LOCUS       NZ_CP118801             4703 bp    DNA     circular CON 15-MAY-2024
DEFINITION  Mammaliicoccus lentus strain 7066 plasmid pML7066-1, complete
            sequence.
ACCESSION   NZ_CP118801
VERSION     NZ_CP118801.1
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 4703)
  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 4703)
  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
            CP118801.1.
            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..4703
                     /organism="Mammaliicoccus lentus"
                     /mol_type="genomic DNA"
                     /strain="7066"
                     /isolation_source="Nose"
                     /host="Camelus dromedarius"
                     /db_xref="taxon:42858"
                     /plasmid="pML7066-1"
                     /geo_loc_name="Algeria: M'sila"
                     /collection_date="2021-12-13"
     gene            1..384
                     /gene="mobC"
                     /locus_tag="PYH60_RS13050"
                     /old_locus_tag="PYH60_13050"
     CDS             1..384
                     /gene="mobC"
                     /locus_tag="PYH60_RS13050"
                     /old_locus_tag="PYH60_13050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002467290.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization relaxosome protein MobC"
                     /protein_id="WP_282822278.1"
                     /translation="MNEHKDNLASDFSNDKVKRPVRKEPKQISFRVSEQEYSKLKQSAE
                     TLNMTVPNFVKKKAQGSRLVSPKLDKETRQSIAKDLSKLGANVNQIAKYCNQHQHDAPN
                     YEGLEYNINAVRERLDEIWQKIN"
                     /name="mobC"
     gene            366..566
                     /locus_tag="PYH60_RS13055"
                     /old_locus_tag="PYH60_13055"
     CDS             366..566
                     /locus_tag="PYH60_RS13055"
                     /old_locus_tag="PYH60_13055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019468020.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_107537902.1"
                     /translation="MAKDKLRIIFNIILVVLVLGYGAFVLFTDYGNAKWSLIFIGILIV
                     VGVSRDIIAPKPTSSDENGNN"
                     /name="hypothetical protein"
     gene            553..1530
                     /locus_tag="PYH60_RS13060"
                     /old_locus_tag="PYH60_13060"
     CDS             553..1530
                     /locus_tag="PYH60_RS13060"
                     /old_locus_tag="PYH60_13060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002508766.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_282822279.1"
                     /translation="MATTKLGNTKSASRAINYAEERAEEKSGLNCDVDYAKSYFKQTRA
                     LYGKENGVQAHTVIQSFKPGEVTAEECNDLGLELAKKIAPEHQVAIYTHTDKDHFHNHI
                     IINSVNLETGKKYQSNKEQRDFVKQANDQLCHERGLSVPEKSAELRYTLAEQNMIDKDK
                     PSWKNEIRMAIEETKDQAINFEEFNDLLKEKGVQIARVTKNNITYEHLEENKKVRGNKL
                     GDTYDKGGLAYGFAAEKQRRELEESKPLEPKQAEQRERDWSNFAQTTNSIEQDRKRRER
                     EEREREEEKRRIEEKNRGIGEERIRQAQREREIVKKSRGFDLEL"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            1493..2041
                     /locus_tag="PYH60_RS13065"
                     /old_locus_tag="PYH60_13065"
     CDS             1493..2041
                     /locus_tag="PYH60_RS13065"
                     /old_locus_tag="PYH60_13065"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002303113.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF334 domain-containing protein"
                     /protein_id="WP_282822280.1"
                     /translation="MLKNLEASTSNFNNLLDQLDNSTKNVKNNFISVARSYLKRIDTDN
                     LQQDFSKAVKDELSDAKKEIRNSTNQAREENKEYKKIINERLANNDELISKYNKSINAM
                     TKGITSLFFVIVMIALVLFVTGPIGEFFGVAHLYQFIQKFIDTHETPWRYLIGILYLLP
