LOCUS       NZ_CP068078             4972 bp    DNA     linear   CON 06-FEB-2024
DEFINITION  Staphylococcus condimenti strain FDAARGOS_1148 plasmid unnamed5.
ACCESSION   NZ_CP068078
VERSION     NZ_CP068078.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357317
            Assembly: GCF_016724565.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus condimenti
  ORGANISM  Staphylococcus condimenti
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 4972)
  AUTHORS   Sproer,C., Gronow,S., Severitt,S., Schroder,I., Tallon,L.,
            Sadzewicz,L., Zhao,X., Boylan,J., Ott,S., Bowen,H., Vavikolanu,K.,
            Mehta,A., Aluvathingal,J., Nadendla,S., Lowell,S., Myers,T., Yan,Y.
            and Sichtig,H.
  TITLE     FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS):
            Supporting development and validation of Infectious Disease Dx tests
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4972)
  AUTHORS   Sproer,C., Gronow,S., Severitt,S., Schroder,I., Tallon,L.,
            Sadzewicz,L., Zhao,X., Boylan,J., Ott,S., Bowen,H., Vavikolanu,K.,
            Mehta,A., Aluvathingal,J., Nadendla,S., Lowell,S., Myers,T., Yan,Y.
            and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-JAN-2021) Institute for Genome Sciences, University of
            Maryland School of Medicine, BioPark II, 801 W. Baltimore St., Suite
            619, Baltimore, MD 21201, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: SMRT v. 8.0.0, HGAP v. 4, SPAdes v. 3.11.1
            Genome Coverage                   :: 1434.04x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/06/2024 04:22:18
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,595
            CDSs (total)                      :: 2,512
            Genes (coding)                    :: 2,479
            CDSs (with protein)               :: 2,479
            Genes (RNA)                       :: 83
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 61
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 33
            CDSs (without protein)            :: 33
            Pseudo Genes (ambiguous residues) :: 0 of 33
            Pseudo Genes (frameshifted)       :: 14 of 33
            Pseudo Genes (incomplete)         :: 15 of 33
            Pseudo Genes (internal stop)      :: 10 of 33
            Pseudo Genes (multiple problems)  :: 6 of 33
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP068078.1.
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
FEATURES             Location/Qualifiers
     source          1..4972
                     /organism="Staphylococcus condimenti"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1148"
                     /culture_collection="DSM:11674"
                     /type_material="type strain of Staphylococcus condimenti"
                     /db_xref="taxon:70255"
                     /plasmid="unnamed5"
                     /geo_loc_name="Germany: Braunschweig"
                     /collected_by="DSMZ"
     gene            complement(105..485)
                     /gene="blaI"
                     /locus_tag="I6J05_RS12925"
                     /old_locus_tag="I6J05_12925"
     ARG             complement(109..485)
                     /name="blaI"
                     /gene="blaI"
                     /gene_name="penicillinase repressor BlaI"
                     /tool="amrfinderplus"
                     /drug_class="BETA-LACTAM"
                     /identity="100.0"
                     /coverage="100.0"
