Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1243
  Reference Plasmid   NZ_CP141538.1
  Reference Plasmid Size   360600
  Reference Plasmid GC Content   0.51
  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
M0200621 OOLELIFE_00285 264921 3 Gut 0.60 protein_coding synonymous_variant LOW 69A>G Ser23Ser
M0200622 OOLELIFE_00291 273845 3 Gut 0.60 protein_coding missense_variant MODERATE 301A>G Asn101Asp






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
OOLELIFE_00283 VFG034679 Ibes 71.9 5.2e-183 1 459 0.9957 0.9978 Invasion Cu(+)/Ag(+) efflux RND transporter outer membrane channel CusC experiment
OOLELIFE_00283 VFG034652 Ibes 71.9 3e-182 1 459 0.9957 0.9978 Invasion Cu(+)/Ag(+) efflux RND transporter outer membrane channel CusC prediction







        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
OOLELIFE_00231 Benzylkonium Chloride (BAC) [class: Quaternary Ammonium Compounds (QACs)], Ethidium Bromide [class: Phenanthridine], Acriflavine [class: Acridine], Chlorhexidine [class: Biguanides], Pyronin Y [class: Xanthene], Rhodamine 6G [class: Xanthene], Methyl Viologen [class: Paraquat], Tetraphenylphosphonium (TPP) [class: Quaternary Ammonium Compounds (QACs)], 4,6-diamidino-2-phenylindole (DAPI) [class: Diamindine], Acridine Orange [class: Acridine], Sodium Dodecyl Sulfate (SDS) [class: Organo-sulfate], Sodium Deoxycholate (SDC) [class: Acid], Crystal Violet [class: Triarylmethane], Cetrimide (CTM) [class: Quaternary Ammonium Compounds (QACs)], Cetylpyridinium Chloride (CPC) [class: Quaternary Ammonium Compounds (QACs)], Dequalinium [class: Quaternary Ammonium Compounds (QACs)] 100 1.1e-60 1 115 1.0000 1.0000 experiment
OOLELIFE_00262 Mercury (Hg) 78.2 4.9e-33 1 78 1.0000 1.0000 experiment
OOLELIFE_00263 Mercury (Hg) 82.6 1.3e-48 1 120 1.0083 1.0000 experiment
OOLELIFE_00264 Mercury (Hg) 86.5 3.9e-273 1 564 1.0018 1.0071 experiment
OOLELIFE_00265 Mercury (Hg) 80.1 1.6e-61 1 141 1.0000 1.0000 experiment
OOLELIFE_00266 Mercury (Hg) 85.7 4.5e-38 1 91 1.0000 1.0000 experiment
OOLELIFE_00267 Mercury (Hg) 99.1 6e-62 7 121 0.9504 0.9914 experiment
OOLELIFE_00268 Mercury (Hg) 88.7 5.5e-73 1 151 1.0000 1.0000 experiment
OOLELIFE_00280 Silver (Ag) 100 2.2e-76 40 182 0.7857 1.0000 experiment
OOLELIFE_00281 Silver (Ag) 94 1.5e-260 1 493 1.0081 1.0000 experiment
OOLELIFE_00282 Silver (Ag) 93.4 9.3e-117 1 226 1.0088 1.0000 experiment
OOLELIFE_00283 Silver (Ag) 97.6 1e-250 1 461 1.0000 1.0000 experiment
OOLELIFE_00284 Silver (Ag) 98.9 3.1e-47 28 117 0.7692 0.9375 experiment
OOLELIFE_00285 Silver (Ag) 98.4 3.2e-243 1 430 1.0000 1.0000 experiment
OOLELIFE_00286 Silver (Ag) 99.4 0 1 1048 1.0000 1.0000 experiment
OOLELIFE_00288 Silver (Ag) 98.3 0 1 813 1.0012 0.9879 experiment
OOLELIFE_00292 Copper (Cu) 99.8 0 1 605 1.0000 1.0000 experiment
OOLELIFE_00293 Copper (Cu) 100 1.5e-175 1 296 1.0000 1.0000 experiment
OOLELIFE_00294 Copper (Cu) 100 4.9e-67 1 126 1.0000 1.0000 experiment
OOLELIFE_00295 Copper (Cu) 100 1.9e-165 1 309 1.0000 1.0000 experiment
OOLELIFE_00296 Copper (Cu) 100 1.7e-126 1 226 1.0000 1.0000 experiment
OOLELIFE_00297 Copper (Cu) 99.4 1.5e-262 1 466 1.0000 1.0000 experiment
OOLELIFE_00298 Copper (Cu), Silver (Ag) 92.4 3.7e-66 1 144 1.0000 1.0000 experiment
OOLELIFE_00326 Tellurium (Te) 88.5 6.3e-98 1 191 1.0000 1.0000 experiment
