LOCUS       CP083381                5463 bp    DNA     circular BCT 15-NOV-2021
DEFINITION  Salmonella enterica subsp. enterica serovar Saintpaul strain CVM
            N18S0870 plasmid pN18S0870-5, complete sequence.
ACCESSION   CP083381
VERSION     CP083381.1
DBLINK      BioProject: PRJNA292661
            BioSample: SAMN12360064
KEYWORDS    .
SOURCE      Salmonella enterica subsp. enterica serovar Saintpaul
  ORGANISM  Salmonella enterica subsp. enterica serovar Saintpaul
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 5463)
  AUTHORS   Li,C., Tyson,G., Hsu,C.-H., Harrison,L., Strain,E., Tran,T.-T.,
            Tillman,G., Dessai,U., McDermott,P. and Zhao,S.
  TITLE     Long-read sequencing reveals evolution and acquisition of
            antimicrobial resistance and virulence genes in Salmonella enterica
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5463)
  CONSRTM   NARMS: The National Antimicrobial Resistance Monitoring System
  TITLE     Direct Submission
  JOURNAL   Submitted (29-JUL-2019) Center for Veterinary Medicine, US Food and
            Drug Administration, 8401 Muirkirk Rd, Laurel, MD, USA
REFERENCE   3  (bases 1 to 5463)
  AUTHORS   Li,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-SEP-2021) CVM/OR, FDA-CVM, 8401 Muirkirk Rd, MOD2,
            Laurel, MD 20708, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 01-JUN-2020
            Assembly Method :: SMRTLink Microbial Assembly v. SMRTLink9.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 362x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 09/13/2021 11:59:33
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 5.2
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 4,684
            CDSs (total)                      :: 4,560
            Genes (coding)                    :: 4,469
            CDSs (with protein)               :: 4,469
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 17
            Pseudo Genes (total)              :: 91
            CDSs (without protein)            :: 91
            Pseudo Genes (ambiguous residues) :: 0 of 91
            Pseudo Genes (frameshifted)       :: 37 of 91
            Pseudo Genes (incomplete)         :: 52 of 91
            Pseudo Genes (internal stop)      :: 21 of 91
            Pseudo Genes (multiple problems)  :: 15 of 91
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..5463
                     /organism="Salmonella enterica subsp. enterica serovar
                     Saintpaul"
                     /mol_type="genomic DNA"
                     /strain="CVM N18S0870"
                     /serovar="Saintpaul"
                     /isolation_source="ground turkey"
                     /sub_species="enterica"
                     /db_xref="taxon:90105"
                     /plasmid="pN18S0870-5"
                     /geo_loc_name="USA:TX"
                     /collection_date="2018"
                     /collected_by="FDA"
     gene            join(4622..5463,1..178)
                     /locus_tag="FQC36_00380"
     CDS             join(4622..5463,1..178)
                     /locus_tag="FQC36_00380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221104.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="UDW14536.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREDAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKC"
                     /name="replication initiation protein"
     gene            complement(439..837)
                     /locus_tag="FQC36_00385"
     CDS             complement(439..837)
                     /locus_tag="FQC36_00385"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UDW14537.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            1014..1940
                     /locus_tag="FQC36_00390"
     CDS             1014..1940
                     /locus_tag="FQC36_00390"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="UDW14538.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIEGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     PTQQKEQLRELRKRWEVKHNEHMRKNGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIMEWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQDRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            1943..2476
