LOCUS       NZ_CP118779             4440 bp    DNA     linear   CON 15-MAY-2024
DEFINITION  Mammaliicoccus lentus strain 7074 plasmid pML7074-3.
ACCESSION   NZ_CP118779
VERSION     NZ_CP118779.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33407050
            Assembly: GCF_030013925.1
KEYWORDS    RefSeq.
SOURCE      Mammaliicoccus lentus
  ORGANISM  Mammaliicoccus lentus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Mammaliicoccus.
REFERENCE   1  (bases 1 to 4440)
  AUTHORS   Belhout,C., Boyen,F., Vereecke,N., Theuns,S., Taibi,N., Stegger,M.,
            de la Fe-Rodriguez,P.Y., Bouayad,L., Elgroud,R. and Butaye,P.
  TITLE     Prevalence and Molecular Characterization of Methicillin-Resistant
            Staphylococci (MRS) and Mammaliicocci (MRM) in Dromedary Camels from
            Algeria: First Detection of SCCmec-mecC Hybrid in
            Methicillin-Resistant Mammaliicoccus lentus
  JOURNAL   Antibiotics (Basel) 12 (4), 674 (2023)
   PUBMED   37107036
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4440)
  AUTHORS   Belhout,C., Stegger,M., Vereecke,N., Elgroud,R. and Butaye,P.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-FEB-2023) Department of Pathobiology, Pharmacology and
            Zoological Medicine, Universiteit Gent, Salisburylaan 133, Merelbeke
            9820, Belgium
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Trycycler; minimap2; medaka v. v0.5.3; v2.20;
            v1.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 324x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_030013925.1-RS_2024_05_15
            Annotation Date                   :: 05/15/2024 04:35:17
            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)                     :: 2,632
            CDSs (total)                      :: 2,551
            Genes (coding)                    :: 2,509
            CDSs (with protein)               :: 2,509
            Genes (RNA)                       :: 81
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 58
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 42
            CDSs (without protein)            :: 42
            Pseudo Genes (ambiguous residues) :: 0 of 42
            Pseudo Genes (frameshifted)       :: 11 of 42
            Pseudo Genes (incomplete)         :: 18 of 42
            Pseudo Genes (internal stop)      :: 15 of 42
            Pseudo Genes (multiple problems)  :: 2 of 42
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP118779.1.
            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..4440
                     /organism="Mammaliicoccus lentus"
                     /mol_type="genomic DNA"
                     /strain="7074"
                     /isolation_source="Nose"
                     /host="Camelus dromedarius"
                     /db_xref="taxon:42858"
                     /plasmid="pML7074-3"
                     /geo_loc_name="Algeria: Ouargla"
                     /collection_date="2022-06-06"
     gene            1..945
                     /locus_tag="PYH61_RS13130"
                     /old_locus_tag="PYH61_13125"
     CDS             1..945
                     /locus_tag="PYH61_RS13130"
                     /old_locus_tag="PYH61_13125"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000277654.1"
                     /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_000277654.1"
                     /translation="MYKNNHANHSNHLENHDLDNFSKTGYSNSRLDAHTVCISDPKLSF
                     DAMTIVGNLNRDNAQALSKFMSVEPQIRLWDILQTKFKAKALQEKVYIEYDKVKADSWD
                     RRNMRIEFNPNKLTRDEMIWLKQNIISYMEDDGFTRLDLAFDFEDDLSDYYAMSDKAVK
                     KTIFYGRNGKPETKYFGVRDSNRFIRIYNKKQERKDNADAEVMSEHLWRVEIELKRDMV