                     YVCFAGIMWLVAKTLDVIR"
                     /name="DUF334 domain-containing protein"
     gene            2646..3578
                     /locus_tag="PYH60_RS13070"
                     /old_locus_tag="PYH60_13070"
     CDS             2646..3578
                     /locus_tag="PYH60_RS13070"
                     /old_locus_tag="PYH60_13070"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002405927.1"
                     /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_239724487.1"
                     /translation="MAKITKNEQENLVKNYTKKPAYSNSRLNRHIMYTPEPKLHFDAMT
                     IVGNLNKNNAHKLSEFMSIAPQIRLWDILQTKFKAKALQEKVYIEYDKVKADAWDRRNM
                     RVEFNPNKLTHEEMLWLKQNIIDYMEDDGFTRLDLAFDFEDDLSDYYAMTDKSVKKTIF
                     YGRNGKPETKYFGVRDSDRFIRIYNKKQERKDNADIEVMSEHLWRVEIELKRDMVDYWN
                     DCFNDLHILKPDWSSLEKVKDQAMIYMLIHEESTWGKLERRTKNKYREMLKSISEIDLT
                     DLMKLTLKENEKQLQKQIEFWQREFRFWE"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            3586..4434
                     /gene="str"
                     /locus_tag="PYH60_RS13075"
                     /old_locus_tag="PYH60_13075"
     ARG             3587..4431
                     /name="str"
                     /gene="str"
                     /gene_name="streptomycin adenylyltransferase Str"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          complement(4499..4700)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="80.097"
                     /coverage="86.0"
                     /evalue="6.6099999999999995e-34"
     Typing          2700..3578
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.773"
                     /coverage="93.0"
                     /evalue="0.0"
ORIGIN
        1 gtgaacgaac ataaagataa tttggctagc gatttttcta acgataaggt caaaagacca
       61 gttagaaaag agccaaaaca aatttcgttt agagtgagtg aacaggaata ttcaaagttg
      121 aaacagtcgg cagaaacttt gaatatgaca gtgcctaatt tcgttaagaa aaaggcacaa
      181 ggcagtcgat tagtgtcgcc aaaattagac aaagaaacgc gacaatcgat tgccaaagat
      241 ttaagtaaat tgggtgcgaa tgtgaatcag attgctaaat attgtaatca acatcaacat
      301 gatgcaccga attatgaagg cttggaatat aatatcaatg cagtacgtga aaggttggat
      361 gagatatggc aaaagataaa ttaagaatta tatttaacat tattttagtt gttttggttt
      421 taggatatgg tgcttttgta ttattcacag attacggaaa tgcaaaatgg tcacttattt
      481 ttattggtat tttaattgtt gttggagttt caagagatat cattgcacct aaaccaacaa
      541 gtagtgatga aaatggcaac aactaaatta ggtaatacca aatcggcaag tcgagcaatc
      601 aattacgcag aagaacgtgc agaagaaaag agtggtttaa attgtgatgt tgattatgcc
      661 aaatcgtatt ttaagcaaac tagggcgtta tatggcaaag agaatggtgt tcaagcacat
      721 acagtcattc aatcttttaa gccaggcgaa gtaacagcag aagaatgtaa cgatttaggt
      781 ttagaattag ctaaaaagat tgcaccagaa catcaagtag ctatttatac gcatacagat
      841 aaagaccatt ttcataatca cattattatt aattcagtga atttagaaac aggcaaaaaa
      901 tatcagtcca ataaagaaca acgtgatttc gtaaaacaag cgaatgatca gttatgtcat
      961 gagcgtggtt tatctgttcc agaaaaatcg gcagaactta gatatacact agcagagcag
     1021 aacatgatag ataaagataa accttcttgg aaaaatgaaa tcagaatggc aattgaagaa
     1081 acaaaagacc aagcaataaa ctttgaagaa tttaacgatt tgctaaaaga aaaaggtgtt
     1141 caaattgcta gagtgacaaa aaataatatt acctatgaac acttagaaga aaataaaaaa
     1201 gtacgtggta ataagttagg agatacttac gataaaggag ggttagcgta tggctttgca
     1261 gccgagaaac aaagacgaga acttgaagaa tcgaaaccac tcgagccaaa gcaggcagaa
     1321 caacgagagc gagattggtc taattttgca caaacaacaa attcaattga acaagataga
     1381 aaacgccgtg aacgagagga acgagaacga gaagaagaaa aacgacgtat tgaggaaaag
     1441 aatagaggaa ttggagaaga gcgaatcaga caggcacaaa gagaacgaga gattgttaaa
     1501 aaatctagag gcttcgacct cgaactttaa taatctactt gatcagttag ataattcaac
     1561 taaaaatgtg aaaaacaatt ttattagtgt tgctcgttct tatctaaaac gtattgatac
     1621 agataattta caacaagatt ttagtaaagc agttaaagat gagttgagtg atgccaagaa