                     /locus_tag="FQC36_00395"
     CDS             1943..2476
                     /locus_tag="FQC36_00395"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UDW14539.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQNLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTMLDRNYNATAAVYQKVVILED
                     KLAEKPVTGKNRKN"
                     /name="hypothetical protein"
     gene            2697..3821
                     /locus_tag="FQC36_00400"
     CDS             2697..3821
                     /locus_tag="FQC36_00400"
                     /inference="COORDINATES: protein motif:HMM:NF013211.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UDW14540.1"
                     /translation="MSGGDGRGPGNTGLGHNGGKPSGNVNGSSGHGGPSSGGGYHYNPG
                     KGPASTVGPDGEVHINITGGMEKDPPGKHHGNGGSGNGHGAGNHNSNSGGNGKTTSIPG
                     WSPDSGKPGRYLPTNKDKLIKGLIQSIDDHSGTYTIHYTGGAVATVTVPNGDVNKMNVH
                     YNIGSGPSSGNKLTRDTIKSFLEFKAENEANAVNDAISKVNDFYKELASKYGDKLEKEA
                     KALADEAKGKKIRNANEAIKAFDRYKDVLNKKFSVSDREAIAKALESLNKDQMAKQLKI
                     FGKAFGVVGEAIQWGGFISGLVKGFRTGDWNEAFISGEKIAVGKVASVMVTVAFSAMAV
                     NPIGILGFAVIMAVTSALITDERLKQLNSFINGI"
                     /name="hypothetical protein"
     Typing          4623..5397
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.907"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          1015..1937
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cgccgctgtt cggtggactg ctaacgacga caaacgtcgt agggcgcttg atatgtatat
       61 cttgggagcg tcaacggaag atattgcagt ggcggttggt gttagcagcc ggactattcg
      121 acgctggatg gataattctg gagaatggct aaccaagaaa caaataatta aatgttagtt
      181 aacaaagaag caacactacc ccccgttttt tgttaatggg atgttaaatt cgcggacatg
      241 aacaagccta tatcagataa cagcgccttt cggcgtcttt ttgagcagcg ggctttccgg
      301 cggttttctc ctctcagccc agcaatggtg cggcttaccg catgattgag gtggtcgtgc
      361 tcgccgcagt ctcatgaccg agcgtagcga gcgaatgagc gaggaagcac cagggaaccg
      421 gaacacggat ggaggcactt acgcgtctgg gtttggggat gtctccagat cgtacttaat
      481 ttccttaagt gcctgtaata tcctgtcttt tttatagcat agctcgcctg tttttgtgtc
      541 taccagtcct gcttcgatca gtagcccagc cgcgagaaag agtcggtgat tgcgttctcg
      601 tcgttgtttt tttccctcga ttcgtttttg gaccgcctgt tttcgttcgc tctcctgtgc
      661 ctgtaagtcg tttttttccg ctgttgccag tacgtggagg agtttgcgtt cctgttctgt
      721 gagtcctgct tcgttgtcga gcaggtcaat aatctgtctc tgtcgtgcgg tctgttctcc
      781 gagcttcctg atgaatccga tccgtttctt cagccattcg atgttgctga tgcgcatgtt
      841 cgtggtgctc cctggtgttt ttttgcggtg tgttgtggtc gtgcagtata tcgcttgcgg
      901 tcggcgggtg cagggggtat cttccgtgct aattcgtaaa attagaagga agcgcactta
      961 tatgtttctc tccttcgtcg agaaacagtg cgctcctgcg gagggctgaa accgtggcga
     1021 cctatcacct cagcgttaag tttggtggca agggacaggc tgcaaaccat gccgattaca
     1081 tcgagcgcaa agagaaatac cgcgaccgtc aagatttgga atattccgca cacggaaaca
     1141 tgccggaatg ggcgcgagat aatccctccc atttctggca ggcggctgac cagtttgaac
     1201 gtgcaaacgg ttcgacttat cgggaactgg agatagcgct gccccgtgaa ctgacaccgg
     1261 aacagcgcct tgaactggtg caggattttg tacgtcagga agctggcgaa cggcatgcat
     1321 ggagttttgc cattcacaat ccgaaagcga gcattgaggg aggcgaacag cctcatgcgc
     1381 atatcatgat gagtcagcgt gtgaatgatg gcattgaacg tacaccggaa cagtatttcc
     1441 ggcgctataa cgccaggtat cccgagcggg gaggtgcgaa aaaggattca ggaagcctga
     1501 ctcccactca gcaaaaagag cagttgcggg aattgcgaaa acgctgggag gtgaagcaca
     1561 acgaacatat gagaaaaaat ggctttgaaa ggggcttcat tgactgtcgg acgctgaaag
     1621 aacagggcat tgaacgacgt cccgaagtgc atctgggttt tgaagctgcc ggacggcttg
     1681 atgatgccca gcgtcatgac atcatgcaaa aacggtctga accggactat tcccgccatc
     1741 ttgaacaggc gcgaacggtc gggcatgaca tcatggaatg gctggacact ccggttaagc
     1801 aacatgaact ggtcagaagg ctgcaacatg atgttgcgcg ggagcatggc tttgacatga
     1861 gagacagagt gagcagacag gaccgaactg aacctgaacg ggttaaatca ccgtcacgtg
