LOCUS       NZ_CP134838             2491 bp    DNA     circular CON 08-FEB-2024
DEFINITION  Staphylococcus epidermidis strain ADQBG plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP134838
VERSION     NZ_CP134838.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN28561906
            Assembly: GCF_036419715.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus epidermidis
  ORGANISM  Staphylococcus epidermidis
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2491)
  AUTHORS   Joglekar,P., Conlan,S., Lee-Lin,S.-Q., Deming,C., Saheb Kashaf,S.,
            Kong,H. and Segre,J.A.
  CONSRTM   NISC Comparative Sequencing Program
  TITLE     Integrated genomic and functional analyses of human skin-associated
            Staphylococcus reveals extensive inter- and intra-species diversity
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2491)
  AUTHORS   Segre,J.A. and Thomas,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-SEP-2023) NISC, NIH Sequencing Center, 5625 Fishers
            Lane, Rockville, MD 20852, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Canu v. 2.2
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 187x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/07/2024 11:54:54
            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)                     :: 2,486
            CDSs (total)                      :: 2,402
            Genes (coding)                    :: 2,329
            CDSs (with protein)               :: 2,329
            Genes (RNA)                       :: 84
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 61
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 73
            CDSs (without protein)            :: 73
            Pseudo Genes (ambiguous residues) :: 0 of 73
            Pseudo Genes (frameshifted)       :: 45 of 73
            Pseudo Genes (incomplete)         :: 38 of 73
            Pseudo Genes (internal stop)      :: 24 of 73
            Pseudo Genes (multiple problems)  :: 26 of 73
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP134838.1.
            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..2491
                     /organism="Staphylococcus epidermidis"
                     /mol_type="genomic DNA"
                     /strain="ADQBG"
                     /isolation_source="skin"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA"
                     /lat_lon="38.999838 N 77.106017 W"
     gene            complement(141..1085)
                     /locus_tag="M9H34_RS12425"
                     /old_locus_tag="M9H34_12435"
     CDS             complement(141..1085)
                     /locus_tag="M9H34_RS12425"
                     /old_locus_tag="M9H34_12435"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002440612.1"
                     /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: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation factor domain-containing
                     protein"
                     /protein_id="WP_002440612.1"
                     /translation="MSRKEQEIHSKQSTLQEVTNYTSTGYSNSRLGVHSVHPQNPKLSF
                     DAMTIVGNLSRDNAQKLSSFMSIEPQIRLWDILQTKFKAKALQEKVYIEYDKVKADTWD
                     RRNMRVEFNPNKLTHEEMLWLKQNIINYMEDDGFTRIDLAFDFEDDLSNYYAMTDKAVK
                     KTVFYGRDGKPETKYFGVRDSDRFIRIYNKKQERKDNADVEVMSDHLWRVEIELKRDMV
                     DYWNDCFNDLHILKPDWTSPEKLNEQAMVYMLIHEEDKWGELNKRTKYKYKNLIKEISP
                     VDLTELMKSTLRENEKQLQKQIEFWQTKGKKLF"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            complement(1730..1918)
                     /locus_tag="M9H34_RS12430"
                     /old_locus_tag="M9H34_12440"
     CDS             complement(1730..1918)
                     /locus_tag="M9H34_RS12430"
