LOCUS       NZ_CP118838             4703 bp    DNA     circular CON 15-MAY-2024
DEFINITION  Mammaliicoccus lentus strain 7050 plasmid pML7050-1, complete
            sequence.
ACCESSION   NZ_CP118838
VERSION     NZ_CP118838.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33407029
            Assembly: GCF_030012825.1
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                   :: 196x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_030012825.1-RS_2024_05_15
            Annotation Date                   :: 05/15/2024 04:28:59
            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)                     :: 2,631
            CDSs (total)                      :: 2,550
            Genes (coding)                    :: 2,507
            CDSs (with protein)               :: 2,507
            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)              :: 43
            CDSs (without protein)            :: 43
            Pseudo Genes (ambiguous residues) :: 0 of 43
            Pseudo Genes (frameshifted)       :: 12 of 43
            Pseudo Genes (incomplete)         :: 18 of 43
            Pseudo Genes (internal stop)      :: 15 of 43
            Pseudo Genes (multiple problems)  :: 2 of 43
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP118838.1.
            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="7050"
                     /isolation_source="Nose"
                     /host="Camelus dromedarius"
                     /db_xref="taxon:42858"
                     /plasmid="pML7050-1"
                     /geo_loc_name="Algeria: M'sila"
                     /collection_date="2021-12-13"
     gene            1..933
                     /locus_tag="PYH50_RS13040"
                     /old_locus_tag="PYH50_13040"
     CDS             1..933
                     /locus_tag="PYH50_RS13040"
                     /old_locus_tag="PYH50_13040"
                     /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            941..1789
                     /gene="str"
                     /locus_tag="PYH50_RS13045"
                     /old_locus_tag="PYH50_13045"
     ARG             942..1786
                     /name="str"
                     /gene="str"
                     /gene_name="streptomycin adenylyltransferase Str"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            2059..2442
                     /gene="mobC"
                     /locus_tag="PYH50_RS13050"
                     /old_locus_tag="PYH50_13050"
     CDS             2059..2442
                     /gene="mobC"
                     /locus_tag="PYH50_RS13050"
                     /old_locus_tag="PYH50_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            2424..2624
                     /locus_tag="PYH50_RS13055"
                     /old_locus_tag="PYH50_13055"
     CDS             2424..2624
                     /locus_tag="PYH50_RS13055"
                     /old_locus_tag="PYH50_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            2611..3588
                     /locus_tag="PYH50_RS13060"
                     /old_locus_tag="PYH50_13060"
     CDS             2611..3588
                     /locus_tag="PYH50_RS13060"
