LOCUS       NZ_CP118777             4703 bp    DNA     circular CON 15-MAY-2024
DEFINITION  Mammaliicoccus lentus strain 7074 plasmid pML7074-1, complete
            sequence.
ACCESSION   NZ_CP118777
VERSION     NZ_CP118777.1
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 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                   :: 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
            CP118777.1.
            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="7074"
                     /isolation_source="Nose"
                     /host="Camelus dromedarius"
                     /db_xref="taxon:42858"
                     /plasmid="pML7074-1"
                     /geo_loc_name="Algeria: Ouargla"
                     /collection_date="2022-06-06"
     gene            join(4339..4703,1..19)
                     /gene="mobC"
                     /locus_tag="PYH61_RS13045"
                     /old_locus_tag="PYH61_13045"
     CDS             join(4339..4703,1..19)
                     /gene="mobC"
                     /locus_tag="PYH61_RS13045"
                     /old_locus_tag="PYH61_13045"
                     /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            1..201
                     /locus_tag="PYH61_RS13050"
                     /old_locus_tag="PYH61_13050"
     CDS             1..201
                     /locus_tag="PYH61_RS13050"
                     /old_locus_tag="PYH61_13050"
                     /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            188..1165
                     /locus_tag="PYH61_RS13055"
                     /old_locus_tag="PYH61_13055"
     CDS             188..1165
                     /locus_tag="PYH61_RS13055"
                     /old_locus_tag="PYH61_13055"
                     /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            1128..1676
                     /locus_tag="PYH61_RS13060"
                     /old_locus_tag="PYH61_13060"
     CDS             1128..1676
                     /locus_tag="PYH61_RS13060"
                     /old_locus_tag="PYH61_13060"
                     /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            2281..3213
                     /locus_tag="PYH61_RS13065"
                     /old_locus_tag="PYH61_13065"
     CDS             2281..3213
                     /locus_tag="PYH61_RS13065"
                     /old_locus_tag="PYH61_13065"
                     /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            3221..4069
                     /gene="str"
                     /locus_tag="PYH61_RS13070"
                     /old_locus_tag="PYH61_13070"
     ARG             3222..4066
                     /name="str"
                     /gene="str"
                     /gene_name="streptomycin adenylyltransferase Str"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          2335..3213
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.773"
                     /coverage="93.0"
                     /evalue="0.0"
ORIGIN
        1 atggcaaaag ataaattaag aattatattt aacattattt tagttgtttt ggttttagga
       61 tatggtgctt ttgtattatt cacagattac ggaaatgcaa aatggtcact tatttttatt
      121 ggtattttaa ttgttgttgg agtttcaaga gatatcattg cacctaaacc aacaagtagt
      181 gatgaaaatg gcaacaacta aattaggtaa taccaaatcg gcaagtcgag caatcaatta
      241 cgcagaagaa cgtgcagaag aaaagagtgg tttaaattgt gatgttgatt atgccaaatc
      301 gtattttaag caaactaggg cgttatatgg caaagagaat ggtgttcaag cacatacagt
      361 cattcaatct tttaagccag gcgaagtaac agcagaagaa tgtaacgatt taggtttaga
      421 attagctaaa aagattgcac cagaacatca agtagctatt tatacgcata cagataaaga
      481 ccattttcat aatcacatta ttattaattc agtgaattta gaaacaggca aaaaatatca
      541 gtccaataaa gaacaacgtg atttcgtaaa acaagcgaat gatcagttat gtcatgagcg
      601 tggtttatct gttccagaaa aatcggcaga acttagatat acactagcag agcagaacat
      661 gatagataaa gataaacctt cttggaaaaa tgaaatcaga atggcaattg aagaaacaaa
      721 agaccaagca ataaactttg aagaatttaa cgatttgcta aaagaaaaag gtgttcaaat
      781 tgctagagtg acaaaaaata atattaccta tgaacactta gaagaaaata aaaaagtacg
      841 tggtaataag ttaggagata cttacgataa aggagggtta gcgtatggct ttgcagccga
      901 gaaacaaaga cgagaacttg aagaatcgaa accactcgag ccaaagcagg cagaacaacg
      961 agagcgagat tggtctaatt ttgcacaaac aacaaattca attgaacaag atagaaaacg
     1021 ccgtgaacga gaggaacgag aacgagaaga agaaaaacga cgtattgagg aaaagaatag
     1081 aggaattgga gaagagcgaa tcagacaggc acaaagagaa cgagagattg ttaaaaaatc
