The Pangenome

Part 1: Genomic diversity and the pan-genome concept.- Chapter 1: The pan-genome: a data-drivendiscovery in biology.- Chapter 2: The prokaryotic species concept and challenges.- Chapter 3: Bacterial guide on how to design a diversified gene portfolio.- Chapter 4: A review of pan-genome tools and recent studies.- Part 2: Evolutionary biology of pan-genomes.- Chapter 5: Structure and dynamics of bacterial populations: pan-genome ecology.- Chapter 6: Bacterial microevolution and the pan-genome.- Chapter 7: Pan-genomes and selection: the public goods hypothesis.- Chapter 8: A pan-genomic perspective on the emergence, maintenance and predictability of antibiotic resistance.- Part 3: Pan-genomics: an open, evolving discipline.- Chapter 9: Metapangenome: at the crossroad of pangenomics and metagenomics.- Chapter 10: Pan-genome flux balance analysis towards pan-phenomes.- Chapter 11: Bacterial epigenomics: epigenetics in the age of population genomics.- Chapter 12: Eukaryotic pan-genomes.- Chapter 13: Computational strategies for eukaryotic pan-genome analyses.

Hervé Tettelin

Dr. Tettelin is a Professor of Microbiology and Immunology at the University of Maryland School of Medicine, Institute for Genome Sciences. Over the course of his career, Dr. Tettelin developed an extensive expertise in microbial genomics, functional genomics, comparative genomics, and bioinformatics.

He led seminal genome sequencing and analysis projects for many important human bacterial pathogens and related commensals, including the initial genomes of Streptococcus agalactiae (group B Streptococcus, GBS).

In collaboration with the group of Dr. Rino Rappuoli (GlaxoSmithKline, former Chiron Vaccines and Novartis Vaccines and Diagnostics), Dr. Tettelin pioneered the fields of reverse vaccinology and pan-genome analyses. The former makes use of genomics to identify novel protein candidates for vaccine development, which was first applied to Neisseria meningitidis; this approach resulted in the recent commercialization of the Bexsero® (4CMenB) vaccine. The latter is the focus of this book.

Dr. Tettelin has conducted many studies of bacterial diversity and transcriptional profiling using DNA microarrays and RNA-seq, as well as functional genomics analyses to identify genes essential for virulence using Tn-seq. He has also supervised the development of bioinformatics tools to compare closely related bacterial genomes in the context of infectious diseases.

Duccio Medini