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Items: 1 to 20 of 6631

1.

Incremental increases in physiological fluid shear progressively alter pathogenic phenotypes and gene expression in multidrug resistant Salmonella

(Submitter supplied) The ability of bacteria to sense and respond to mechanical forces has important implications for pathogens during the in vivo infection process, as they experience wide fluid shear fluctuations in the host. However, relatively little is known about how mechanical forces encountered in the infected host drive microbial pathogenesis. We previously demonstrated an inverse relationship between fluid shear-induced responses of classic gastrointestinal disease-causing Salmonella Typhimurium (x3339) and systemic multidrug resistant (MDR) S. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium str. D23580
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24393
6 Samples
Download data: XLSX
Series
Accession:
GSE241048
ID:
200241048
2.

Spermine-induced DNA methylation change in human macrophages

(Submitter supplied) Polyamines, crucial molecules involved in cell proliferation and growth, play a pivotal role in cancer development and progression. Within the tumor microenvironment, macrophages, key components of the immune system, exhibit a complex relationship with polyamines. Evidence suggests that polyamines can modulate macrophage polarization, influencing their functional phenotypes. Here, we detected the gene DNA methylation changes in spermine-stimulated human macrophages isolated from PBMCs and TAMs.
Organism:
Yersinia pseudotuberculosis; Rickettsia prowazekii; Bartonella quintana; Mycobacterium avium; Homo sapiens; Streptobacillus moniliformis; Bartonella henselae; Francisella tularensis subsp. tularensis; Francisella tularensis subsp. holarctica; Leptospira interrogans; Rickettsia typhi; Mycobacterium tuberculosis variant bovis; Mycobacterium tuberculosis; Mycobacterium tuberculosis variant microti; Mycobacterium canetti; Orthohantavirus seoulense; Yersinia enterocolitica; Toxoplasma gondii; Salmonella enterica subsp. enterica serovar Typhimurium; Mammarenavirus choriomeningitidis; Orthohantavirus puumalaense; Campylobacter jejuni; Francisella tularensis subsp. novicida; Yersinia pestis; Staphylococcus aureus; Mycobacterium avium subsp. paratuberculosis; Cowpox virus; Escherichia coli O157:H7; Francisella tularensis subsp. mediasiatica; Paslahepevirus balayani
Type:
Methylation profiling by array
Platform:
GPL21445
4 Samples
Download data: IDAT, TXT
Series
Accession:
GSE267014
ID:
200267014
3.

Integrated OMICs approach reveals energy metabolism pathway is vital for Salmonella Pullorum survival within the egg white

(Submitter supplied) Purpose: To elucidate the survival strategies in egg white of Salmonella Pullorum, a host-restricted pathogen with vertical transmission capability. Methods: The logarithmic-phase wild-type and Δfim mutant strains were inoculated into LB medium and egg white (final concentration 80%) and statically cultured at 42°C for 6 hours. RNA samples were then extracted for sequencing. Three biological replicates were carried out per sample. more...
Organism:
Salmonella enterica subsp. enterica serovar Pullorum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL34216
12 Samples
Download data: TXT
Series
Accession:
GSE256211
ID:
200256211
4.

Interplay of Salmonella enterica sv. Typhimurium and Bifidobacterium infantis during co-infection of gut epithelial cells

(Submitter supplied) The deposited microarray data were generated in a study that integrated the gene expression profiles and metabolic responses of Caco2 cells incubated with Bifidobacterium infantis subsp. infantis and Salmonella enterica subsp. enterica sv. Typhimurium. The aim of this study was to investigate the interaction of B. infantis, S. Typhimurium, and host cells (Caco2) in the course of infection to understand the molecular mechanics of probiotic-pathogen-host interactions.
Organism:
Homo sapiens; Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
Type:
Expression profiling by array
Platforms:
GPL570 GPL34454
36 Samples
Download data: CEL
Series
Accession:
GSE266880
ID:
200266880
5.

