Severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2), a novel evolutionary divergent RNA virus, is responsible for the present devastating COVID-19 pandemic. To explore genomic signatures, we comprehensively analyzed 2,492 complete and/or near-complete genome sequences of SARS-CoV-2 strains reported from across globe to GISAID database up 30 March 2020. Genome-wide annotations revealed 1,516 nucleotide-level variations at different positions throughout entire SARS-CoV-2. Moreover,...

Abstract The emerged novel coronavirus severe acute respiratory syndrome 2 (SARS‐CoV‐2) has created a global health crisis that warrants an accurate and detailed characterization of the rapidly evolving viral genome for understanding its epidemiology, pathogenesis, containment. Here, we explored 61,485 sequences nucleocapsid (N) protein, potent diagnostic prophylactic target, identifying mutations to review their roles in real‐time polymerase chain reaction based diagnosis observe consequent...

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is the etiologic agent of ongoing pandemic disease 2019 (COVID-19), a public health emergency international concerns declared by World Health Organization (WHO). An immuno-informatics approach along with comparative genomics was applied to design multi-epitope-based peptide vaccine against SARS-CoV-2 combining antigenic epitopes S, M, and E proteins. The tertiary structure predicted, refined validated using advanced bioinformatics...

Enterobacter asburiae (E. asburiae) is a gram-negative rod-shaped bacterium which has emerging significance as an opportunistic pathogen having high virulence pattern and drug resistant properties. In this study, we present the detailed analysis of whole genome sequence multidrug-resistant (MDR) E. strain BDW1M3 from Bangladesh. The isolate was collected infected foot wound diabetic ulcer patient. Through sophisticated genomic techniques encompassing sequencing in-depth bioinformatic...

Infecting millions of people, the SARS-CoV-2 is evolving at an unprecedented rate, demanding advanced and specified analytic pipeline to capture mutational spectra. In order explore mutations deletions in spike (S) protein - most-discussed we comprehensively analyzed 35,750 complete S protein-coding sequences through a custom Python-based pipeline. This GISAID-collected dataset until 24 June 2020 covered six continents five major climate zones. We identified 27,801 (77.77% sequences) mutated...

The increasing antimicrobial resistance in Providencia stuartii (P. stuartii) worldwide, particularly concerning for immunocompromised and burn patients, has raised concern Bangladesh, where the significance of this infectious opportunistic pathogen had been previously overlooked, prompting a need investigation. two strains P. SHNIBPS63 SHNIBPS71) isolated from wound swab critically injured patients were found to be multidrug-resistant showed all 22 antibiotics tested as well revealed...

Abstract The microbiome of the anaerobic digester (AD) regulates level energy production. To assess diversity and composition in different stages digestion, we collected 16 samples from AD cow dung (CD) origin. were categorized into four groups (Group-I, Group-II, Group-III Group-IV) based on production (CH 4 %), sequenced through whole metagenome sequencing (WMS). Group-I (n = 2) belonged to initial time whereas Group-II 5), Group-IV 4) had 21–34%, 47–58% 71–74% CH , respectively....

Foot-and-mouth disease virus (FMDV) serotype A exhibits a higher degree of genetic and antigenic diversity resulting in frequent vaccine failure due to serological mismatch between the heterologous strains. Currently, knowledge on molecular basis relationships among FMDVs is limited; nevertheless, intratype variation mutation(s) widely considered as main hurdle appropriate FMD development. Here, we studied variations four FMDV isolates, BAN/GA/Sa-197/2013 (BAN-197), BAN/CH/Sa-304/2016...

Abstract Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is the cause of ongoing pandemic disease 2019 (COVID-19), a public health emergency international concern declared by World Health Organization (WHO). An immuno-informatics approach along with comparative genomic was applied to design multi-epitope-based peptide vaccine against SARS-CoV-2 combining antigenic epitopes S, M and E proteins. The tertiary structure predicted, refined validated using advanced bioinformatics...

Abstract Background The next-generation sequencing (NGS) technology facilitates in-depth study of host-pathogen metatranscriptome. We, therefore, implicated phylodynamic and transcriptomic approaches through NGS to know/understand the dengue virus (DENV) origin host response with fever. Methods In this study, blood serum RNA was extracted from 21 patients 3 healthy individuals. Total data were analyzed for phylogenetic, phylodynamic, differential express gene (DEG), ontology (GO) using...

