Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1456
  Reference Plasmid   OV141394.1
  Reference Plasmid Size   362852
  Reference Plasmid GC Content   0.47
  Reference Plasmid Mobility Type   conjugative





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
M0211114 ADIKFMHL_00257 218748 4 Gut 0.67 protein_coding synonymous_variant LOW 132C>T Asp44Asp
M0211115 ADIKFMHL_00257 218805 4 Gut 0.67 protein_coding synonymous_variant LOW 189T>G Val63Val
M0211116 ADIKFMHL_00257 218835 4 Gut 0.67 protein_coding synonymous_variant LOW 219T>C Thr73Thr
M0211117 ADIKFMHL_00257 218841 4 Gut 0.67 protein_coding synonymous_variant LOW 225T>C Asp75Asp
M0211118 ADIKFMHL_00257 218859 4 Gut 0.67 protein_coding synonymous_variant LOW 243G>A Lys81Lys
M0211119 ADIKFMHL_00257 218862 4 Gut 0.67 protein_coding synonymous_variant LOW 246A>G Glu82Glu
M0211120 ADIKFMHL_00257 218868 4 Gut 0.67 protein_coding synonymous_variant LOW 252C>T Asp84Asp
M0211121 ADIKFMHL_00257 218877 4 Gut 0.67 protein_coding synonymous_variant LOW 261C>T Gly87Gly
M0211122 ADIKFMHL_00257 218880 4 Gut 0.67 protein_coding synonymous_variant LOW 264G>C Val88Val
M0211123 ADIKFMHL_00257 218883 4 Gut 0.67 protein_coding synonymous_variant LOW 267A>G Ala89Ala
M0211124 ADIKFMHL_00257 218886 4 Gut 0.67 protein_coding synonymous_variant LOW 270C>T Val90Val
M0211125 ADIKFMHL_00257 218892 4 Gut 0.67 protein_coding synonymous_variant LOW 276C>T Phe92Phe
M0211126 ADIKFMHL_00257 218898 4 Gut 0.67 protein_coding synonymous_variant LOW 282T>C Asp94Asp
M0211127 ADIKFMHL_00257 218964 4 Gut 0.67 protein_coding synonymous_variant LOW 348G>A Gln116Gln
M0211128 ADIKFMHL_00257 218988 4 Gut 0.67 protein_coding synonymous_variant LOW 372A>G Glu124Glu
M0211129 ADIKFMHL_00251 219177 4 Gut 0.67 protein_coding upstream_gene_variant MODIFIER -4156G>A None
M0211130 ADIKFMHL_00251 219180 4 Gut 0.67 protein_coding upstream_gene_variant MODIFIER -4159G>A None
M0211131 ADIKFMHL_00258 219411 4 Gut 0.67 protein_coding missense_variant MODERATE 55C>T Leu19Phe
M0211132 ADIKFMHL_00258 219494 4 Gut 0.67 protein_coding synonymous_variant LOW 138A>G Glu46Glu
M0211133 ADIKFMHL_00258 219584 4 Gut 0.67 protein_coding synonymous_variant LOW 228C>T Gly76Gly
M0211134 ADIKFMHL_00258 219660 4 Gut 0.67 protein_coding missense_variant MODERATE 304G>A Glu102Lys
M0211135 ADIKFMHL_00258 219752 4 Gut 0.67 protein_coding synonymous_variant LOW 396T>G Ala132Ala
M0211136 ADIKFMHL_00258 219830 4 Gut 0.67 protein_coding synonymous_variant LOW 474T>C Thr158Thr
M0211137 ADIKFMHL_00258 219895 4 Gut 0.67 protein_coding missense_variant MODERATE 539T>C Met180Thr
M0211138 ADIKFMHL_00258 220062 4 Gut 0.67 protein_coding missense_variant MODERATE 706G>A Gly236Ser
M0211139 ADIKFMHL_00253 221224 4 Gut 0.67 protein_coding upstream_gene_variant MODIFIER -4689G>T None






