Draft Genome Sequences of Multidrug-Resistant Shigella Strains Isolated from Diarrheal Patients in Bangladesh

Abstract

The emergence of multidrug-resistant (MDR) Shigella strains has impaired the efficacy of first-line antimicrobials and exacerbated diarrhea-associated morbidity and mortality worldwide. We report the draft genome sequences of 11 MDR Shigella strains isolated from the stool specimens of diarrheal patients in Bangladesh.

Multidrug-resistant conjugative plasmid carrying mphA confers increased antimicrobial resistance in Shigella

“…We determined the bacterial susceptibility to antimicrobial agents by the disc diffusion method according to the guidelines of CLSI 46 using Muller-Hinton agar and commercially available antimicrobial discs (Oxoid, Basingstoke, United Kingdom) 57 . We used E. coli (ATCC 25922) strain as negative control in AST.…”

“…Three MDR- Shigella having similar pattern of AMR and conferring middle-range plasmid were subjected to whole genome sequencing using Illumina technologies. Sequence data was processed and assembled using the bio-informatics techniques described previously 57 . Resistome profiling was performed using the AMRFinderPlus v3.10.5 65 and PlasmidFinder v2.1 ( https://cge.cbs.dtu.dk/services/PlasmidFinder/ ) and MOB-suite v3.1.0 was used to identify plasmids and segregate plasmid-borne AMR genes 66 – 68 .…”

Multiple Mechanisms Confer Resistance to Azithromycin in Shigella in Bangladesh: a Comprehensive Whole Genome-Based Approach

“…All Shigella isolates were enriched in Luria-Bertani broth at 37°C for 16 h, and genomic DNA was extracted using QIAamp DNA minikits (Qiagen) according to the manufacturer’s instructions. Whole-genome sequencing was carried out using Illumina technology at the Genomics Centre of the International Centre for Diarrheal Disease Research, Bangladesh (icddr,b), and the sequences were processed and assembled using a previously described methodology ( 46 ). The obtained genome sequences have been published in GenBank under the BioProject accession numbers PRJNA693631 , PRJNA694802 , PRJNA698772 , PRJNA704496 , and PRJNA698078 and announced publicly ( 46 ).…”

“…Whole-genome sequencing was carried out using Illumina technology at the Genomics Centre of the International Centre for Diarrheal Disease Research, Bangladesh (icddr,b), and the sequences were processed and assembled using a previously described methodology ( 46 ). The obtained genome sequences have been published in GenBank under the BioProject accession numbers PRJNA693631 , PRJNA694802 , PRJNA698772 , PRJNA704496 , and PRJNA698078 and announced publicly ( 46 ). Annotation of the genomes was performed by NCBI through the NCBI Prokaryotic Genome Annotation Pipeline v5.0 ( 47 ).…”

Draft Genome Sequences of Four Strains of Campylobacter jejuni Isolated from Patients with Axonal Variant of Guillain-Barré Syndrome in Bangladesh

“…Selected C. jejuni isolates were confirmed by species-specific PCR. Genomic DNA was extracted using the Wizard genomic DNA purification kit (Promega) followed by quality and quantity check using a NanoDrop spectrophotometer (Thermo Scientific) and Qubit 2.0 fluorimeter (Life Technologies), respectively ( 5 ). The sequencing library was constructed using 1 ng of genomic DNA employing Illumina Nextera XT DNA library preparation kit.…”