From Sequence to Significance: A Thorough Investigation of the Distinctive Genome Traits Uncovered in C. werkmanii strain NIB003

Hossain, M. U.; Tanvir, N. K.; Chowdhury, Z. M.; Rahman, A. N.; Hossain, M. S.; Dey, S.; Bhattacharjee, A.; Ahmed, I.; Hashem, A.; Das, K. C.; Keya, C. A.; Salimullah, M.

doi:10.1101/2023.11.21.568014

bioRxiv · 10.1101/2023.11.21.568014

From Sequence to Significance: A Thorough Investigation of the Distinctive Genome Traits Uncovered in C. werkmanii strain NIB003

Hossain, M. U.·Tanvir, N. K.·Chowdhury, Z. M.·Rahman, A. N.·Hossain, M. S.·Dey, S.·Bhattacharjee, A.·Ahmed, I.·Hashem, A.·Das, K. C.·Keya, C. A.·Salimullah, M.

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Abstract

Citrobacter werkmanii (C. werkmanii) is an opportunistic bacterium that has received very little investigation in Bangladesh, even though it is thought to be capable of causing diseases including diarrhea and urinary tract infections. Therefore, the present study focuses on the exploration of genomic features, including antibiotic resistance genes, virulent genes, and their distinctive nature in the pathogenesis of diseases. A complete genome was sequenced for the first time in Bangladesh after the morphological, biochemical and molecular identification of this bacteria. A total of 47,65,861 nucleotide base pairs makes up the genome, which contains 4669 genes, and many of the protein-coding genes can be classified into various ontological frameworks, including COG and KEGG pathways. Notably, C. werkmanii has the capability to have interactions with Escherichia coli, Salmonella, and Klebsiella while they possess the same domains and motifs, indicating a causal role in the development of diarrhea. Furthermore, the Bangladeshi isolate of C. werkmaii has observed genetic heterogeneity when compared to other strains of C. werkmanii: C. werkmanii FDAARGOS_616, C. werkmanii LCU-V21, and C. werkmanii BF-6. This identified genetic variation of sequenced C. werkmanii could drive the functional aberration in body homeostasis of bacteria. Later, molecular dynamics studies have proven the impact of their genetic variation on the protein structure, as indicated by the SASA, RMSD, Rg, and RMSF values. Finally, the findings of C. werkmanii from the sequenced genome might provide us with a better understanding of C. werkmanii and their possible role as opportunistic bacteria in diseases including diarrhea and urinary tract infections.

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Hossain, M. U., Tanvir, N. K., Chowdhury, Z. M., Rahman, A. N., Hossain, M. S., Dey, S., Bhattacharjee, A., Ahmed, I., Hashem, A., Das, K. C., Keya, C. A., Salimullah, M.. 2023-11-21. From Sequence to Significance: A Thorough Investigation of the Distinctive Genome Traits Uncovered in C. werkmanii strain NIB003. https://doi.org/10.1101/2023.11.21.568014

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