Explore the vast range of titles available.

Integrated chicken and fish farming systems, common in Bangladesh, present significant public health risks due to the spread of antimicrobial resistance genes (ARGs) and virulence factors (VFGs) through mobile genetic elements (MGEs). This study employs metagenomic sequencing to explore the diversity and abundance of ARGs, VFGs, and MGEs in various environmental samples from these farming systems. A total of 384 ARGs were detected, with tetracycline resistance genes such as tetM and tetX being the most abundant, alongside macrolide-lincosamide-streptogramin and aminoglycoside resistance genes. Droppings harbored the highest proportion of ARGs (62.2%), whereas sediment served as a reservoir for multi-metal resistance genes. Virulence factors associated with immune modulation, such as pvdL and tssH , and biofilm formation genes like algC were particularly prevalent in sediment and droppings. Among MGEs, plasmids and transposons like Tn6072 and Tn4001 were the most abundant, playing a critical role in horizontal gene transfer. Bacterial genera including Bacteroides , Clostridium , and Escherichia were strongly associated with MGEs, indicating their role in the dissemination of resistance and virulence traits. Statistical analyses revealed significant differences in the abundance of ARGs, VFGs, and MGEs across sample types, with sediment and droppings identified as hotspots for gene exchange. These findings underscore the urgent need for improved antibiotic stewardship and waste management practices to limit the spread of antimicrobial resistance and pathogenic bacteria within integrated farming environments.

The multifactorial nature of Pseudomonas aeruginosa biofilm development and genomic variabilities implicates its resistance to conventional antimicrobials and virulence. Therefore, genetic determinants need to be extensively studied to block the early steps of biofilm or already formed biofilms. In this study, a total of 20 multidrug resistant (MDR) clinical P. aeruginosa isolates were evaluated for their biofilm forming abilities and related genes. Of the isolates tested, all of them showed surface attachment tendencies in nutrient limiting conditions, and classified as strong (SBF = 45%), moderate (MBF = 30%) and weak (WBF = 25%) biofilm formers. Complete genome sequencing of representative strong (DMC-27b), moderate (DMC-20c) and weak biofilm former (DMC-30b) isolates was performed. Analysis of biofilm related genes in the sequenced genomes revealed that, 80 of the 88 biofilm related genes possess 98–100% sequence identity to the reference PAO1 strain. Complete and partial sequence data of LecB proteins from tested isolates indicate that isolates containing PA14-like LecB sequences produced strong biofilms. All of the 7 pel operon protein coding genes in weak biofilm former isolate 30b showed significant nucleotide sequence variation with other tested isolates, and their corresponding proteins are 99% identical with the pel operon proteins of PA7. Bioinformatics analyses identified divergent sequence and structural features that separate PA7 like pel operon proteins from reference PAO1-like pel operon. Congo red and pellicle forming assays revealed that the sequence and structure variations may have interfered with the Pel production pathway and resulted in impaired Pel production in isolate 30b that has a PA7 like pel operon. Expression analysis also showed that both pel B and lec B genes were about 5 to 6 folds upregulated after 24 h in SBF 27b in comparison with WBF 30b. Our findings indicate significant genomic divergence in biofilm related genes of P. aeruginosa strains that affect their biofilm phenotypes.

Lactic acid bacteria are the well acknowledged probiotics that can cure a variety of diseases. In this study, we observed the in vivo potentials of Pediococcus to treat hyperglycemia, hypercholesterolemia and gastrointestinal infections. A total of 77 Lactobacillus were isolated from the milk of 10 cows and 10 goats, four of those strains inhibited both carbohydrates-hydrolyzing enzymes, α-glucosidase, and α-amylase. They all showed antagonistic effects on pathogenic E. coli and S. Typhimurium which were confirmed by performing pathogen challenge test and visualizing on Electron microscopy. 16S rRNA gene sequence identified that all four strains belong to Pediococcu s genus which were further distinguished as Pediococcus acidilactici by phe S gene sequence. Whole genome sequence analysis revealed their non-pathogenic properties for human and the presence of probiotic genes responsible for stress resistance, immunomodulation, adhesion, metal and drug resistance. In vivo trial with diabetes-induced mice ascertained that all Pediococcus acidilactici had significant potentials to reduce elevated glucose and low-density lipoprotein level in blood. Interestingly, two out of four strains were significantly more effective (p < 0.0001 each) than metformin in reducing the blood glucose level. This in vivo study demonstrated that Pediococcus acidilactici might be a promising probiotic to prevent hyperglycemia, hypercholesterolemia and gastrointestinal infections.

