Subtyping of Francisella tularensis subtypes
Distinguishing the subspecies of Francisella tularensis is crucial for understanding the pathogen's epidemiology, virulence, and potential public health impact. The four recognized subspecies are tularensis (Type A), holarctica (Type B), mediasiatica, and novicida. The subspecies differ significantly in their geographic distribution, pathogenicity, and host reservoirs. Identifying the subspecies can inform epidemiological tracking and help implement targeted measures to control outbreaks, especially in regions where different subspecies are endemic.
Prior methods have identified hypervariable regions (https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0007041) and sets of primers (https://journals.asm.org/doi/full/10.1128/jcm.01495-19), but these methods are difficult to implement using next-generation sequencing data.
The logic behind this method uses genes identified All the Bacteria after prokka annotation and panaroo alignment. Essentially, there are genes present or absent for each subtype.
Get the dependencies camlhmp and blast. The easiest way is via conda.
conda install -c bioconda camlhmp
Clone the respository
git clone https://github.com/erinyoung/tulatyper
./bin/tulatyper --input input.fasta --outdir output
outdir
- cmlhmp.txt
- cmlhmp.details.tsv
- cmlhmp.blastn.tsv
$ head outdir/*
==> outdir/camlhmp.blastn.tsv <==
qseqid sseqid pident qcovs qlen slen length nident mismatch gapopen qstart qend sstart send evalue bitscore
group_965 NC_006570.2 100.000 100 180 1892775 180 180 0 0 1 180 774767 774588 1.22e-92 333
group_1008 NC_006570.2 99.154 99 714 1892775 709 703 5 1 1 708 1662198 1662906 0.0 1275
group_1009 NC_006570.2 98.180 96 1707 1892775 1648 1618 28 2 36 1682 1663016 1664662 0.0 2876
group_1012 NC_006570.2 97.661 100 342 1892775 342 334 2 4 1 342 365215 364880 2.19e-167 582
group_1013 NC_006570.2 99.111 100 450 1892775 450 446 4 0 1 450 364871 364422 0.0 809
group_317 NC_006570.2 98.695 100 996 1892775 996 983 13 0 1 996 352918 353913 0.0 1768
group_317 NC_006570.2 98.695 100 996 1892775 996 983 13 0 1 996 380977 379982 0.0 1768
group_317 NC_006570.2 98.695 100 996 1892775 996 983 13 0 1 996 1286036 1285041 0.0 1768
group_1065 NC_006570.2 99.446 100 360 1892775 361 359 1 1 1 360 103101 103461 0.0 654
==> outdir/camlhmp.details.tsv <==
sample type status targets missing schema schema_version camlhmp_version params comment
camlhmp F. tularensis subsp. tularensis subtype A.I False group_965,CARKD~~~nnr tulatyper_targets 0.1.24286 1.1.0 min-coverage=90;min-pident=90 Excluded target group_1012 found, failing type F. tularensis subsp. tularensis subtype A.I
camlhmp F. tularensis subsp. tularensis subtype A.II False CARKD~~~nnr tulatyper_targets 0.1.24286 1.1.0 min-coverage=90;min-pident=90 Excluded target group_1012 found, failing type F. tularensis subsp. tularensis subtype A.II
camlhmp F. tularensis subsp. holarctica (type B) False group_1008,group_1009,group_1012,CARKD~~~nnr tulatyper_targets 0.1.24286 1.1.0 min-coverage=90;min-pident=90 Excluded target group_965 found, failing type F. tularensis subsp. holarctica (type B)
camlhmp F. tularensis subsp. mediasiatica False CARKD~~~nnr group_958 tulatyper_targets 0.1.24286 1.1.0 min-coverage=90;min-pident=90 Excluded target group_1012 found, failing type F. tularensis subsp. mediasiatica
camlhmp F. tularensis subsp. novicida False lysC,btrK,hepA,group_58,group_23 tulatyper_targets 0.1.24286 1.1.0 min-coverage=90;min-pident=90 Excluded target CARKD~~~nnr found, failing type F. tularensis subsp. novicida
camlhmp F. tularensis subsp. tularensis subtype A.I all True group_965,CARKD~~~nnr tulatyper_targets 0.1.24286 1.1.0 min-coverage=90;min-pident=90
camlhmp F. tularensis subsp. tularensis subtype A.II all True CARKD~~~nnr tulatyper_targets 0.1.24286 1.1.0 min-coverage=90;min-pident=90
camlhmp F. tularensis subsp. holarctica (type B) all True group_1008,group_1009,group_1012,CARKD~~~nnr tulatyper_targets 0.1.24286 1.1.0 min-coverage=90;min-pident=90
camlhmp F. tularensis subsp. mediasiatica all False CARKD~~~nnr group_958 tulatyper_targets 0.1.24286 1.1.0 min-coverage=90;min-pident=90
==> outdir/camlhmp.tsv <==
sample type targets schema schema_version camlhmp_version params comment
camlhmp multiple group_965,group_1008,group_1009,group_1012,CARKD~~~nnr tulatyper_targets 0.1.24286 1.1.0 min-coverage=90;min-pident=90 Found matches for multiple types including: F. tularensis subsp. tularensis subtype A.I all, F. tularensis subsp. tularensis subtype A.II all, F. tularensis subsp. holarctica (type B) all
The motive of this analysis was to identify the AMR genes responsible for drug resistance among F. tularensis using AMRFinderPlus by NCBI. These data from 141 genomes from the NCBI. Two genes were found to be responsible for the AMR among all the subspecies.
Protein identifier Contig id Start Stop Strand Gene symbol Sequence name Scope Element type Element subtype Class Subclass Method Target length Reference sequence length % coverage of reference sequence % Identity to reference sequence Alignment length Accession of closest sequence Name of closest sequence HMM id HMM description
NA AJ749949.2 630250 631110 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA AM233362.1 857328 858188 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA AM286280.1 630203 631063 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA BK006741.1 860983 861843 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP000437.1 860983 861843 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP000439.1 1134341 1135201 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 94.77 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP000608.1 1059023 1059883 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.65 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP000803.1 859086 859946 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP000915.1 750758 751618 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP001633.1 630307 631167 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP003862.1 859299 860159 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP002557.1 1131947 1132807 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 94.77 