LOCUS       NZ_CP120159             4439 bp    DNA     circular CON 06-JAN-2024
DEFINITION  Mammaliicoccus lentus strain Dog026 plasmid unnamed4, complete
            sequence.
ACCESSION   NZ_CP120159
VERSION     NZ_CP120159.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33696772
            Assembly: GCF_034042815.1
KEYWORDS    RefSeq.
SOURCE      Mammaliicoccus lentus
  ORGANISM  Mammaliicoccus lentus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Mammaliicoccus.
REFERENCE   1  (bases 1 to 4439)
  AUTHORS   Akarsu,H., Liljander,A., Lacasta,A., Ssajjakambwe,P., Brodard,I.,
            Cherbuin,J., Kuhnert,P., Perreten,V., Torres Puig,S., Labroussaa,F.
            and Jores,J.
  TITLE     Canine Staphylococcaceae circulating in a Kenyan animal shelter
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4439)
  AUTHORS   Akarsu,H., Liljander,A., Lacasta,A., Ssajjakambwe,P., Brodard,I.,
            Cherbuin,J., Kuhnert,P., Perreten,V., Torres Puig,S., Labroussaa,F.
            and Jores,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-DEC-2023) Institute of Veterinary Bacteriology,
            University of Bern, Langgassstrasse 122, Bern 3001, Switzerland
  REMARK    Annotation added by database at the request of the submitter
REFERENCE   3  (bases 1 to 4439)
  AUTHORS   Akarsu,H., Liljander,A., Lacasta,A., Ssajjakambwe,P., Brodard,I.,
            Cherbuin,J., Kuhnert,P., Perreten,V., Torres Puig,S., Labroussaa,F.
            and Jores,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-MAR-2023) Institute of Veterinary Bacteriology,
            University of Bern, Langgassstrasse 122, Bern 3001, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: AUG-2022
            Assembly Method                   :: Flye v. v2.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 283x
            Sequencing Technology             :: PacBio Sequel II
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/06/2024 10:51:16
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,901
            CDSs (total)                      :: 2,820
            Genes (coding)                    :: 2,796
            CDSs (with protein)               :: 2,796
            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)              :: 24
            CDSs (without protein)            :: 24
            Pseudo Genes (ambiguous residues) :: 0 of 24
            Pseudo Genes (frameshifted)       :: 7 of 24
            Pseudo Genes (incomplete)         :: 16 of 24
            Pseudo Genes (internal stop)      :: 5 of 24
            Pseudo Genes (multiple problems)  :: 3 of 24
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP120159.1.
            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..4439
                     /organism="Mammaliicoccus lentus"
                     /mol_type="genomic DNA"
                     /strain="Dog026"
                     /isolation_source="nasal swab"
                     /host="Canis lupus familiaris"
                     /db_xref="taxon:42858"
                     /plasmid="unnamed4"
                     /geo_loc_name="Kenya:Nairobi"
                     /lat_lon="1.3345 S 36.7331 E"
                     /collection_date="2015-06-27"
                     /collected_by="Joerg Jores, Anna Lacasta, Anne Liljander,