     gene            complement(475..2232)
                     /gene="blaR1"
                     /locus_tag="I6J05_RS12930"
                     /old_locus_tag="I6J05_12930"
     ARG             complement(479..2232)
                     /name="blaR1"
                     /gene="blaR1"
                     /gene_name="beta-lactam sensor/signal transducer BlaR1"
                     /tool="amrfinderplus"
                     /drug_class="BETA-LACTAM"
                     /identity="99.83"
                     /coverage="100.0"
     gene            2339..3184
                     /locus_tag="I6J05_RS12935"
                     /old_locus_tag="I6J05_12935"
     CDS             2339..3184
                     /locus_tag="I6J05_RS12935"
                     /old_locus_tag="I6J05_12935"
                     /EC_number="3.5.2.6"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000733274.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="BlaZ family penicillin-hydrolyzing class A
                     beta-lactamase PC1"
                     /protein_id="WP_000733283.1"
                     /translation="MKKLIFLIVIALVLSACNSNSSHAKELNDLEKKYNAHIGVYALDT
                     KSGKEVKFNSDKRFAYASTSKAINSAILLEQVPYNKLNKKVHINKDDIVAYSPILEKYV
                     GKDITLKALIEASMTYSDNTANNKIIKEIGGIKKVKQRLKELGDKVTNPVRYEIELNYY
                     SPKSKKDTSTPAAFGKTLNKLIANGKLSKENKKFLLDLMLNNKSGDTLIKDGVPKDYKV
                     ADKSGQAITYASRNDVAFVYPKGQSEPIVLVIFTNKDNKSDKPNDKLISETAKSVMKEF
                     "
                     /name="BlaZ family penicillin-hydrolyzing class A
                     beta-lactamase PC1"
     gene            complement(3550..3762)
                     /locus_tag="I6J05_RS12940"
                     /old_locus_tag="I6J05_12940"
     CDS             complement(3550..3762)
                     /locus_tag="I6J05_RS12940"
                     /old_locus_tag="I6J05_12940"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002508713.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_201642835.1"
                     /translation="MKVKDQQPYILDNEQGSREEVELREQRIKELEENDEQEDKNQNNK
                     IIIFTTILIFILTIILSVIIQTNKK"
                     /name="hypothetical protein"
     gene            complement(3841..4140)
                     /locus_tag="I6J05_RS12945"
                     /old_locus_tag="I6J05_12945"
     CDS             complement(3841..4140)
                     /locus_tag="I6J05_RS12945"
                     /old_locus_tag="I6J05_12945"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002508712.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002508712.1"
                     /translation="MVNSDKKEIEISKTNETRSNEISKMIEEGGLGADQYYTIDKQQPN
                     QKILIENIDQFKDEISQKDNDDLIDLLILNAQENINSKGNHALIIIKKELLSRM"
                     /name="hypothetical protein"
     gene            complement(4444..>4972)
                     /locus_tag="I6J05_RS12950"
                     /old_locus_tag="I6J05_12950"
                     /pseudo=""
     CDS             complement(4444..>4972)
                     /locus_tag="I6J05_RS12950"
                     /old_locus_tag="I6J05_12950"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019375671.1"
                     /note="incomplete; too short partial abutting assembly gap;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=2
                     /transl_table=11
                     /product="MFS transporter"
                     /name="MFS transporter"
     ARG             2340..3181
