Title |
Comparative genomics analysis of Pediococcus acidilactici species |
Author |
Zhenzhen Li1,2,3, Qi Song3,4, Mingming Wang3, Junli Ren3, Songling Liu3,4, and Shancen Zhao3* |
Address |
1BGI College, Zhengzhou University, Zhengzhou 450052, P. R. China, 2School of Life Sciences, Zhengzhou University, Zhengzhou 450001, P. R. China, 3BGI Institute of Applied Agriculture, BGI-Shenzhen, Shenzhen 518120, P. R. China, 4Key Laboratory of Genomics, Ministry of Agriculture, BGI-Shenzhen, Shenzhen 518120, P. R. China |
Bibliography |
Journal of Microbiology, 59(6),573–583, 2021,
|
DOI |
10.1007/s12275-021-0618-6
|
Key Words |
Pediococcus acidilactici, comparative genomics,
pan-genome, bacteriocin, genetic diversity |
Abstract |
Pediococcus acidilactici is a reliable bacteriocin producer and
a promising probiotic species with wide application in the
food and health industry. However, the underlying genetic
features of this species have not been analyzed. In this study,
we performed a comprehensive comparative genomic analysis
of 41 P. acidilactici strains from various ecological niches.
The bacteriocin production of 41 strains were predicted and
three kinds of bacteriocin encoding genes were identified in
11 P. acidilactici strains, namely pediocin PA-1, enterolysin
A, and colicin-B. Moreover, whole-genome analysis showed
a high genetic diversity within the population, mainly related
to a large proportion of variable genomes, mobile elements,
and hypothetical genes obtained through horizontal gene
transfer. In addition, comparative genomics also facilitated
the genetic explanation of the adaptation for host environment,
which specify the protection mechanism against the
invasion of foreign DNA (i.e. CRISPR/Cas locus), as well as
carbohydrate fermentation. The 41 strains of P. acidilactici
can metabolize a variety of carbon sources, which enhances
the adaptability of this species and survival in different environments.
This study evaluated the antibacterial ability, genome
evolution, and ecological flexibility of P. acidilactici
from the perspective of genetics and provides strong supporting
evidence for its industrial development and application. |