Bangladeshi yogurt is a creamy, tangy dairy product with culinary significance in Bangladesh, often consumed alone or as a complement to spicy dishes. This study investigates the microbial diversity and nutritional composition in 38 samples, spanning commercial and locally produced varieties from eight districts. Through 16S rRNA amplicon sequencing, 650 Operational Taxonomic Units (OTUs) were identified: sour yogurt contained 493 OTUs, and sweet yogurt 441 OTUs. Firmicutes were predominant across both yogurt types, with unique appearances of Gracilibacteria, Gemmatimonadetes, and Spirochaetes in sour yogurt, while Euryarchaeota and Lentisphaerae were found only in sweet yogurt. Streptococcus and Lactobacillus emerged as the most abundant genera, with local sour samples presenting lower Firmicutes levels (84.98%) compared to commercial types (> 99.27%). Among the samples, those from Cox's Bazar exhibited the greatest bacterial diversity. Nutritional assessments revealed that branded yogurts were denser in nutrients, especially solids-not-fat (SNF), total solids, and essential minerals like iron and zinc. In contrast, local yogurts contained higher fat and lower sodium, appealing to consumers favoring richer textures with less salt. Increased acidity in local varieties also matched preferences for tangier flavors. Physicochemical analysis identified a negative association between Lactobacillus levels and pH, while higher fat content reduced overall bacterial diversity except for Lactobacillus , which further decreased mineral bioavailability. Carbohydrate metabolism was dominant in both types, with increased amino acid metabolism (11.72%) and xenobiotics biodegradation (3.94%) in sour yogurt. This study underscores the health-promoting properties of Bangladeshi yogurt, highlighting its unique regional microbiological and biochemical characteristics.

The avian pathogenic Escherichia coli (APEC) strains are the chief etiology of colibacillosis worldwide. The present study investigated the circulating phylotypes, existence of virulence genes (VGs), and antimicrobial resistance (AMR) in 392 APEC isolates, obtained from 130 samples belonged to six farms using both phenotypic and PCR-based molecular approaches. Congo red binding (CRB) assay confirmed 174 APEC isolates which were segregated into ten, nine, and eight distinct genotypes by RAPD assay (discriminatory index, DI = 0.8707), BOX-PCR (DI = 0.8591) and ERIC-PCR (DI = 0.8371), respectively. The combination of three phylogenetic markers (chuA, yjaA and DNA fragment TspE4.C2) classified APEC isolates into B23 (37.36%), A1 (33.91%), D2 (11.49%), B22 (9.20%), and B1 (8.05%) phylotypes. Majority of the APEC isolates (75–100%) harbored VGs (ial, fimH, crl, papC, and cjrC). These VGs (papC and cjrC) and phylotypes (D2 and B2) of APEC had significant (p = 0.004) association with colibacillosis. Phylogenetic analysis showed two distinct clades (clade A and clade B) of APEC, where clade A had 98–100% similarity with E. coli APEC O78 and E. coli EHEC strains, and clade B had closest relationship with E. coli O169:H41 strain. Interestingly, phylogroups B2 and D2 were found in the APEC strains of both clades, while the strains from phylogroups A1 and B1 were found in clade A only. In this study, 81.71% of the isolates were biofilm formers, and possessed plasmids of varying ranges (1.0 to 54 kb). In vitro antibiogram profiling revealed that 100% isolates were resistant to ≥3 antibiotics, of which 61.96%, 55.24%, 53.85%, 51.16% and 45.58% isolates in phylotypes B1, D2, B22, B23, and A1, respectively, were resistant to these antimicrobials. The resistance patterns varied among different phylotypes, notably in phylotype B22, showing the highest resistance to ampicillin (90.91%), nalidixic acid (90.11%), tetracycline (83.72%), and nitrofurantoin (65.12%). Correspondence analysis also showed significant correlation among phylotypes with CRB (p = 0.008), biofilm formation (p = 0.02), drug resistance (p = 0.03), and VGs (p = 0.06). This report demonstrated that B2 and A1 phylotypes are dominantly circulating APEC phylotypes in Bangladesh; however, B2 and D2 are strongly associated with the pathogenicity. A high prevalence of antibiotic-resistant APEC strains from different phylotypes suggest the use of organic antimicrobial compounds, and/or metals, and the rotational use of antibiotics in poultry farms in Bangladesh.

