LOCUS       NZ_CP118984             4846 bp    DNA     circular CON 30-MAR-2024
DEFINITION  Staphylococcus equorum strain DSM 20674 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP118984
VERSION     NZ_CP118984.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33336506
            Assembly: GCF_029024965.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus equorum
  ORGANISM  Staphylococcus equorum
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 4846)
  AUTHORS   Romano',A., Ivanovic,I., Segessemann,T., Vazquez Rojo,L., Dreier,M.,
            Sesso,L., Vaccani,M., Schuler,M., Frei,D., Frey,J.E., Ahrens,C.H.,
            Steiner,A. and Graber,H.U.
  TITLE     Elucidation of the Bovine Intramammary Bacteriome and Resistome from
            healthy cows of Swiss dairy farms in the Canton Tessin
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4846)
  AUTHORS   Romano',A., Ivanovic,I., Segessemann,T., Vazquez Rojo,L., Dreier,M.,
            Sesso,L., Vaccani,M., Schuler,M., Frei,D., Frey,J.E., Ahrens,C.H.,
            Steiner,A. and Graber,H.U.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-FEB-2023) Food Microbial Systems, Agroscope,
            Schwarzenburgstrasse 161, Liebefeld 3097, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 01-MAY-2021
            Assembly Method                   :: Flye v. v2.8.1-b1676
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 5351x
            Sequencing Technology :: Oxford Nanopore + Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029024965.1-RS_2024_03_30
            Annotation Date                   :: 03/30/2024 07:42:00
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,664
            CDSs (total)                      :: 2,578
            Genes (coding)                    :: 2,548
            CDSs (with protein)               :: 2,548
            Genes (RNA)                       :: 86
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 60
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 30
            CDSs (without protein)            :: 30
            Pseudo Genes (ambiguous residues) :: 0 of 30
            Pseudo Genes (frameshifted)       :: 16 of 30
            Pseudo Genes (incomplete)         :: 11 of 30
            Pseudo Genes (internal stop)      :: 10 of 30
            Pseudo Genes (multiple problems)  :: 6 of 30
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP118984.1.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..4846
                     /organism="Staphylococcus equorum"
                     /mol_type="genomic DNA"
                     /strain="DSM 20674"
                     /isolation_source="Skin of horse"
                     /host="Horse"
                     /culture_collection="DSM:20674"
                     /type_material="type strain of Staphylococcus equorum"
                     /db_xref="taxon:246432"
                     /plasmid="unnamed2"
                     /collection_date="1984"
     gene            join(4091..4846,1..189)
                     /locus_tag="PYW44_RS13275"
     CDS             join(4091..4846,1..189)
                     /locus_tag="PYW44_RS13275"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000277654.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003916 - DNA topoisomerase activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation factor domain-containing
                     protein"
                     /protein_id="WP_016913209.1"
                     /translation="MSKNNYTNHSNHLENHDSDNFSKTGYSNSRLDAHTVCISDPKLSF
                     DAMTIVGNLNRDNAQALSKFMSVEPQIRLWDILQTKFKAKALQEKVYIEYDKVKADSWD
                     RRNMRIEFNPNKLTRDEMIWLKQNIISYMEDDGFTRLDLAFDFEDDLSDYYAMSDKAVK
                     KTIFYGRNGKPETKYFGVRDSNRFIRIYNKKQERKDNADAEVMSEHLWRVEIELKRDMV
                     DYWNDCFSDLHILQPDWKTIQRTADRAIVFMLLSDEEEWGKLHRNSRTKYKNLIKEISP
                     VDLTDLMKSTLKANEKQLQKQIDFWQHEFKFWK"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            351..1730
                     /gene="tet(K)"
                     /locus_tag="PYW44_RS13280"
     ARG             352..1727
