LOCUS       NZ_CP053078             2992 bp    DNA     circular CON 23-MAY-2024
DEFINITION  Staphylococcus aureus strain SA01 plasmid pSA01-04, complete
            sequence.
ACCESSION   NZ_CP053078
VERSION     NZ_CP053078.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14820654
            Assembly: GCF_013004085.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2992)
  AUTHORS   Zhu,Y., Wang,C., Schwarz,S., Liu,W. and Zhang,W.
  TITLE     Analysis of a multiresistant Staphylococcus aureus strain of chicken
            origin
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2992)
  AUTHORS   Zhu,Y., Wang,C., Schwarz,S., Liu,W. and Zhang,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-MAY-2020) Harbin Veterinary Research Institute,
            Chinese Academy of Agricultural Sciences, No. 678 Ha Ping Road,
            Xiang Fang District, Harbin, Heilongjiang 150069, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.3
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 12.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013004085.1-RS_2024_05_23
            Annotation Date                   :: 05/23/2024 04:39:08
            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)                     :: 2,966
            CDSs (total)                      :: 2,883
            Genes (coding)                    :: 2,782
            CDSs (with protein)               :: 2,782
            Genes (RNA)                       :: 83
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 60
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 101
            CDSs (without protein)            :: 101
            Pseudo Genes (ambiguous residues) :: 0 of 101
            Pseudo Genes (frameshifted)       :: 53 of 101
            Pseudo Genes (incomplete)         :: 43 of 101
            Pseudo Genes (internal stop)      :: 37 of 101
            Pseudo Genes (multiple problems)  :: 29 of 101
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP053078.1.
            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..2992
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="SA01"
                     /host="chicken"
                     /db_xref="taxon:1280"
                     /plasmid="pSA01-04"
                     /geo_loc_name="China: Heilongjiang"
                     /collection_date="2019-07"
     gene            complement(join(2387..2992,1..399))
                     /locus_tag="HK402_RS14735"
                     /old_locus_tag="HK402_14750"
     CDS             complement(join(2387..2992,1..399))
                     /locus_tag="HK402_RS14735"
                     /old_locus_tag="HK402_14750"
                     /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_078099048.1"
                     /translation="MQDNHTKYIDENQDNKTLKDLTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAFNVKQCGNVLEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQRVI
                     EEVVKEKPKARWLFLTLSTRNAIDGDTLEKSLKHLTESFRRLFKYKKVSKNLIGFMRST
                     EVTVNKNDGSYNQHMHVLLCVESKYFRGSENYISQNDWINLWQKALQVNYRPVANIKAI
                     KPNQKGDKDIQAAIKETSKYSVKSSDFLTDDDERNQEIVNDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDAEDGNLINTSDEDKTTDEEEKAHSITAIWNFEKQNYYLKDLKR"
                     /name="protein rep"
     gene            complement(583..1404)
                     /locus_tag="HK402_RS14740"
                     /old_locus_tag="HK402_14755"
     CDS             complement(583..1404)
                     /locus_tag="HK402_RS14740"
                     /old_locus_tag="HK402_14755"
                     /inference="COORDINATES: protein motif:HMM:NF025217.4"
                     /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          complement(2..399)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.982"
                     /coverage="99.0"
                     /evalue="2.550000000000001e-163"
