LOCUS       NZ_CP025398             2366 bp    DNA     circular CON 21-MAR-2024
DEFINITION  Staphylococcus haemolyticus strain B plasmid p83131B, complete
            sequence.
ACCESSION   NZ_CP025398
VERSION     NZ_CP025398.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN08161435
            Assembly: GCF_002906615.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus haemolyticus
  ORGANISM  Staphylococcus haemolyticus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2366)
  AUTHORS   Couto,N., Chlebowicz,M., Raangs,E.C., Friedrich,A.W. and Rossen,J.W.
  TITLE     Complete Genome Sequence of Two Methicillin-Resistant Staphylococcus
            haemolyticus Isolates of Multilocus Sequence Type 25, First Detected
            by Shotgun Metagenomics
  JOURNAL   Genome Announc (2018) In press
REFERENCE   2  (bases 1 to 2366)
  AUTHORS   Couto,N., Raangs,E.C., Chlebowicz,M. and Rossen,J.W.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-DEC-2017) Medical Microbiology, UMCG, Hanzeplein 1,
            Groningen, Groningen 9700 RB, Netherlands
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 05-NOV-2017
            Assembly Method                   :: Unicycler v. v0.4.1
            Assembly Name :: Hybrid assembly of Staphylococcus haemolyticus
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology             :: Illumina MiSeq; MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_002906615.1-RS_2024_03_21
            Annotation Date                   :: 03/21/2024 04:57:15
            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)                     :: 2,556
            CDSs (total)                      :: 2,472
            Genes (coding)                    :: 2,396
            CDSs (with protein)               :: 2,396
            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)              :: 76
            CDSs (without protein)            :: 76
            Pseudo Genes (ambiguous residues) :: 0 of 76
            Pseudo Genes (frameshifted)       :: 34 of 76
            Pseudo Genes (incomplete)         :: 37 of 76
            Pseudo Genes (internal stop)      :: 13 of 76
            Pseudo Genes (multiple problems)  :: 8 of 76
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP025398.1.
            Bacteria and source DNA available from John W. Rossen University
            Medical Center Groningen Department of Medical Microbiology EB80
            Hanzeplein 1 PO BOX 30.001 9700 RB Groningen The Netherlands.
            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..2366
                     /organism="Staphylococcus haemolyticus"
                     /mol_type="genomic DNA"
                     /strain="B"
                     /isolation_source="hospital"
                     /host="Homo sapiens"
                     /db_xref="taxon:1283"
                     /plasmid="p83131B"
                     /geo_loc_name="Netherlands: Groningen"
                     /lat_lon="53.2223044 N 6.5737687 E"
                     /collection_date="2016"
                     /collected_by="UMCG"
     gene            complement(join(2006..2366,1..374))
                     /gene="erm(C)"
                     /locus_tag="CYD28_RS12720"
                     /old_locus_tag="CYD28_12720"
     CDS             complement(join(2006..2366,1..374))
                     /gene="erm(C)"
                     /locus_tag="CYD28_RS12720"
                     /old_locus_tag="CYD28_12720"
                     /EC_number="2.1.1.184"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011282421.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="23S rRNA (adenine(2058)-N(6))-methyltransferase
                     Erm(C)"
                     /protein_id="WP_001003263.1"
                     /translation="MNEKNIKHSQNFITSKHNIDKIMTNIRLNEHDNIFEIGSGKGHFT
                     LELVQRCNFVTAIEIDHKLCKTTENKLVDHDNFQVLNKDILQFKFPKNQSYKIFGNIPY
                     NISTDIIRKIVFDSIADEIYLIVEYGFAKRLLNTKRSLALFLMAEVDISILSMVPREYF
                     HPKPKVNSSLIRLNRKKSRISHKDKQKYNYFVMKWVNKEYKKIFTKNQFNNSLKHAGID
                     DLNNISFEQFLSLFNSYKLFNK"
                     /name="erm(C)"
     gene            complement(1082..1558)
                     /locus_tag="CYD28_RS12725"
                     /old_locus_tag="CYD28_12725"
     CDS             complement(1082..1558)
                     /locus_tag="CYD28_RS12725"
                     /old_locus_tag="CYD28_12725"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000664727.1"