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP003048.2 706100 706960 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP003049.2 630191 631051 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP003932.1 855185 856045 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP007148.1 853852 854712 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 98.95 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP009353.1 1500571 1501431 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 95.12 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP009693.1 1698980 1699840 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP009694.1 1581890 1582750 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP009607.1 1656363 1657223 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 97.56 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP009633.1 994981 995841 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 94.77 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP010115.1 1430631 1431491 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.65 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP010288.1 1084380 1085240 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP010289.1 848836 849696 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP010290.1 183898 184758 + blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP010103.1 891206 892066 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 95.12 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP010446.2 630132 630992 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP009753.1 1174072 1174932 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.65 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP012037.1 15013 15873 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.65 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP012372.1 630114 630974 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP066295.1 857101 857961 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP016635.1 1137375 1138235 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 94.77 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP009653.1 1137813 1138673 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 95.12 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP009682.1 683397 684257 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 94.77 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP048229.1 859324 860184 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP025778.1 859226 859813 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM PARTIALX 196 287 68.29 98.47 196 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP021490.1 997030 997890 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 97.91 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP034466.1 692686 693546 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP034467.1 199125 199985 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP034468.1 773917 774777 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP044002.1 1582196 1583056 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP044003.1 1582195 1583055 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP044004.1 1582630 1583490 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP044005.1 1582352 1583212 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA AP023459.1 788095 788955 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA AP023460.1 899958 900818 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP063128.1 1580270 1581130 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP073120.1 630213 631073 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP073122.1 628659 629519 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP073123.1 625407 626267 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP073121.1 630209 631069 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP073125.1 629019 629879 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP073124.1 629335 630195 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.65 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP073126.1 630667 631101 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM PARTIALX 145 287 50.52 100 145 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP073128.1 630233 631093 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP073129.1 629224 630084 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP073127.1 630265 631125 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP058274.1 859025 859885 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP058301.1 859061 859921 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP058275.1 859095 859955 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP058276.1 630214 631074 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP089548.1 859026 859886 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP089549.1 1134247 1135107 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP089550.1 630015 630875 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP098826.1 859322 860182 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP129998.1 568705 569565 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP129999.1 1489579 1490439 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP130000.1 751002 751862 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP130001.1 437753 438613 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP130002.1 655577 656437 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP130004.1 1010806 1011666 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA CP130003.1 918072 918932 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NC_006570.2 630250 631110 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NC_007880.1 857328 858188 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NC_008245.1 630203 631063 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NC_017463.1 860983 861843 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NC_008369.1 860983 861843 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NC_008601.1 1134341 1135201 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 94.77 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NC_009257.1 1059023 1059883 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.65 