                     Paul Ssajjakambwe (International Livestock Research
                     Institute, ILRI)"
     gene            join(3535..4439,1..100)
                     /locus_tag="P3U54_RS14445"
                     /old_locus_tag="P3U54_14450"
     CDS             join(3535..4439,1..100)
                     /locus_tag="P3U54_RS14445"
                     /old_locus_tag="P3U54_14450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011167204.1"
                     /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_323711122.1"
                     /translation="MATTKLGNTKSASRAINYAEERAEEKSGLNCDVDYAKSYFKQTRA
                     LYGKENGVQAHTVIQSFKPGEVTAKECNEIGLELAKKIAPDYQVAVYTHTDKDHYHNHI
                     IINSVNLETGNKYQSNKEQRDFIKKANDQLCEERGLSVPEKSSEIRYTLAEQNMIDKDK
                     RSWKNDIRMAVEETKDNAVDFEEFNTLLKEKGVEITRVTKNNVTYRHIEEDKKVRGNKL
                     GDSYDKGVIENGFAIEKFRREREEEREYDEYADTFEVDWDAVAENSEDLRKRRIARTEE
                     TKQASNKIYIRDERTTGLERKIYIRDERTTGLERKGIAGNQVEFEKDDGGLSR"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            69..524
                     /locus_tag="P3U54_RS14450"
                     /old_locus_tag="P3U54_14455"
     CDS             69..524
                     /locus_tag="P3U54_RS14450"
                     /old_locus_tag="P3U54_14455"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002485179.1"
                     /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_000753824.1"
                     /translation="MKKTTEDFQGRGKKVHNDFVRLLQKNLNRVNAEDIEIEVRKDVYG
                     VREEIHSMLREVKQSHEHYQKRQKQLFTGIGAMLLVFMLFALIMTIGRDFMGFLHVDVL
                     QNAIASKIKASEGFISVLWYIAYGLPYILAIGLFIWLYEWIRARFHD"
                     /name="DUF334 domain-containing protein"
     gene            1085..2029
                     /locus_tag="P3U54_RS14455"
                     /old_locus_tag="P3U54_14460"
     CDS             1085..2029
                     /locus_tag="P3U54_RS14455"
                     /old_locus_tag="P3U54_14460"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011167206.1"
                     /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_011167206.1"
                     /translation="MSKKAEEIQAKQSLEKENSNFSKTGYSNSRLNRHIMYTPEPKLHF
                     DAMTIVGNLNKNNAHKLSEFMSIAPQIRLWDILQTKFKAKALQEKVYIEYDKVKADAWD
                     RRNMRVEFNPNKLTHEEMLWLKQNIIDYMEDDGFTRLDLAFDFEDDLSDYYAMTDKSVK
                     KTIFYGRNGKPETKYFGVRDSDRFIRIYNKKQERKDNADIEVMSEHLWRVEIELKRDMV
                     DYWNDCFNDLHILKPDWSSLEKVKDQAMIYMLIHEESTWGKLERRTKNKYREMLKSISE
                     IDLTDLMKLTLKENEKQLQKQIEFWQREFRFWE"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            2037..2885
                     /gene="str"
                     /locus_tag="P3U54_RS14460"
                     /old_locus_tag="P3U54_14465"
     ARG             2038..2882
                     /name="str"
                     /gene="str"
                     /gene_name="streptomycin adenylyltransferase Str"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            3155..3553
                     /gene="mobC"
                     /locus_tag="P3U54_RS14465"
                     /old_locus_tag="P3U54_14470"
