Genome and pan-genome analysis to classify emerging bacteria

Biology Direct
Aurélia CaputoDidier Raoult

Abstract

In the recent years, genomic and pan-genomic studies have become increasingly important. Culturomics allows to study human microbiota through the use of different culture conditions, coupled with a method of rapid identification by MALDI-TOF, or 16S rRNA. Bacterial taxonomy is undergoing many changes as a consequence. With the help of pan-genomic analyses, species can be redefined, and new species definitions generated. Genomics, coupled with culturomics, has led to the discovery of many novel bacterial species or genera, including Akkermansia muciniphila and Microvirga massiliensis. Using the genome to define species has been applied within the genus Klebsiella. A discontinuity or an abrupt break in the core/pan-genome ratio can uncover novel species. Applying genomic and pan-genomic analyses to the reclassification of other bacterial species or genera will be important in the future of medical microbiology. The pan-genome is one of many new innovative tools in bacterial taxonomy. This article was reviewed by William Martin, Eric Bapteste and James Mcinerney. Reviewed by William Martin, Eric Bapteste and James Mcinerney.

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Aug 18, 2020·International Journal of Systematic and Evolutionary Microbiology·Michel OuyabeHironobu Shiwachi
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Methods Mentioned

BETA
single-cell sequencing
454 sequencer

Software Mentioned

BLAST
SOLiD
CAP assembler
CLC genomics Workbench

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