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NC_009749.1 859086 859946 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NC_010677.1 750758 751618 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NC_017453.1 630307 631167 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NC_019551.1 859299 860159 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NC_017450.1 1131947 1132807 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 94.77 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NC_016933.2 706100 706960 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NC_016937.2 630191 631051 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NC_019537.1 855185 856045 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP007148.1 853852 854712 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 98.95 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP009353.1 1500571 1501431 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 95.12 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP009693.1 1698980 1699840 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP009694.1 1581890 1582750 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP009607.1 1656363 1657223 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 97.56 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP009633.1 994981 995841 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 94.77 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP010115.1 1430631 1431491 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.65 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP010288.1 1084380 1085240 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP010289.1 848836 849696 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP010290.1 183898 184758 + blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP010103.1 891206 892066 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 95.12 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP010446.2 630132 630992 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP009753.1 1174072 1174932 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.65 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP012037.1 15013 15873 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.65 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP012372.1 630114 630974 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP066295.1 857101 857961 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP016635.1 1137375 1138235 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 94.77 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP009653.1 1137813 1138673 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 95.12 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP009682.1 683397 684257 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 94.77 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP048229.1 859324 860184 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP025778.1 859226 859813 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM PARTIALX 196 287 68.29 98.47 196 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP021490.1 997030 997890 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 97.91 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP034466.1 692686 693546 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP034467.1 199125 199985 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP034468.1 773917 774777 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP044002.1 1582196 1583056 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP044003.1 1582195 1583055 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP044004.1 1582630 1583490 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP044005.1 1582352 1583212 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_AP023459.1 788095 788955 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_AP023460.1 899958 900818 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP073122.1 628659 629519 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP073123.1 625407 626267 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP073121.1 630209 631069 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP073125.1 629019 629879 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP073124.1 629335 630195 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.65 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP073126.1 630667 631101 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM PARTIALX 145 287 50.52 100 145 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP073128.1 630233 631093 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP073129.1 629224 630084 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP073127.1 630265 631125 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP058274.1 859025 859885 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP058301.1 859061 859921 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP058275.1 859095 859955 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP058276.1 630214 631074 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP089548.1 859026 859886 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP089549.1 1134247 1135107 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP089550.1 630015 630875 - blaFTU-1 class A beta-lactamase FTU-1 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEX 287 287 100 100 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP098826.1 859322 860182 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP129998.1 568705 569565 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP129999.1 1489579 1490439 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP130000.1 751002 751862 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP130001.1 437753 438613 + blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP130004.1 1010806 1011666 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
NA NZ_CP130003.1 918072 918932 - blaFTU FTU family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM BLASTX 287 287 100 99.3 287 WP_003023375.1 class A beta-lactamase FTU-1 NA NA
Created as part of the ASM-NGS 2024 Hackathon with assistance from @erinyoung, @wboateng72, @David-Mahoney, @phillma2, @VishnuRaghuram94, @rpetit3, @Quadjo