LOCUS       NZ_CP077742             1373 bp    DNA     circular CON 02-NOV-2023
DEFINITION  Staphylococcus aureus strain NL1 plasmid pNL1-01, complete sequence.
ACCESSION   NZ_CP077742
VERSION     NZ_CP077742.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN19813410
            Assembly: GCF_020003165.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 1373)
  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  JOURNAL   Unpublished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 1373)
  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 04:09:31
            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)                     :: 2,936
            CDSs (total)                      :: 2,854
            Genes (coding)                    :: 2,760
            CDSs (with protein)               :: 2,760
            Genes (RNA)                       :: 82
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (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)         :: 47 of 94
            Pseudo Genes (internal stop)      :: 25 of 94
            Pseudo Genes (multiple problems)  :: 20 of 94
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP077742.1.
            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..1373
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="NL1"
                     /isolation_source="nose"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="pNL1-01"
                     /geo_loc_name="Netherlands: Zwolle"
                     /lat_lon="52.51425405 N 6.12458278 E"
                     /collection_date="2021-02-22"
                     /collected_by="University Medical Center Groningen"
     gene            348..518
                     /locus_tag="KTE72_RS14510"
                     /old_locus_tag="KTE72_14400"
     CDS             348..518
                     /locus_tag="KTE72_RS14510"
                     /old_locus_tag="KTE72_14400"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019835937.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ribbon-helix-helix domain-containing protein"
                     /protein_id="WP_223597040.1"
                     /translation="MSDLEEKNERKRMNITLPPELIEELEKVNKKYKINKSKQLETLVR
                     KYLRKEYGDLG"
                     /name="ribbon-helix-helix domain-containing protein"
     gene            576..1166
                     /locus_tag="KTE72_RS14515"
                     /old_locus_tag="KTE72_14405"
     CDS             576..1166
                     /locus_tag="KTE72_RS14515"
                     /old_locus_tag="KTE72_14405"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002486348.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
                     /protein_id="WP_223597041.1"
                     /translation="MICNHQYNSMAKYTKSRTWGVVVYPESAPENWVEILDESRIQFAV
                     SPLHDKDVNPDGEIKKSHWHVILCWDGPVTDVAVKKLTDKIEAPNPIKLESVRGAYRYF
                     THMDHPDKYQYDDKEIKVFNGFDISSYIALTKEERYEAITAIIRYINENKVTEYLDLLN
                     ELMTHDYSLFKVACDNTILFTSVIRSNRHKTDR"
                     /name="replication protein"
ORIGIN
        1 tttgccgagc aaagaaataa tgatagccac ttcagtggcg attggtgccg gttttaagtt
       61 ggattaattc caacttaaca accaatccaa atcattactt tcgatatcgt gaaggcaaaa
      121 ggaaattgga ataaatactt aaacagatct gatgaatatc agttctgttt tttaggtttt
      181 gaacttggaa tttggaccta gatttttgat gatttttaga ggattttcct aggggggtac
      241 tacgaccccc cctaggggtg cattgtgcaa tgtgcaaatt tttgtgtatg tacttgactt
      301 tatacacata aaagcgtatt ttcgacatat atctaaaaat gaaggaagtg agcgatttgg
      361 aagaaaaaaa tgagcgaaaa agaatgaata ttacattacc tccagaactg attgaagaat
      421 tagaaaaagt gaataagaaa tacaaaatta ataagtcaaa acagttggaa acgttagtga
      481 gaaaatatct tagaaaggag tatggtgatt tgggataaaa aaagaacctt gcggtaacaa
      541 ggctcttttt gaatatactc atgacatgac gtggcatgat atgcaatcac caatataata
      601 gcatggcaaa atatactaaa tcaagaacat ggggagtagt agtataccca gaatcagcgc
      661 cggaaaattg ggttgagatt ttagacgaat cgagaataca atttgcagtt tcgcctttgc
      721 atgataaaga tgtaaatcct gatggagaaa taaaaaaatc gcattggcat gtgattttat
      781 gctgggacgg tccggtaaca gatgttgcag ttaaaaaatt aacagataaa atcgaagcac
      841 ctaatccgat aaagctagaa agtgttagag gagcttatcg ctattttacg catatggatc
      901 accccgataa atatcagtat gatgacaaag aaattaaagt atttaatggt tttgatatat
      961 cttcttatat tgcgttaact aaagaagagc gttatgaggc aattacagcg attataagat
     1021 acattaacga aaataaggtt actgagtacc tagacttgct aaatgagctt atgacacatg
     1081 attatagcct gtttaaggtg gcttgtgata atacaatact gtttacttct gttattcgtt
     1141 caaatcggca taaaactgat agataagcta gccattgtgg ctagcttttt gcgttagcaa
     1201 aaataagggg tttggggagt atccccaaca agcaggcgag cagacacgaa tgagcgttag
     1261 cgagtgagtg gctagcaaag ccagtgcttg ccaaacacta acttatgcaa ataagtctag
     1321 tgtgttagac tttaacgatt ttaaagggac tgtgacttta tgccgagaaa act
//
