$VAR1 = 'page'; $VAR2 = 'hyperindex'; $VAR3 = 'dbase'; $VAR4 = 'hyperdb'; $VAR5 = 'file'; $VAR6 = 'bcereusgrp_isolates.xml'; Content-Type: text/html; charset=ISO-8859-1 Bacillus cereus group Multi-Datatype MLST+AFLP+MLEE SuperDatabase

Multi-Datatype B. cereus group MLST, AFLP, and MLEE Database, HyperCAT

LATEST NEWS (July 2020):
   MAJOR UPDATE OF THE DATABASE: ~900 additional isolates, including 239 with complete genomes.
   MLST sequences and information from 19 brazilian B. cereus and B. thuringiensis isolates kindly provided by Dr. Adriana M. Vivoni, Oswaldo Cruz Institute (IOC-FIOCRUZ), Rio de Janeiro, Brazil.
   MLST sequences and information from the chinese rice isolate B. cereus 192 kindly submitted by Dr. Yang Yong, Zhejiang Provincial Center for Disease Control and Prevention (Zhejiang CDC), Hangzhou, Zhejiang, China.
   Now including data from four recently defined species that may be novel members of the B. cereus group: B. toyonensis (Jimenez et al. 2013), B. gaemokensis (Jung et al. 2010), B. manliponensis (Jung et al. 2011), and B. bingmayongensis (Liu et al. 2014).

View previous news here.

HyperCAT Info

   This database provides information and typing data for all Bacillus cereus group isolates that have been typed using any of the 5 published MLST schemes for this group along with strains whose complete genomes have been sequenced (currently 2106), as well as by 3 AFLP studies and one MLEE study. The database is described in Tourasse et al. 2010 and Tourasse et al. 2010. The current dataset contains a total of 5886 isolates, as of August 1, 2019. Among these, 5816 isolates that have been typed by the DNA-based methods MLST and/or AFLP. The Strain Statistics page gives overall statistics about species distribution and strain origin. Go to the Data Overlap page for detailed information about strain overlap between the methods.
   Conflicting isolates: Note that an additional set of 0 isolates, including 0 of the complete genomes, have not been included in the main database because they exhibit conflicting phylogenetic positions among MLST schemes and/or typing methods, or they exhibit conflicting typing data from different collections or databases, or originate from mixed populations. These conflicting isolates are listed here.

   The isolates have been classified according to the seven major phylogenetic clusters of the B. cereus group population defined by Guinebretiere et al. 2008 (denoted I-VII). In order to provide a classification that is consistent across typing methods, isolates have been assigned to a particular cluster if they belong to that cluster in MLST-only, MLST+AFLP, and MLST+AFLP+MLEE phylogenetic analyses. Otherwise, isolates that could not be assigned consistently to a given cluster or that do not belong to any of the seven major clusters are classified as "unclustered". The branches of every phylogenetic tree provided or generated by the database are color-coded according to cluster. An additional tool for affiliating isolates to the seven clusters based on the panC gene sequence is provided by Guinebretiere et al. at this URL (see Guinebretiere et al. 2010).

   The species assignments listed in the database correspond to the original assignments reported in publications, bacterial culture collections, and sequence databases. Some isolates may have to be reclassified upon further phylogenetic, genetic, and/or microbiological studies.

   The HyperCAT database provides tools for comparing strains based on data from the 3 typing methods MLST, AFLP, and MLEE and provides:

Click the Supertree Info and Supercluster Info links for details about the multi-datatype supertree and supercluster reconstruction method, respectively.

For MLST data only, the SuperCAT database provides additional analysis tools, including the possibility of entering your own sequences.