Revolutionizing prokaryotic systematics through next-generation sequencing
Publication date: Available online 28 August 2014 Source:Methods in Microbiology Author(s): Vartul Sangal , Leena Nieminen , Nicholas P. Tucker , Paul A. Hoskisson Next-generation sequencing has revolutionized modern research in all life sciences. It has been applied in studying evolution, global transmission and local adaptation of pathogens, microbial ecology, genetics and physiology. In this chapter, we have provided a brief summary of recent advances in sequencing technologies and easy to use bioinformatic tools to analyse sequence data, with a focus on prokaryotic biology. We have emphasized the importance of ...
Source: Methods in Microbiology - October 12, 2014 Category: Microbiology Source Type: research
Continuing importance of the “phenotype” in the genomic era
Publication date: Available online 28 August 2014 Source:Methods in Microbiology Author(s): Peter Kämpfer With the growing importance of whole-genome sequence data in the classification and identification of prokaryotes, i.e., the “genotype”, the importance of the phenotype seems to become less and less important. However, the phenotype, i.e., the entity of expressed information, is the driving force of evolution both in a given cellular context and in the environmental context. The information laid down in single genes, gene clusters and genomes may only be “visible” in a more or less “complex environment...
Source: Methods in Microbiology - October 12, 2014 Category: Microbiology Source Type: research
The all-species living tree project
Publication date: Available online 13 September 2014 Source:Methods in Microbiology Author(s): Pablo Yarza , Raul Munoz The All-Species Living Tree Project (LTP) is an international initiative for the creation and maintenance of highly curated 16S rRNA and 23S rRNA gene sequence databases, alignments and phylogenetic trees for all the type strains of Archaea and Bacteria. These small but taxonomically representative SSU and LSU datasets may be used as a reference for classification and identification purposes in several fields of application. The complete package tool, including the full database, alignment, metadata...
Source: Methods in Microbiology - October 12, 2014 Category: Microbiology Source Type: research
