Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Genomic epidemiology of the 2022-2023 cholera outbreak in Lebanon

ABSTRACT: Genomic epidemiology of the 2022-2023 cholera outbreak in Lebanon

PROVIDER: PRJEB65303 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR11867508_1.fastq.gz	Fastqsanger.gz
	ERR11867508_2.fastq.gz	Fastqsanger.gz
	ERR11867509_1.fastq.gz	Fastqsanger.gz
	ERR11867509_2.fastq.gz	Fastqsanger.gz
	ERR11867510_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 68

Similar Datasets

An unusual two-strain cholera outbreak in Lebanon, 2022-2023: a genomic epidemiology study.

Project description:Cholera is a life-threatening gastrointestinal infection caused by a toxigenic bacterium, Vibrio cholerae. After a lull of almost 30 years, a first case of cholera was detected in Lebanon in October 2022. The outbreak lasted three months, with 8007 suspected cases (671 laboratory-confirmed) and 23 deaths. In this study, we use phenotypic methods and microbial genomics to study 34 clinical and environmental Vibrio cholerae isolates collected throughout this outbreak. All isolates are identified as V. cholerae O1, serotype Ogawa strains from wave 3 of the seventh pandemic El Tor (7PET) lineage. Phylogenomic analysis unexpectedly reveals the presence of two different strains of the seventh pandemic El Tor (7PET) lineage. The dominant strain has a narrow antibiotic resistance profile and is phylogenetically related to South Asian V. cholerae isolates and derived African isolates from the AFR15 sublineage. The second strain is geographically restricted and extensively drug-resistant. It belongs to the AFR13 sublineage and clusters with V. cholerae isolates collected in Yemen. In conclusion, the 2022-2023 Lebanese cholera outbreak is caused by the simultaneous introduction of two different 7PET strains. Genomic surveillance with cross-border collaboration is therefore crucial for the identification of new introductions and routes of circulation of cholera, improving our understanding of cholera epidemiology.

| S-EPMC11322537 | biostudies-literature

Acinetobacter baumannii outbreak 2022-2023

Project description:Acinetobacter baumannii outbreak 2022-2023

| PRJEB62407 | ENA

Influenza season 2022-2023 Oxford sequencing

Project description:Influenza season 2022-2023 Oxford sequencing

| PRJEB56915 | ENA

Project description:Genomic epidemiology of the 2022-2023 cholera outbreak in Lebanon

| PRJNA1013428 | ENA

Hainan cholera outbreak

Project description:Genomic analysis of Hainan cholera outbreak

| PRJEB8241 | ENA

Virological characterization of the 2022 outbreak-causing monkeypox virus using human keratinocytes and colon organoids

Project description:The outbreak-causing monkeypox virus of 2022 (2022 MPXV) is classified as a clade IIb strain and phylogenetically distinct from prior endemic MPXV strains (clades I or IIa), suggesting that its virological properties may also differ. Here, we used human keratinocytes and induced pluripotent stem cell-derived colon organoids to examine the efficiency of viral growth in these cells and the MPXV infection-mediated host responses. MPXV replication was much more productive in keratinocytes than in colon organoids. We observed that MPXV infections, regardless of strain, caused cellular dysfunction and mitochondrial damage in keratinocytes. Notably, a significant increase in the expression of hypoxia-related genes was observed specifically in 2022 MPXV-infected keratinocytes. Our comparison of virological features between 2022 MPXV and prior endemic MPXV strains revealed signaling pathways potentially involved with the cellular damages caused by MPXV infections and highlights host vulnerabilities that could be utilized as protective therapeutic strategies against human mpox in the future.

2023-06-06 | GSE219036 | GEO

EFSA/EURL-AR Confirmatory Testing Exercise 2023 (data from 2022)

Project description:EFSA Confirm 2023 (2022 data)

| PRJEB84456 | ENA

London non-invasive emm1 collection 2022-2023

Project description:IGAS 2022-2023 upsurge - London non-invasive emm1 collection

| PRJEB71329 | ENA

Project description:2022/2023 Malawi Cholera Outbreak

| PRJNA967700 | ENA

SARS-CoV-2 Wastewater Surveillance in Norway 2022-2023

Project description:SARS-CoV-2 Wastewater Surveillance in Norway 2022-2023

| PRJEB76651 | ENA