Journal article

Publication year: 2015

Pages: 637-646

Journal: Canadian Journal of Microbiology

Volume number: 61

Issue number: 9

ISSN: 0008-4166

eISSN: 1480-3275

DOI Link: https://doi.org/10.1139/cjm-2015-0281

Publisher: Canadian Science Publishing

Abstract: 
The precise delineation of lineages and clonal groups are a prerequisite to examine within-species genetic variations, particularly with respect to pathogenic potential. A whole-genome-based approach was used to subtype and subgroup isolates of Listeria monocytogenes. Core-genome typing was performed, employing 3 different approaches: total core genes (CG), high-scoring segment pairs (HSPs), and average nucleotide identity (ANI). Examination of 113 L. monocytogenes genomes available in-house and in public domains revealed 33 phylogenomic groups (PGs). Each PG could be differentiated into a number of genomic types (GTs), depending on the approach used: HSPs (n = 57 GTs), CG (n = 71 GTs), and ANI (n = 83 GTs). Demarcation of the PGs was concordant with the 4 known lineages and led to the identification of sublineages in the lineage groups I, II, and III. In addition, PG assignments had discriminatory power similar to multi-virulence-locus sequence typing types and clonal complexes of multi-locus sequence typing. Clustering of genomically highly similar isolates from different countries, sources, and isolation dates using whole-genome-based PG suggested that dispersion of phylogenomic clones of L. monocytogenes preceded their subsequent evolution. Classification according to PG may act as a guideline for future epidemiological studies.

Harvard Citation style: Doijad, S., Weigel, M., Barbuddhe, S., Blom, J., Goesmann, A., Hain, T., et al. (2015) Phylogenomic grouping of Listeria monocytogenes, Canadian Journal of Microbiology, 61(9), pp. 637-646. https://doi.org/10.1139/cjm-2015-0281

APA Citation style: Doijad, S., Weigel, M., Barbuddhe, S., Blom, J., Goesmann, A., Hain, T., & Chakraborty, T. (2015). Phylogenomic grouping of Listeria monocytogenes. Canadian Journal of Microbiology. 61(9), 637-646. https://doi.org/10.1139/cjm-2015-0281