LOCUS       NZ_CP033983             1491 bp    DNA     circular CON 11-FEB-2024
DEFINITION  Staphylococcus aureus strain P2D1C1 plasmid unnamed1, complete
            sequence.
ACCESSION   NZ_CP033983
VERSION     NZ_CP033983.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10374694
            Assembly: GCF_009739695.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 1491)
  AUTHORS   Liu,J., Gefen,O., Ronin,I., Bar-Meir,M. and Balaban,N.Q.
  TITLE     Rapid evolution of tolerance in patients infected with S. aureus
            promotes antibiotic resistance
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1491)
  AUTHORS   Liu,J., Gefen,O., Ronin,I., Bar-Meir,M. and Balaban,N.Q.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-NOV-2018) Racah Institute of Physics, Hebrew
            University, Givat ram, Jerusalem 91904, Israel
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Celera Assembler v. 1.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 594x
            Sequencing Technology             :: PacBio + Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/11/2024 03:04:23
            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)                     :: 2,889
            CDSs (total)                      :: 2,807
            Genes (coding)                    :: 2,716
            CDSs (with protein)               :: 2,716
            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)              :: 91
            CDSs (without protein)            :: 91
            Pseudo Genes (ambiguous residues) :: 0 of 91
            Pseudo Genes (frameshifted)       :: 50 of 91
            Pseudo Genes (incomplete)         :: 42 of 91
            Pseudo Genes (internal stop)      :: 35 of 91
            Pseudo Genes (multiple problems)  :: 32 of 91
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP033983.1.
            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..1491
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="P2D1C1"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed1"
                     /geo_loc_name="Israel: Jerusalem"
                     /lat_lon="31.7732 N 35.1853 E"
                     /collection_date="2017-10-03"
                     /collected_by="Shaare Zedek"
     gene            join(1122..1491,1..95)
                     /locus_tag="EFD76_RS00005"
                     /old_locus_tag="EFD76_00005"
     CDS             join(1122..1491,1..95)
                     /locus_tag="EFD76_RS00005"
                     /old_locus_tag="EFD76_00005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000664722.1"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_072532655.1"
                     /translation="MKERYGTVYKGKEEFINKESGEVVQFDKLYRAQTGGNFVKMYMEL
                     FGEMLGLLNKKGEVMQYLFKDLNLSSNTVVKTVRELAQETKTSTKTVTETLKAMEKGNI
                     IKRKTGVIMINPALLMRGDDNKKRFLLFEFEHFDRENELEHALNEYDSFK"
                     /name="replication/maintenance protein RepL"
     gene            122..310
                     /locus_tag="EFD76_RS00010"
                     /old_locus_tag="EFD76_00010"
     CDS             122..310
                     /locus_tag="EFD76_RS00010"
                     /old_locus_tag="EFD76_00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001059805.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_072519518.1"
                     /translation="MDKENTLKRRLKDAERIKKYLVRNNAPKTKISEIGRLVNFLDEEL
                     NREKVINTLTDVYFGNK"
                     /name="hypothetical protein"
     Typing          1124..1491
                     /name="rep_cluster_2366"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.297"
                     /coverage="99.0"
                     /evalue="2.63e-115"
ORIGIN
        1 ataacaaaaa acgttttctt ttatttgaat ttgaacactt tgatagagaa aacgaattag
       61 aacacgcttt aaatgaatat gatagtttta aataaatcca ttataacaag gaagtgaact
      121 aatggataaa gaaaatactc ttaaaaggcg tttaaaggac gcagagcgaa taaaaaagta
      181 tctggtaagg aataatgccc caaaaacaaa aataagcgaa ataggacgct tagtgaactt
      241 tttagatgaa gaactaaata gagaaaaagt tattaataca ctaacagatg tatattttgg
      301 caataaataa tgaaaggact agctaacact agtccttttt tatatgtata gcttttgatc
      361 tactcgttac actcgcagga aaagctatac atacaatcaa aaccaaccca ccataaattt
      421 taattgtaaa ataattgctt tttgacttcg cgatatcgct ttaatgattt ggattggttg
      481 ttaagttgga attaatccaa cttaaaacct gcaccaatcg ccactgaagt ggctatcatt
      541 ttcgctttgc tcgtcaaaaa ttttctcatt tcacaatgta aaatttaggt ttggcaagca
      601 ttgtatttgc tagccacttc attcgctacg ctcatttcgt gcctgcaaat acacttgttg
      661 ggggcttgcc cccaatcccc ctgccaaatg ctagccatat aacaaaatta gttgtaagca
      721 ttaatgcatt cacttctttt ctatataaat atgaacgaag tgaataagcg tcggaaaagc
      781 agcaaaaagt ttcctttttg ctgttggagc atggggtttc agggggtgca gtatctggcg
      841 tcaatgccga gcgaaagcga gccgaagggt agcatttacg ttagataacc ccctgatatg
      901 ctccgacgct ttatatagaa aagaagattc aactaggtaa aatctcaatt agagttgata
      961 tgacagtttt tataaggaat ttggatgtag tacttttcta catgttttgt agtagttttt
     1021 tactacatac cccttatttt gaaacttttt tttacactat ttgttgtaat tagattactt
     1081 ataatgtact attgagacat aaaaaagtga ggtgaaatta agtgaaagaa cgctatggaa
     1141 cagtatataa aggcaaagaa gagtttataa ataaagagtc tggagaagtt gtacagtttg
     1201 ataagctata tagagcacaa acaggtggaa actttgtaaa aatgtacatg gagttatttg
     1261 gagaaatgct agggttattg aacaaaaagg gagaagtaat gcaatatttg tttaaagatt
     1321 taaatctctc aagtaataca gtagtaaaaa cagttagaga actagcacaa gaaacaaaaa
     1381 caagtacaaa aacagtaaca gaaaccctaa aagcaatgga aaaaggaaat attataaaaa
     1441 gaaaaactgg agtaataatg attaatccag ctcttctaat gcgtggtgat g
//
