Identification and Characterization of 33 Bacillus cereus sensu lato Isolates from Agricultural Fields from Eleven Widely Distributed Countries by Whole Genome Sequencing

Abstract

The phylogeny, identification, and characterization of 33 B. cereus sensu lato isolates originating from 17 agricultural soils from 11 countries were analyzed on the basis of whole genome sequencing. Phylogenetic analyses revealed all isolates are divided into six groups, which follows the generally accepted phylogenetic division of B. cereus sensu lato isolates. Four different identification methods resulted in a variation in the identity of the isolates, as none of the isolates were identified as the same species by all four methods—only the recent identification method proposed directly reflected the phylogeny of the isolates. This points to the importance of describing the basis and method used for the identification. The presence and percent identity of the protein product of 19 genes potentially involved in pathogenicity divided the 33 isolates into groups corresponding to phylogenetic division of the isolates. This suggests that different pathotypes exist and that it is possible to differentiate between them by comparing the percent identity of proteins potentially involved in pathogenicity. This also reveals that a basic link between phylogeny and pathogenicity is likely to exist. The geographical distribution of the isolates is not random: they are distributed in relation to their division into the six phylogenetic groups, which again relates to different ecotypes with different temperature growth ranges. This means that we find it easier to analyze and understand the results obtained from the 33 B. cereus sensu lato isolates in a phylogenetic, patho-type and ecotype-oriented context, than in a context based on uncertain identification at the species level.

Characterization of Bacillus cereus AFA01 Capable of Degrading Gluten and Celiac-Immunotoxic Peptides

“…Bioinformatic analysis of the genome showed that the types of proteases and peptidases encoded by the three bacteria were similar, whereas the genes encoding for enzymes responsible for gluten degradation remained unclear. The genome size, GC content and genes with coding sequences of the three B. cereus strains (Table S1) in the present study were similar to those of previously reported B. cereus strains [35]. Genomic information provides insights into the mechanisms of bacteria, and the genome analysis of Chryseobacterium taeanense sp.…”

Blue light directly modulates the quorum network in the human pathogen Acinetobacter baumannii

“…In this work, we provide strong evidence indicating that light directly modulates the quorum network in A. baumannii . We focused on motility and biofilms formation, which are different bacterial processes shown to depend on quorum sensing 4 – 7 , and are modulated by light 14 . As has been extensively described, our results also show that AbaI is involved in these responses.…”

“…Quorum sensing (QS) has been shown to modulate bacterial collective behaviors such as biofilm formation, motility, virulence, and even drug resistance mechanisms in a number of bacteria including A. baumannii 4 – 7 . Quorum sensing is a cell–cell communication system employed by bacteria to coordinate the expression of specific genes as a function of population density.…”

Complete Genome Sequence and Benzophenone-3 Mineralisation Potential of Rhodococcus sp. USK10, A Bacterium Isolated from Riverbank Sediment

“…Considering the limited number of available Rhodococcus genomes, the exact ANI threshold for species affiliation is not certain. It has been seen on other bacterial groups (e.g., the Bacillus cereus group [39], the genus Serratia [40]) that this threshold ranges between 92 and 96%. Based on the topology of both the 16S rRNA sequences and the whole-genome comparison, USK10 can be definitely placed and is well supported within the Rhodococcus genus.…”