LOCUS       NZ_CP118985             4397 bp    DNA     circular CON 30-MAR-2024
DEFINITION  Staphylococcus equorum strain DSM 20674 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP118985
VERSION     NZ_CP118985.1
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 4397)
  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  JOURNAL   Unpublished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 4397)
  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
            CP118985.1.
            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..4397
                     /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="unnamed3"
                     /collection_date="1984"
     gene            join(4293..4397,1..840)
                     /locus_tag="PYW44_RS13295"
     CDS             join(4293..4397,1..840)
                     /locus_tag="PYW44_RS13295"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /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: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation factor domain-containing
                     protein"
                     /protein_id="WP_011167206.1"
                     /translation="MSKKAEEIQAKQSLEKENSNFSKTGYSNSRLNRHIMYTPEPKLHF
                     DAMTIVGNLNKNNAHKLSEFMSIAPQIRLWDILQTKFKAKALQEKVYIEYDKVKADAWD
                     RRNMRVEFNPNKLTHEEMLWLKQNIIDYMEDDGFTRLDLAFDFEDDLSDYYAMTDKSVK
                     KTIFYGRNGKPETKYFGVRDSDRFIRIYNKKQERKDNADIEVMSEHLWRVEIELKRDMV
                     DYWNDCFNDLHILKPDWSSLEKVKDQAMIYMLIHEESTWGKLERRTKNKYREMLKSISE
                     IDLTDLMKLTLKENEKQLQKQIEFWQREFRFWE"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            848..1696
                     /gene="str"
                     /locus_tag="PYW44_RS13300"
     ARG             849..1693
                     /name="str"
                     /gene="str"
                     /gene_name="streptomycin adenylyltransferase Str"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="99.65"
                     /coverage="100.0"
     gene            1966..2364
                     /gene="mobC"
                     /locus_tag="PYW44_RS13305"
     CDS             1966..2364
                     /gene="mobC"
                     /locus_tag="PYW44_RS13305"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002489523.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization relaxosome protein MobC"
                     /protein_id="WP_001002114.1"
                     /translation="MNEHKDNLASDLSVGGNRKPNRKEPKQISFRVSEQEYSKLKQSAE
                     TLNMTVPNFVKKKAQGSRLVSPKLDKETRQSIAKDLSHLGSNVNQIAKWFNQNKDKATH
                     LPEEKYHDLEKQFDDVKKELHKIWQQLN"
                     /name="mobC"
     gene            2346..3308
                     /locus_tag="PYW44_RS13310"
     CDS             2346..3308
                     /locus_tag="PYW44_RS13310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011167204.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_000246202.1"
                     /translation="MATTKLGNTKSASRAINYAEERAEEKSGLNCDVDYAKSYFKQTRA
                     LYGKENGVQAHTVIQSFKPGEVTAKECNEIGLELAKKIAPDYQVAVYTHTDKDHYHNHI
                     IINSVNLETGNKYQSNKEQRDFIKKANDQLCEERGLSVPEKSSEIRYTLAEQNMIDKDK
                     RSWKNDIRMAVEETKDNAVDFEEFNTLLKEKGVEITRVTKNNVTYRHIEEDKKVRGNKL
