Bacterial Pangenomics Methods and Protocols 2nd Edition by Alessio Mengoni, Giovanni Bacci, Marco Fondi 1071610992 9781071610992

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ISBN-10 :  1071610992 

ISBN-13 : 9781071610992

Author:  Alessio Mengoni, Giovanni Bacci, Marco Fondi 

This completely revised edition explores novel discoveries in bacterial genomic research, with a focus on technical and computational improvements as well as methods used for bacterial pangenome analysis, which relies on microbiome studies and metagenomic data. Beginning with up-to-date sequencing methods, the book continues with sections covering methods for deep phylogenetic analysis, the role of metagenomic data in understanding the genomics of the many yet uncultured bacteria, progress in genome-to-phenome inference, as well as computational genomic tools. Written for the highly successful Methods in Molecular Biology series, chapters include the type of practical detail necessary for reproducible results in the lab. 

Bacterial Pangenomics Methods and Protocols 2nd Table of contents:

1. PacBio-Based Protocol for Bacterial Genome Assembly
2. The Illumina Sequencing Protocol and the NovaSeq 6000 System
3. Pangenomics of Cultured Isolates
4. Comparative Analysis of Core and Accessory Genes in Coexpression Network
5. Inferring Core Genome Phylogenies for Bacteria
6. Inferring Phylogenomic Relationship of Microbes Using Scalable Alignment-Free Methods
7. Fast Phylogeny Reconstruction from Genomes of Closely Related Microbes
8. Comparative Genomics, from the Annotated Genome to Valuable Biological Information: A Case Study
9. Dark Matter Pangenomics
10. Accurate Annotation of Microbial Metagenomic Genes and Identification of Core Sets
11. Metagenomic Assembly: Reconstructing Genomes from Metagenomes
12. Genome Recovery, Functional Profiling, and Taxonomic Classification from Metagenomes
13. Functional Metagenomics for Identification of Antibiotic Resistance Genes (ARGs)
14. Host Trait Prediction from High-Resolution Microbial Features
15. Progresses in Genome-to-Phenome Inference
16. Phylogenetic Methods for Genome-Wide Association Studies in Bacteria
17. Simple, Reliable, and Time-Efficient Manual Annotation of Bacterial Genomes with MAISEN

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Tags: Bacterial Pangenomics, Methods, Protocols, Alessio Mengoni, Giovanni Bacci, Marco Fondi