Genomes 4 has been completely revised and updated. It is a thoroughly modern textbook about genomes and how they are investigated. As with Genomes 3, techniques come first, then genome anatomies, followed by genome function, and finally genome evolution. The genomes of all types of organism are covered: viruses, bacteria, fungi, plants, and animals including humans and other hominids.
Genome sequencing and assembly methods have been thoroughly revised including a survey of four genome projects: human, Neanderthal, giant panda, and barley. Coverage of genome annotation emphasizes genome-wide RNA mapping, with CRISPR-Cas 9 and GWAS methods of determining gene function covered. The knowledge gained from these techniques forms the basis of the three chapters that describe the three main types of genomes: eukaryotic, prokaryotic (including eukaryotic organelles), and viral (including mobile genetic elements). Coverage of genome expression and replication is truly genomic, concentrating on the genome-wide implications of DNA packaging, epigenome modifications, DNA-binding proteins, non-coding RNAs, regulatory genome sequences, and protein-protein interactions. Also included are applications of transcriptome analysis, metabolomics, and systems biology. The final chapter is on genome evolution, focusing on the evolution of the epigenome, using genomics to study human evolution, and using population genomics to advance plant breeding. Established methods of molecular biology are included if they are still relevant today and there is always an explanation as to why the method is still important.
Each chapter has a set of short-answer questions, in-depth problems, and annotated further reading. There is also an extensive glossary. Genomes 4 is the ideal text for upper level courses focused on genomes and genomics.
PART 1 HOW GENOMES ARE STUDIED 1. Genomes, Transcriptomes and Proteomes 2. Studying DNA 3. Mapping Genomes 4. Sequencing Genomes 5. Genome Annotation 6. Identifying Gene Functions PART 2 GENOME ANATOMIES 7. Eukaryotic Nuclear Genomes 8. Genomes of Prokaryotes and Eukaryotic Organelles 9. Virus Genomes and Mobile Genetic Elements PART 3 HOW GENOMES ARE EXPRESSED 10. Accessing the Genome 11. The Role of DNA-Protein Interactions in Genome Expression 12. Transcriptomes 13. Proteomes 14. Genome Expression in the Context of Cell and Organism PART 4 HOW GENOMES ARE REPLICATED AND EVOLVE 15. Genome Replication 16. Mutations and DNA Repair 17. A Brief History of Genome Evolution 18. Using Genomes to Study the Evolution of Species and Populations