Background: The most common cause of death among children is pediatric pneumonia. The increase of antibiotic abuse to treat pediatric pneumonia patients in Bangladesh is alarming for the rise of multidrug-resistant (MDR) bacteria. However, there is a dearth of research available regarding this. Hence, the current study was conducted on a pilot scale to identify the MDR bacteria from pediatric pneumonia patients by molecular approaches. Methods: Saliva  and  nasal  swab  samples  were  collected  for  3  months  (July- September  2019)  from  3children  with  suspected  pneumonia  at  two different  hospitals  in  Jashore  city,  Bangladesh.  Routine  biochemical tests were performed to identify the isolates presumptively. All isolates were  tested  for  antimicrobial  resistance  according  to  CLSI  guidelines using  17  antibiotics.  Finally,  amplified  ribosomal  DNA  restriction analysis  (ARDRA)  and  16S  rRNA  sequencing  with  phylogeny  were performed to confirm the bacteria at the species level. Results: From the samples collected from the patients, 47 isolates were obtained. The  biochemical  tests  presumptively  identified  Acinetobacter spp., as the most prevalent type, which was followed by Staphylococcus spp., and Enterobacter spp. Surprisingly, every isolate was MDR, resistant to at least four antibiotics. Cefepime and Cefotaxime showed the highest (i.e.,  100%  and  87%,  respectively)  resistance  pattern.  In  addition,  the isolates showed elevated resistance towards Amoxicillin, Vancomycin, Streptomycin,  Azithromycin,  Erythromycin,  Norfloxacin,  and Tetracycline. On the contrary, they were susceptible to Imipenem and Meropenem. Subsequently, the isolates were typed into three different groups by ARDRA; the strains Acinetobacter baumannii, Enterobacter hormaechei, and Staphylococcus pasteuri were confirmed. Conclusion: The  rapid  revolution  of  multidrug  resistant  organisms  has  an  impact on morbidity, mortality and healthcare associated cost. Unrestricted use  of  antibiotics  should  be  stopped  and  surveillance  is  necessary  for controlling the emergence of resistant bacteria Bangladesh Journal of Medical Science Vol. 23 No. 03 July’24 Page : 729-738