     CDS             3155..3553
                     /gene="mobC"
                     /locus_tag="P3U54_RS14465"
                     /old_locus_tag="P3U54_14470"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002489523.1"
                     /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_001002114.1"
                     /translation="MNEHKDNLASDLSVGGNRKPNRKEPKQISFRVSEQEYSKLKQSAE
                     TLNMTVPNFVKKKAQGSRLVSPKLDKETRQSIAKDLSHLGSNVNQIAKWFNQNKDKATH
                     LPEEKYHDLEKQFDDVKKELHKIWQQLN"
                     /name="mobC"
     Typing          complement(2950..3184)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="80.0"
                     /coverage="100.0"
                     /evalue="1.4099999999999999e-40"
     Typing          1086..2029
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3536..4437
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aatatatatc agagatgaaa gaacaacagg acttgagaga aaaggaattg caggcaatca
       61 agtcgagttt gaaaaagacg acggaggact ttcaaggtag aggtaaaaaa gtccataatg
      121 attttgttcg tttgttacaa aagaatttaa atcgagtgaa tgcagaagat attgagatag
      181 aggttcgaaa agatgtttat ggagttcgag aagaaattca ttcgatgttg cgtgaagtta
      241 aacaatcaca tgaacattat caaaaaagac aaaagcaatt atttactggt attggtgcaa
      301 tgttattagt gtttatgctt tttgctttga ttatgacgat tggcagagat tttatgggct
      361 ttttacatgt agatgtatta cagaatgcca tagcaagcaa aataaaggct tctgagggct
      421 ttatttcagt tttatggtac attgcttatg gtttacctta tatactcgct atagggctat
      481 ttatttggtt gtatgagtgg ataagagcaa gattccatga ttaaacaaag tatgatcagg
      541 cttttatgcc gagaaaattt atttatattg agaagtaccc ttaactaaac ttgcagacga
      601 atgtcggcat agcgtgagct attagcctga ccattcgaca agttttgggt ttgttaaggg
      661 tacagaggct caatgtaaat aaagcaattg gaataaagca acaaaggggg ttgaagaaaa
      721 tgagtaagaa gaaaaagatt aatttagcaa tatcaattgc tcaagtagta gtgcaggcgt
      781 taatacttta taacacttat cagcaatata aatattctaa aaaatattca gcctaataaa
      841 aaaagactta gtctgaatag accaagcctt ttgttagtgt tatattaata tgcaaataaa
      901 aaaacaaaaa aagaagtcgc tcactccctg accaaagttt gtgaatgcga cttaccttaa
      961 agaaaaacag ttggtgtttt tttcttaatt tttgtatatc tagatattaa acgatattgg
     1021 tttattcttc aagatatata ttcgggtgag cgacttctta aacaaaataa ggagtcgatt
     1081 ttttatgagt aaaaaagcag aagaaattca ggcaaaacaa agtttggaaa aggaaaactc
     1141 aaatttttct aaaaccggat actctaatag ccggttaaac cgacatatta tgtacacccc
     1201 cgaaccaaaa ttacactttg atgctatgac aattgttggg aatcttaata agaacaatgc
     1261 tcacaaactg tctgaattta tgagtattgc gccacaaatt agactttggg atatattaca
     1321 aaccaaattt aaagctaagg ctctacaaga aaaagtttac atcgaatatg ataaagtaaa
     1381 agcagatgcg tgggatagac gtaatatgcg tgttgaattt aatcctaata aacttacgca
     1441 tgaagaaatg ctttggttaa aacaaaacat cattgactac atggaagatg atggttttac
     1501 aagattagat ttggcttttg attttgaaga cgatttgagc gattattatg cgatgactga
     1561 taaatcagtt aagaaaacta ttttttatgg tcgtaacggt aaaccagaaa caaaatattt
     1621 tggtgttcgt gacagtgata gatttattag aatttataat aaaaaacaag aacgtaagga
     1681 taatgcagac attgaagtta tgtctgaaca cttatggcgt gtagaaattg aattaaaaag
     1741 agatatggtt gattattgga acgattgttt taatgattta catattttga aaccagattg
     1801 gtctagttta gaaaaagtaa aagaccaagc aatgatttat atgctaattc atgaagaaag