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
ADIKFMHL_00129 Tellurium (Te) 99 1.1e-105 1 191 1.0000 1.0000 experiment
ADIKFMHL_00130 Tellurium (Te) 99 6.3e-106 1 192 1.0000 1.0000 experiment
ADIKFMHL_00131 Tellurium (Te) 99.1 8.8e-191 1 346 1.0000 1.0000 experiment
ADIKFMHL_00132 Tellurium (Te) 100 5.7e-62 1 118 0.7815 0.9672 experiment
ADIKFMHL_00133 Tellurium (Te) 99.1 2.4e-197 45 383 0.8851 1.0000 experiment
ADIKFMHL_00134 Tellurium (Te) 81.9 4.7e-93 1 193 0.9948 1.0000 experiment
ADIKFMHL_00155 Copper (Cu), Gold (Au) 78.6 0 82 830 0.9013 0.9829 experiment
ADIKFMHL_00191 Gold (Au), Methylene Blue [class: Thiazinium], Crystal Violet [class: Triarylmethane] 79.9 0 1 1044 0.9886 0.9905 experiment
ADIKFMHL_00228 Tellurium (Te) 73.9 2.4e-55 1 153 0.9745 0.9871 experiment
ADIKFMHL_00129 Tellurium (Te) 100 3.8e-104 1 191 1.0000 1.0000 prediction
ADIKFMHL_00130 Tellurium (Te) 100 4.5e-105 1 192 1.0000 1.0000 prediction
ADIKFMHL_00131 Tellurium (Te) 100 1.3e-190 1 346 1.0000 1.0000 prediction
ADIKFMHL_00132 Tellurium (Te) 100 7.4e-79 1 151 1.0000 0.9869 prediction
ADIKFMHL_00133 Tellurium (Te) 100 4.7e-223 1 383 1.0000 1.0000 prediction
ADIKFMHL_00134 Tellurium (Te) 86 5.5e-95 1 193 0.9948 1.0000 prediction
ADIKFMHL_00141 Tellurium (Te) 70.3 7.3e-50 1 148 0.9737 0.9548 prediction
ADIKFMHL_00155 Copper (Cu), Gold (Au) 100 0 1 831 1.0000 1.0000 prediction
ADIKFMHL_00191 Gold (Au), Methylene Blue [class: Thiazinium], Crystal Violet [class: Triarylmethane] 80.2 0 1 1047 0.9915 0.9905 prediction
ADIKFMHL_00228 Tellurium (Te) 74.5 2.9e-54 1 153 0.9745 0.9871 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
ADIKFMHL_00191 ARO:3000790 79.9 0 1 1044 0.9886 0.9905 monobactam resistance-nodulation-cell division (RND) antibiotic efflux pump antibiotic efflux
ADIKFMHL_00246 ARO:3002790 100 1.11e-111 1 218 1.0000 1.0000 fluoroquinolone antibiotic quinolone resistance protein (qnr) antibiotic target protection
ADIKFMHL_00253 ARO:3001878 100 1.15e-202 1 291 1.0000 1.0000 cephalosporin CTX-M beta-lactamase antibiotic inactivation
ADIKFMHL_00258 ARO:3000873 100 5.12e-208 1 286 1.0000 1.0000 monobactam TEM beta-lactamase antibiotic inactivation
ADIKFMHL_00259 ARO:3004621 99 6.49e-211 1 286 1.0000 1.0000 aminoglycoside antibiotic AAC(3) antibiotic inactivation
ADIKFMHL_00290 ARO:3002735 99.5 2.28e-107 1 214 1.0000 0.9469 fluoroquinolone antibiotic quinolone resistance protein (qnr) antibiotic target protection






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
ADIKFMHL_00300 PHI:9804 int 100 2.1e-14 1 37 0.2090 1.0000 rodents gastroenteritis integrase reduced virulence






        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
ADIKFMHL_00083 APD70732.1|GH23 100 7.62e-152 1 204 1 1
ADIKFMHL_00149 QGU13475.1|CE11 100 7.15e-226 1 315 1 1





        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
ADIKFMHL_00131 2.A.109.1.1 90.8 1.2e-175 1 346 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.109 The Tellurium Ion Resistance (TerC) Family
ADIKFMHL_00155 3.A.3.5.20 78.6 0 82 830 0.9013 0.9829 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.3 The P-type ATPase (P-ATPase) Superfamily
ADIKFMHL_00161 1.B.162.1.1 86.9 7.3e-67 78 207 0.6250 0.9924 1 Channels/Pores 1.B β-Barrel Porins 1.B.162 The Cyclic oligonucleotide-based Antiphage Signaling System (CBASS) Family
ADIKFMHL_00191 2.A.6.2.25 79.9 0 1 1044 0.9877 2.0775 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.6 The Resistance-Nodulation-Cell Division (RND) Superfamily