                     /name="tet(K)"
                     /gene="tet(K)"
                     /gene_name="tetracycline efflux MFS transporter Tet(K)"
                     /tool="amrfinderplus"
                     /drug_class="TETRACYCLINE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            1917..3128
                     /gene="mobV"
                     /locus_tag="PYW44_RS13285"
     CDS             1917..3128
                     /gene="mobV"
                     /locus_tag="PYW44_RS13285"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002493196.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_201626117.1"
                     /translation="MSYSIIRVSKVKTGTNTTGIQKHVQRENNNYENEDIDHSKTYLNY
                     DLVNANKQNFNNLIDEKIEQNYTGKRKIRTDAIKHIDGLITSDNDFFDNQTPEDTKQFF
                     EYAKEFLEQEYGKDNLLYATVHMDEKTPHMHYGVVPITDDGRLSAKEVVGNKKALTEFQ
                     DRFNEYVNQRGYDLDRGQSRQVTNAKHDQVNRYKQKTEYHKQEYERESQKLSHIQQKSS
                     ELIEQYQKSLETLKKPLNVQYEHETEKVGGLFNKEIQETGNVVISQEEFNNFQKQIQAA
                     QTITEDYEHIKSGKALNELKNENSKLREENKDMSETLARANEFIKDLKKHLDNALNVIK
                     VIREIFEKLEQVLGRNKYQHLMNDVSRDNGRMIKAIQILDKQIHPEEYQEEKNTQKRDR
                     GRGR"
                     /name="mobV"
     gene            3692..3856
                     /locus_tag="PYW44_RS13290"
     CDS             3692..3856
                     /locus_tag="PYW44_RS13290"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001632704.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="CopG family transcriptional regulator"
                     /protein_id="WP_017722131.1"
                     /translation="MVRTKVGITLTEDTLKRLEEIAEQMGLSKSQAISMLINNEYLSKY
                     QSEDKIFKA"
                     /name="CopG family transcriptional regulator"
     Typing          4097..4846
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.201"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          1918..3125
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.015"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgttattga gtgatgaaga agaatgggga aagcttcaca gaaattctag aacaaaatat
       61 aagaatttga taaaagaaat ttcgccagtc gatttaacgg acttaatgaa atcgacttta
      121 aaagcgaacg aaaaacaatt gcaaaaacaa atcgattttt ggcaacatga atttaaattt
      181 tggaaatagt gtacatatta atattactga acaaaaatga tatatttaaa ctattctaat
      241 ttaggaggat ttttttatga agtgtctatt taaaaatttg gggaatttat atgaggtgaa
      301 agaataattt acccctataa actttagtca cctcaagtaa agaggtaaaa ttgtttagtt
      361 tatataaaaa atttaaaggt ttgttttata gcgttttatt ttggctttgt attctttcat
      421 tttttagtgt attaaatgaa atggttttaa atgtttcttt acctgatatt gcaaatcatt
      481 ttaatactac tcctggaatt acaaactggg taaacactgc atatatgtta actttttcga
      541 taggaacagc agtatatgga aaattatctg attatataaa tataaaaaaa ttgttaatta
      601 ttggtattag tttgagctgt cttggttcat tgattgcttt tattggtcac aatcactttt
      661 ttattttgat ttttggtagg ttagtacaag gagtaggatc tgctgcattc ccttcactga
      721 ttatggtggt tgtagctaga aatattacaa gaaaaaaaca aggcaaagcc tttggtttta
      781 taggatcaat tgtagcttta ggtgaagggt taggtccttc aataggggga ataatagcac
      841 attatattca ttggtcttac ctacttatac ttcctatgat tacaatagta actatacctt
      901 ttcttattaa agtaatggta cctggtaaat caacaaaaaa tacattagat atcgtaggta
      961 ttgttttaat gtctataagt attatatgtt ttatgttatt tacgacaaat tataattgga
     1021 cttttttaat actcttcaca atcttttttg tgatttttat taaacatatt tcaagagttt
     1081 ctaacccttt tattaatcct aaactaggga aaaacattcc gtttatgctt ggtttgtttt
     1141 ctggtgggct aatattttct atagtagctg gttttatatc aatggtgcct tatatgatga
     1201 aaactattta tcatgtaaat gtagcgacaa taggtaatag tgttattttt cctggaacca
     1261 tgagtgttat tgtttttggt tattttggtg gttttttagt ggatagaaaa ggatcattat
     1321 ttgtttttat tttaggatca ttgtctatct ctataagttt tttaactatt gcattttttg
     1381 ttgagtttag tatgtggttg actactttta tgtttatatt tgttatgggc ggattatctt
     1441 ttactaaaac agttatatca aaaatagtat caagtagtct ttctgaagaa gaagttgctt
     1501 ctggaatgag tttgctaaat ttcacaagtt ttttatcaga gggaacaggt atagcaattg
     1561 taggaggttt attgtcacta caattgatta atcgtaaact agttctggaa tttataaatt
