LOCUS       NZ_CP077740             3048 bp    DNA     circular CON 02-NOV-2023
DEFINITION  Staphylococcus aureus strain UMCG578 plasmid pUMCG578-02, complete
            sequence.
ACCESSION   NZ_CP077740
VERSION     NZ_CP077740.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN19812812
            Assembly: GCF_020003145.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3048)
  AUTHORS   Sabat,A.J., Bathoorn,E., Akkerboom,V., Chlebowicz,M.A. and
            Friedrich,A.W.
  TITLE     Staphylococcus aureus ST398
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3048)
  AUTHORS   Sabat,A.J., Bathoorn,E., Akkerboom,V., Chlebowicz,M.A. and
            Friedrich,A.W.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-JUN-2021) Medical Microbiology, University Medical
            Center Groningen, Hanzeplein 1, Groningen 9700 RB, Netherlands
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: DNASTAR SeqMan NGen v. 17.2.1.61
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/02/2023 04:09:12
            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)                     :: 2,848
            CDSs (total)                      :: 2,763
            Genes (coding)                    :: 2,669
            CDSs (with protein)               :: 2,669
            Genes (RNA)                       :: 85
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 59
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 94
            CDSs (without protein)            :: 94
            Pseudo Genes (ambiguous residues) :: 0 of 94
            Pseudo Genes (frameshifted)       :: 45 of 94
            Pseudo Genes (incomplete)         :: 46 of 94
            Pseudo Genes (internal stop)      :: 26 of 94
            Pseudo Genes (multiple problems)  :: 20 of 94
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP077740.1.
            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..3048
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="UMCG578"
                     /isolation_source="sinus pus"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="pUMCG578-02"
                     /geo_loc_name="Netherlands: Groningen"
                     /lat_lon="53.22201 N 6.57677 E"
                     /collection_date="2021-03-05"
                     /collected_by="University Medical Center Groningen"
     gene            176..1180
                     /locus_tag="KTE14_RS14200"
                     /old_locus_tag="KTE14_14090"
     CDS             176..1180
                     /locus_tag="KTE14_RS14200"
                     /old_locus_tag="KTE14_14090"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020368559.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_078099054.1"
                     /translation="MQYNTTKCIDENQDNKTLKDMTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAFNVKQCGNVLEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQKVI
                     EEVVKEKPTARWLFLTLSTKNAIDGDHLEQSLKHMSKAFNKLKMYTKVKKNLVGFLRST
                     EVTVNKNDGSYNQHMHVLLCVENAYFRKKENYITQVEWVDLWQKALQVNYRPVANIKAI
                     KPNQKGDKDIQAAIKETSKYSVKSSDFLTDDDEKNQEIVNDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDAEDGNLINTSDEDKTTDEEEKAHSITAIWNFEKQNYYLKDLKR"
                     /name="protein rep"
     gene            2220..3041
                     /locus_tag="KTE14_RS14205"
                     /old_locus_tag="KTE14_14095"
     CDS             2220..3041
                     /locus_tag="KTE14_RS14205"
                     /old_locus_tag="KTE14_14095"
                     /inference="COORDINATES: protein motif:HMM:NF025217.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="putative RNA methyltransferase"
                     /protein_id="WP_049948317.1"
                     /translation="MFFKCSICDEKLKRGYKTLACENNHTFDIAKEGYSNLISGHKKSK
                     YDKKLFIARRELNDSSNLYSILISKIIEIIKKYEIKTKNNVIDVGTGEGYILNEISKTF
                     LGENEFLGIDIAKEGVKKAAKSYKNINWLVADLADIPVMNGNVDFLINVLSPSNYDEFK
                     RVLDKEGKLIKIIPNSDYLKEIRNIVFSNHKNKDYDNSEVIDLFEANFNKIEMIDISYK
