Bacterial Pangenomics

Methods and Protocols

  • Alessio Mengoni
  • Marco Galardini
  • Marco Fondi

Part of the Methods in Molecular Biology book series (MIMB, volume 1231)

Table of contents

  1. Front Matter
    Pages i-x
  2. Rosa Alduina, Annalisa Pisciotta
    Pages 1-14
  3. F. Del Chierico, M. Ancora, M. Marcacci, C. Cammà, L. Putignani, Salvatore Conti
    Pages 31-47
  4. Elio Fantini, Giulio Gianese, Giovanni Giuliano, Alessia Fiore
    Pages 77-90
  5. Zhenfei Hu, Lei Cheng, Hai Wang
    Pages 91-97
  6. Carlo Viti, Francesca Decorosi, Emmanuela Marchi, Marco Galardini, Luciana Giovannetti
    Pages 99-123
  7. Paolo Sonego, Pieter Meysman, Marco Moretto, Roberto Viola, Kris Laukens, Duccio Cavalieri et al.
    Pages 125-135
  8. Giovanni Bacci
    Pages 137-149
  9. Valerio Orlandini, Marco Fondi, Renato Fani
    Pages 151-161
  10. Marco Galardini, Alessio Mengoni, Marco Bazzicalupo
    Pages 163-176
  11. Raquel Tobes, Pablo Pareja-Tobes, Marina Manrique, Eduardo Pareja-Tobes, Evdokim Kovach, Alexey Alekhin et al.
    Pages 177-189
  12. Emanuele Bosi, Renato Fani, Marco Fondi
    Pages 191-202
  13. Marco Fondi, Pietro Liò
    Pages 233-256
  14. Marco Galardini, Alessio Mengoni, Stefano Mocali
    Pages 257-270
  15. Alice Checcucci, Alessio Mengoni
    Pages 289-295
  16. Back Matter
    Pages 297-298

About this book


Bacterial genomics is a mature research interdisciplinary field, which is approached by ecologists, geneticists, bacteriologists, molecular biologists and evolutionary biologists working in medical, industrial and basic science.  Thanks to the large diffusion of bacterial genome analysis , Bacterial Pangenomics: Methods and Protocols is able to provide the most recent methodologies about the study of bacterial pangenomes by covering the three major areas: the experimental methods for approaching bacterial pangenomics, the bioinformatic pipelines for analysis and annotation of sequence data, and finally the methods for inferring functional and evolutionary features from the pangenome. Written in the 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 protocols, and notes on troubleshooting and avoiding known pitfalls.


Authoritative and easily accessible, Bacterial Pangenomics: Methods and Protocols will serve as a field guide for both qualified bacterial genomics investigators who want to update their technical knowledge, for less experienced researchers who want to start working with bacterial genomics and pangenomics, as well as serving as a manual and supplemental textbook for graduate students of genomics and bioinformatics.


bacterial genomes contigs electrophoresis metabolic network microbial genome pangenome phenomics

Editors and affiliations

  • Alessio Mengoni
    • 1
  • Marco Galardini
    • 2
  • Marco Fondi
    • 3
  1. 1.Department of BiologyUniversity of FlorenceFlorenceItaly
  2. 2.EMBL-EBICambridgeUnited Kingdom
  3. 3.Department of BiologyUniversity of FlorenceFlorenceItaly

Bibliographic information

  • DOI
  • Copyright Information Springer Science+Business Media New York 2015
  • Publisher Name Humana Press, New York, NY
  • eBook Packages Springer Protocols
  • Print ISBN 978-1-4939-1719-8
  • Online ISBN 978-1-4939-1720-4
  • Series Print ISSN 1064-3745
  • Series Online ISSN 1940-6029
  • Buy this book on publisher's site
Industry Sectors
Chemical Manufacturing
Health & Hospitals
Consumer Packaged Goods