     1141 tagaggcttc gacctcgaac tttaataatc tacttgatca gttagataat tcaactaaaa
     1201 atgtgaaaaa caattttatt agtgttgctc gttcttatct aaaacgtatt gatacagata
     1261 atttacaaca agattttagt aaagcagtta aagatgagtt gagtgatgcc aagaaagaaa
     1321 ttcgtaattc aacgaatcaa gcgagagaag aaaacaaaga atataaaaag attataaacg
     1381 agcgattagc gaacaatgat gaattgatta gtaaatataa taaatcaata aatgctatga
     1441 ctaaaggtat tacaagtcta ttttttgtga ttgtaatgat tgcactagtt ttatttgtta
     1501 ctggaccgat aggcgagttt tttggtgtgg cacatttata tcaattcatt cagaagttta
     1561 tagatacaca cgaaacgcca tggcgttatt tgataggcat attatatctt ttaccttatg
     1621 tatgttttgc aggtattatg tggcttgttg caaagacgtt agacgttata agatagtttt
     1681 atatctaaaa aacgctaaat gcttaaaaaa gcccttaaaa tgcaaaatag gactatttga
     1741 tatagaacac gcatttatgc cgagaaaact ttttgtctta aagagtcctt aacttagact
     1801 taaagcgaca gcggtcgata gcgtcagcta ttaacccgac cgactgacag cttttaggat
     1861 tgttaaggac gcaaacttta agaccaaaag gaaattggaa taaagcaata aaggagttga
     1921 agaaatgaaa ttcagagaag cattgaacaa ctttcttact agcaagtatg tattagttat
     1981 agtagcagcg ttggttatct atcaaataat tatgttgtat aactaaaaaa gacttgatct
     2041 aattaggaac taattagacc aagccttttg ttagtgttat attaataaca aaataaaaat
     2101 aagaagtcgt tcacgcccct accaaagttt gtgaacgaaa tccgaaaaga aaacagtcga
     2161 tgtttgtttc ttaatttgta tatcttgata ttaaacgatt tgagttaaat cttcaagata
     2221 tatattcgca aatgtaattg gatgagcgac ttcttaaaca aaattaagga gtcgattttt
     2281 atggcaaaaa taacgaaaaa tgagcaagaa aatttggtga aaaattacac aaaaaaaccg
     2341 gcgtactcta atagccggtt aaaccgacat attatgtaca cccccgaacc aaaattacac
     2401 tttgatgcta tgacaattgt tgggaatctt aataagaaca atgctcacaa actgtctgaa
     2461 tttatgagta ttgcgccaca aattagactt tgggatatat tacaaaccaa atttaaagct
     2521 aaggctctac aagaaaaagt ttacatcgaa tatgataaag taaaagcaga tgcgtgggat
     2581 agacgtaata tgcgtgttga atttaatcct aataaactta cgcatgaaga aatgctttgg
     2641 ttaaaacaaa acatcattga ctacatggaa gatgatggtt ttacaagatt agatttggct
     2701 tttgattttg aagacgattt gagcgattat tatgcgatga ctgataaatc agttaagaaa
     2761 actatttttt atggtcgtaa cggtaaacca gaaacaaaat attttggtgt tcgtgacagt
     2821 gatagattta ttagaattta taataaaaaa caagaacgta aggataatgc agacattgaa
     2881 gttatgtctg aacacttatg gcgtgtagaa attgaattaa aaagagatat ggttgattat
     2941 tggaacgatt gttttaatga tttacatatt ttgaaaccag attggtctag tttagaaaaa
     3001 gtaaaagacc aagcaatgat ttatatgcta attcatgaag aaagtacatg gggtaaatta
     3061 gaaagacgta caaaaaataa atacagagaa atgttaaaaa gtatttcaga aattgattta
     3121 acggacttaa tgaaattgac tttaaaagag aatgaaaaac aattgcaaaa gcagattgaa
     3181 ttttggcagc gtgaatttag attttgggag tgaaaaaaca atgaggactg aaaaagaaat
     3241 tttaaattta gtttctgaat ttgcttatca acgaagcaat gtaaaaatta ttgctctcga
     3301 gggttcaaga actaatgaaa atataaaaaa agataagttt caagattatg attttgcttt
     3361 tttcgtatca gatattgagt atttcacaca tgaagaaagt tggttaagtt tatttggaga
     3421 attattgttt atacagaaac cagaagatat ggaattattc ccacctgatt tagattatgg
     3481 ttacagttat ataatgtatt ttaaagatgg cataaaaatg gatattacat taattaattt
     3541 aaaagattta aatcgttatt ttagtgattc tgatggtctt gtaaaaattt tagttgataa
     3601 agataattta gtaactcaag aaattgttcc agatgactca aattattggt taaaaaaacc
     3661 aacagaacga gaattttatg attgctgtaa tgagttttgg agtgtctcaa cgtatgtagc
     3721 aaagggtgtt tttagaagag aaatattatt tgctttagat catttcaata atattttacg
     3781 tcctgaatta ttaagaatga tttcttggta tattggcttt aataggggtt ttgattttag
     3841 tttaggaaag aattataagt ttataaacaa atatttaact gataaagaat tcaatatgct
     3901 tttagctact tttgagatga atggatatag aaagacatac caatctttta agctttgttg
     3961 tgaattattt aaatattatt caaataaagt aagttgttta ggaaattata actatccaaa
     4021 ttacgaaaaa aatattgaga attttattcg taataattat gagaattaat tttattagca
     4081 accacatttt tggttgcttt tgttttgatt ttgaatttgg ttttgaacta tgagtggcta
     4141 gcattttgcc actcattttt tgcgttagca aaaacataaa gggtctggga ttaatcccag
     4201 caagccggta tattcagaac gaagtggcta gaatatacga cgcttgccaa accacaatat
     4261 tacttgagaa aatatagatt atattataag atatatttat gaaaaggaat atttttcgat
     4321 agaaaggtgg tgggacttgt gaacgaacat aaagataatt tggctagcga tttttctaac
     4381 gataaggtca aaagaccagt tagaaaagag ccaaaacaaa tttcgtttag agtgagtgaa
     4441 caggaatatt caaagttgaa acagtcggca gaaactttga atatgacagt gcctaatttc
     4501 gttaagaaaa aggcacaagg cagtcgatta gtgtcgccaa aattagacaa agaaacgcga
     4561 caatcgattg ccaaagattt aagtaaattg ggtgcgaatg tgaatcagat tgctaaatat
     4621 tgtaatcaac atcaacatga tgcaccgaat tatgaaggct tggaatataa tatcaatgca
     4681 gtacgtgaaa ggttggatga gat
//
