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Series GSE19068 Query DataSets for GSE19068
Status Public on Nov 25, 2009
Title Comparative Genomics of Bacillus cereus and Bacillus anthracis
Platform organism Bacillus anthracis
Sample organisms Bacillus anthracis; Bacillus cereus
Experiment type Genome variation profiling by array
Summary The aim of the study was to carry out a CGH study utilizing a set of 39 diverse Bacillus isolates. Thirty four B. cereus and five B. anthracis strains and isolates were chosen so as to represent different lineages based on previous characterizations, including MLEE and MLST (Helgason, Okstad et al. 2000; Helgason, Tourasse et al. 2004). They represent the spectrum of B. cereus phenotypic diversity by including soil, dairy and periodontal isolates in addition to virulent B. anthracis strains.
 
Overall design 39 diverse Bacillus isolates were chosen for the study.Thirty four B. cereus and five B. anthracis strains. Dye swap experiments were performed yielding 2 hybridizations per query strain.
Each 70mer oligo spotted on the B. cereus species microarray is spotted once. Positive controls on the array consist of oligos designed from the sequenced reference genome, STERNE, and negative controls on the array consist of oligos designed from the thale cress plant, Arabidopsis thaliana.
 
Contributor(s) Papazisi L, Bock G, Remortel BG, Sajadi H, Ratnayke S, Sun Q, Minogue T, Jones M, Wan C, Appalla L, Andreas C, Fleischmann RD, Kolstø AB, Peterson SN
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Submission date Nov 17, 2009
Last update date Mar 21, 2012
Contact name Chun-Hua Wan
E-mail(s) cwan@jcvi.org
Organization name J Craig Venter Institute
Department PFGRC
Lab IFX
Street address 9407 Medical Center Dr
City Rockville
State/province MD
ZIP/Postal code 20850
Country USA
 
Platforms (1)
GPL9206 JCVI PFGRC Bacillus anthracis 32K vt1 array designed primarily based on strain Sterne
Samples (78)
GSM471647 T1QBC_AMES_Cy3_AH404_Cy5_124533
GSM471649 T1QBC_AMES_Cy3_AH405_Cy5_124404
GSM471673 T1QBC_AMES_Cy3_AH603_Cy5_43077
Relations
BioProject PRJNA120577

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE19068_RAW.tar 98.5 Mb (http)(custom) TAR (of MEV)
Processed data included within Sample table

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