     Typing          complement(2388..2991)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.234"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ttctaaagta tctccatcta tcgcatttcg tgttgatagt gtaagaaaca accaacgtgc
       61 tttcggcttt tctttaacca cttcttcaat cactctttga gcttgataac tatttttcat
      121 agcacgcctc caattacaaa ctggacacaa ttttgattta caaaaccatg tcttatgtaa
      181 cttcaaataa ccttcatcag taggcttgaa ctctaagacg ttaccacatt gttttacgtt
      241 aaaagccttt ttaattttta agatttctag tatatctgca taacttacat tatcgatttt
      301 cttttctctc cacgggcgtt gtttcccact tttcgttaag tcttttagtg ttttattatc
      361 ttgattttcg tctatatatt ttgtatgatt gtcttgcata taaaaagacc tccagtattt
      421 gattttagct cgacacttta atcttattac tggagttttt ttatgtcaaa ttttatttta
      481 tacactaaaa atctttcaaa acactgttac atcaagcttg aaacaacatt ttaaaaaaga
      541 acgttatttc tatatagtat caagacaaga agaaactcgt tttcaactcg ttttaaaacc
      601 accaaccaaa accttaaaac tcatcgtaat ttcacttaag tttttcttaa ttattccttc
      661 tttttctacg tcacttaaat tccacgttaa aggcgtcata tcaagtaatt tattcaattc
      721 ttctttattt aatttaacct tataactaat gtctatcatt tcaattttat taaaattagc
      781 ttcaaataaa tctataacct cagaattatc ataatcctta tttttatgat tactaaagac
      841 tatattcctt atttctttta aataatcact attaggaatt atttttatca atttcccctc
      901 tttatctaga actcttttaa actcatcata attagaaggg ctaagcacat taattaaaaa
      961 gtctacattc ccattcataa ctggtatatc agctagatca gcaaccaacc aatttatatt
     1021 tttatatgat tttgctgctt tttttacacc ttcttttgca atgtctatac ctaagaattc
     1081 attttcacca agaaatgttt tactaatttc atttaaaata taaccctcac cagtaccaac
     1141 atctatcaca ttatttttag ttttaatctc atatttttta ataatttcta tgatttttga
     1201 aattaatatc gaatacaaat tgctactatc attcaattct cttctagcaa taaacaattt
     1261 tttatcgtat ttactttttt tatgccctga aattaaattc gaataaccct cttttgcaat
     1321 atcaaaagta tggttattct cacatgctaa agttttataa cctctcttta atttttcatc
     1381 acatatagaa cacttaaaaa acatattcac acctccaatc aaataattat aaataacaaa
     1441 gttgctttat tccaattgct ttattgacgt tgagcctcgg aacccttaac aatcccaaaa
     1501 cttgtcgaat ggtcggctta atagctcacg ctatgccgac attcgtctgc aagtttagtt
     1561 aagggttctt ctcaacatca ataaattttc tcggcataaa tgcgtgttct tttcttgtct
     1621 gcccagtaga caaagtagac ccaactgtta ttgctttaca ggtctatttt tcgtcgttat
     1681 aatctagtta aatcccgtaa gggcgcactt atgcgttcta aaaagaacgc gtaaaaaacc
     1741 ataatcgacc ttcgtcaatt tttatcttag ttttaaggaa tcggcgttgt ggcgcagata
     1801 taaaaattaa tactgcacga actagaatcg acgttgtagc gtagatataa aaattaatac
     1861 tacatagaaa tttaactaag atttaagcta ctagtttttt gctagtagct tttttatttt
     1921 cttaattttt aaatgccttt attttgaatt ttaagggggt atttagagca aactctatat
     1981 ttatatattt ttatacctgt atatttatat atgtttctta aaacgcaaat atgagcaaaa
     2041 taagggtaca tctttctgac atttaacttg tattcaaaag acatattact taagttgcta
     2101 aagtcatttt aaatacaatc acttgtactt tttaaacata agccagaaaa acgatataac
     2161 ttttttatat atttttctaa tttgattgga actccctaaa atttatataa cttaaaaagt
     2221 taaattgttt atctcatttt ttgtacataa ccagtggcga atttttcaga cactggccca
     2281 tttacatgca aattaaaatt ttcatggtaa aactggtcaa ccatgccggt tgaacgctat
     2341 agttcctgca ggggcaaaaa tacataaaaa aacgctagct tttaagctaa cgtttcaaat
     2401 cttttaagta ataattttgt ttttcaaaat tccaaattgc agtaattgaa tgtgcttttt
     2461 cttcttcgtc tgttgtttta tcttcgtcac ttgtattaat taaattgcca tcttcggcat
     2521 cgtctaaatt taaaatttta tgtttttgtt taagcaatcc accataactc aacatacgtt
     2581 ttcggtataa acctttttct aaatcattca cgatttcctg atttctttcg tcatcatcag
     2641 ttaaaaaatc agatgattta accgaatatt tcgaggtttc tttgattgct gcttgaatat
     2701 ctttatcgcc tttttgattt ggtttgatcg ctttaatatt tgctactggc cgataattaa
     2761 cttgtaatgc tttttgccat aaattaatcc aatcattttg agaaatgtaa ttctcagaac
     2821 ctctaaaata tttactttca acacacaata aaacatgcat atgttgatta taactaccgt
     2881 catttttatt aactgtaacc tctgtcgaac gcataaaacc aattaaattt ttactaactt
     2941 ttttatattt aaataatctt ctaaatgatt cagttaaatg tttaagactt tt
//