                     /old_locus_tag="PYH50_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            3551..4099
                     /locus_tag="PYH50_RS13065"
                     /old_locus_tag="PYH50_13065"
     CDS             3551..4099
                     /locus_tag="PYH50_RS13065"
                     /old_locus_tag="PYH50_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"
     Typing          55..933
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.773"
                     /coverage="93.0"
                     /evalue="0.0"
ORIGIN
        1 atggcaaaaa taacgaaaaa tgagcaagaa aatttggtga aaaattacac aaaaaaaccg
       61 gcgtactcta atagccggtt aaaccgacat attatgtaca cccccgaacc aaaattacac
      121 tttgatgcta tgacaattgt tgggaatctt aataagaaca atgctcacaa actgtctgaa
      181 tttatgagta ttgcgccaca aattagactt tgggatatat tacaaaccaa atttaaagct
      241 aaggctctac aagaaaaagt ttacatcgaa tatgataaag taaaagcaga tgcgtgggat
      301 agacgtaata tgcgtgttga atttaatcct aataaactta cgcatgaaga aatgctttgg
      361 ttaaaacaaa acatcattga ctacatggaa gatgatggtt ttacaagatt agatttggct
      421 tttgattttg aagacgattt gagcgattat tatgcgatga ctgataaatc agttaagaaa
      481 actatttttt atggtcgtaa cggtaaacca gaaacaaaat attttggtgt tcgtgacagt
      541 gatagattta ttagaattta taataaaaaa caagaacgta aggataatgc agacattgaa
      601 gttatgtctg aacacttatg gcgtgtagaa attgaattaa aaagagatat ggttgattat
      661 tggaacgatt gttttaatga tttacatatt ttgaaaccag attggtctag tttagaaaaa
      721 gtaaaagacc aagcaatgat ttatatgcta attcatgaag aaagtacatg gggtaaatta
      781 gaaagacgta caaaaaataa atacagagaa atgttaaaaa gtatttcaga aattgattta
      841 acggacttaa tgaaattgac tttaaaagag aatgaaaaac aattgcaaaa gcagattgaa
      901 ttttggcagc gtgaatttag attttgggag tgaaaaaaca atgaggactg aaaaagaaat
      961 tttaaattta gtttctgaat ttgcttatca acgaagcaat gtaaaaatta ttgctctcga
     1021 gggttcaaga actaatgaaa atataaaaaa agataagttt caagattatg attttgcttt
     1081 tttcgtatca gatattgagt atttcacaca tgaagaaagt tggttaagtt tatttggaga
     1141 attattgttt atacagaaac cagaagatat ggaattattc ccacctgatt tagattatgg
     1201 ttacagttat ataatgtatt ttaaagatgg cataaaaatg gatattacat taattaattt
     1261 aaaagattta aatcgttatt ttagtgattc tgatggtctt gtaaaaattt tagttgataa
     1321 agataattta gtaactcaag aaattgttcc agatgactca aattattggt taaaaaaacc
     1381 aacagaacga gaattttatg attgctgtaa tgagttttgg agtgtctcaa cgtatgtagc
     1441 aaagggtgtt tttagaagag aaatattatt tgctttagat catttcaata atattttacg
     1501 tcctgaatta ttaagaatga tttcttggta tattggcttt aataggggtt ttgattttag
     1561 tttaggaaag aattataagt ttataaacaa atatttaact gataaagaat tcaatatgct
     1621 tttagctact tttgagatga atggatatag aaagacatac caatctttta agctttgttg
     1681 tgaattattt aaatattatt caaataaagt aagttgttta ggaaattata actatccaaa
     1741 ttacgaaaaa aatattgaga attttattcg taataattat gagaattaat tttattagca
     1801 accacatttt tggttgcttt tgttttgatt ttgaatttgg ttttgaacta tgagtggcta
     1861 gcattttgcc actcattttt tgcgttagca aaaacataaa gggtctggga ttaatcccag
     1921 caagccggta tattcagaac gaagtggcta gaatatacga cgcttgccaa accacaatat
     1981 tacttgagaa aatatagatt atattataag atatatttat gaaaaggaat atttttcgat
     2041 agaaaggtgg tgggacttgt gaacgaacat aaagataatt tggctagcga tttttctaac
     2101 gataaggtca aaagaccagt tagaaaagag ccaaaacaaa tttcgtttag agtgagtgaa
