh Kagale

 

16. Genetic Transformation of Protoplasts Isolated from Leaves of Lolium temulentum and Lolium perenne

Huw R. Davis, Anne L. Maddison, Dylan W. Phillips, and Huw D. Jones

 

17. Agrobacterium Transformation in the Rice Genome

Asuka Nishimura

 

18. In vivo Phosphorylation: Development of Specific Antibodies to Detect the Phosphorylated PEPC Isoform for the C₄ Photosynthesis in Zea mays

Yoshihisa Ueno, Kumiko Yoshizawa-Kumagaye, Junji Emura, Tomoko Urabe, Taku Yoshiya, Tsuyoshi Furumoto, and Katsura Izui