LOCUS       NZ_CP102965             5529 bp    DNA     linear   CON 02-JUL-2023
DEFINITION  Staphylococcus aureus strain 40-B-50 plasmid p40-B-50B.
ACCESSION   NZ_CP102965
VERSION     NZ_CP102965.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN30370432
            Assembly: GCF_024741575.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 5529)
  AUTHORS   Monecke,S., Roberts,M.C., Braun,S.D., Diezel,C., Muller,E.,
            Reinicke,M., Linde,J., Joshi,P.R., Paudel,S., Acharya,M.,
            Chalise,M.K., Fessler,A.T., Hotzel,H., Khanal,L., Koju,N.P.,
            Schwarz,S., Kyes,R.C. and Ehricht,R.
  TITLE     Sequence Analysis of Novel Staphylococcus aureus Lineages from Wild
            and Captive Macaques
  JOURNAL   Int J Mol Sci 23 (19), 11225 (2022)
   PUBMED   36232529
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 5529)
  AUTHORS   Braun,S.D., Diezel,C., Reinicke,M., Linde,J. and Monecke,S.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-AUG-2022) Optisch-Molekulare Diagnostik und
            Systemtechnologien, Leibniz Institute of Photonic Technology (IPHT),
            Philosophenweg 7, Jena 07743, Germany
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Flye v. v2.8.3-b1695
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 252x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/02/2023 10:06:39
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,810
            CDSs (total)                      :: 2,728
            Genes (coding)                    :: 2,654
            CDSs (with protein)               :: 2,654
            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)              :: 74
            CDSs (without protein)            :: 74
            Pseudo Genes (ambiguous residues) :: 0 of 74
            Pseudo Genes (frameshifted)       :: 44 of 74
            Pseudo Genes (incomplete)         :: 34 of 74
            Pseudo Genes (internal stop)      :: 16 of 74
            Pseudo Genes (multiple problems)  :: 18 of 74
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP102965.1.
            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/
FEATURES             Location/Qualifiers
     source          1..5529
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="40-B-50"
                     /isolation_source="Wild animal"
                     /host="Macaca mulatta"
                     /db_xref="taxon:1280"
                     /plasmid="p40-B-50B"
                     /geo_loc_name="Nepal: Bajrayogini"
                     /collection_date="2019"
                     /genotype="ST7694"
     gene            254..1075
                     /locus_tag="NW941_RS14040"
                     /old_locus_tag="NW941_14080"
     CDS             254..1075
                     /locus_tag="NW941_RS14040"
                     /old_locus_tag="NW941_14080"
                     /inference="COORDINATES: protein motif:HMM:NF025217.2"
                     /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"
     gene            1259..2263
                     /locus_tag="NW941_RS14045"
                     /old_locus_tag="NW941_14085"
     CDS             1259..2263
                     /locus_tag="NW941_RS14045"
                     /old_locus_tag="NW941_14085"
                     /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            3245..4066
                     /locus_tag="NW941_RS14050"
                     /old_locus_tag="NW941_14090"
     CDS             3245..4066
                     /locus_tag="NW941_RS14050"
                     /old_locus_tag="NW941_14090"
                     /inference="COORDINATES: protein motif:HMM:NF025217.2"
                     /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"
     gene            4250..5254