Background: Nowadays, Health Care Professionals’ (HCPs) are increasingly using mobile phones which may act as reservoirs and vector for transmission of pathogens. The presence of multidrug resistant nosocomial microbes on the surface of mobile phones used by HCPs in hospitals can pose a great public health threat. So, this research was conducted to identify the concerned multi-drug resistant (MDR) bacteria and also to explore the recent status of bacterial contamination on mobile phones of HCPs in the Jashore region of Bangladesh and determine their antibiotic resistance pattern. Methods: Swab samples of mobile phones were collected between June and September 2019 from 24 different users (i.e., manager, worker, doctor and nurse) associated to four distinct hospitals of Jashore region, Bangladesh. After suitable morphological and biochemical identification, we determined their antimicrobial susceptibility by Kirby- Bauer disc diffusion method by using 18 antibiotics for Gram positive bacteria and 19 antibiotics for Gram negative bacteria. Later, the MDR isolates were grouped by amplified ribosomal DNA restriction analysis (ARDRA) and 16S rRNA sequencing with phylogeny were performed to confirm the bacteria at species level. Results: A total of 38 bacterial isolates were obtained from the sample. Enterobacter spp. isolates showed maximum resistance against Amoxicillin, followed by Ampicillin and Aztreonam (80% each) and one isolate showed highest antibiotic resistance (15 out of 19) among all the isolates. In addition, Staphylococcus spp. and Exiguobacterium spp. isolates showed 100% resistance against Penicillin, Ampicillin, Oxacillin, Erythromycin, Lincomycin and Cefotaxime. On the contrary, all of the isolates of Escherichia spp., Bacillus spp., Proteus spp. were sensitive to all tested antibiotics. Surprisingly, 20 MDR isolates were showing resistance to at least 2 antibiotics. Subsequently, three distinct genera of these MDR isolates were identified by ARDRA; the strains Enterobacter cloacae (75%), Staphylococcus warneri (15%) and Exiguobacterium aurantiacum (10%) were confirmed by the 16S rRNA phylogenetic analysis. Conclusion: We found that cell phones can act as reservoirs of multidrug-resistant pathogens, causative agents for Hospital-acquired infections. An effective hygiene practice for health care personnel should be introduced to prevent the cross-contamination by their cell phone Bangladesh Journal of Medical Science Vol. 22 No. 03 July’23 Page : 643-656

Background and Aims Since the beginning of the SARS‐CoV‐2 pandemic, multiple new variants have emerged posing an increased risk to global public health. This study aimed to investigate SARS‐CoV‐2 variants, their temporal dynamics, infection rate (IFR) and case fatality rate (CFR) in Bangladesh by analyzing the published genomes. Methods We retrieved 6610 complete whole genome sequences of the SARS‐CoV‐2 from the GISAID (Global Initiative on Sharing all Influenza Data) platform from March 2020 to October 2022, and performed different in‐silico bioinformatics analyses. The clade and Pango lineages were assigned by using Nextclade v2.8.1. SARS‐CoV‐2 infections and fatality data were collected from the Institute of Epidemiology Disease Control and Research (IEDCR), Bangladesh. The average IFR was calculated from the monthly COVID‐19 cases and population size while average CFR was calculated from the number of monthly deaths and number of confirmed COVID‐19 cases. Results SARS‐CoV‐2 first emerged in Bangladesh on March 3, 2020 and created three pandemic waves so far. The phylogenetic analysis revealed multiple introductions of SARS‐CoV‐2 variant(s) into Bangladesh with at least 22 Nextstrain clades and 107 Pangolin lineages with respect to the SARS‐CoV‐2 reference genome of Wuhan/Hu‐1/2019. The Delta variant was detected as the most predominant (48.06%) variant followed by Omicron (27.88%), Beta (7.65%), Alpha (1.56%), Eta (0.33%) and Gamma (0.03%) variant. The overall IFR and CFR from circulating variants were 13.59% and 1.45%, respectively. A time‐dependent monthly analysis showed significant variations in the IFR (p = 0.012, Kruskal–Wallis test) and CFR (p = 0.032, Kruskal–Wallis test) throughout the study period. We found the highest IFR (14.35%) in 2020 while Delta (20A) and Beta (20H) variants were circulating in Bangladesh. Remarkably, the highest CFR (1.91%) from SARS‐CoV‐2 variants was recorded in 2021. Conclusion Our findings highlight the importance of genomic surveillance for careful monitoring of variants of concern emergence to interpret correctly their relative IFR and CFR, and thus, for implementation of strengthened public health and social measures to control the spread of the virus. Furthermore, the results of the present study may provide important context for sequence‐based inference in SARS‐CoV‐2 variant(s) evolution and clinical epidemiology beyond Bangladesh.