                     /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_000664727.1"
                     /translation="MKERYGTVYKGSQRLIDEESGEVIEVDKLYRKQTSGNFVKAYIVQ
                     LISMLDMIGGKKLKIVNYILDNVHLSNNTMIATTREIAKATGTSLQTVITTLKILEEGN
                     IIKRKTGVLMLNPELLMRGDDQKQKYLLLEFGNFEQEANEKQENALSDYYSFKD"
                     /name="replication/maintenance protein RepL"
     ARG             complement(2007..2365)
                     /name="ErmC"
                     /gene="ErmC"
                     /gene_name="Erm 23S ribosomal RNA methyltransferase"
                     /tool="rgi"
                     /drug_class="macrolide antibiotic; lincosamide antibiotic;
                     streptogramin antibiotic; streptogramin A antibiotic;
                     streptogramin B antibiotic"
                     /identity="99.16"
                     /coverage="48.77"
     ARG             complement(4..374)
                     /name="ErmC"
                     /gene="ErmC"
                     /gene_name="Erm 23S ribosomal RNA methyltransferase"
                     /tool="rgi"
                     /drug_class="macrolide antibiotic; lincosamide antibiotic;
                     streptogramin antibiotic; streptogramin A antibiotic;
                     streptogramin B antibiotic"
                     /identity="100.0"
                     /coverage="50.82"
     Typing          complement(1073..1558)
                     /name="rep_cluster_1947"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.591"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aaataaatct catcagctat actatcaaaa acaattttgc gtattatatc cgtacttatg
       61 ttataaggta tattaccaaa tattttatag gattggtttt taggaaattt aaactgcaat
      121 atatccttgt ttaaaacttg gaaattatcg tgatcaacaa gtttattttc tgtagttttg
      181 cataatttat ggtctatttc aatggcagtt acgaaattac acctctgtac taattcaagg
      241 gtaaaatgcc cttttcctga gccgatttca aagatattat catgttcatt taatcttata
      301 tttgtcatta ttttatctat attatgtttt gaagtaataa agttttgact gtgttttata
      361 tttttctcgt tcattataac cctctttatt ttttcctcct tataaaatta gtataattat
      421 agcacgagct ctgataaata tgaacatgat gagtgatcgt taaatttata ctgcaatctg
      481 atgcgattat tgaataaaag atatgagaga tttatctagt ttcttttttt acaagaaaaa
      541 agaaagttct taaaggtttt atacttttgg tcgtagagca cacggtttaa cgacttaatt
      601 acgaagtaaa taagtctagt gtgttagact ttaatgtttt tttaaggcat tagtgcattt
      661 aagcgtcaga gcatggcttt atgccgagaa aactattggt tggaatggcg tgtgtgttag
      721 ccaaagcttt ggcgagttgg ttgggggttt catgggatta atcccatgaa agtaccaact
      781 caacaacaca ctaacgcctg ttggttccaa ccaataggaa attggaataa gcaattagta
      841 taatgagagt ataatgttgg tataacgtta gtataatgat gctttttttc attatatttt
      901 ttatgtactt taaacctgca cgcttatgtg aattagaaaa agcttaatcg catttcatag
      961 attgacctcc caataactac atggtgttat tgggaggtca atctatttca tttgcgttaa
     1021 gcttttgatc tacattaagc gtgcaggttt tttgtctatt tgtagacgat tttatgttat
     1081 actagtcctt gaaagaataa taatcagata atgcattttc ttgtttttca tttgcctctt
     1141 gctcaaagtt cccaaattcg agtaagaggt atttttgttt ttggtcgtcg cctctcatta
     1201 gtagttcagg gtttaacatt aatactccag tttttctttt tataatattt ccttcttcta
     1261 agattttaag tgttgttatt actgtttgta gacttgttcc tgtagctttt gctatttctc
     1321 ttgttgtagc tatcattgta ttgttactta agtggacatt atctaggata tagttaacga
     1381 ttttaagttt ttttccgcca atcatatcta acatacttat taattgcact atatatgcct
     1441 ttacgaagtt accagacgtt tgtttacggt ataacttgtc tacctctatg acttctccac
     1501 tttcttcgtc tatgagcctc tgagagcctt tatagactgt tccatatctt tctttcatct
     1561 ttttctcact ccttatttta aactattcta actatatcat aactgttcta aaaaaaaaag
     1621 aacatttgtt aaaagaaatt agaacaaaat gagtgaaaaa ttagaacaaa caaattcctt
     1681 ataaacctta tcatctcaac ctatattaag attttaccta gttgaatctt cttttctata
     1741 taaagcgtcg gagcatatca gggggttatc taacgtaaat gctacccttc ggctcgcttt
     1801 cgctcggcat tgacgtcaga tactgcaccc cctgaacccc catgctccaa cagcaaaaag
     1861 gaaacttttt gctgcttttc cgacgcttat tcgcttcgct catatttata tagaaaagaa
     1921 gtgaatgcgc aaaagacata atcgattcac aaaaaatagg tacacgaaaa acaagttaag
     1981 ggatgcagtt tatgcatccc ttaacttact tattaaataa tttatagcta ttgaaaagag
     2041 ataagaattg ttcaaagcta atattgttta aatcgtcaat tcctgcatgt tttaaggaat
     2101 tgttaaattg attttttgta aatattttct tgtattcttt gttaacccat ttcataacga
     2161 aataattata cttctgttta tctttgtgtg atattcttga tttttttcta tttaatctga
     2221 taagtgagct attcacttta ggtttaggat gaaaatattc tcttggaacc atacttaata
     2281 tagaaatatc aacttctgcc attaaaaata atgccaatga gcgttttgta tttaataatc
     2341 ttttagcaaa cccgtattcc acgatt
//
