Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1116
  Reference Plasmid   NZ_CP117194.1
  Reference Plasmid Size   187379
  Reference Plasmid GC Content   0.60
  Reference Plasmid Mobility Type   non-mobilizable





Mutation sites in the plasmid cluster


The table lists mutations identified in the plasmid cluster.
Note: Mutations identified in this plasmid cluster are listed below. Click on a mutation ID to view full details..

mutid gname pos count tissue frequnt biotype consequence impact nucchange aachange
M0109206 IOIFPPNL_00058 50805 4 Skin 0.29 protein_coding missense_variant MODERATE 839G>A Arg280His
M0109207 IOIFPPNL_00058 50895 4 Skin 0.29 protein_coding missense_variant MODERATE 749G>A Gly250Asp
M0109208 IOIFPPNL_00058 50939 4 Skin 0.29 protein_coding synonymous_variant LOW 705A>C Ser235Ser
M0109209 IOIFPPNL_00058 51044 4 Skin 0.29 protein_coding synonymous_variant LOW 600C>T Pro200Pro
M0109210 IOIFPPNL_00058 51058 4 Skin 0.29 protein_coding missense_variant MODERATE 586T>G Ser196Ala
M0109211 IOIFPPNL_00058 51224 4 Skin 0.29 protein_coding missense_variant MODERATE 420G>T Lys140Asn






Analysis of virulence factors contributing to bacterial pathogenicity


This table presents virulence factors identified within the plasmid cluster.
      Note: Virulence factor analysis was performed using VFDB. Genes in plasmid clusters showing strong homology (identity > 70%, coverage > 70%, E-value < 1e-5) to known virulence factors are listed.

Gene Name vf_gene_id vf_name identity evalue qstart qend query_coverage subject_coverage vf_category gene_description condition







        Analysis of biocide and heavy metal resistance genes to assess antimicrobial risk and environmental impact


This table presents biocides and heavy metals resistance genes identified within the plasmid cluster.
      Note: Analyzing biocide and heavy metal resistance genes based on BacMet to evaluate bacterial resistance risk and the potential impact of environmental heavy metal contamination. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, E-value < 1e-5) to known biocide and heavy metal resistance genes are listed.

Gene Name compound identity evalue qstart qend query_coverage subject_coverage group
IOIFPPNL_00198 Nickel (Ni), Cobalt (Co), Cadmium (Cd) 77.5 0 1 1063 0.9852 0.9879 experiment
IOIFPPNL_00025 Mercury (Hg) 83.5 9.5e-228 121 622 0.5169 0.8372 prediction
IOIFPPNL_00153 Mercury (Hg) 92.4 1.2e-249 117 618 0.5180 0.8355 prediction
IOIFPPNL_00192 Mercury (Hg) 92.4 1.2e-249 117 618 0.5180 0.8355 prediction
IOIFPPNL_00195 Nickel (Ni), Cobalt (Co) 100 6.2e-235 1 439 1.0000 1.0000 prediction
IOIFPPNL_00198 Nickel (Ni), Cobalt (Co), Cadmium (Cd) 77.2 0 1 1073 0.9954 0.9963 prediction






        Analyzing antimicrobial resistance genes to assess bacterial resistance to antibiotics and other antimicrobial agents


This table presents antimicrobial resistance genes identified within the plasmid cluster.
      Note: Antimicrobial resistance was performed using CARD. Genes in plasmid clusters showing strong homology (identity > 70%, coverage > 70%, E-value < 1e-5) to known antimicrobial resistance genes are listed.

Gene Name aro_accession identity evalue qstart qend query_coverage subject_coverage drug_class amr_gene_family resistance_mechanism






Analysis of pathogenicity genes to explore pathogen-host interactions


This table presents host pathogen-host interactions within the plasmid cluster.
      Note: Analyzing pathogenicity-related genes using PHI-base to understand pathogen virulence mechanisms and their impact on host interactions. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e-5) to known pathogenicity-related genes are listed.

Gene Name phi_molconn_id host gene_name identity evalue qstart qend query_coverage subject_coverage host_descripton disease_name function phenotype_of_mutant
IOIFPPNL_00154 PHI:11000 hyaA 72.3 2.2e-163 66 422 0.8302 0.9624 rodents infection hydrogenase-1 small chain unaffected pathogenicity






        Analyzing carbohydrate-active enzyme genes to uncover mechanisms of nutrient degradation


This table presents carbohydrate-active enzyme genes identified within the plasmid cluster.
      Note: Annotation of carbohydrate-active enzyme genes was performed using CAZy to explore mechanisms of nutrient breakdown and utilization. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e−5) to known CAZyme genes are listed.

Gene Name cazy_id identity evalue qstart qend query_coverage subject_coverage





        Analyzing transport proteins to understand bacterial strategies for substrate uptake and detoxification


This table presents transport proteins within the plasmid cluster.
      Note: Investigation of transport proteins based on TCDB to uncover bacterial mechanisms of substrate transport and environmental detoxification. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e−5) to known transport protein entries are listed.

Gene Name tcid identity evalue qstart qend query_coverage subject_coverage class_field class_term subclass subclass_term family family_term
IOIFPPNL_00198 2.A.6.1.12 77.5 0 1 1063 0.9852 0.9870 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.6 The Resistance-Nodulation-Cell Division (RND) Superfamily