OOLELIFE_00327 Tellurium (Te) 95.8 1.9e-102 1 192 1.0000 1.0000 experiment
OOLELIFE_00328 Tellurium (Te) 90.5 1.4e-175 1 346 1.0000 1.0000 experiment
OOLELIFE_00329 Tellurium (Te) 91.5 1.5e-57 1 118 0.7815 0.9672 experiment
OOLELIFE_00330 Tellurium (Te) 77.8 5.8e-159 45 385 0.8909 1.0118 experiment
OOLELIFE_00331 Tellurium (Te) 96.4 7.5e-107 1 193 1.0000 1.0000 experiment
OOLELIFE_00338 Tellurium (Te) 100 1.1e-79 1 155 1.0000 1.0000 experiment
OOLELIFE_00262 Mercury (Hg) 83.3 2.7e-32 1 78 1.0000 1.0000 prediction
OOLELIFE_00263 Mercury (Hg) 91.7 5.5e-53 1 120 1.0000 1.0000 prediction
OOLELIFE_00264 Mercury (Hg), Phenylmercury Acetate [class: Organo-mercury] 100 0 1 564 1.0000 1.0000 prediction
OOLELIFE_00265 Mercury (Hg) 80.9 3.2e-60 1 141 1.0000 1.0000 prediction
OOLELIFE_00266 Mercury (Hg) 94.5 9.1e-40 1 91 1.0000 1.0000 prediction
OOLELIFE_00267 Mercury (Hg) 100 1.2e-63 1 121 1.0000 1.0000 prediction
OOLELIFE_00268 Mercury (Hg) 99.3 7.9e-81 1 151 1.0000 1.0000 prediction
OOLELIFE_00280 Silver (Ag) 100 5.1e-74 40 182 0.7857 1.0000 prediction
OOLELIFE_00281 Silver (Ag) 100 3.9e-278 1 493 1.0000 1.0000 prediction
OOLELIFE_00282 Silver (Ag) 100 1e-124 1 226 1.0000 1.0000 prediction
OOLELIFE_00283 Silver (Ag) 100 1.6e-254 1 461 1.0000 0.8986 prediction
OOLELIFE_00284 Silver (Ag) 100 1.6e-60 1 117 1.0000 1.0000 prediction
OOLELIFE_00285 Silver (Ag) 100 3.2e-244 1 430 1.0000 1.0000 prediction
OOLELIFE_00286 Silver (Ag) 100 0 1 1048 1.0000 1.0000 prediction
OOLELIFE_00288 Silver (Ag) 100 0 1 813 1.0000 1.0000 prediction
OOLELIFE_00292 Copper (Cu) 100 0 1 605 1.0000 1.0000 prediction
OOLELIFE_00293 Copper (Cu) 100 3.5e-173 1 296 1.0000 0.9900 prediction
OOLELIFE_00294 Copper (Cu) 100 1.1e-64 1 126 1.0000 1.0000 prediction
OOLELIFE_00295 Copper (Cu) 100 4.4e-163 1 309 1.0000 1.0000 prediction
OOLELIFE_00296 Copper (Cu) 100 3.9e-124 1 226 1.0000 0.9741 prediction
OOLELIFE_00297 Copper (Cu) 100 2.8e-262 1 466 1.0000 1.0000 prediction
OOLELIFE_00298 Copper (Cu), Silver (Ag) 100 4.3e-68 1 144 1.0000 1.0000 prediction
OOLELIFE_00326 Tellurium (Te) 89.5 2.2e-96 1 191 1.0000 1.0000 prediction
OOLELIFE_00327 Tellurium (Te) 100 2.9e-104 1 192 1.0000 1.0000 prediction
OOLELIFE_00328 Tellurium (Te) 100 7.4e-191 1 346 1.0000 1.0000 prediction
OOLELIFE_00329 Tellurium (Te) 100 2.5e-79 1 151 1.0000 1.0000 prediction
OOLELIFE_00330 Tellurium (Te) 79.6 7e-182 1 385 1.0052 1.0104 prediction
OOLELIFE_00331 Tellurium (Te) 100 2e-108 1 193 1.0000 1.0000 prediction
OOLELIFE_00338 Tellurium (Te) 100 2.4e-77 1 155 1.0000 1.0000 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
OOLELIFE_00229 ARO:3002192 100 3.86e-183 1 246 1.0000 1.0000 carbapenem IMP beta-lactamase antibiotic inactivation
OOLELIFE_00230 ARO:3002577 100 7.15e-137 1 184 1.0000 1.0000 aminoglycoside antibiotic AAC(6') antibiotic inactivation
OOLELIFE_00231 ARO:3005010 100 2.01e-78 1 115 1.0000 1.0000 disinfecting agents and antiseptics major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
OOLELIFE_00232 ARO:3000410 100 2.94e-199 1 279 1.0000 1.0000 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement
OOLELIFE_00238 ARO:3003839 100 4.74e-272 1 412 1.0000 1.0000 macrolide antibiotic macrolide phosphotransferase (MPH) antibiotic inactivation
OOLELIFE_00239 ARO:3000316 100 1e-217 1 301 1.0000 1.0000 macrolide antibiotic macrolide phosphotransferase (MPH) antibiotic inactivation