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) that emerged in late 2019 has accumulated a series of point mutations and evolved into several variants of concern (VOCs), some of which are more transmissible and potentially more severe than the original strain. The most notable VOCs are Alpha, Beta, Gamma, Delta, and Omicron, which have spread to various parts of the world. This study conducted surveillance in Jashore, Bangladesh to identify the prevalence of SARS-CoV-2 coinfected with dengue virus and their genomic effect on the emergence of VOCs. A hospital-based COVID-19 surveillance from June to August, 2021 identified 9 453 positive patients in the surveillance area. The study enrolled 572 randomly selected COVID-19-positive patients, of which 11 (2%) had dengue viral coinfection. Whole genome sequences of SARS-CoV-2 were analyzed and compared between coinfection positive and negative group. In addition, we extracted 185 genome sequences from GISAID to investigate the cross-correlation function between SARS-CoV-2 mutations and VOC; multiple ARIMAX(p,d,q) models were developed to estimate the average number of amino acid (aa) substitution among different SARS-CoV-2 VOCs. The results of the study showed that the coinfection group had an average of 30.6 (±1.7) aa substitutions in SARS-CoV-2, whereas the dengue-negative COVID-19 group had that average of 25.6 (±1.8; P < .01). The coinfection group showed a significant difference of aa substitutions in open reading frame (ORF) and N-protein when compared to dengue-negative group (P = .03). Our ARIMAX models estimated that the emergence of SARS-CoV-2 variants Delta required additional 9 to 12 aa substitutions than Alpha, Beta, or Gamma variant. The emergence of Omicron accumulated additional 19 (95% confidence interval [CI]: 15.74, 21.95) aa substitution than Delta. Increased number of point mutations in SARS-CoV-2 genome identified from coinfected cases could be due to the compromised immune function of host and induced adaptability of pathogens during coinfections. As a result, new variants might be emerged when series of coinfection events occur during concurrent two epidemics.

Medical report of the male patient Blood group ABO B Rh Positive Hematological report HGB (Hemoglobin) (cyanomethanoglobin method) 13.0 g/dL ESR (westergren) 35 mm Differential count WBC Total count of WBC 5300/cmm Neutrophils 43% Lymphocytes 48% Eosinophils 3% Monocytes 6% Basophils 0% Total count of platelet 210 000/cmm Biochemical analysis report Random plasma glucose 5.8 mmol/L S. Creatinine 0.9 mg/dL SGPT (ALT) 32 U/L Immunology report D-Dimer 0.21 Case 2: Medical report of the female patient Hematological report HGB (hemoglobin) (cyanomethanoglobin method) 11.5 g/dL ESR (westergren) 20 mm Differential count WBC Total count of WBC 8200/cmm Neutrophils 57% Lymphocytes 35% Eosinophils 6% Monocytes 2% Basophils 0% Total count of platelet 1,86 000/cmm Biochemical analysis report S. Bilirubin 0.8 mg/dL SGPT (ALT) 32 U/L SGOT (AST) 45 Immunology report D-Dimer Not done Partial sequencing of the RBD portion of the spike protein revealed two featured mutations (L452R and T478K) of the B.1.617.2 PANGO lineage for both samples. 14 Whole-genome sequences revealed 38 mutations and 29 aa substitutions for the sample JUST1 (Collected from the female patient, GISAID accession ID—EPI_ISL_ 2 036 272) and 33 mutations and 26 aa substitutions for sample JUST2 (Collected from the male patient, GISAID accession ID—EPI_ISL_1942249). [...]the Nextstrain server (https://nextstrain.org/sars-cov-2/) for SARS-CoV-2 phylodynamics also bolstered our interpretation based on the mutation pattern of the strains. The Delta variants were 50% more transmissible and 60% more lethal (For every one death 1.6 death in ratio compared with the previous version of the virus) with reduced affinity for neutralizing antibody (The L452R mutation confers a reduction of the recognition capability of the immune system) as demonstrated by other studies. 15,16 Transmission of these new variants may cause a similar impact among Bangladeshi population, which introduced the Oxford-Astrazeneca vaccine.