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Series GSE272047 Query DataSets for GSE272047
Status Public on Jul 20, 2024
Title Integrative genomic, virulence, and transcriptomic analysis of emergent Streptococcus dysgalactiae subspecies equisimilis (SDSE) emm type stG62647 isolates causing human infections
Organism Streptococcus dysgalactiae subsp. equisimilis
Experiment type Expression profiling by high throughput sequencing
Summary Streptococcus dysgalactiae subspecies equisimilis (SDSE) is a Gram-positive bacterial pathogen that infects humans and is closely related to group A streptococcus (GAS). Compared to GAS, far less is known about SDSE pathobiology. Increased rates of invasive SDSE infections have recently been reported in many countries. One SDSE emm type, stG62647, is known to cause severe diseases, including necrotizing soft-tissue infections, endocarditis, and osteoarticular infections. To increase our understanding of the molecular pathogenesis of stG62647 SDSE isolates causing human infections, we sequenced to closure the genomes of 120 stG62647 SDSE isolates. The genomes varied in size from 2.1 to 2.24 megabase pairs. Consistent with previous data, the great majority of stG62647 isolates had IS1548 integrated into the silB gene, thereby inactivating it. Regions of difference in gene content, including putative mobile genetic elements, were the largest source of genomic diversity. All 120 stG62647 isolates were assayed for virulence using a well-established mouse model of necrotizing myositis. An unexpectedly wide range of virulence was identified (20% to 95%), as assessed by near-mortality data. To explore the molecular mechanisms underlying virulence differences, we analyzed RNAseq transcriptome profiles for 38 stG62647 isolates (comprising the 19 least and most virulent) grown in vitro. Genetic polymorphisms were identified from whole-genome sequence data. Collectively, the results suggest that these SDSE isolates use multiple genetic pathways to achieve an altered virulence phenotype. Our study integrates genomic, mouse virulence, and RNAseq data to advance our understanding of SDSE pathobiology and its molecular pathogenesis.
 
Overall design 120 stG62647 SDSE isolates identified in a comprehensive sample of 499 isolates cultured from humans and recovered between 2010 and 2018 in French Brittany were tested for virulence using a mouse model of necrotizing myositis. Of these 120, 19 isolates with near_mortality rates ranging between 20% to 30% (classified as low-virulence isolates), and 19 isolates with near_mortality rates ranging between 70% and 95% (high-virulence isolates), were grown in triplicate, in THY broth in vitro, and RNA-seq cDNA libraries were generated at the mid-exponential phase of growth (ME, OD600=1).
 
Contributor(s) Musser JM, Eraso JM, Beres SB
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BioProject PRJNA925803
Submission date Jul 11, 2024
Last update date Jul 20, 2024
Contact name James M. Musser
E-mail(s) jmmusser@houstonmethodist.org
Phone 713-441-5891
Organization name Houston Methodist Hospital and Research Institute
Department Pathology and Genomic Medicine
Lab Molecular and Translational Human Infectious Disease Research
Street address 6670 Bertner Ave.
City Houston
State/province Texas
ZIP/Postal code 77030
Country USA
 
Platforms (1)
GPL34696 Illumina NextSeq 500 (Streptococcus dysgalactiae subsp. equisimilis)
Samples (114)
GSM8391935 RNASeq of Streptococcus dysgalactiae subsp. equisimilis isolate MGCS35678_rep1
GSM8391936 RNASeq of Streptococcus dysgalactiae subsp. equisimilis isolate MGCS35678_rep2
GSM8391937 RNASeq of Streptococcus dysgalactiae subsp. equisimilis isolate MGCS35678_rep3

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Supplementary file Size Download File type/resource
GSE272047_RAW.tar 4.8 Mb (http)(custom) TAR (of TXT)
GSE272047_SDSE-38_RNAseq_processed-data.xlsx 4.7 Mb (ftp)(http) XLSX
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