LOCUS       NZ_CP118806             3048 bp    DNA     linear   CON 15-MAY-2024
DEFINITION  Mammaliicoccus lentus strain 7066 plasmid pML7066-6.
ACCESSION   NZ_CP118806
VERSION     NZ_CP118806.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33407043
            Assembly: GCF_030013965.1
KEYWORDS    RefSeq.
SOURCE      Mammaliicoccus lentus
  ORGANISM  Mammaliicoccus lentus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Mammaliicoccus.
REFERENCE   1  (bases 1 to 3048)
  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 3048)
  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                   :: 396x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_030013965.1-RS_2024_05_15
            Annotation Date                   :: 05/15/2024 04:32:37
            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)                     :: 2,640
            CDSs (total)                      :: 2,559
            Genes (coding)                    :: 2,513
            CDSs (with protein)               :: 2,513
            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)              :: 46
            CDSs (without protein)            :: 46
            Pseudo Genes (ambiguous residues) :: 0 of 46
            Pseudo Genes (frameshifted)       :: 13 of 46
            Pseudo Genes (incomplete)         :: 22 of 46
            Pseudo Genes (internal stop)      :: 15 of 46
            Pseudo Genes (multiple problems)  :: 4 of 46
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP118806.1.
            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..3048
                     /organism="Mammaliicoccus lentus"
                     /mol_type="genomic DNA"
                     /strain="7066"
                     /isolation_source="Nose"
                     /host="Camelus dromedarius"
                     /db_xref="taxon:42858"
                     /plasmid="pML7066-6"
                     /geo_loc_name="Algeria: M'sila"
                     /collection_date="2021-12-13"
     gene            <1..822
                     /locus_tag="PYH60_RS13185"
                     /old_locus_tag="PYH60_13180"
     CDS             <1..822
                     /locus_tag="PYH60_RS13185"
                     /old_locus_tag="PYH60_13180"
                     /inference="COORDINATES: protein motif:HMM:NF025217.4"
                     /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            1005..2009
                     /locus_tag="PYH60_RS13190"
                     /old_locus_tag="PYH60_13185"
     CDS             1005..2009
                     /locus_tag="PYH60_RS13190"
                     /old_locus_tag="PYH60_13185"
                     /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_078099054.1"
                     /translation="MQYNTTKCIDENQDNKTLKDMTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAFNVKQCGNVLEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQKVI
                     EEVVKEKPTARWLFLTLSTKNAIDGDHLEQSLKHMSKAFNKLKMYTKVKKNLVGFLRST
                     EVTVNKNDGSYNQHMHVLLCVENAYFRKKENYITQVEWVDLWQKALQVNYRPVANIKAI
                     KPNQKGDKDIQAAIKETSKYSVKSSDFLTDDDEKNQEIVNDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDAEDGNLINTSDEDKTTDEEEKAHSITAIWNFEKQNYYLKDLKR"
                     /name="protein rep"
     Typing          1006..2009
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.806"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgtttttta agtgttctat atgtgatgaa aaattaaaga gaggttataa aactttagca
       61 tgtgagaata accatacttt tgatattgca aaagagggtt attcgaattt aatttcaggg
      121 cataaaaaaa gtaaatacga taaaaaattg tttattgcta gaagagaatt gaatgatagt
