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Published on: May 6, 2013
Emergence and genomic characterization of Listeria monocytogenes causing human listeriosis in Pakistan, 2017-2023
Imran Ahmed1,2, Javaria Ashraf3, Hassan Ghayas3
1Aga Khan University, Karachi, Pakistan. imran.haq@aku.edu.
Background:
Human listeriosis, caused by Listeria monocytogenes, is a serious food borne illness. Information from Pakistan on human listeriosis is sparse. This study reports the emergence and genomic characteristics of human L. monocytogenes cases from Pakistan between 2017 and 2023. L. monocytogenes cases were identified from our laboratory database in specimens submitted for culture and a commercially available multiplex PCR assay for cerebrospinal fluid from 2017 to 2023. Whole genome sequencing was performed on randomly selected isolates collected during 2022-2023. Frequency and geographic location of cases were assessed. Bioinformatics analyses included determination of traditional 7-gene MLST (multilocus sequence type), in-silico serogroup determination, phylogenetic relationships and core genome MLST (cgMLST).
Results:
L. monocytogenes isolation from all clinical specimens increased from zero (before 2017) to 142 between 2017 and 2023. Majority of isolates were from blood stream infections (n = 90) followed by central nervous system infections (n = 47). Phylogenetic analysis divided sequenced isolates (n = 24) into three clades. The largest clade included 22 isolates (clonal complex-1, Serogroup 4b and Lineage-I) and contained sequence types ST1 (59%) and ST308 (41%). Core genome multilocus sequence typing indicated small genetic distances between some isolates within respective STs (ST1 and ST308).
Conclusion:
This study highlights human listeriosis as an emerging infection in Pakistan which should be considered when choosing empiric therapy for compatible syndromes. cgMLST data suggests possible common source(s) and emphasizes the need for identification of source(s) and robust public health measures to prevent and control transmission.
Insights
Human listeriosis (Listeria monocytogenes) is emerging in Pakistan. Genomic analysis revealed three clades, with two sequence types (ST1 and ST308) dominating, suggesting potential common sources requiring public health intervention.
Area of Science:
- Microbiology
- Genomics
- Epidemiology
Background:
- Human listeriosis, a severe foodborne illness caused by Listeria monocytogenes, has limited data from Pakistan.
- This study investigates the emergence and genomic characteristics of human L. monocytogenes cases in Pakistan from 2017 to 2023.
Purpose of the Study:
- To report the emergence of human listeriosis in Pakistan.
- To characterize the genomic features of Listeria monocytogenes isolates from Pakistan.
- To assess the frequency and geographic distribution of cases.
Main Methods:
- Identification of L. monocytogenes from clinical specimens using culture and multiplex PCR.
- Whole genome sequencing of selected isolates.
- Bioinformatic analyses including MLST, serogroup determination, phylogenetic analysis, and core genome MLST (cgMLST).
Main Results:
- L. monocytogenes isolation increased significantly from 2017-2023, primarily from bloodstream (n=90) and CNS infections (n=47).
- Phylogenetic analysis of 24 isolates revealed three clades; the largest clade comprised 22 isolates belonging to clonal complex-1, Serogroup 4b, Lineage-I, with sequence types ST1 (59%) and ST308 (41%).
- cgMLST indicated close genetic relationships among isolates within ST1 and ST308.
Conclusions:
- Human listeriosis is an emerging infection in Pakistan, crucial for consideration in empiric therapy.
- cgMLST findings suggest potential common sources, necessitating identification and robust public health measures for control.
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