                     GDSYDKGVIENGFAIEKFRREREEEREYDEYADTFEVDWDAVAENSEDLRKRRIARTEE
                     TKQASNKIYIRDERTTGLERKGIAGNQVEFEKDDGGLSR"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            3277..3732
                     /locus_tag="PYW44_RS13315"
     CDS             3277..3732
                     /locus_tag="PYW44_RS13315"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002485179.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF334 domain-containing protein"
                     /protein_id="WP_000753824.1"
                     /translation="MKKTTEDFQGRGKKVHNDFVRLLQKNLNRVNAEDIEIEVRKDVYG
                     VREEIHSMLREVKQSHEHYQKRQKQLFTGIGAMLLVFMLFALIMTIGRDFMGFLHVDVL
                     QNAIASKIKASEGFISVLWYIAYGLPYILAIGLFIWLYEWIRARFHD"
                     /name="DUF334 domain-containing protein"
     Typing          2..840
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.881"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2347..3305
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgtacactc ccgaaccaaa attacacttt gatgctatga caattgttgg gaatcttaat
       61 aagaacaatg ctcacaaact gtctgaattt atgagtattg cgccacaaat tagactttgg
      121 gatatattac aaaccaaatt taaagctaag gctctacaag aaaaagttta catcgaatat
      181 gataaagtaa aagcagatgc gtgggataga cgtaatatgc gtgttgaatt taatcctaat
      241 aaacttacgc atgaagaaat gctttggtta aaacaaaaca tcattgacta catggaagat
      301 gatggtttta caagattaga tttggctttt gattttgaag acgatttgag cgattattat
      361 gcgatgactg ataaatcagt taagaaaact attttttatg gtcgtaacgg taaaccagaa
      421 acaaaatatt ttggtgttcg tgacagtgat agatttatta gaatttataa taaaaaacaa
      481 gaacgtaagg ataatgcaga cattgaagtt atgtctgaac acttatggcg tgtagaaatt
      541 gaattaaaaa gagatatggt tgattattgg aacgattgtt ttaatgattt acatattttg
      601 aaaccagatt ggtctagttt agaaaaagta aaagaccaag caatgattta tatgctaatt
      661 catgaagaaa gtacatgggg taaattagaa agacgtacaa aaaataaata cagagaaatg
      721 ttaaaaagta tttcagaaat tgatttaacg gacttaatga aattgacttt aaaagagaat
      781 gaaaaacaat tgcaaaagca gattgaattt tggcagcgtg aatttagatt ttgggagtga
      841 aaaaacaatg aggactgaaa aagaaatttt aaatttagtt tctgaatttg cttatcaacg
      901 aagcaatgta aaaattattg ctctcgaggg ttcaagaact aatgaaaata taaaaaaaga
      961 taagtttcaa gattatgatt ttgctttttt cgtatcagat attgagtatt tcacacatga
     1021 agaaagttgg ttaagtttat ttggagaatt attgtttata cagaaaccag aagatatgga
     1081 attattccca cctgatttag attatggtta cagttatata atgtatttta aagatggcat
     1141 aaaaatggat attacattaa ttaatttaaa agatttaaat cgttatttta gtgattctga
     1201 tggtcttgta aaaattttag ttgataaaga taatttagta actcaagaaa ttgttccaga
     1261 tgactcaaat tattggttaa aaaaaccaac agaacgagaa ttttatgatt gctgtaatga
     1321 gttttggagt gtctcaacgt atgtagcaaa gggtgttttt agaagagaaa tattatttgc
     1381 tttagatcat ttcaataata ttttacgtcc tgaattatta agaatgattt cttggtatat
     1441 tggctttaat aggggttttg attttagttt aggaaagaat tataagttta taaacaaata
     1501 tttaactgat aaagaattca atatgttttt agctactttt gagatgaatg gatatagaaa
     1561 gacataccaa tcttttaagc tttgttgtga attatttaaa tattattcaa ataaagtaag
     1621 ttgtttagga aattataact atccaaatta cgaaaaaaat attgagaatt ttattcgtaa
     1681 taattatgag aattaatttt attagcaacc acatttttgg ttgcttttgt tttgattttg
     1741 aatttggttt tgaactatga gtggctagca ttttgccact cattttttgc gttagcaaaa