     1621 attcttctgg agtgtatagt aatattcttg tagccatggc tatccttatt attttatgtt
     1681 gtcttttgac gattattgta tttaaacgtt ctgaaaagca gtttgaatag ttatattata
     1741 ttttggttta gaactatgag tggctagcat tttgccactc attttttgcg ttagcaaaaa
     1801 caggtttaag cctcgcagag cacacgtatt aacgacttat tgtaaaataa gtctagtgtg
     1861 ttagacttaa agtattaaat acctataaaa ccttagtgct gaggagtgat ttttatatgt
     1921 cgtattctat tattagagtt tcaaaagtta aaactggaac aaatacaaca ggcatacaaa
     1981 aacatgttca aagagaaaat aataattatg aaaatgaaga tatagaccat agtaaaactt
     2041 acttaaatta tgatttggta aatgctaata aacagaattt taataacttg attgatgaaa
     2101 aaattgaaca gaattataca ggcaaaagaa aaattagaac agacgcgatt aaacacattg
     2161 atggtttaat tacatcagac aatgatttct ttgataatca aacgccagaa gatacaaagc
     2221 agttttttga atatgctaaa gagtttttag aacaagaata cggtaaagat aatttattat
     2281 atgcaacagt tcacatggac gaaaaaaccc cacatatgca ttatggtgtt gtccctatca
     2341 ctgatgacgg tagattaagt gcaaaagaag ttgtagggaa taaaaaggcg ttaacagagt
     2401 ttcaagatag atttaacgaa tatgttaatc aacgtgggta tgatttggac cgaggacaat
     2461 caagacaagt tacaaatgct aaacatgatc aggtaaaccg atataagcaa aaaacagaat
     2521 atcataagca agaatatgag cgtgagagcc aaaaattaag ccatatacaa caaaaaagca
     2581 gtgagttgat agaacaatac caaaaatcat tagaaacgct taaaaagcct ttaaacgtcc
     2641 aatatgaaca tgaaactgaa aaagtaggtg gattgttcaa caaagaaata caagaaacag
     2701 ggaatgttgt aataagccaa gaagaattta ataactttca gaaacaaata caagcagcac
     2761 aaacgattac agaagattat gagcatatta agtctggtaa agcgttgaat gagcttaaaa
     2821 atgaaaatag taagcttaga gaagaaaaca aggatatgtc tgaaacttta gcaagagcaa
     2881 atgagtttat aaaagacctc aaaaaacacc ttgataatgc gcttaatgtt attaaagtta
     2941 ttagagagat ttttgagaag ttagagcaag ttcttggtag aaataaatac cagcatttga
     3001 tgaatgatgt aagtagagat aatggtcgta tgataaaggc gatacaaata ttagataaac
     3061 aaatacatcc tgaagaatat caagaagaaa agaatacgca aaaacgtgat aggggtagag
     3121 gtagataaat aaaaacgcca ctctaaaaat agaatggcgt tcaaaacctt taaagaattg
     3181 ttttaagtat atctaattta attataccca catttatgcc gagaaaactt tttggttgga
     3241 ataatgaaat gtgatagcta acttgttagc gagttggttg ggcttgaatt gggattaatc
     3301 ccaagaaagt accaactcaa catcacatgg aattgttggt tccgaccaaa aaggaaattg
     3361 gaataaaaaa taaattgagt taatggttta ggttttaggg ctaacttcac gaagtgatct
     3421 gttagccctg tttttgtatt ttgctttaga atttatcaaa tttagttgga aaaaggggga
     3481 ctactacgac cccccctttt aagtgccgag tgccaaatca gagattgtga agtgtttaga
     3541 cctttaatat caagggttat agcgattttt cacaaagcta caaataggct acattttagg
     3601 gactttatga gttattgtat agaaatctct agacatgtat gtataaatgg aataaaataa
     3661 acttattaat agttagaaat ggggagtaaa aatggttcgt acaaaagtag gtataacttt
     3721 aactgaagat actttgaaaa gacttgaaga aattgcagaa caaatgggct taagtaagtc
     3781 ccaggctatt tctatgttga ttaataacga gtatttaagt aagtatcaaa gcgaagataa
     3841 aatatttaag gcataaaaaa agtcttaatc aattagacca agacatttga tagtgttata
     3901 ttaataagca aataaaaaga agtcgctcac tccctcgcca aagtttgtga tagcgactta
     3961 ccttaaagaa aaacagttga tgtttttgtt cttaatttgt atatctagat attaaacgat
     4021 attagtttat tcttcaagat atatattcgg gtgagcgact tcttaaatta aattaaggag
     4081 tcgatttttt atgagtaaaa ataattatac aaatcattca aatcacttag aaaatcacga
     4141 ttcagacaat ttttctaaaa ccggctactc taatagccgg ttggacgcac atactgtgtg
     4201 catatctgat ccaaaattaa gttttgatgc aatgacgatc gttggaaatc tcaaccgaga
     4261 caacgctcaa gccctttcta aatttatgag tgtagagccc caaataagac tttgggatat
     4321 tcttcaaaca aagtttaaag ctaaagcact tcaagaaaaa gtttatattg aatatgacaa
     4381 agtgaaagca gatagttggg atagacgtaa tatgcgtatt gaatttaatc caaacaaact
     4441 tacacgagat gaaatgattt ggttaaaaca aaatataata agctacatgg aagatgacgg
     4501 ttttacaaga ttagatttag cctttgattt tgaagatgat ttgagtgact actatgcaat
     4561 gtctgataaa gcagttaaga aaactatttt ttatggtcgt aatggtaagc cagaaacaaa
     4621 atattttggc gtgagagata gtaatagatt tattagaatt tataataaaa agcaagaacg
     4681 taaagataat gcagatgctg aagttatgtc tgaacattta tggcgtgtag aaatcgaact
     4741 taaaagagat atggtggatt actggaatga ttgctttagt gatttacata tcttgcaacc
     4801 agattggaaa actatccaac gcactgcgga tagagcaata gttttt
//
