Bookedited by Alessio Mengoni, Marco Galardini, Marco Fondi.
Contents:
Pulsed field gel electrophoresis and genome size estimates/ Rosa Alduina and Annalisa Pisciotta
Comparative analyses of extrachromosomal bacterial replicons, identification of chromids, and experimental evaluation of their indispensability / Lukasz Dziewit and Dariusz Bartosik
Choice of next-generation sequencing pipelines / F. Del Chierico ... [et al.]
Pyrosequencing protocol for bacterial genomes / Ermanno Rizzi
Bacterial metabarcoding by 16S rRNA gene ion torrent amplicon sequencing / Elio Fantini ... [et al.]
Illumina-solexa sequencing protocol for bacterial genomes / Zhenfei Hu, Lei Cheng, and Hai Wang
High-throughput phenomics / Carlo Viti ... [et al.]
Comparative analysis of gene expression : uncovering expression conservation and divergence between Salmonella enterica serovar typhimurium strains LT2 and 14028S / Paolo Sonego ... [et al.]
Raw sequence data and quality control / Giovanni Bacci
Methods for assembling reads and producing contigs / Valerio Orlandini, Marco Fondi, and Renato Fani
Mapping contigs using CONTIGuator / Marco Galardini, Alessio Mengoni, and Marco Bazzicalupo
Gene calling and bacterial genome annotation with BG7 / Raquel Tobes ... [et al.]
Defining orthologs and pangenome size metrics / Emanuele Bosi, Renato Fani, and Marco Fondi
Robust identification of orthologues and paralogues for microbial pan-genomics using GET HOMOLOGUES : a case study of pIncA/C plasmids / Pablo Vinuesa and Bruno Contreras-Moreira
Genome-scale metabolic network reconstruction / Marco Fondi and Pietro Liò
From pangenome to panphenome and back / Marco Galardini, Alessio Mengoni, and Stefano Mocali
Genome-wide detection of selection and other evolutionary forces / Zhuofei Xu and Rui Zhou
Integrated microbial genome resource of analysis / Alice Checcucci and Alessio Mengoni.