     1801 acataaaggg tctgggatta atcccagcaa gccggtatat tcagaacgaa gtggctagaa
     1861 tatacgacgc ttgccaaacc actatattac ttgagaaaat atagattgta ttataagcta
     1921 tatttatgaa aaggaatatt tttcgtcaga aaggtggtgg gacttgtgaa cgaacataaa
     1981 gataatttgg ctagcgattt gtctgttggg ggaaaccgta aacccaaccg caaagagcca
     2041 aaacaaatta gtttcagagt gagtgaacag gaatattcaa agttgaaaca gtcggcagaa
     2101 actttgaata tgacagtgcc taatttcgtt aagaaaaagg cacaaggcag tcgattagtg
     2161 tcgccaaaat tagacaaaga aacgcgacaa tcgattgcca aagatttaag tcatttgggt
     2221 agtaatgtga atcagattgc taagtggttt aatcaaaata aagataaggc tacacattta
     2281 ccagaagaga aatatcatga tttagaaaag caatttgatg atgtgaaaaa ggagttgcat
     2341 aagatatggc aacaactaaa ttaggcaata cgaagtcggc aagtcgtgcc attaattacg
     2401 cagaagaacg tgcagaagaa aaaagcggct taaattgtga tgttgattat gctaaatcat
     2461 attttaagca aactagggcg ttatatggca aagagaatgg tgttcaagca catacagtca
     2521 ttcaatcttt taagcctggc gaagtaacag ctaaagagtg taatgagata ggtttagaat
     2581 tagctaaaaa aattgcacca gattatcaag ttgcagttta tacacataca gacaaagacc
     2641 attatcacaa tcacattatt attaattcag taaatttaga aacaggcaac aagtatcagt
     2701 caaacaaaga acaacgtgat tttataaaaa aggcgaatga tcagttatgt gaagaacgtg
     2761 gtttatctgt gccagaaaag tcatcagaaa tcagatatac gttggcagaa cagaacatga
     2821 tagataaaga taaaaggtca tggaaaaatg atataagaat ggcagttgaa gaaacaaagg
     2881 ataacgcagt agactttgaa gaatttaata ctttgctaaa agaaaaaggt gttgaaatca
     2941 cgagagtaac gaaaaacaac gtaacgtata gacacattga agaagataaa aaagtacgtg
     3001 ggaataagtt gggcgattct tatgacaaag gagtgattga aaatggcttt gcaatcgaga
     3061 aattcagacg agaacgagaa gaagaacgag aatacgatga atatgcagac acgttcgaag
     3121 ttgactggga cgcagtcgca gaaaattcag aagaccttag aaaacgaaga attgcaagaa
     3181 ctgaagaaac aaaacaagct agtaataaaa tatatatcag agatgaaaga acaacaggac
     3241 ttgagagaaa aggaattgca ggcaatcaag tcgagtttga aaaagacgac ggaggacttt
     3301 caaggtagag gtaaaaaagt ccataatgat tttgttcgtt tgttacaaaa gaatttaaat
     3361 cgagtgaatg cagaagatat tgagatagag gttcgaaaag atgtttatgg agttcgagaa
     3421 gaaattcatt cgatgttgcg tgaagttaaa caatcacatg aacattatca aaaaagacaa
     3481 aagcaattat ttactggtat tggtgcaatg ttattagtgt ttatgctttt tgctttgatt
     3541 atgacgattg gcagagattt tatgggcttt ttacatgtag atgtattaca gaatgccata
     3601 gcaagcaaaa taaaggcttc tgagggcttt atttcagttt tatggtacat tgcttatggt
     3661 ttaccttata tactcgctat agggctattt atttggttgt atgagtggat aagagcaaga
     3721 ttccatgatt aaacaaagta tgatcaggct tttatgccga gaaaatttat ttatattgag
     3781 aagtaccctt aactaaactt gcagacgaat gtcggcatag cgtgagctat tagcccgacc
     3841 attcgacaag ttttgggttt gttaagggta cagaggctca atgtaaataa agcaattgga
     3901 ataaagcaac aaaggggttg aagaaaatga gtaagaagaa aaagattaat ttagcaatat
     3961 caattgctca agtagtagtg caggcgttaa tactttataa cacttatcag caatataaat
     4021 attctaaaaa atattcagcc taataaaaaa agacttagtc tgaatagacc aagccttttg
     4081 ttagtgttat attaatatgc aaataaaaaa acaaaaaaag aagtcgctca ctccctgacc
     4141 aaagtttgtg aatgcgactt accttaaaga aaaacagttg gtgttttttt tcttaatttt
     4201 tgtatatcta gatattaaac gatattggtt tattcttcaa gatatatatt cgggtgagcg
     4261 acttcttaaa caaaataagg agtcgatttt ttatgagtaa aaaagcagaa gaaattcagg
     4321 caaaacaaag tttggaaaag gaaaactcaa atttttctaa aaccggatac tctaatagcc
     4381 ggttaaaccg acatatt
//