                     VKLNKEELNKLLDMTPLTWNLSDVEKEGIIKKNLSEITMSFKVLVGGFKTS"
                     /name="putative RNA methyltransferase"
     Typing          177..1180
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.806"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tttcttcttg tcttgatact atatagaaat aactcaaaga tataaaaagt tgctttatcg
       61 ttggtatgac agtgttttta tgtatttttg tgcgtgaaag aaaaaattga cataaaaaag
      121 ctccagtaat atgattaagt tacgacgctt aaatcaatac tggaggtctt tttatatgca
      181 atataatact actaaatgta tagacgaaaa tcaagataat aaaacattaa aagatatgac
      241 gaaaagtggg aaacaacgcc catggagaga aaagaagata gataatgtaa gttatgcaga
      301 tatactggaa atcttaaaaa ttaaaaaggc ttttaacgta aaacaatgtg gtaacgtctt
      361 agaattcaag ccaactgatg aaggttattt gaaattacat aagacatggt tttgtaagtc
      421 aaaattatgc ccagtttgta attggaggcg tgctatgaaa aatagttatc aagctcaaaa
      481 agtgattgaa gaagtggtta aagaaaagcc aactgctcgt tggttatttc ttactttatc
      541 gactaaaaat gcaatagacg gtgaccactt agaacaaagt ttaaaacaca tgtctaaggc
      601 ttttaataaa ttaaagatgt atacaaaagt taaaaagaat ttggtgggtt ttttacgctc
      661 aactgaagta acagttaata aaaatgacgg tagttataat caacatatgc acgttttatt
      721 gtgtgttgaa aatgcgtatt tcagaaaaaa agaaaactac attacgcaag ttgaatgggt
      781 tgatttatgg caaaaagcat tacaggttaa ttatcgacca gtagcaaata ttaaagcgat
      841 caaaccaaat caaaaaggcg ataaagatat tcaagcagct atcaaagaaa cctctaaata
      901 ttcagttaag tcatctgatt ttttaactga tgatgacgaa aaaaatcaag aaatcgtgaa
      961 tgatttggaa aaaggtttat accgaaaacg tatgttgagt tatggtggat tgcttaaaca
     1021 aaaacataaa attttaaatt tagacgatgc cgaagatggc aatttgatta atacaagtga
     1081 cgaagataaa acaacagacg aagaagaaaa agcacattca attacggcaa tttggaattt
     1141 tgaaaaacaa aattattact taaaagattt gaaacgttag cttaaaagct agcgtttttt
     1201 ttatgtcttt ttgcccctgc gggaactata gcgttcaacc ggcatggttg cccaattttc
     1261 atgttaattt ttaaatttgc atgtaactgg gcagtgttta ttttttcttg cccattttgc
     1321 taacttttaa gtttgcatat aaatgggcag tgtctaaaaa attccccact ggtcatgaac
     1381 aaaaaaatga gctaaacaat ttaacttttt aagttatata aattttaggg agttccaatc
     1441 aaattagaaa aatatataaa agagctatat cgtttttctg gcttatgttt aaaaagtaca
     1501 agtgattgta tttaaaatga ctttagcaat ttaagtaata tgtcttttga atacaagtta
     1561 aatgtcagaa agatgtaccc ttattttgct catatttgcg ttttaagaaa catatataaa
     1621 tatacaggta taaaaatata taaatataga gtttgctcta aataccccct taaaattcaa
     1681 aataaaggca tttaaaaatt aagaaaataa aaaagctact agcaaaaaac tagtagctta
     1741 aatcttagtt aaatttctat gtagtattaa tttttatatc tacgctacaa cgtcgattct
     1801 agttcgtgca gtattaattt ttatatctgc gccacaacgc cgattcctta aaactaagat
     1861 aaaaattgac gaaggtcgat tatggttttt tacgcgttct ttttagaacg cataagtgcg
     1921 cccttacggg atttaactag attataacga cgaaaaatag acctgtaaag caataacagt
     1981 tgggtctact ttgtctactg ggcagacaag aaaagaacac gcatttatgc cgagaaaatt
     2041 tattgaagtt gagaagaacc cttaactaaa cttgaagacg aatgtcggca tagcgtgagc
     2101 tattaagccg accattcgac aagttttggg attgttaagg gttccgaggc tcaacgtcaa
     2161 taaagcaatt ggaataaagc aactttgtta tttataatta tttgattgga ggtgtgaata
     2221 tgttttttaa gtgttctata tgtgatgaaa aattaaagag aggttataaa actttagcat
     2281 gtgagaataa ccatactttt gatattgcaa aagagggtta ttcgaattta atttcagggc
     2341 ataaaaaaag taaatacgat aaaaaattgt ttattgctag aagagaattg aatgatagta
     2401 gcaatttgta ttcgatatta atttcaaaaa tcatagaaat tattaaaaaa tatgagatta
     2461 aaactaaaaa taatgtgata gatgttggta ctggtgaggg ttatatttta aatgaaatta
     2521 gtaaaacatt tcttggtgaa aatgaattct taggtataga cattgcaaaa gaaggtgtaa
     2581 aaaaagcagc aaaatcatat aaaaatataa attggttggt tgctgatcta gctgatatac
     2641 cagttatgaa tgggaatgta gactttttaa ttaatgtgct tagcccttct aattatgatg
     2701 agtttaaaag agttctagat aaagagggga aattgataaa aataattcct aatagtgatt
     2761 atttaaaaga aataaggaat atagtcttta gtaatcataa aaataaggat tatgataatt
     2821 ctgaggttat agatttattt gaagctaatt ttaataaaat tgaaatgata gacattagtt
     2881 ataaggttaa attaaataaa gaagaattga ataaattact tgatatgacg cctttaacgt
     2941 ggaatttaag tgacgtagaa aaagaaggaa taattaagaa aaacttaagt gaaattacga
     3001 tgagttttaa ggttttggtt ggtggtttta aaacgagttg aaaacgag
//