     1861 tacatggggt aaattagaaa gacgtacaaa aaataaatac agagaaatgt taaaaagtat
     1921 ttcagaaatt gatttaacgg acttaatgaa attgacttta aaagagaatg aaaaacaatt
     1981 gcaaaagcag attgaatttt ggcagcgtga atttagattt tgggagtgaa aaaacaatga
     2041 ggactgaaaa agaaatttta aatttagttt ctgaatttgc ttatcaacga agcaatgtaa
     2101 aaattattgc tctcgagggt tcaagaacta atgaaaatat aaaaaaagat aagtttcaag
     2161 attatgattt tgcttttttc gtatcagata ttgagtattt cacacatgaa gaaagttggt
     2221 taagtttatt tggagaatta ttgtttatac agaaaccaga agatatggaa ttattcccac
     2281 ctgatttaga ttatggttac agttatataa tgtattttaa agatggcata aaaatggata
     2341 ttacattaat taatttaaaa gatttaaatc gttattttag tgattctgat ggtcttgtaa
     2401 aaattttagt tgataaagat aatttagtaa ctcaagaaat tgttccagat gactcaaatt
     2461 attggttaaa aaaaccaaca gaacgagaat tttatgattg ctgtaatgag ttttggagtg
     2521 tctcaacgta tgtagcaaag ggtgttttta gaagagaaat attatttgct ttagatcatt
     2581 tcaataatat tttacgtcct gaattattaa gaatgatttc ttggtatatt ggctttaata
     2641 ggggttttga ttttagttta ggaaagaatt ataagtttat aaacaaatat ttaactgata
     2701 aagaattcaa tatgctttta gctacttttg agatgaatgg atatagaaag acataccaat
     2761 cttttaagct ttgttgtgaa ttatttaaat attattcaaa taaagtaagt tgtttaggaa
     2821 attataacta tccaaattac gaaaaaaata ttgagaattt tattcgtaat aattatgaga
     2881 attaatttta ttagcaacca catttttggt tgcttttgtt ttgattttga atttggtttt
     2941 gaactatgag tggctagcat tttgccactc attttttgcg ttagcaaaaa cataaagggt
     3001 ctgggattaa tcccagcaag ccggtatatt cagaacgaag tggctagaat atacgacgct
     3061 tgccaaacca ctatattact tgagaaaata tagattatat tataagctat atttatgaaa
     3121 aggaatattt ttcgtcagaa aggtggtggg acttgtgaac gaacataaag ataatttggc
     3181 tagcgatttg tctgttgggg gaaaccgtaa acccaaccgc aaagagccaa aacaaattag
     3241 tttcagagtg agtgaacagg aatattcaaa gttgaaacag tcggcagaaa ctttgaatat
     3301 gacagtgcct aatttcgtta agaaaaaggc acaaggcagt cgattagtgt cgccaaaatt
     3361 agacaaagaa acgcgacaat cgattgccaa agatttaagt catttgggta gtaatgtgaa
     3421 tcagattgct aagtggttta atcaaaataa agataaggct acacatttac cagaagagaa
     3481 atatcatgat ttagaaaagc aatttgatga tgtgaaaaag gagttgcata agatatggca
     3541 acaactaaat taggcaatac gaagtcggca agtcgtgcca ttaattacgc agaagaacgt
     3601 gcagaagaaa aaagcggctt aaattgtgat gttgattatg ctaaatcata ttttaagcaa
     3661 actagggcgt tatatggcaa agagaatggt gttcaagcac atacagtcat tcaatctttt
     3721 aagcctggcg aagtaacagc taaagagtgt aatgagatag gtttagaatt agctaaaaaa
     3781 attgcaccag attatcaagt tgcagtttat acacatacag acaaagacca ttatcacaat
     3841 cacattatta ttaattcagt aaatttagaa acaggcaaca agtatcagtc aaacaaagaa
     3901 caacgtgatt ttataaaaaa ggcgaatgat cagttatgtg aagaacgtgg tttatctgtg
     3961 ccagaaaagt catcagaaat cagatatacg ttggcagaac agaacatgat agataaagat
     4021 aaaaggtcat ggaaaaatga tataagaatg gcagttgaag aaacaaagga taacgcagta
     4081 gactttgaag aatttaatac tttgctaaaa gaaaaaggtg ttgaaatcac gagagtaacg
     4141 aaaaacaacg taacgtatag acacattgaa gaagataaaa aagtacgtgg gaataagttg
     4201 ggcgattctt atgacaaagg agtgattgaa aatggctttg caatcgagaa attcagacga
     4261 gaacgagaag aagaacgaga atacgatgaa tatgcagaca cgttcgaagt tgactgggac
     4321 gcagtcgcag aaaattcaga agaccttaga aaacgaagaa ttgcaagaac tgaagaaaca
     4381 aaacaagcta gtaataaaat atatatcaga gatgaaagaa caacaggact tgagagaaa
//