High-throughput Fitness Experiments Reveal Specific Vulnerabilities of Human-Adapted Salmonella During Stress and Infection

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Salmonella enterica subsp. enterica serovar Typhi str. Ty2; Salmonella enterica subsp. enterica serovar Typhimurium str. D23580; Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74; Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150
Type:
Other
4 related Platforms
279 Samples
Download data
Series
Accession:
GSE264519
ID:
200264519
6.

High-throughput Fitness Experiments Reveal Specific Vulnerabilities of Human-Adapted Salmonella During Stress and Infection- Barseq9 (LB, gentamycin, cotrimoxazole, rifampicin, polymyxin B)

(Submitter supplied) Salmonella enterica is comprised of genetically distinct “serovars”, that together provide an intriguing model for exploring the genetic basis of pathogen evolution. While the genomes of numerous Salmonella isolates with broad variations in host range and human disease manifestations have been sequenced, the functional links between genetic and phenotypic differences among these serovars remain poorly understood. more...
Organism:
Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150; Salmonella enterica subsp. enterica serovar Typhimurium str. D23580; Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74; Salmonella enterica subsp. enterica serovar Typhi str. Ty2
Type:
Other
4 related Platforms
48 Samples
Download data: CSV
Series
Accession:
GSE262848
ID:
200262848
7.

High-throughput Fitness Experiments Reveal Specific Vulnerabilities of Human-Adapted Salmonella During Stress and Infection- Barseq13 (Typhi and Paratyphi A infection of THP-1 human macrophages)

(Submitter supplied) Salmonella enterica is comprised of genetically distinct “serovars”, that together provide an intriguing model for exploring the genetic basis of pathogen evolution. While the genomes of numerous Salmonella isolates with broad variations in host range and human disease manifestations have been sequenced, the functional links between genetic and phenotypic differences among these serovars remain poorly understood. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhi str. Ty2; Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150
Type:
Other
Platforms:
GPL34286 GPL34287
9 Samples
Download data: CSV
Series
Accession:
GSE262769
ID:
200262769
8.

High-throughput Fitness Experiments Reveal Specific Vulnerabilities of Human-Adapted Salmonella During Stress and Infection- Barseq12 (Typhimurium THP-1 infections)

(Submitter supplied) Salmonella enterica is comprised of genetically distinct “serovars”, that together provide an intriguing model for exploring the genetic basis of pathogen evolution. While the genomes of numerous Salmonella isolates with broad variations in host range and human disease manifestations have been sequenced, the functional links between genetic and phenotypic differences among these serovars remain poorly understood. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium str. D23580; Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74
Type:
Other
Platforms:
GPL34285 GPL34288
12 Samples
Download data: CSV
Series
Accession:
GSE262768
ID:
200262768
9.

High-throughput Fitness Experiments Reveal Specific Vulnerabilities of Human-Adapted Salmonella During Stress and Infection- Barseq6 (anaerobic LB, GMM, zinc, Nmedia, protamine- second set)

(Submitter supplied) Salmonella enterica is comprised of genetically distinct “serovars”, that together provide an intriguing model for exploring the genetic basis of pathogen evolution. While the genomes of numerous Salmonella isolates with broad variations in host range and human disease manifestations have been sequenced, the functional links between genetic and phenotypic differences among these serovars remain poorly understood. more...
Organism:
Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150; Salmonella enterica subsp. enterica serovar Typhi str. Ty2; Salmonella enterica subsp. enterica serovar Typhimurium str. D23580; Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74
Type:
Other
4 related Platforms
28 Samples
Download data: CSV
Series
Accession:
GSE261873
ID:
200261873
10.

