LOCUS       NZ_CP120160             4204 bp    DNA     circular CON 06-JAN-2024
DEFINITION  Mammaliicoccus lentus strain Dog026 plasmid unnamed5, complete
            sequence.
ACCESSION   NZ_CP120160
VERSION     NZ_CP120160.1
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 4204)
  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  JOURNAL   Unpublished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 4204)
  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 4204)
  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
            CP120160.1.
            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..4204
                     /organism="Mammaliicoccus lentus"
                     /mol_type="genomic DNA"
                     /strain="Dog026"
                     /isolation_source="nasal swab"
                     /host="Canis lupus familiaris"
                     /db_xref="taxon:42858"
                     /plasmid="unnamed5"
                     /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            complement(364..1544)
                     /gene="mobV"
                     /locus_tag="P3U54_RS14470"
                     /old_locus_tag="P3U54_14475"
                     /pseudo=""
     CDS             complement(364..1544)
                     /gene="mobV"
                     /locus_tag="P3U54_RS14470"
                     /old_locus_tag="P3U54_14475"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002493196.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /name="mobV"
     gene            complement(1861..2622)
                     /gene="ant(9)"
                     /locus_tag="P3U54_RS14475"
                     /old_locus_tag="P3U54_14480"
     CDS             complement(1861..2622)
                     /gene="ant(9)"
                     /locus_tag="P3U54_RS14475"
                     /old_locus_tag="P3U54_14480"
                     /EC_number="2.7.7.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_021285909.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="aminoglycoside nucleotidyltransferase ANT(9)"
                     /protein_id="WP_031901094.1"
                     /translation="MEEPNKQIDNVLIELKRLFSKDLLGVYLYGSYVKGGLKKDSDVDF
                     LVIINRDMTKEEKRILISKIMPISKEIGEDTSLKYIELTVLNYHENENWSYPPIEEFIY
                     GEWLREDYLNYFIPEKNNNIDLTILLYQAKLSSISIYGENNINNLIPDVPFIDLQKAIK
                     ESSKELIKDFYGDETNVILTLCRMIVTYETGKFYSKDLAGSMIIENLSIEENNLISLAI
                     SSYKNGNSVDWELFPVKSVIKKLYAYLNYKL"
                     /name="ant(9)"
     gene            complement(2648..3592)
                     /locus_tag="P3U54_RS14480"
                     /old_locus_tag="P3U54_14485"
     CDS             complement(2648..3592)
                     /locus_tag="P3U54_RS14480"
                     /old_locus_tag="P3U54_14485"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017722130.1"
                     /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_323711123.1"
                     /translation="MSKKEQEIYSKQVTSGEVQNYALTGYSNSRLSVQTLGQSQPKLSF
                     DAMTIVGNLNKNNAQKLSEFMSVEPQIRLWDILQTKFKAKALQEKVYIEYDKVKADTWD
                     RRNMRVEFNPNKLTHEEMLWLKQNIIDYMEDDGFTRLDLAFDFEDDLSDYYAMTDKSVK
                     KTIFYGRNGKPETKYFGVRDSDKFIRIYNKKQERKDNADIEVVSEHLWRVEIELKRDMV
                     DYWNDCFNDLHILKPAWTTLEKINEQAMVYTLLHEESMWGKLSRNTKYKFKNLIKEISP