                     /locus_tag="NW941_RS14055"
                     /old_locus_tag="NW941_14095"
     CDS             4250..5254
                     /locus_tag="NW941_RS14055"
                     /old_locus_tag="NW941_14095"
                     /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"
     Typing          1260..2263
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.049"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          4251..5254
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.049"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aaagcaataa cagttgggtc tactttgtct actgggcaga caagaaaaga acacgcattt
       61 atgccgagaa aatttattga tgttgagaag aacccttaac taaacttgca gacgaatgtc
      121 ggcatagcgt gagctattaa gccgaccatt cgacaagttt tgggattgtt aagggttccg
      181 aggctcaacg tcaataaagc aattggaata aagcaacttt gttatttata attatttgat
      241 tggaggtgtg aatatgtttt ttaagtgttc tatatgtgat gaaaaattaa agagaggtta
      301 taaaacttta gcatgtgaga ataaccatac ttttgatatt gcaaaagagg gttattcgaa
      361 tttaatttca gggcataaaa aaagtaaata cgataaaaaa ttgtttattg ctagaagaga
      421 attgaatgat agtagcaatt tgtattcgat attaatttca aaaatcatag aaattattaa
      481 aaaatatgag attaaaacta aaaataatgt gatagatgtt ggtactggtg agggttatat
      541 tttaaatgaa attagtaaaa catttcttgg tgaaaatgaa ttcttaggta tagacattgc
      601 aaaagaaggt gtaaaaaaag cagcaaaatc atataaaaat ataaattggt tggttgctga
      661 tctagctgat ataccagtta tgaatgggaa tgtagacttt ttaattaatg tgcttagccc
      721 ttctaattat gatgagttta aaagagttct agataaagag gggaaattga taaaaataat
      781 tcctaatagt gattatttaa aagaaataag gaatatagtc tttagtaatc ataaaaataa
      841 ggattatgat aattctgagg ttatagattt atttgaagct aattttaata aaattgaaat
      901 gatagacatt agttataagg ttaaattaaa taaagaagaa ttgaataaat tacttgatat
      961 gacgccttta acgtggaatt taagtgacgt agaaaaagaa ggaataatta agaaaaactt
     1021 aagtgaaatt acgatgagtt ttaaggtttt ggttggtggt tttaaaacga gttgaaaacg
     1081 agtttcttct tgtcttgata ctatatagaa ataacgttct tttttaaaat gttgtttcaa
     1141 gcttgatgta acagtgtttt gaaagatttt tagtgtataa aataaaattt gacataaaaa
     1201 aactccagta ataagattaa agtgtcgagc taaaatcaaa tactggaggt ctttttatat
     1261 gcaagacaat catacaaaat atatagacga aaatcaagat aataaaacac taaaagactt
     1321 aacgaaaagt gggaaacaac gcccgtggag agaaaagaaa atcgataatg taagttatgc
     1381 agatatacta gaaatcttaa aaattaaaaa ggcttttaac gtaaaacaat gtggtaacgt
     1441 cttagagttc aagcctactg atgaaggtta tttgaagtta cataagacat ggttttgtaa
     1501 atcaaaattg tgtccagttt gtaattggag gcgtgctatg aaaaatagtt atcaagctca
     1561 aagagtgatt gaagaagtgg ttaaagaaaa gccgaaagca cgttggttgt ttcttacact
     1621 atcaacacga aatgcgatag atggagatac tttagaaaaa agtcttaaac atttaactga
     1681 atcatttaga agattattta aatataaaaa agttagtaaa aatttaattg gttttatgcg
     1741 ttcgacagag gttacagtta ataaaaatga cggtagttat aatcaacata tgcatgtttt
     1801 attgtgtgtt gaaagtaaat attttagagg ttctgagaat tacatttctc aaaatgattg
     1861 gattaattta tggcaaaaag cattacaagt taattatcgg ccagtagcaa atattaaagc
     1921 gatcaaacca aatcaaaaag gcgataaaga tattcaagca gcaatcaaag aaacctcgaa
     1981 atattcggtt aaatcatctg attttttaac tgatgatgac gaaagaaatc aggaaatcgt
     2041 gaatgattta gaaaaaggtt tataccgaaa acgtatgttg agttatggtg gattgcttaa
     2101 acaaaaacat aaaattttaa atttagacga tgccgaagat ggcaatttaa ttaatacaag
     2161 tgacgaagat aaaacaacag acgaagaaga aaaagcacat tcaattactg caatttggaa
     2221 ttttgaaaaa caaaattatt acttaaaaga tttgaaacgt tagcttaaaa gctagcgttt
     2281 ttttatgtat ttttgcccct gcaggaacta tagcgttcaa ccggcatggt tgaccagttt
     2341 taccatgaaa attttaattt gcatgtaaat gggcagtgtc tgaaaaattc gccactggtt
     2401 atgtacaaaa aatgagataa acaatttaac tttttaagtt atataaattt tagggagttc
     2461 caatcaaatt agaaaaatat ataaaaaagt tatatcgttt ttctggctta tgtttaaaaa