      181 agcaatttgt attcgatatt aatttcaaaa atcatagaaa ttattaaaaa atatgagatt
      241 aaaactaaaa ataatgtgat agatgttggt actggtgagg gttatatttt aaatgaaatt
      301 agtaaaacat ttcttggtga aaatgaattc ttaggtatag acattgcaaa agaaggtgta
      361 aaaaaagcag caaaatcata taaaaatata aattggttgg ttgctgatct agctgatata
      421 ccagttatga atgggaatgt agacttttta attaatgtgc ttagcccttc taattatgat
      481 gagtttaaaa gagttctaga taaagagggg aaattgataa aaataattcc taatagtgat
      541 tatttaaaag aaataaggaa tatagtcttt agtaatcata aaaataagga ttatgataat
      601 tctgaggtta tagatttatt tgaagctaat tttaataaaa ttgaaatgat agacattagt
      661 tataaggtta aattaaataa agaagaattg aataaattac ttgatatgac gcctttaacg
      721 tggaatttaa gtgacgtaga aaaagaagga ataattaaga aaaacttaag tgaaattacg
      781 atgagtttta aggttttggt tggtggtttt aaaacgagtt gaaaacgagt ttcttcttgt
      841 cttgatacta tatagaaata actcaaagat ataaaaagtt gctttatcgt tggtatgaca
      901 gtgtttttat gtatttttgt gcgtgaaaga aaaaattgac ataaaaaagc tccagtaata
      961 tgattaagtt acgacgctta aatcaatact ggaggtcttt ttatatgcaa tataatacta
     1021 ctaaatgtat agacgaaaat caagataata aaacattaaa agatatgacg aaaagtggga
     1081 aacaacgccc atggagagaa aagaagatag ataatgtaag ttatgcagat atactggaaa
     1141 tcttaaaaat taaaaaggct tttaacgtaa aacaatgtgg taacgtctta gaattcaagc
     1201 caactgatga aggttatttg aaattacata agacatggtt ttgtaagtca aaattatgcc
     1261 cagtttgtaa ttggaggcgt gctatgaaaa atagttatca agctcaaaaa gtgattgaag
     1321 aagtggttaa agaaaagcca actgctcgtt ggttatttct tactttatcg actaaaaatg
     1381 caatagacgg tgaccactta gaacaaagtt taaaacacat gtctaaggct tttaataaat
     1441 taaagatgta tacaaaagtt aaaaagaatt tggtgggttt tttacgctca actgaagtaa
     1501 cagttaataa aaatgacggt agttataatc aacatatgca cgttttattg tgtgttgaaa
     1561 atgcgtattt cagaaaaaaa gaaaactaca ttacgcaagt tgaatgggtt gatttatggc
     1621 aaaaagcatt acaggttaat tatcgaccag tagcaaatat taaagcgatc aaaccaaatc
     1681 aaaaaggcga taaagatatt caagcagcta tcaaagaaac ctctaaatat tcagttaagt
     1741 catctgattt tttaactgat gatgacgaaa aaaatcaaga aatcgtgaat gatttggaaa
     1801 aaggtttata ccgaaaacgt atgttgagtt atggtggatt gcttaaacaa aaacataaaa
     1861 ttttaaattt agacgatgcc gaagatggca atttgattaa tacaagtgac gaagataaaa
     1921 caacagacga agaagaaaaa gcacattcaa ttacggcaat ttggaatttt gaaaaacaaa
     1981 attattactt aaaagatttg aaacgttagc ttaaaagcta gcgttttttt tatgtctttt
     2041 tgcccctgcg ggaactatag cgttcaaccg gcatggttgc ccaattttca tgttaatttt
     2101 taaatttgca tgtaactggg cagtgtttat tttttcttgc ccattttgct aacttttaag
     2161 tttgcatata aatgggcagt gtctaaaaaa ttccccactg gtcatgaaca aaaaaatgag
     2221 ctaaacaatt taacttttta agttatataa attttaggga gttccaatca aattagaaaa
     2281 atatataaaa gagctatatc gtttttctgg cttatgttta aaaagtacaa gtgattgtat
     2341 ttaaaatgac tttagcaatt taagtaatat gtcttttgaa tacaagttaa atgtcagaaa
     2401 gatgtaccct tattttgctc atatttgcgt tttaagaaat gaatatgatt atacgtatat
     2461 aaaactatat aaatttagag tttgctctaa ataccccctt aaaattcaaa ataaaggcat
     2521 ttaaaaatta agaaaataaa aaagctacta gcaaaaaact agtagcttaa atcttagtta
     2581 aatttctatg tagtattaat ttttatatct acgctacaac gtcgattcta gttcgtgcag
     2641 tattaatttt tatatctgcg ccacaacgcc gattccttaa aactaagata aaaattgacg
     2701 aaggtcgatt atggtttttt acgcgttctt tttagaacgc ataagtgcgc ccttacggga
     2761 tttaactaga ttataacgac gaaaaataga cctgtaaagc aataacagtt gggtctactt
     2821 tgtctactgg gcagacaaga aaagaacacg catttatgcc gagaaaattt attgatgttg
     2881 agaagaaccc ttaactaaac ttgcagacga atgtcggcat agcgtgagct attaagccga
     2941 ccattcgaca agttttggga ttgttaaggg ttccgaggct caacgtcaat aaagcaattg
     3001 gaataaagca actttgttat ttataattat ttgattggag gtgtgaat
//
