Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1472
  Reference Plasmid   OY725880.1
  Reference Plasmid Size   214755
  Reference Plasmid GC Content   0.57
  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
M0212597 NKKGBHED_00025 24984 3 Gut 0.30 protein_coding synonymous_variant LOW 1026A>G Val342Val
M0212598 NKKGBHED_00026 26276 3 Gut 0.30 protein_coding missense_variant MODERATE 308A>C Lys103Thr
M0212599 NKKGBHED_00026 26278 3 Gut 0.30 protein_coding synonymous_variant LOW 306C>T Leu102Leu
M0212600 NKKGBHED_00026 26284 3 Gut 0.30 protein_coding synonymous_variant LOW 300T>C Ala100Ala
M0212601 NKKGBHED_00027 26743 3 Gut 0.30 protein_coding synonymous_variant LOW 1677T>C Asp559Asp
M0212602 NKKGBHED_00027 27398 3 Gut 0.30 protein_coding missense_variant MODERATE 1022G>A Ser341Asn
M0212603 NKKGBHED_00104 115806 3 Gut 0.30 protein_coding synonymous_variant LOW 1575T>C Arg525Arg
M0212604 NKKGBHED_00104 116252 3 Gut 0.30 protein_coding missense_variant MODERATE 2021C>T Ala674Val
M0212605 NKKGBHED_00104 116355 3 Gut 0.30 protein_coding synonymous_variant LOW 2124G>A Leu708Leu
M0212606 NKKGBHED_00104 116418 3 Gut 0.30 protein_coding synonymous_variant LOW 2187A>G Glu729Glu
M0212607 NKKGBHED_00104 116463 3 Gut 0.30 protein_coding synonymous_variant LOW 2232A>G Gly744Gly






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
NKKGBHED_00078 VFG046465 EF-Tu 71.5 4.6e-172 1 400 1.0 1.0152 Adherence elongation factor Tu experiment
NKKGBHED_00078 VFG016490 EF-Tu 74.5 5.2e-175 1 400 1.0 1.0127 Adherence elongation factor Tu 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






        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
NKKGBHED_00059 ARO:3004442 92.3 0 1 639 1.0000 1.0000 tetracycline antibiotic tetracycline-resistant ribosomal protection protein antibiotic target protection
NKKGBHED_00067 ARO:3004442 92.3 0 1 639 1.0000 1.0000 tetracycline antibiotic tetracycline-resistant ribosomal protection protein antibiotic target protection
NKKGBHED_00078 ARO:3003438 76.6 9.15e-228 1 398 0.9950 0.9409 elfamycin antibiotic elfamycin resistant EF-Tu antibiotic target alteration






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
NKKGBHED_00078 PHI:10282 tufA 75.6 2.8e-176 1 398 0.9950 0.9949 primates skin infection; food poisoning; respiratory disease elongation factor Tu increased virulence (hypervirulence)






        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