Genomic and evolutionary features of two AHPND positive Vibrio parahaemolyticus strains isolated from shrimp (Penaeus monodon) of south-west Bangladesh

Ahmmed, Shawon; Khan, A. A.; Eshik, Md. Mostavi Enan; Punom, Nusrat Jahan; Islam, Abul B.M.M.K.; Rahman, Mohammad Shamsur

doi:10.21203/rs.2.14490/v3

Cited by 1 publication

(3 citation statements)

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“…28 The strain MSR16 genome encoded a total of 5479 genes, 1403 of which were annotated as HP, whereas the strain MSR17 genome encoded a total of 5187 genes, 1228 of which were annotated as HP. 18 Using an in-house python script, the coding sequences (CDS) annotated as hypothetical proteins were retrieved from those genomes ( Supplementary Table 1 ).…”

Section: Methodsmentioning

confidence: 99%

“… 1 Even though the plasmid-encoded binary toxins pirA and pirB have been identified as the leading cause of AHPND in shrimp, additional virulence factors reported in V. parahaemolyticus might play a key role during infection. 17 , 18 …”

Section: Introductionmentioning

confidence: 99%

“…Two isolates of V. parahaemolyticus (strains MSR16 and MSR17) were isolated from cultured shrimp ( P. monodon ) in the southwest region of Bangladesh, and their genomes had been sequenced and published, way that allows genomics and proteomics analyses to gain a detailed understanding of microbial virulence mechanisms and underlying pathogenesis. 18 Nonetheless, gaining a better understanding of these mechanisms remains a challenge. During proteomic studies, functional annotation is essential to determine the function of proteins.…”

Section: Introductionmentioning

confidence: 99%

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Functional Analysis of Hypothetical Proteins of Vibrio parahaemolyticus Reveals the Presence of Virulence Factors and Growth-Related Enzymes With Therapeutic Potential

Shahrear

Zinnia

Sany

et al. 2022

Bioinform Biol Insights

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Vibrio parahaemolyticus, an aquatic pathogen, is a major concern in the shrimp aquaculture industry. Several strains of this pathogen are responsible for causing acute hepatopancreatic necrosis disease as well as other serious illness, both of which result in severe economic losses. The genome sequence of two pathogenic strains of V. parahaemolyticus, MSR16 and MSR17, isolated from Bangladesh, have been reported to gain a better understanding of their diversity and virulence. However, the prevalence of hypothetical proteins (HPs) makes it challenging to obtain a comprehensive understanding of the pathogenesis of V. parahaemolyticus. The aim of the present study is to provide a functional annotation of the HPs to elucidate their role in pathogenesis employing several in silico tools. The exploration of protein domains and families, similarity searches against proteins with known function, gene ontology enrichment, along with protein-protein interaction analysis of the HPs led to the functional assignment with a high level of confidence for 656 proteins out of a pool of 2631 proteins. The in silico approach used in this study was important for accurately assigning function to HPs and inferring interactions with proteins with previously described functions. The HPs with function predicted were categorized into various groups such as enzymes involved in small-compound biosynthesis pathway, iron binding proteins, antibiotics resistance proteins, and other proteins. Several proteins with potential druggability were identified among them. In addition, the HPs were investigated in search of virulent factors, which led to the identification of proteins that have the potential to be exploited as vaccine candidate. The findings of the study will be effective in gaining a better understanding of the molecular mechanisms of bacterial pathogenesis. They may also provide an insight into the process of evaluating promising targets for the development of drugs and vaccines against V. parahaemolyticus.

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Section: Methodsmentioning

confidence: 99%