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BacMet specifications

Information


Unique identifier OMICS_04930
Name BacMet
Restrictions to use None
Maintained Yes

Publication for BacMet

BacMet citations

 (13)
call_split

Complete Genomic Analysis of a Salmonella enterica Serovar Typhimurium Isolate Cultured From Ready to Eat Pork in China Carrying One Large Plasmid Containing mcr 1

2018
Front Microbiol
PMCID: 5934421
PMID: 29755416
DOI: 10.3389/fmicb.2018.00616
call_split See protocol

[…] m GenBank and used to compare the Salmonella pathogenicity islands (SPIs) with S. Typhimurium WW012 in this study by SPIFinder. Finally, the antibacterial biocide and metal resistance genes database (BacMet) was used to predict the presence of any metal-resistance genes. […]

library_books

Diversity and Antibiotic Susceptibility of Acinetobacter Strains From Milk Powder Produced in Germany

2018
Front Microbiol
PMCID: 5880893
PMID: 29636733
DOI: 10.3389/fmicb.2018.00536

[…] ual et al., ), and PlasmidFinder (Carattoli et al., ) pipelines, respectively. In addition, the contigs related to plasmid sequences were extracted from whole-genome sequence data and were applied to BacMet pipeline (Pal et al., ) to identify antibacterial biocide and metal resistance genes. The draft genomes of three isolates clustering together with the A. pittii and A. calcoaceticus type strain […]

library_books

In depth resistome analysis by targeted metagenomics

2018
Microbiome
PMCID: 5769438
PMID: 29335005
DOI: 10.1186/s40168-017-0387-y

[…] Reads were mapped against our database, comprising ARG-ANNOT [], BacMET [], and ConjDB [] databases independently, using Bowtie2 software []. Bowtie2 was set up to retrieve all end-to-end possible alignments and to suppress both discordant alignments and mixed alig […]

library_books

Arsenic exposure and intestinal microbiota in children from Sirajdikhan, Bangladesh

2017
PLoS One
PMCID: 5718612
PMID: 29211769
DOI: 10.1371/journal.pone.0188487

[…] ent of ORFs was generated by searching NCBI nr database using RAPSearch2 e-value 0.001 followed by MEGAN4 assignment. Arsenic metabolism gene annotation of ORFs was performed by blastx search against BacMet database predicted arsenic metabolism protein dataset (http://bacmet.biomedicine.gu.se/download/BacMet_PRE.40556.fasta). For the ORFs and contigs in Bangladeshi children cohort, we searched the […]

library_books

Exploring the Genome and Phenotype of Multi Drug Resistant Klebsiella pneumoniae of Clinical Origin

2017
Front Microbiol
PMCID: 5660112
PMID: 29109700
DOI: 10.3389/fmicb.2017.01913

[…] l., ). Plasmid replicon typing was performed using PlasmidFinder 1.3 (https://cge.cbs.dtu.dk//services/PlasmidFinder/; Carattoli et al., ). Antibacterial biocide and metal resistance genes were using BacMet 1.1 (http://bacmet.biomedicine.gu.se; Pal et al., ) and virulence genes were determined using the VFDB (http://www.mgc.ac.cn/VFs/; Chen et al., ) and BIGSdb (http://bigsdb.web.pasteur.fr/klebsi […]

library_books

Genomic insights into the pathogenicity and environmental adaptability of Enterococcus hirae R17 isolated from pork offered for retail sale

2017
PMCID: 5727370
PMID: 28799224
DOI: 10.1002/mbo3.514

[…] rvices/PathogenFinder/) was used to distinguish pathogenic from nonpathogenic bacteria using the whole genome sequence data of E. hirae R17 (Cosentino, Voldby Larsen, Moller Aarestrup, & Lund, ). The BacMet database (http://bacmet.biomedicine.gu.se/) was used to predict the antibacterial biocide‐ and metal resistance encoding genes (Pal, Bengtsson‐Palme, Rensing, Kristiansson, & Larsson, ). For 16 […]

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BacMet institution(s)
Department of Infectious Diseases, Institute of Biomedicine, The Sahlgrenska Academy at the University of Gothenburg, Gothenburg, Sweden; Department of Plant and Environmental Sciences, University of Copenhagen, Copenhagen, Denmark; Department of Mathematical Sciences, Chalmers University of Technology, Gothenburg, Sweden

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