                     /old_locus_tag="M9H34_12440"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002440614.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="CsbD family protein"
                     /protein_id="WP_002440614.1"
                     /translation="MSEEKFEQAKGNIKETIGDATDNKDLKAEGKGDKASGKAKEVVDD
                     VKDKANDLIDKVKGDKN"
                     /name="CsbD family protein"
     Typing          complement(167..989)
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.204"
                     /coverage="97.0"
                     /evalue="0.0"
ORIGIN
        1 actacacaaa agctaccgaa tagctaccca aaatcaaaaa tgactcccaa atggctacat
       61 aaaatcaaaa atagctccca aatagctccc tttttatgga gccatttggg agctaaaagg
      121 gagtcaaatg gtagccattt ttaaaatagc ttcttacctt ttgtctgcca aaattctatt
      181 tgcttttgta attgtttttc attttctctt aaagtcgatt tcattaattc cgttaaatca
      241 actggagata tttctttaat taaattttta tatttatatt tagttctttt attcaattct
      301 ccccatttgt cttcttcatg aattaacatg taaaccattg cttgttcatt taatttttct
      361 ggcgaagtcc aatctggttt caagatatgt aaatcattaa aacaatcatt ccagtaatcc
      421 accatatctc ttttaagttc aatttctaca cgccataagt gatcagacat aacttcgaca
      481 tctgcgttat ctttacgttc ttgttttttg ttataaattc taataaatct atcactatca
      541 cgaacgccaa aatattttgt ttctggtttc ccgtcacgac cataaaatac agttttctta
      601 actgctttat cagtcattgc ataataatta cttaaatcat cttcaaaatc aaaagctaaa
      661 tctattcttg taaaaccgtc atcttccatg tagttgataa tgttttgttt taaccaaagc
      721 atttcttcat gcgtaagttt attcggatta aattcaacac gcatattacg tctatcccat
      781 gtatctgctt ttactttgtc gtattcgata taaacttttt cctgcagtgc tttagcttta
      841 aatttcgttt gtagtatatc ccaaagtcga atttgtggtt cgatactcat aaatgacgat
      901 agcttttgag cgttgtcacg actgagattt ccaactattg tcatagcgtc aaaacttaat
      961 ttaggatttt gtgggtgcac agaatgcact cctaaccggc tattagagta tccggttgag
     1021 gtgtaatttg taacttcttg taatgtgctt tgctttgaat gaatttcttg ctcttttcta
     1081 ctcataaaaa atcgactcct taatttaatt taagaagtcg cccacccgaa tatttatctt
     1141 gatgtatatt taaatatcgt ttagtattta aatatacaaa ttcataaaaa acaactcatg
     1201 ttttcttttt ggattgtcgt tcacaaactt tggtcggtgg gtgagcgact tctttttatt
     1261 tgtttattaa tataacacta tcaaaaggct tggtctaatc agatcaagtc ttttttagta
     1321 ccaaaactta ttacataatc aaaaattaat tttctttaga taatttatat tgcttgtaag
     1381 cataataaac tataaatgac tgtactacta cttgtgcaaa agataatgct atacgaatgc
     1441 ttttcttagt tttctcactc attttcttca actccttttg ttgctttatt ccaattgctt
     1501 tattgacgtt gagcctcgga acccttaaca atcccaaaac ttgtcgaatg gtcggcttaa
     1561 tagctcacgc tatgccgaca ttcgtctcca agtttagtta agggttcttc tcaacatcaa
     1621 taaattttct cggcataaat gcgtgtctta ttatttattt ttattcactt taaataaaaa
     1681 acgtcccaag tatgctacat aataatactt aagacgtttt aatttttatt tagtttttat
     1741 ctcctttaac tttatcaatc aagtcattag ctttatcttt aacatcatct actacttctt
     1801 tggctttacc agaagcttta tctcctttac cttctgcttt taaatcctta ttatcagtag
     1861 catctccaat agtctctttg atatttcctt ttgcttgttc gaatttttct tcgctcattt
     1921 tctattcctc ctaaataatc aatgtctaca atacaattct attattcaaa tacccttttt
     1981 aaaagtgaaa tcatatcctt ttttatccca tgcattaaac cttgtattat cccatgtata
     2041 caaaatgatt tatgtattac tccttttcat ttagaatatc aaaaactatc ctacagatag
     2101 actactcaaa aaatgagtag tctttttatt ttgcatttta agccctttct aggacattta
     2161 atcattccac gtataaaaat gactaaaaac tttttttgtt caacagagag gctataaatc
     2221 attttaaaat ttatttctca acactttcag aaaaaaatat gtttttttat tttaattatc
     2281 cttctcaata aaaagctaaa acctgaaaaa aataggtgta taatgtaact tttatatttt
     2341 aaaatatttt aaaagagcat aagaggaatc ctacacagaa atgtctccgt atgtagccat
     2401 tcggtagccg tttctgtgca aaatattgat ttgacagtgt caaatgggat tcctatttat
     2461 gcgataaaaa ttgttatatg actcccgaac g
//