OOLELIFE_00241 ARO:3004621 99 6.49e-211 1 286 1.0000 1.0000 aminoglycoside antibiotic AAC(3) antibiotic inactivation
OOLELIFE_00247 ARO:3002860 100 4.67e-113 1 157 1.0000 1.0000 diaminopyrimidine antibiotic trimethoprim resistant dihydrofolate reductase dfr antibiotic target replacement
OOLELIFE_00250 ARO:3002737 92.6 5.96e-110 1 215 1.0000 1.0000 fluoroquinolone antibiotic quinolone resistance protein (qnr) antibiotic target protection
OOLELIFE_00257 ARO:3002132 100 3.97e-277 1 379 1.0000 1.0000 cephalosporin DHA beta-lactamase antibiotic inactivation






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
OOLELIFE_00228 PHI:9804 int 97.3 1.2e-13 1 37 0.1098 1.0000 rodents gastroenteritis integrase reduced virulence
OOLELIFE_00248 PHI:9804 int 100 2.7e-14 1 37 0.1595 1.0000 rodents gastroenteritis integrase reduced virulence
OOLELIFE_00252 PHI:7657 pspA 94.6 1e-103 1 222 1.0000 1.0000 rodents salmonellosis phage-shock protein reduced virulence
OOLELIFE_00253 PHI:7658 pspB 89.2 6e-32 1 74 1.0000 1.0000 rodents salmonellosis phage-shock protein reduced virulence
OOLELIFE_00254 PHI:7659 pspC 87.4 2.6e-53 1 119 1.0000 1.0000 rodents salmonellosis phage-shock protein reduced virulence
OOLELIFE_00255 PHI:7660 pspD 84.5 8.3e-29 1 71 0.9342 0.9861 rodents salmonellosis phage-shock protein 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
OOLELIFE_00351 QET52196.1|GH23 100 7.6e-129 1 171 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
OOLELIFE_00234 2.A.51.1.7 99.5 5.1e-210 1 376 0.9377 0.9666 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.51 The Chromate Ion Transporter (CHR) Family
OOLELIFE_00252 9.B.100.1.1 94.6 2.3e-103 1 222 1.0000 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.100 The Phage Shock Protein (Psp) Family
OOLELIFE_00262 1.A.72.5.1 100 1.8e-39 1 78 1.0000 1.0000 1 Channels/Pores 1.A α-Type Channels 1.A.72 The Mercuric Ion Pore (Mer) Superfamily
OOLELIFE_00266 1.A.72.3.1 85.7 1.7e-36 1 91 1.0000 1.0000 1 Channels/Pores 1.A α-Type Channels 1.A.72 The Mercuric Ion Pore (Mer) Superfamily
OOLELIFE_00267 1.A.72.3.1 93 4.4e-56 7 121 0.9504 1.2637 1 Channels/Pores 1.A α-Type Channels 1.A.72 The Mercuric Ion Pore (Mer) Superfamily
OOLELIFE_00283 1.B.17.3.4 97.6 3.8e-249 1 461 1.0000 1.0000 1 Channels/Pores 1.B β-Barrel Porins 1.B.17 The Outer Membrane Factor (OMF) Family
OOLELIFE_00286 2.A.6.1.3 99.4 0 1 1048 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.6 The Resistance-Nodulation-Cell Division (RND) Superfamily
OOLELIFE_00288 3.A.3.5.4 98.3 0 1 813 1.0000 0.9879 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.3 The P-type ATPase (P-ATPase) Superfamily
OOLELIFE_00290 1.A.34.1.3 100 1.1e-135 1 245 1.0000 1.0000 1 Channels/Pores 1.A α-Type Channels 1.A.34 The <i>Bacillus</i> Gap Junction-like Channel-forming Complex (GJ-CC) Family
OOLELIFE_00293 1.B.76.1.5 100 5.7e-174 1 296 1.0000 1.0000 1 Channels/Pores 1.B β-Barrel Porins 1.B.76 The Copper Resistance Putative Porin (CopB) Family
OOLELIFE_00295 9.B.62.1.1 100 7.3e-164 1 309 1.0000 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.62 The Copper Resistance (CopD) Family
OOLELIFE_00328 2.A.109.1.1 100 1.2e-191 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
OOLELIFE_00387 1.E.53.1.7 84.6 7.5e-21 1 52 1.0000 0.7324 1 Channels/Pores 1.E Holins 1.E.53 The Toxic Hok/Gef Protein (Hok/Gef) Family