                     VDLTDLMKLTLKENEKQLQKQIDFWQREFRFWK"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            complement(3840..4004)
                     /locus_tag="P3U54_RS14485"
                     /old_locus_tag="P3U54_14490"
     CDS             complement(3840..4004)
                     /locus_tag="P3U54_RS14485"
                     /old_locus_tag="P3U54_14490"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001632704.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="CopG family transcriptional regulator"
                     /protein_id="WP_107510999.1"
                     /translation="MVRTKVGITLTEDTLKRLEEIAEQMGLTKSQAISMLVNKEYLSKY
                     QDKDKVFKA"
                     /name="CopG family transcriptional regulator"
     ARG             complement(1865..2622)
                     /name="spd"
                     /gene="spd"
                     /gene_name="ANT(9) family aminoglycoside
                     nucleotidyltransferase Spd"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="98.44"
                     /coverage="100.0"
     Typing          complement(2649..3592)
                     /name="rep_cluster_1078"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.788"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(368..1353)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.96"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          complement(1351..1544)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.923"
                     /coverage="87.0"
                     /evalue="8.46e-77"
ORIGIN
        1 gggggtcgta gtagtccccc tttttccaac taaatttgat aaattctaag ccaaaataca
       61 aaaacagggc taacagatca cttcgtgaag ttagccctaa aacctaaacc attaactcaa
      121 tttatttttt tattccaatt tccttttggt cttaaagttt gcgtccttaa caatcctaaa
      181 agctgtcagt cggtcgggtt aatagctgac gctatcgacc gctgtcgctt taagtctaag
      241 ttaaggactc tttaagacaa aaagttttct cggcataaac gtgggtataa ttaaattaga
      301 tatacttaaa acaattcttt taagattttg aacgccattc tatttttaga gtggcgtttt
      361 tatttatcta cctctacccc tatcacgttt ttgcgtattc ttttcttctt gatattcttc
      421 agggtgtatt tgtttatcaa acatttgtat tgcctttatc ataggagcat tatctctact
      481 cacatcattc attaaattcc tatatttatt tctaccaata gcttgctcta acttctcaaa
      541 aatctctcta ataactttaa taacattaag cgccttttta aggtgttttt cgaggtcttt
      601 tataaactca tttgctcttg ctaaagtttc agacatatcc ttgttttctt ctctaagctt
      661 actattttcg ttttttaggt cattcagagc tttatctgac ttaatatact cataatcttc
      721 tgtaatcgtt tgtgctgctt gtatttgttt ctgaaagtta ttaaattctt cttggcttat
      781 tacaacattc cctgtttctt gtatttcttt gttgaacaat ccacctactt tttcagtttc
      841 atgttcatat tggacgttta aaggcttttt aagcgtttct aatgattttt ggtattgtac
      901 tatcaactca ctgctttttt gttgtatatg gcttaatttt tggctctcac gctcatattc
      961 ttgcttatgg tattctgttt tttgcttata tcggcttacc tgatcatgtt tagcatttgt
     1021 aacttgtctt gattgtcctc ggtccaaatc atacccacgt tgattaacat attcgttaaa
     1081 tctatcttga aacgctgtta acgccttttt attccctaca acttcttttg cacttaatct
     1141 accgtcatca gtgataggaa caacaccata atgcatatgt ggagtttttt cgtccatgtg
     1201 aactgtcgca tataataaat tatctttacc gtattcttgt tctaaaaacg ctttagcata
     1261 ttcaaaaaac tgctttgtat cttctggcgt ttgattatca aagaaatcat tgtctgatgt
     1321 aattaaacca tcaatgtgtt taatcgcgtc tgttcaattt tttcatcaat caagttatta
     1381 aaattctgtt tattagcatt taccaaatca taatttaagt aagttttact atggtctata
     1441 tcttcatttt cataattatt attttctctt tgaacatgtt tttgtatgcc tgttgtattt