     2161 caggaatatt caaagttgaa acagtcggca gaaactttga atatgacagt gcctaatttc
     2221 gttaagaaaa aggcacaagg cagtcgatta gtgtcgccaa aattagacaa agaaacgcga
     2281 caatcgattg ccaaagattt aagtaaattg ggtgcgaatg tgaatcagat tgctaaatat
     2341 tgtaatcaac atcaacatga tgcaccgaat tatgaaggct tggaatataa tatcaatgca
     2401 gtacgtgaaa ggttggatga gatatggcaa aagataaatt aagaattata tttaacatta
     2461 ttttagttgt tttggtttta ggatatggtg cttttgtatt attcacagat tacggaaatg
     2521 caaaatggtc acttattttt attggtattt taattgttgt tggagtttca agagatatca
     2581 ttgcacctaa accaacaagt agtgatgaaa atggcaacaa ctaaattagg taataccaaa
     2641 tcggcaagtc gagcaatcaa ttacgcagaa gaacgtgcag aagaaaagag tggtttaaat
     2701 tgtgatgttg attatgccaa atcgtatttt aagcaaacta gggcgttata tggcaaagag
     2761 aatggtgttc aagcacatac agtcattcaa tcttttaagc caggcgaagt aacagcagaa
     2821 gaatgtaacg atttaggttt agaattagct aaaaagattg caccagaaca tcaagtagct
     2881 atttatacgc atacagataa agaccatttt cataatcaca ttattattaa ttcagtgaat
     2941 ttagaaacag gcaaaaaata tcagtccaat aaagaacaac gtgatttcgt aaaacaagcg
     3001 aatgatcagt tatgtcatga gcgtggttta tctgttccag aaaaatcggc agaacttaga
     3061 tatacactag cagagcagaa catgatagat aaagataaac cttcttggaa aaatgaaatc
     3121 agaatggcaa ttgaagaaac aaaagaccaa gcaataaact ttgaagaatt taacgatttg
     3181 ctaaaagaaa aaggtgttca aattgctaga gtgacaaaaa ataatattac ctatgaacac
     3241 ttagaagaaa ataaaaaagt acgtggtaat aagttaggag atacttacga taaaggaggg
     3301 ttagcgtatg gctttgcagc cgagaaacaa agacgagaac ttgaagaatc gaaaccactc
     3361 gagccaaagc aggcagaaca acgagagcga gattggtcta attttgcaca aacaacaaat
     3421 tcaattgaac aagatagaaa acgccgtgaa cgagaggaac gagaacgaga agaagaaaaa
     3481 cgacgtattg aggaaaagaa tagaggaatt ggagaagagc gaatcagaca ggcacaaaga
     3541 gaacgagaga ttgttaaaaa atctagaggc ttcgacctcg aactttaata atctacttga
     3601 tcagttagat aattcaacta aaaatgtgaa aaacaatttt attagtgttg ctcgttctta
     3661 tctaaaacgt attgatacag ataatttaca acaagatttt agtaaagcag ttaaagatga
     3721 gttgagtgat gccaagaaag aaattcgtaa ttcaacgaat caagcgagag aagaaaacaa
     3781 agaatataaa aagattataa acgagcgatt agcgaacaat gatgaattga ttagtaaata
     3841 taataaatca ataaatgcta tgactaaagg tattacaagt ctattttttg tgattgtaat
     3901 gattgcacta gttttatttg ttactggacc gataggcgag ttttttggtg tggcacattt
     3961 atatcaattc attcagaagt ttatagatac acacgaaacg ccatggcgtt atttgatagg
     4021 catattatat cttttacctt atgtatgttt tgcaggtatt atgtggcttg ttgcaaagac
     4081 gttagacgtt ataagatagt tttatatcta aaaaacgcta aatgcttaaa aaagccctta
     4141 aaatgcaaaa taggactatt tgatatagaa cacgcattta tgccgagaaa actttttgtc
     4201 ttaaagagtc cttaacttag acttaaagcg acagcggtcg atagcgtcag ctattaaccc
     4261 gaccgactga cagcttttag gattgttaag gacgcaaact ttaagaccaa aaggaaattg
     4321 gaataaagca ataaaggagt tgaagaaatg aaattcagag aagcattgaa caactttctt
     4381 actagcaagt atgtattagt tatagtagca gcgttggtta tctatcaaat aattatgttg
     4441 tataactaaa aaagacttga tctaattagg aactaattag accaagcctt ttgttagtgt
     4501 tatattaata acaaaataaa aataagaagt cgttcacgcc cctaccaaag tttgtgaacg
     4561 aaatccgaaa agaaaacagt cgatgtttgt ttcttaattt gtatatcttg atattaaacg
     4621 atttgagtta aatcttcaag atatatattc gcaaatgtaa ttggatgagc gacttcttaa
     4681 acaaaattaa ggagtcgatt ttt
//