                     /name="blaPC1"
                     /gene="blaPC1"
                     /gene_name="BlaZ family penicillin-hydrolyzing class A
                     beta-lactamase PC1"
                     /tool="amrfinderplus"
                     /drug_class="BETA-LACTAM"
                     /identity="100.0"
                     /coverage="100.0"
     ARG             2340..3184
                     /name="PC1 beta-lactamase (blaZ)"
                     /gene="PC1 beta-lactamase (blaZ)"
                     /gene_name="BlaZ beta-lactamase"
                     /tool="rgi"
                     /drug_class="penam"
                     /identity="96.09"
                     /coverage="100.0"
ORIGIN
        1 acactctcat ctttaataat atattttaaa tgttattaac aaaactaatt taataagagt
       61 caagcatagt ttacatatgt attatgtttg aaacatatct ctaattactt tttactaata
      121 tcatttaaaa tgtctcgcaa ttcttcaatt tctttgttat ttaattcttc atttttcgca
      181 aaattcagca ctaaactttt catgtcccct ccatacagtt tattaagaaa ggttttagca
      241 gttttcattt taatatcgtc ttctttaata tttgatgagt aaaaataaat attctctgat
      301 ttgtatcgtt ttataatctc ttttttatat agtcttgtga ttaatgttct aatcgtttta
      361 tcgctaactt ctttatattt ttgaatttca actacaattt cattagctga tactgatttt
      421 ttaccccata ttatattcat aacatcccat tcagccatag atatttcaac ttgcttattg
      481 gccatttaaa acacccattt cttttaatat tttttcactg attaattcag catttttccc
      541 agatggcttt ccatctgata aatgtgtagc aaaataatac ttatcatgat ttgtaattac
      601 gtaacctaca aaccacccat tattatactt cccgtttact atacctgtac ctgttttccc
      661 atacagttca tacttttcat ttttcttaat caataatgaa gaagataatt gattctttgc
      721 ttttttacta aaatggttat tttgttccat catattttta aaaactatta cttgttcaag
      781 attagatatt ttcaaactat cttccatcca atagctttta taacttccca aatttttatt
      841 accataattt aattgcttga gttgagtcgc agtatagttc tttggtattt gatcgctaat
      901 acgttcgaag taccaattaa ctgaattttg cattgctgta tttaaatctt gttccttatt
      961 ccaagcatca aaagggtaat gcttatgatt ccatgacata cgtgaatttt catcatttat
     1021 aatatgtcgg tcaagtccaa acatagctaa ataaatttta taagttgaat taggagaata
     1081 cctttttcta ctttcttttt cgttataaat atagtatttg tctttcttca tgctgtacat
     1141 gacgaaagat ccactatttg aaccaaaaat tttactttta tctaaaattt ggtaatcgtt
     1201 gtgtaagggc tttttataat tataatcagt tatggattgc cccatcaaaa actggctttg
     1261 aattaccatg agcaaaaaag taaaaataca aataaaaatt agaattaatt tggactgttt
     1321 tttcagattg gcttctttta tattaattaa tcttcttttg agtaatgact ttttaccatt
     1381 aaatgaatgg cttaatatat ttttattaaa aaatggaaca tttaatacgg agtccataat
     1441 agattccgca taagttttaa attcattttt gttaatatta ttaaggacaa atctatcggc
     1501 ttctacttca ttgtcatgaa ttatctttct ttttacaata tgtactaatg gattgtaact
     1561 cataataata gagaagatat taaagataat taaatgtaaa gtatctctat ttttagcatg
     1621 agcatattca tgcaatatta tatattttag tcttttgtca attacacttt taaaatatga
     1681 actaggaatc aaaataatat atttcccata ccaaaaagtt attggagatt gaatagtctc
     1741 tgcttttcga atcacaatat tttttttata ttgatggttg aaaagtatcg tatctatttt
     1801 atttttttca ttttcgttta gataaagtga ctgtttcttt aaatatttaa gatataataa
     1861 ggctttcaaa aatttaaaac ttaaaataat aactaaaact atccaaataa ctgtgcagat
     1921 attatcaatt gaatcccaat taaacttatg gatatctgtt gcgaactctt gaataggttt
     1981 ggtggtattt atgttatggt tcaagtcgtg tgacttactt tcaactgtgg gcgcttgatt
     2041 attcacatta ttaaatttaa aaagagagaa tttaatagga atgaaaggaa ttaatcctgc
     2101 aagaagagtt agataccaaa ctttataatt taacatataa ttaaaatagc gttttaatat
     2161 gtacctaaaa aataataaca atagaaatat aaaacaaaag cttactatgc tcattattaa