High-throughput Fitness Experiments Reveal Specific Vulnerabilities of Human-Adapted Salmonella During Stress and Infection- Barseq5 (anaerobic LB, GMM, zinc, Nmedia, protamine)

(Submitter supplied) Salmonella enterica is comprised of genetically distinct “serovars”, that together provide an intriguing model for exploring the genetic basis of pathogen evolution. While the genomes of numerous Salmonella isolates with broad variations in host range and human disease manifestations have been sequenced, the functional links between genetic and phenotypic differences among these serovars remain poorly understood. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium str. D23580; Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74; Salmonella enterica subsp. enterica serovar Typhi str. Ty2; Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150
Type:
Other
4 related Platforms
24 Samples
Download data: CSV
Series
Accession:
GSE261867
ID:
200261867
11.

High-throughput Fitness Experiments Reveal Specific Vulnerabilities of Human-Adapted Salmonella During Stress and Infection- Barseq4 (InSPI2, hydrogen peroxide (H2O2), nitric oxide (NO), sodium hypochlorite (bleach))

(Submitter supplied) Salmonella enterica is comprised of genetically distinct “serovars”, that together provide an intriguing model for exploring the genetic basis of pathogen evolution. While the genomes of numerous Salmonella isolates with broad variations in host range and human disease manifestations have been sequenced, the functional links between genetic and phenotypic differences among these serovars remain poorly understood. more...
Organism:
Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150; Salmonella enterica subsp. enterica serovar Typhimurium str. D23580; Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74; Salmonella enterica subsp. enterica serovar Typhi str. Ty2
Type:
Other
4 related Platforms
40 Samples
Download data: CSV
Series
Accession:
GSE261860
ID:
200261860
12.

High-throughput Fitness Experiments Reveal Specific Vulnerabilities of Human-Adapted Salmonella During Stress and Infection- Barseq3 (LB, ceftriaxone, ciprofloxacin, azithromycin)

(Submitter supplied) Salmonella enterica is comprised of genetically distinct “serovars”, that together provide an intriguing model for exploring the genetic basis of pathogen evolution. While the genomes of numerous Salmonella isolates with broad variations in host range and human disease manifestations have been sequenced, the functional links between genetic and phenotypic differences among these serovars remain poorly understood. more...
Organism:
Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150; Salmonella enterica subsp. enterica serovar Typhi str. Ty2; Salmonella enterica subsp. enterica serovar Typhimurium str. D23580; Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74
Type:
Other
4 related Platforms
40 Samples
Download data: CSV
Series
Accession:
GSE261757
ID:
200261757
13.

High-throughput Fitness Experiments Reveal Specific Vulnerabilities of Human-Adapted Salmonella During Stress and Infection- Barseq2 (Bile, iron restriction, osmotic pressure, heat)

(Submitter supplied) Salmonella enterica is comprised of genetically distinct “serovars”, that together provide an intriguing model for exploring the genetic basis of pathogen evolution. While the genomes of numerous Salmonella isolates with broad variations in host range and human disease manifestations have been sequenced, the functional links between genetic and phenotypic differences among these serovars remain poorly understood. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium str. D23580; Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74; Salmonella enterica subsp. enterica serovar Typhi str. Ty2; Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150
Type:
Other
4 related Platforms
40 Samples
Download data: CSV
Series
Accession:
GSE261749
ID:
200261749
14.

High-throughput Fitness Experiments Reveal Specific Vulnerabilities of Human-Adapted Salmonella During Stress and Infection- Barseq1 (NonSPI2, InSPI2, InSPI2Mg, M9glucose)

(Submitter supplied) Salmonella enterica is comprised of genetically distinct “serovars”, that together provide an intriguing model for exploring the genetic basis of pathogen evolution. While the genomes of numerous Salmonella isolates with broad variations in host range and human disease manifestations have been sequenced, the functional links between genetic and phenotypic differences among these serovars remain poorly understood. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhi str. Ty2; Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150; Salmonella enterica subsp. enterica serovar Typhimurium str. D23580; Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74
Type:
Other
4 related Platforms
38 Samples
Download data: CSV
Series
Accession:
GSE261214
ID:
200261214
15.