     1501 gttcctgttt tgacttttga aactctaata attgaataag acatatataa ttcactcctc
     1561 aacaataagg ttagttaggt aatttaatac tttaagtcta acatactaga cttattttac
     1621 aataagtcat taataccgta tgctctgcga ggctaaaaca tgtttttgtg caagcacaaa
     1681 aaatggactg aacaagtcag tccataagtt caaaaccaaa ttcaaaatca aaacaccagc
     1741 aaccaaaata gtggttgtta aatataaaga tcaaaactaa aacaacatgt attcaactac
     1801 ttactttctt tttcaaaatt taaggaatac ttgatattgc aaatatcaca aaagctatta
     1861 tcataattta taattcaaat aagcataaag ttttttaatg acactcttaa caggaaaaag
     1921 ttcccaatca acgctattac catttttata actagaaata gctaaactta ttaaattatt
     1981 ttcttcaatt gataaatttt ctattatcat actgccagct aaatcttttg aataaaactt
     2041 acctgtttca taagttacga tcatacgaca aagggttaaa ataacatttg tttcatcacc
     2101 ataaaaatct tttatcaatt ctttagaact ttcctttata gctttttgta aatcaataaa
     2161 tggaacatca ggaattaagt tattaatatt attttcgcca taaattgata ttgaagaaag
     2221 cttggcttga tataataata ttgttaaatc aatgttgtta ttcttttctg gaataaaata
     2281 atttaaataa tcttctctaa gccattcccc atagataaac tcttcaatag gtggataaga
     2341 ccaattttca ttttcatgat aattaagcac agttaattct atatatttta aacttgtatc
     2401 ttcaccaatt tctttagaga taggcataat tttcgaaatt aatattcttt tttcttcttt
     2461 agtcatatct ctatttatta tcactagaaa atcaacatca ctatcttttt ttaaaccccc
     2521 tttaacataa gaaccatata aatagactcc taataaatct tttgaaaaca atcgtttcaa
     2581 ttctattaaa acattatcaa tttgcttatt tggttcctcc attattgact cctctcatct
     2641 ttaaatatta tttccaaaat ctaaattcac gttgccaaaa atcaatctgc ttttgcaatt
     2701 gtttttcgtt ctcttttaaa gtcaatttca ttaaatcagt taaatcaact ggagatattt
     2761 ctttaattaa atttttaaat ttatacttag tattcctact taatttcccc cacatacttt
     2821 cttcatgtaa caaagtataa accatagctt gctcattaat tttttctaaa gtagtccaag
     2881 caggtttcaa aatatgtaaa tcattaaaac aatcgttcca ataatcaacc atatctcttt
     2941 ttaattcaat ttccacacgc cataaatgtt ctgaaacaac ttcaatatct gcattatcct
     3001 tacgttcctg ttttttatta taaattctaa taaatttatc actatcacgg acaccaaaat
     3061 atttcgtttc tggtttaccg ttacgaccat aaaagatagt tttcttaacc gatttatcag
     3121 tcattgcata gtagtcgctc aaatcatctt caaaatcaaa agctaagtct aatcttgtaa
     3181 aaccgtcatc ttccatgtaa tcaataatat tttgttttaa ccaaagcatt tcttcatgtg
     3241 taagtttatt cggattaaat tcaacgcgca tattacgtct gtcccacgta tctgctttta
     3301 ctttgtcata ttcaatataa actttttctt gtagagcttt agctttaaat ttcgtttgta
     3361 gtatatccca aagtctaatt tgtggctcaa cactcataaa ttcagatagt ttctgagcat
     3421 tgtttttatt aagatttcca acaattgtca tagcatcaaa acttaatttt ggttgagatt
     3481 gtcccaaagt ttgaacactt aaccggctat tagagtagcc ggttaaggcg taattttgca
     3541 cttcccctga tgtaacttgt tttgaataga tttcttgttc ttttttactc ataaaaaatc
     3601 gactccttaa ttttgtttaa gaagtcgctc acccaaatat atatcttgaa gaataaactt
     3661 aaatcgttta atatctagat atacaaatta ataaaacata attcttatat tttattacgg
     3721 ttttgtcgtt cacaaacttt ggtcagggcg tgagcgactt ctttttttta ttttgttatt
     3781 aatataacac tatcaaatgg cttggtctaa ttagttccta attagatcaa gtcatttttt
     3841 tatgccttaa atactttatc tttgtcttga tacttactca aatattcttt attaaccaac
     3901 atagaaatag cctgagattt agttaaaccc atttgttctg caatttcttc aagtcttttc
     3961 aaagtatctt cagttaaagt tatacctact tttgtacgaa ccatttttac tccccatttc
     4021 taactattaa taagtttatt ttattccatt tatacatata tgtctagaga tttctataca
     4081 ataactcata aagtccctaa aatgtagcct aaatgtagct ttgtgaaaaa tcgttgaatc
     4141 cattggcatt aaaggtctaa acacttcaca atctcggatt tggcactcgg cacttaaaag
     4201 gggg
//