The novel coronavirus, SARS-CoV-2, has caused the most unfathomable pandemic in history of humankind. Bangladesh is also a victim this critical situation. To investigate genomic features pathogen from Bangladesh, first complete genome virus very recently been published. Therefore, long-awaited questions regarding possible origin and typing strain(s) can now be answered. Here, we endeavor to mainly discuss published reports or online-accessed data (results) those issues present comprehensive...

Pseudomonas aeruginosa (P. aeruginosa) stands out as a key culprit in the colonization of burn wounds, instigating grave infections heightened severity. In this study, we have performed comparative whole genome analysis difficult to treat extensively drug resistant P. isolated from patient order elucidate genomic diversity, molecular patterns, mechanisms and genes responsible for conferring antimicrobial resistance virulence.

Fowl cholera (FC) caused by Pasteurella multocida is a highly contagious bacterial disease of global importance for poultry production. The severity and incidence FC P. may vary considerably depending on several factors associated with the host (including species age infected birds), environment, strain. This study aimed to investigate genetic diversity multidrug-resistant strains isolated from outbreaks in laying hens commercial farms Bangladesh.We collected 57 samples suspected FC,...

Foot-and-mouth disease (FMD) in cloven-hoofed animals is considered an economically devastating endemic countries like Bangladesh, where the livestock sector contributes to a greater portion of nation’s economy. The causative agent disease, foot-and-mouth virus (FMDV), equipped with higher mutational frequency challenges efficacy existing vaccine and control measures. This study, including 32 districts 71 outbreaks reveal epidemiological patterns trends FMDV over past 10 years (2012–2021),...

Abstract In order to explore nonsynonymous mutations and deletions in the spike (S) protein of SARS-CoV-2, we comprehensively analyzed 35,750 complete S gene sequences from across six continents five climate zones around world, as documented GISAID database June 24 th , 2020. Through a custom Python-based pipeline for analyzing mutations, identified 27,801 (77.77 % sequences) mutated strains compared Wuhan-Hu-1 strain. 84.40% these had only single amino-acid (aa) substitution but an outlier...

Frequent vaccine failure leading to recurrent outbreaks of Foot-and-Mouth Disease (FMD) in livestock populations necessitates the development a customizable platform comprising potential antigenic determinants circulating lineages FMD viruses. Artificially designed, chimaeric protein-based recombinant vaccines are novel approaches combat phylogenetically diverse Virus (FMDV) strains. Among seven recognized serotypes, only serotypes O and A dominantly Bangladesh neighbouring countries Asia,...

Abstract The emerging novel coronavirus SARS-CoV-2 has created a global confusing pandemic health crisis that warrants an accurate and detailed characterization of the rapidly evolving viral genome for understanding its epidemiology, pathogenesis containment. We explored 61,485 sequences Nucleocapsid (N) protein, potent diagnostic prophylactic target, identifying mutations to review their roles in RT-PCR based diagnosis observe consequent impacts. Compared Wuhan reference strain, total 1034...

Severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2), a novel evolutionarily divergent RNA virus etiological agent of COVID-19, is responsible for present devastating pandemic illness. To explore the genomic signatures, we comprehensively analyzed 2,492 complete and/or near-complete genome sequences SARS-CoV-2 strains reported from across globe to GISAID database up 30 March 2020. Genome-wide annotations revealed 1,407 nucleotide-level mutations at different positions throughout...

Bangladesh is experiencing a second wave of COVID-19 since March 2021, despite the nationwide vaccination drive with ChAdOx1 (Oxford-AstraZeneca) vaccine from early February 2021. Here, we characterized 19 nasopharyngeal swab (NPS) samples suspect patients using genomic and metagenomic approaches. Screening for SARS-CoV-2 by reverse transcriptase polymerase chain reaction sequencing revealed 17 positive (vaccinated = 10, nonvaccinated 7) 2 negative. We did not find any significant...

The novel coronavirus, SARS-CoV-2, causes the unfathomable pandemic in history of humankind. Bangladesh is also a victim this critical situation. To investigate genomic features pathogen, first complete genome virus has very recently been published. Therefore, long awaiting questions regarding possible origin and typing strain(s) can now be answered. Here, we endeavor to mainly discuss published reports or online-accessed data (results) those issues presented comprehensive picture alongside...

Rhodobacter capsulatus is a purple non-sulfur bacteria widely used as model organism to study bacterial photosynthesis. It exhibits extensive metabolic activities and demonstrates other distinctive characteristics such pleomorphism nitrogen-fixing capability. can act gene transfer agent (GTA). The commercial importance relies on producing polyester polyhydroxyalkanoate (PHA), extracellular nucleic acids, commercially critical single-cell proteins. These diverse features make the an exciting...