     2521 gtacaagtga ttgtatttaa aatgacttta gcaacttaag taatatgtct tttgaataca
     2581 agttaaatgt cagaaagatg tacccttatt ttgctcatat ttgcgtttta agaaacatat
     2641 ataaatatac aggtataaaa atatataaat atagagtttg ctctaaatac ccccttaaaa
     2701 ttcaaaataa aggcatttaa aaattaagaa aataaaaaag ctactagcaa aaaactagta
     2761 gcttaaatct tagttaaatt tctatgtagt attaattttt atatctacgc tacaacgtcg
     2821 attctagttc gtgcagtatt aatttttata tctgcgccac aacgccgatt ccttaaaact
     2881 aagataaaaa ttgacgaagg tcgattatgg ttttttacgc gttcttttta gaacgcataa
     2941 gtgcgccctt acgggattta actagattat aacgacgaaa aatagacctg taaagcaata
     3001 acagttgggt ctactttgtc tactgggcag acaagaaaag aacacgcatt tatgccgaga
     3061 aaatttattg atgttgagaa gaacccttaa ctaaacttgc agacgaatgt cggcatagcg
     3121 tgagctatta agccgaccat tcgacaagtt ttgggattgt taagggttcc gaggctcaac
     3181 gtcaataaag caattggaat aaagcaactt tgttatttat aattatttga ttggaggtgt
     3241 gaatatgttt tttaagtgtt ctatatgtga tgaaaaatta aagagaggtt ataaaacttt
     3301 agcatgtgag aataaccata cttttgatat tgcaaaagag ggttattcga atttaatttc
     3361 agggcataaa aaaagtaaat acgataaaaa attgtttatt gctagaagag aattgaatga
     3421 tagtagcaat ttgtattcga tattaatttc aaaaatcata gaaattatta aaaaatatga
     3481 gattaaaact aaaaataatg tgatagatgt tggtactggt gagggttata ttttaaatga
     3541 aattagtaaa acatttcttg gtgaaaatga attcttaggt atagacattg caaaagaagg
     3601 tgtaaaaaaa gcagcaaaat catataaaaa tataaattgg ttggttgctg atctagctga
     3661 tataccagtt atgaatggga atgtagactt tttaattaat gtgcttagcc cttctaatta
     3721 tgatgagttt aaaagagttc tagataaaga ggggaaattg ataaaaataa ttcctaatag
     3781 tgattattta aaagaaataa ggaatatagt ctttagtaat cataaaaata aggattatga
     3841 taattctgag gttatagatt tatttgaagc taattttaat aaaattgaaa tgatagacat
     3901 tagttataag gttaaattaa ataaagaaga attgaataaa ttacttgata tgacgccttt
     3961 aacgtggaat ttaagtgacg tagaaaaaga aggaataatt aagaaaaact taagtgaaat
     4021 tacgatgagt tttaaggttt tggttggtgg ttttaaaacg agttgaaaac gagtttcttc
     4081 ttgtcttgat actatataga aataacgttc ttttttaaaa tgttgtttca agcttgatgt
     4141 aacagtgttt tgaaagattt ttagtgtata aaataaaatt tgacataaaa aaactccagt
     4201 aataagatta aagtgtcgag ctaaaatcaa atactggagg tctttttata tgcaagacaa
     4261 tcatacaaaa tatatagacg aaaatcaaga taataaaaca ctaaaagact taacgaaaag
     4321 tgggaaacaa cgcccgtgga gagaaaagaa aatcgataat gtaagttatg cagatatact
     4381 agaaatctta aaaattaaaa aggcttttaa cgtaaaacaa tgtggtaacg tcttagagtt
     4441 caagcctact gatgaaggtt atttgaagtt acataagaca tggttttgta aatcaaaatt
     4501 gtgtccagtt tgtaattgga ggcgtgctat gaaaaatagt tatcaagctc aaagagtgat
     4561 tgaagaagtg gttaaagaaa agccgaaagc acgttggttg tttcttacac tatcaacacg
     4621 aaatgcgata gatggagata ctttagaaaa aagtcttaaa catttaactg aatcatttag
     4681 aagattattt aaatataaaa aagttagtaa aaatttaatt ggttttatgc gttcgacaga
     4741 ggttacagtt aataaaaatg acggtagtta taatcaacat atgcatgttt tattgtgtgt
     4801 tgaaagtaaa tattttagag gttctgagaa ttacatttct caaaatgatt ggattaattt
     4861 atggcaaaaa gcattacaag ttaattatcg gccagtagca aatattaaag cgatcaaacc
     4921 aaatcaaaaa ggcgataaag atattcaagc agcaatcaaa gaaacctcga aatattcggt
     4981 taaatcatct gattttttaa ctgatgatga cgaaagaaat caggaaatcg tgaatgattt
     5041 agaaaaaggt ttataccgaa aacgtatgtt gagttatggt ggattgctta aacaaaaaca
     5101 taaaatttta aatttagacg atgccgaaga tggcaattta attaatacaa gtgacgaaga
     5161 taaaacaaca gacgaagaag aaaaagcaca ttcaattact gcaatttgga attttgaaaa
     5221 acaaaattat tacttaaaag atttgaaacg ttagcttaaa agctagcgtt tttttatgta
     5281 tttttgcccc tgcaggaact atagcgttca accggcatgg ttgaccagtt ttaccatgaa
     5341 aattttaatt tgcatgtaaa tgggcagtgt ctgaaaaatt cgccactggt tatgtacaaa
     5401 aaatgagata aacaatttaa ctttttaagt tatataaatt ttagggagtt ccaatcaaat
     5461 tagaaaaata tataaaaaag ttatatcgtt tttctggctt atgtttaaaa agtacaagtg
     5521 attgtattt
//