                     DYWNDCFSDLHILQPDWKTIQRTADRAIVFMLLSDEEEWGKLHRNSRTKYKNLIKEISP
                     VDLTDLMKSTLKANEKQLQKQIDFWQHEFKFWK"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            1107..2486
                     /gene="tet(K)"
                     /locus_tag="PYH61_RS13135"
                     /old_locus_tag="PYH61_13130"
     ARG             1108..2483
                     /name="tet(K)"
                     /gene="tet(K)"
                     /gene_name="tetracycline efflux MFS transporter Tet(K)"
                     /tool="amrfinderplus"
                     /drug_class="TETRACYCLINE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            2673..3914
                     /gene="mobV"
                     /locus_tag="PYH61_RS13140"
                     /old_locus_tag="PYH61_13135"
     CDS             2673..3914
                     /gene="mobV"
                     /locus_tag="PYH61_RS13140"
                     /old_locus_tag="PYH61_13135"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010889940.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_000122374.1"
                     /translation="MSYSIVRVSKVKSGTNTTGIQKHVQRENNNYENEDIDHSKTYLNY
                     DLVNANKQNFNNLIDEKIEQNYTGKRKIRTDAIKHIDGLITSDNDFFDNQTPEDTKQFF
                     EYAKEFLEQEYGKDNLLYATVHMDEKTPHMHYGVVPITDDGRLSAKEVVGNKKALTAFQ
                     DRFNEHVKQRGYDLERGQSRQVTNAKHEQISQYKQKTEYHKQEYERESQKTDHIKQKND
                     KLMQEYQKSLNTLKKPINVPYEQETEKVGGLFSKEIQETGNVVISQKDFNEFQKQIKAA
                     QDISEDYEYIKSGRALDDKDKEIREKDDLLNKAVERIENADDNFNQLYENAKPLKENIE
                     IALKLLKILLKELERVLGRNTFAERVNKLTEDEPKLNGLAGNLDKKMNPELYSEQEQQQ
                     EQQKNQKRDRGMHL"
                     /name="mobV"
     Typing          2..945
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2674..3911
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgtataaaa acaatcatgc aaatcattca aatcatttgg aaaatcacga tttagacaat
       61 ttttctaaaa ccggctactc taatagccgg ttggacgcac atactgtgtg catatctgat
      121 ccaaaattaa gttttgatgc aatgacgatc gttggaaatc tcaaccgaga caacgctcaa
      181 gccctttcta aatttatgag tgtagagccc caaataagac tttgggatat tcttcaaaca
      241 aagtttaaag ctaaagcact tcaagaaaaa gtttatattg aatatgacaa agtgaaagca
      301 gatagttggg atagacgtaa tatgcgtatt gaatttaatc caaacaaact tacacgagat
      361 gaaatgattt ggttaaaaca aaatataata agctacatgg aagatgacgg ttttacaaga
      421 ttagatttag cctttgattt tgaagatgat ttgagtgact actatgcaat gtctgataaa
      481 gcagttaaga aaactatttt ttatggtcgt aatggtaagc cagaaacaaa atattttggc
      541 gtgagagata gtaatagatt tattagaatt tataataaaa agcaagaacg taaagataat
      601 gcagatgctg aagttatgtc tgaacattta tggcgtgtag aaatcgaact taaaagagat
      661 atggtggatt actggaatga ttgctttagt gatttacata tcttgcaacc agattggaaa
      721 actatccaac gcactgcgga tagagcaata gtttttatgt tattgagtga tgaagaagaa
      781 tggggaaagc ttcacagaaa ttctagaaca aaatataaga atttgataaa agaaatttcg
      841 ccagtcgatt taacggactt aatgaaatcg actttaaaag cgaacgaaaa acaattgcaa
      901 aaacaaatcg atttttggca acatgaattt aaattttgga aatagtgtac atattaatat
      961 tactgaacaa aaatgatata tttaaactat tctaatttag gaggattttt ttatgaagtg
     1021 tctatttaaa aatttgggga atttatatga ggtgaaagaa taatttaccc ctataaactt
     1081 tagtcacctc aagtaaagag gtaaaattgt ttagtttata taaaaaattt aaaggtttgt
     1141 tttatagcgt tttattttgg ctttgtattc tttcattttt tagtgtatta aatgaaatgg
     1201 ttttaaatgt ttctttacct gatattgcaa atcattttaa tactactcct ggaattacaa
     1261 actgggtaaa cactgcatat atgttaactt tttcgatagg aacagcagta tatggaaaat
     1321 tatctgatta tataaatata aaaaaattgt taattattgg tattagtttg agctgtcttg
     1381 gttcattgat tgcttttatt ggtcacaatc acttttttat tttgattttt ggtaggttag
     1441 tacaaggagt aggatctgct gcattccctt cactgattat ggtggttgta gctagaaata