     2221 taacttagcc atttcaacac cttctttcaa atatttataa taaactattg acaccgatat
     2281 tacaattgta atattattga tttataaaaa ttacaactgt aatatcggag ggtttatttt
     2341 gaaaaagtta atatttttaa ttgtaattgc tttagtttta agtgcatgta attcaaacag
     2401 ttcacatgcc aaagagttaa atgatttaga aaaaaaatat aatgctcata ttggtgttta
     2461 tgctttagat actaaaagtg gtaaggaagt aaaatttaat tcagataaga gatttgccta
     2521 tgcttcaact tcaaaagcga taaatagtgc tattttgtta gaacaagtac cttataataa
     2581 gttaaataaa aaagtacata ttaacaaaga tgatatagtt gcttattctc ctattttaga
     2641 aaaatatgta ggaaaagata tcactttaaa agcacttatt gaggcttcaa tgacatatag
     2701 tgataataca gcaaacaata aaattataaa agaaatcggt ggaatcaaaa aagttaaaca
     2761 acgtctaaaa gaactaggag ataaagtaac aaatccagtt agatatgaga tagaattaaa
     2821 ttactattca ccaaagagca aaaaagatac ttcaacacct gctgctttcg gtaagacttt
     2881 aaataaactt atcgcaaatg gaaaattaag caaagaaaac aaaaaattct tacttgattt
     2941 aatgttaaat aataaaagcg gagatacttt aattaaagac ggtgttccaa aagactataa
     3001 ggttgctgat aaaagtggtc aagcaataac atatgcttct agaaatgatg ttgcttttgt
     3061 ttatcctaag ggccaatctg aacctattgt tttagtcatt tttacgaata aagacaataa
     3121 aagtgataag ccaaatgata agttgataag tgaaaccgcc aagagtgtaa tgaaggaatt
     3181 ttaatattct aaatgcataa taaatactga taacatctta tattttgtat tatattttgt
     3241 attatcgttg acatgtataa ttttgatatc aaaaactgat tttccctcta ttattttcga
     3301 gatttatttt cttaattctc tttaacaaac tagaaatatt gtatatacaa aaaattataa
     3361 ataatagatg aatagtttaa ttataggtgt tcatcaatcg aaaaagcaac gtatcttatt
     3421 taaagtgcgt tgcttttttc tcatttataa ggttaaataa ttctcatata tcaagcaaag
     3481 tgacactctt aatattaagt taagaggttt tgtgtcaaaa acgaacgttt ttaactttaa
     3541 agattttatc tattttttat tcgtctgtat aataacagat aaaattatgg ttaaaataaa
     3601 tatcagtata gttgtaaaaa taataatttt attattttga tttttatctt cttgctcatc
     3661 attttcttct aattctttaa ttctttgctc gcgtagttca acttcttctc ttgagccttg
     3721 ctcattatct aagatatagg gttgttggtc ttttactttc ataaattttt tctccttatt
     3781 attagaacaa caaagacacc taaagattta ggtgtctcag tttttttaat ttcattttta
     3841 ttacattcgg ctaagcagtt ctttttttat aataatcaaa gcatggttac cttttgagtt
     3901 gatgttttcc tgagcattta gtattaatag atcaattaaa tcgtcattat ctttttgact
     3961 tatttcgtct ttgaattgat caatattttc tattaaaatt ttttgattgg gttgctgttt
     4021 gtctatagtg taatactggt cagcgcccaa accaccctct tcaatcattt tcgatatttc
     4081 attagatcgt gtttcatttg ttttgcttat ttctatttct tttttatcag agttaaccat
     4141 gactatcccc cttatatgcc cattacacac agtgtaataa tacatattta aaataacaat
     4201 aactctgctc actaataatt tattgagggt ttaataaatg acattcttgg tatcgtttac
     4261 atagatgatt attattagaa ttcatatcaa agaggcacct tggtcaacca aggtgcctct
     4321 taatcgtttc aaaaacaaat tccatcttaa taaggatcgt ttttaatttc attttttctt
     4381 gttgaatttc tatgtcttat tgttaagtca tacttttaaa atgtataatt atttgttaaa
     4441 taattaatct gtttttttcg gcgtcgctcg gtaaacaata aacgataaga taacggcaat
     4501 aatggatata gaaaagctaa taaaataaac gagttcaact cctgcaacca ttgcctgatt
     4561 tattgtgtca ggatcttgtg gtttccctga attttgtaaa aattgaagct gtcttgcatt
     4621 cataatacta acaaatactg caacaccaat tgctccagca actggttgta aagttgtcat
     4681 cactgcagtc ccatgtggat ataaatgttt tggaagttga tttaacccat tggtttcagc
     4741 aggcatcata attgctgaaa cagatagcat caacaagata taactaagaa taacgatcca
     4801 caaaggcgta tccacattca atctactcat cacatacatt gccccactta gcacaattga
     4861 tgcaggaatc atcaaaacac gcgggccaaa tttatcaaat agatatccca taaacggcga
     4921 cattgcccca ttaagtaaac tgcccggcag taaaattaac cccgcagtag ct
//