     1681 agaaattcgt aattcaacga atcaagcgag agaagaaaac aaagaatata aaaagattat
     1741 aaacgagcga ttagcgaaca atgatgaatt gattagtaaa tataataaat caataaatgc
     1801 tatgactaaa ggtattacaa gtctattttt tgtgattgta atgattgcac tagttttatt
     1861 tgttactgga ccgataggcg agttttttgg tgtggcacat ttatatcaat tcattcagaa
     1921 gtttatagat acacacgaaa cgccatggcg ttatttgata ggcatattat atcttttacc
     1981 ttatgtatgt tttgcaggta ttatgtggct tgttgcaaag acgttagacg ttataagata
     2041 gttttatatc taaaaaacgc taaatgctta aaaaagccct taaaatgcaa aataggacta
     2101 tttgatatag aacacgcatt tatgccgaga aaactttttg tcttaaagag tccttaactt
     2161 agacttaaag cgacagcggt cgatagcgtc agctattaac ccgaccgact gacagctttt
     2221 aggattgtta aggacgcaaa ctttaagacc aaaaggaaat tggaataaag caataaagga
     2281 gttgaagaaa tgaaattcag agaagcattg aacaactttc ttactagcaa gtatgtatta
     2341 gttatagtag cagcgttggt tatctatcaa ataattatgt tgtataacta aaaaagactt
     2401 gatctaatta ggaactaatt agaccaagcc ttttgttagt gttatattaa taacaaaata
     2461 aaaataagaa gtcgttcacg cccctaccaa agtttgtgaa cgaaatccga aaagaaaaca
     2521 gtcgatgttt gtttcttaat ttgtatatct tgatattaaa cgatttgagt taaatcttca
     2581 agatatatat tcgcaaatgt aattggatga gcgacttctt aaacaaaatt aaggagtcga
     2641 tttttatggc aaaaataacg aaaaatgagc aagaaaattt ggtgaaaaat tacacaaaaa
     2701 aaccggcgta ctctaatagc cggttaaacc gacatattat gtacaccccc gaaccaaaat
     2761 tacactttga tgctatgaca attgttggga atcttaataa gaacaatgct cacaaactgt
     2821 ctgaatttat gagtattgcg ccacaaatta gactttggga tatattacaa accaaattta
     2881 aagctaaggc tctacaagaa aaagtttaca tcgaatatga taaagtaaaa gcagatgcgt
     2941 gggatagacg taatatgcgt gttgaattta atcctaataa acttacgcat gaagaaatgc
     3001 tttggttaaa acaaaacatc attgactaca tggaagatga tggttttaca agattagatt
     3061 tggcttttga ttttgaagac gatttgagcg attattatgc gatgactgat aaatcagtta
     3121 agaaaactat tttttatggt cgtaacggta aaccagaaac aaaatatttt ggtgttcgtg
     3181 acagtgatag atttattaga atttataata aaaaacaaga acgtaaggat aatgcagaca
     3241 ttgaagttat gtctgaacac ttatggcgtg tagaaattga attaaaaaga gatatggttg
     3301 attattggaa cgattgtttt aatgatttac atattttgaa accagattgg tctagtttag
     3361 aaaaagtaaa agaccaagca atgatttata tgctaattca tgaagaaagt acatggggta
     3421 aattagaaag acgtacaaaa aataaataca gagaaatgtt aaaaagtatt tcagaaattg
     3481 atttaacgga cttaatgaaa ttgactttaa aagagaatga aaaacaattg caaaagcaga
     3541 ttgaattttg gcagcgtgaa tttagatttt gggagtgaaa aaacaatgag gactgaaaaa
     3601 gaaattttaa atttagtttc tgaatttgct tatcaacgaa gcaatgtaaa aattattgct
     3661 ctcgagggtt caagaactaa tgaaaatata aaaaaagata agtttcaaga ttatgatttt
     3721 gcttttttcg tatcagatat tgagtatttc acacatgaag aaagttggtt aagtttattt
     3781 ggagaattat tgtttataca gaaaccagaa gatatggaat tattcccacc tgatttagat
     3841 tatggttaca gttatataat gtattttaaa gatggcataa aaatggatat tacattaatt
     3901 aatttaaaag atttaaatcg ttattttagt gattctgatg gtcttgtaaa aattttagtt
     3961 gataaagata atttagtaac tcaagaaatt gttccagatg actcaaatta ttggttaaaa
     4021 aaaccaacag aacgagaatt ttatgattgc tgtaatgagt tttggagtgt ctcaacgtat
     4081 gtagcaaagg gtgtttttag aagagaaata ttatttgctt tagatcattt caataatatt
     4141 ttacgtcctg aattattaag aatgatttct tggtatattg gctttaatag gggttttgat
     4201 tttagtttag gaaagaatta taagtttata aacaaatatt taactgataa agaattcaat
     4261 atgcttttag ctacttttga gatgaatgga tatagaaaga cataccaatc ttttaagctt
     4321 tgttgtgaat tatttaaata ttattcaaat aaagtaagtt gtttaggaaa ttataactat
     4381 ccaaattacg aaaaaaatat tgagaatttt attcgtaata attatgagaa ttaattttat
     4441 tagcaaccac atttttggtt gcttttgttt tgattttgaa tttggttttg aactatgagt
     4501 ggctagcatt ttgccactca ttttttgcgt tagcaaaaac ataaagggtc tgggattaat
     4561 cccagcaagc cggtatattc agaacgaagt ggctagaata tacgacgctt gccaaaccac
     4621 aatattactt gagaaaatat agattatatt ataagatata tttatgaaaa ggaatatttt
     4681 tcgatagaaa ggtggtggga ctt
//