     1501 ttacaagaaa aaaacaaggc aaagcctttg gttttatagg atcaattgta gctttaggtg
     1561 aagggttagg tccttcaata gggggaataa tagcacatta tattcattgg tcttacctac
     1621 ttatacttcc tatgattaca atagtaacta taccttttct tattaaagta atggtacctg
     1681 gtaaatcaac aaaaaataca ttagatatcg taggtattgt tttaatgtct ataagtatta
     1741 tatgttttat gttatttacg acaaattata attggacttt tttaatactc ttcacaatct
     1801 tttttgtgat ttttattaaa catatttcaa gagtttctaa cccttttatt aatcctaaac
     1861 tagggaaaaa cattccgttt atgcttggtt tgttttctgg tgggctaata ttttctatag
     1921 tagctggttt tatatcaatg gtgccttata tgatgaaaac tatttatcat gtaaatgtag
     1981 cgacaatagg taatagtgtt atttttcctg gaaccatgag tgttattgtt tttggttatt
     2041 ttggtggttt tttagtggat agaaaaggat cattatttgt ttttatttta ggatcattgt
     2101 ctatctctat aagtttttta actattgcat tttttgttga gtttagtatg tggttgacta
     2161 cttttatgtt tatatttgtt atgggcggat tatcttttac taaaacagtt atatcaaaaa
     2221 tagtatcaag tagtctttct gaagaagaag ttgcttctgg aatgagtttg ctaaatttca
     2281 caagtttttt atcagaggga acaggtatag caattgtagg aggtttattg tcactacaat
     2341 tgattaatcg taaactagtt ctggaattta taaattattc ttctggagtg tatagtaata
     2401 ttcttgtagc catggctatc cttattattt tatgttgtct tttgacgatt attgtattta
     2461 aacgttctga aaagcagttt gaatagttat attatatttt ggtttagaac tatgagtggc
     2521 tagcattttg ccactcattt tttgcgttag caaaaacagg tttaagcctc gcagagcaca
     2581 cgtattaacg acttattgta aaataagtct agtgtcttag acttaaacta ttaaatacac
     2641 atgaaacctt tgtgcttagg agtgattttt atatgtctta ttccattgtt agagtttcaa
     2701 aagttaaatc tggaacaaat acaacgggca tacaaaaaca tgttcaaaga gaaaataata
     2761 attatgaaaa tgaagatata gaccatagta aaacttactt aaattatgat ttggtaaatg
     2821 ctaataaaca gaattttaat aacttgattg atgaaaaaat cgaacagaat tatacaggca
     2881 aaagaaaaat tagaacagac gcgattaaac acattgatgg tttaattaca tcagacaatg
     2941 atttctttga taatcaaacg ccagaagata caaagcagtt ttttgaatat gctaaagagt
     3001 ttttagaaca agaatacggt aaagataatt tattatatgc aacagttcac atggacgaaa
     3061 aaacaccaca tatgcattat ggcgttgttc caataactga tgatggtcgt ttaagtgcta
     3121 aagaagttgt aggtaataaa aaagctttaa cagcgtttca agatagattt aatgagcatg
     3181 ttaaacaacg aggatatgat ttagaacgtg ggcaatcaag acaagtaaca aatgctaaac
     3241 atgagcaaat aagtcagtat aaacaaaaaa cagaatatca taagcaagaa tatgaacgtg
     3301 agagccaaaa aacagaccat ataaagcaaa agaacgataa attaatgcaa gagtaccaaa
     3361 aatcgttaaa tacgcttaaa aagcctataa atgttccgta tgagcaagaa actgaaaaag
     3421 taggtggttt atttagcaaa gaaatacaag aaactggaaa tgttgtaata agccaaaaag
     3481 atttcaatga atttcagaaa cagataaaag ctgctcaaga tatttcggaa gattacgagt
     3541 atataaagtc tggtagagcc ttagatgata aagataagga aatacgagag aaagatgatt
     3601 tattaaataa agcagttgag cgtattgaaa acgcagacga taattttaac caactttacg
     3661 aaaatgcaaa gccacttaaa gagaatatag aaatagcgtt aaagctttta aaaatcttac
     3721 taaaagagtt agaacgagtt ttaggaagaa atacctttgc ggaaagagtt aataagttaa
     3781 cagaagatga accaaaacta aatggtttag caggaaactt agataaaaaa atgaatccag
     3841 aattatattc agaacaggaa cagcaacaag aacaacaaaa gaatcaaaaa cgagatagag
     3901 gtatgcactt atagaacatg catttatgcc gagaaaactt attggttgga atgggctatg
     3961 tgttagctaa cttgttagcg agttggttgg acttgaattg ggattaatcc caagaaagta
     4021 ccaactcaac aacacataaa gccctgtagg ttccgaccaa taaggaaatt ggaataaagc
     4081 aataaaagga gttgaagaaa tgaaattcag agaagccttt gagaatttta taacaagtaa
     4141 gtatgtactt ggtgttttag tagttttaac tgtttaccag ataatacaaa tgcttaaata
     4201 aaaaaagact tgatctgatt agaccaagtc ttttgatagt gttatattaa taacaaaata
     4261 aaaaggagtc gctcacgccc tgaccaaagt ttgtgaacga catcattcaa agaaaaaaac
     4321 actgagttgt ttttataatc ttgtatattt agatattaaa cgatatttaa atatacatca
     4381 agatatatat ttgggtgagc gattccttaa acgaaattga gattaaggag tcgatttttt
//
