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MvirDB specifications

Information


Unique identifier OMICS_03201
Name MvirDB
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Not allowed
Maintained No

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Publication for MvirDB

MvirDB citations

 (27)
library_books

Probing the Phylogenomics and Putative Pathogenicity Genes of Pythium insidiosum by Oomycete Genome Analyses

2018
Sci Rep
PMCID: 5841299
PMID: 29515152
DOI: 10.1038/s41598-018-22540-1

[…] an infection during its evolution. We began to address this hypothesis by looking for Py. insidiosum-specific genes (based on comparative genomic analysis) and putative virulence factors (based on an MvirDB database search). We found 1,194 Py. insidiosum-specific proteins, without homology to any reported proteins. Of these proteins, ~10% can be readily validated (by peptide mapping) in terms of t […]

library_books

Exploring the Genomic Traits of Non toxigenic Vibrio parahaemolyticus Strains Isolated in Southern Chile

2018
Front Microbiol
PMCID: 5809470
PMID: 29472910
DOI: 10.3389/fmicb.2018.00161

[…] lyticus strains. The criterion of selection was based on detection of the GIs by the three tools, presence of mobile-related genes (integrases or transposases) and size > 8 kb. The virulence database MvirDB () was used to predict putative virulence factors. All predicted genes of the V. parahaemolyticus strains were searched against the MvirDB by BLASTP with loose criteria (e-value ≥ 1 × 10-5; ide […]

call_split

The Emerging Fish Pathogen Flavobacterium spartansii Isolated from Chinook Salmon: Comparative Genome Analysis and Molecular Manipulation

2017
Front Microbiol
PMCID: 5714932
PMID: 29250046
DOI: 10.3389/fmicb.2017.02339
call_split See protocol

[…] nd Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) were predicted using the CRISPRfinder (Grissa et al., ). Detection and identification of virulence factors were carried out using MvirDB database (Zhou et al., ). Some virulence factors found in Bacteroidetes were manually compared among those fish pathogens and environmental isolates (Chen et al., ). For genome similarity asses […]

library_books

Population Genomic Insights into Variation in Prevotella intermedia and Prevotella nigrescens Isolates and Its Association with Periodontal Disease

2017
PMCID: 5613308
PMID: 28983469
DOI: 10.3389/fcimb.2017.00409

[…] , ), and sequences under the thresholds of length ≥500 bp and sequence identity < 90% were predicted as insert sequences. The predicted insert sequences were further searched using BlastX analysis in MvirDB database (MvirDB; last accessed April 21, 2012; Zhou et al., ) to investigate the possible mobile genetic elements (e.g., conjugate transposons, transposases, and integrases) (E value ≤ 1e-7). […]

library_books

Recent urbanization in China is correlated with a Westernized microbiome encoding increased virulence and antibiotic resistance genes

2017
Microbiome
PMCID: 5603068
PMID: 28915922
DOI: 10.1186/s40168-017-0338-7

[…] was used to assign KEGG functions. In addition, whole genome sequencing reads were aligned to the Comprehensive Antibiotic Resistance Database (CARD) protein homolog database, version 1.0.4 [] or to MvirDB [] to assess the presence of antibiotic resistance and virulence factors. All sequences have been deposited in NCBI SRA (https://www.ncbi.nlm.nih.gov/sra) under BioProject PRJNA349463. Accessio […]

library_books

Excess labile carbon promotes the expression of virulence factors in coral reef bacterioplankton

2017
PMCID: 5739002
PMID: 28895945
DOI: 10.1038/ismej.2017.142

[…] . For instance, microbial interaction genes were identified based on the PAMGO (Plant-Associated Microbe Gene Ontology) Consortium (). Virulence genes were assigned by a BLASTn v2.2.28 search against MvirDB () and VFDB () databases (both downloaded on 25 March 16), supplemented with GO terms related to pathogenesis (). Sugar transporters were identified using the Carbohydrate Active Enzymes databa […]

Citations

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MvirDB institution(s)
Pathogen Bioinformatics, Mailstop L-174, Energy Environment and Biology Division, Computations Directorate, Lawrence Livermore National Laboratory, Livermore, CA, USA; Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University, Blacksburg, VA, USA
MvirDB funding source(s)
Supported by funding from the U.S. Department of Homeland Security.

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