Improved RNA stability estimation through Bayesian modeling reveals most Salmonella transcripts have subminute half-lives

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium
Type:
Other; Expression profiling by high throughput sequencing
Platforms:
GPL21220 GPL17070
132 Samples
Download data
Series
Accession:
GSE234010
ID:
200234010
16.

Improved RNA stability estimation through Bayesian modeling reveals most bacterial transcripts have sub-minute half-lives [RIF-seq]

(Submitter supplied) RNA decay is a crucial mechanism for regulating gene expression in response to environmental stresses. In bacteria, RNA-binding proteins (RBPs) are known to be involved in post-transcriptional regulation, but their global impact on RNA half-lives has not been extensively studied. To shed light on the role of the major RBPs ProQ and CspC/E in maintaining RNA stability, we performed RNA sequencing of Salmonella enterica over a time course following treatment with the transcription initiation inhibitor rifampicin (RIF-seq) in the presence and absence of these RBPs. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17070
120 Samples
Download data: CSV
Series
Accession:
GSE234009
ID:
200234009
17.

Improved RNA stability estimation through Bayesian modeling reveals most bacterial transcripts have sub-minute half-lives [CLIP-seq]

(Submitter supplied) RNA decay is a crucial mechanism for regulating gene expression in response to environmental stresses. In bacteria, RNA-binding proteins (RBPs) are known to be involved in post-transcriptional regulation, but their global impact on RNA half-lives has not been extensively studied. To shed light on the role of the major RBPs ProQ and CspC/E in maintaining RNA stability, we performed RNA sequencing of Salmonella enterica over a time course following treatment with the transcription initiation inhibitor rifampicin (RIF-seq) in the presence and absence of these RBPs. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium
Type:
Other
Platform:
GPL21220
12 Samples
Download data: CSV, GFF
Series
Accession:
GSE234007
ID:
200234007
18.

Peeling back the layers of competitive exclusion using Salmonella as a model

(Submitter supplied) An ex vivo system was developed to monitor Salmonella growth, virulence (SPI1 expression) and gene expression (measured by microarray) in response to the permissive and exclusive communities. Yellow fluorescent protein (yfp) and cyan fluorescent protein (cfp) variants were fused to the rrn growth-dependent promoter and the hilA operon (SPI-1 cell invasion locus), respectively, in Salmonella. Fluorescence associated with the YFP and CFP reporters was used to monitor Salmonella growth and SPI1 virulence gene expression in co-culture with cecal communities ex vivo. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S; Salmonella enterica subsp. enterica serovar Typhimurium
Type:
Expression profiling by array
Platform:
GPL14855
11 Samples
Download data: XYS
Series
Accession:
GSE261480
ID:
200261480
19.

Impact of Multiple Antimicrobial Exposures on the Transfer Efficiency of Multidrug Resistance Plasmids in Salmonella enteric

(Submitter supplied) Antimicrobial exposure can potentially lead to increased antimicrobial resistance plasmid transfer. RNA sequencing data was collected from conjugal pairs of Salmonella enterica and Escherichia coli exposed or not exposed to tetracycline over a time course to determine differences in transcript numbers associated with conjugation and tetracycline exposure. The samples were sequenced on the Illumina HiSeq X10 platform with the 150-bp paired-end kit. more...
Organism:
Salmonella enterica; Escherichia coli J53
Type:
Expression profiling by high throughput sequencing
Platform:
GPL34283
24 Samples
Download data: XLSX
Series
Accession:
GSE261094
ID:
200261094
20.

CLIP-seq of Salmonella ProQ in intracellular-like conditions

(Submitter supplied) The aim of the project is to identify transcriptome-wide binding sites for the global RNA-binding protein ProQ in Salmonella during intracellular-like conditions.
Organism:
Salmonella enterica
Type:
Other
Platform:
GPL27048
4 Samples
Download data: WIG
Series
Accession:
GSE250014
ID:
200250014
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