     1921 gattttctat gggattctga acatggccag cacagaagaa aaattactca cgctcctgtt
     1981 atcggtggag catttgcaac ataccgcaat ggagcaacag aaagctgttg ctgattctct
     2041 ggctgtggca agggaaacac ttcgcggata tcgggatatt tctgacggtg tggcaaaaca
     2101 ggtcagggat gaagtcagaa atgaggtgca gaatctggac gtagcagggc tgataggtga
     2161 gcgcatcagc caggattttc agcggctgga agagtcagtc gcaaacatga aggcaaacgc
     2221 ggatgccctg aacagggata ttgcgacaat tcacagcaat atcgtgcagg aatacaacac
     2281 ccttaaaggg tatagctgga aatggctggg tggggtgtca gtggcttttc tagttatgtt
     2341 ctgtgtgctc ggatggggaa tgaaaacaat gctcgacagg aactacaacg ccacagcggc
     2401 ggtgtatcag aaagttgtga tactggaaga taaactggcg gaaaaacctg tcacgggtaa
     2461 gaaccggaaa aactgacgcg cttcgcttgt ccaacgcctc acggacagcg aaaggatttc
     2521 gcgttccgtt caccgttttc atgagtgatt cctccgaact gccaaaaaat atccctccct
     2581 gacttgacag aaaaaataat ggcgagtact ttttgatctg tacataaaac cagtggtttt
     2641 atgtacagta ttaactatgt aattaattgt tttaacgatt aaaagaggga atttttatga
     2701 gtggtggaga tggtcgtggc cctggtaata cagggcttgg acataacggt ggtaaaccca
     2761 gtggaaacgt gaatggctca tctggacatg gaggaccatc atctggcggt gggtatcatt
     2821 acaatccggg aaaaggtcct gcaagcactg taggtcctga cggggaggtg catatcaaca
     2881 ttaccggtgg tatggaaaaa gatcctccag gaaaacatca cggtaatggt ggctcaggta
     2941 atggtcacgg tgctggaaat cataacagca attcaggcgg caatggaaaa acaacgtcta
     3001 ttcctggatg gagccctgac tctgggaaac ctggcagata tttaccgaca aataaagata
     3061 agttaattaa gggacttatt cagtcaatag atgaccattc tggaacgtac actatccatt
     3121 atactggtgg tgcagtagct acagtaactg taccaaacgg tgatgtgaat aaaatgaatg
     3181 ttcactataa tatcggtagt gggccgtcat caggtaataa actgactcgt gatactataa
     3241 aaagcttttt agaattcaag gcagaaaatg aagctaatgc tgtaaatgat gcaataagca
     3301 aagttaatga cttttataaa gagttagcat caaaatacgg cgataagttg gagaaagaag
     3361 ccaaggcact agccgatgaa gctaaaggga aaaaaattcg caatgctaat gaggcgatta
     3421 aagcctttga taggtacaag gatgtgctta ataagaaatt cagcgtatcc gaccgagaag
     3481 cgattgcaaa agcactggag tctcttaata aagatcaaat ggctaaacag ttaaaaattt
     3541 ttggtaaggc ctttggtgtc gtaggtgagg ctattcagtg ggggggattt atcagtggct
     3601 tagttaaagg attcagaact ggtgactgga atgaggcttt tataagcggg gaaaaaatcg
     3661 cagtcggcaa ggtagcatct gttatggtta cagtggcatt tagtgctatg gcagtaaatc
     3721 ctattggtat tttagggttt gcagtaatta tggcagtgac tagtgcctta attacagatg
     3781 aaaggctgaa acaactaaac agctttatta acggcattta ataaacaaaa ggtcgtaccg
     3841 tttgatatgg tatgaccttt attttgtttt tctatcgctt tttgttggtt ataaagtaat
     3901 agactgtaaa aatcaatcca aatggaggta gtgataatat aatgcatatt ataaaacccc
     3961 agttaacgaa gttaaaagtt gtttttgtta gtaagggtgc ttgcttattt attagtaata
     4021 gacaaaaagg gtatgtggac gatccaaaaa gagatataag tataaatata aataattcta
     4081 tacttgttgg gcttagattc aaacttgcga tgataaaaga taaaatgtaa aaggataagg
     4141 caaggataaa attccttaaa tagaattcca tatctatttt tttcatttat aaaatcctcg
     4201 ttagttaaat gtttataata ttgccttact ttatccataa atctagaagt agttatcaca
     4261 aaagttactt ttttgactcg ttcgcccttt tgaacggtcg aaactgtttg cgaatcgctt
     4321 tcgtgcatag ttatgcaacg ccctgaaagt gattctgacg catttttctg gtttggcctg
     4381 gtgtttcctt gtctttttgc gttttttgcg ccagaaagcg actgagggcg ttttaagggg
     4441 tacgtacaac gggagttatg gtaaatggat cggttttgcg ggaaggctcg acaggttttg
     4501 ttgttggggg tagtgtaagc gactgaaaaa caaacgcccc tgaaattcgt gtctctccgc
     4561 caagattgtc acgagaatac aggggcgagg tcggtcgata acctggaagg aatcgtaaca
     4621 catgagcgcc gcgcttcaat acttcgaaga aaatttaccc caccgcccct atcacacgga
     4681 tgatctcgct ttcggccttc gcatctccgg caaagggcgt gcgcttcttg cgcggtacat
     4741 ccagcagaac cagcctcatg cgcagttctg gctggttttt gacgttgacc gcgagggggc
     4801 tgcgattgac tggagcgacc ggaacgcccc cgcgccgaac atcaccgtta aaaatcctgt
     4861 gaacggacac gctcacctgc tctacgcact caacatcgcc gtgagaaccg cgcctgatgc
     4921 ctcggttaag gcgctgaaat atgccgcagc ggttgaacgt tcgctgtgtg agaaactttg
     4981 tgctgatgtg aactacagcg gcctgatttg caaaaatccg ttccacctgg aatggcaggt
     5041 gatggagtgg cgcgaggacg cctataccct cgatgaactg gcagattatc tcgatttgag
     5101 cgcctcagag cgtcgtagca tcgataaaca ttacgggatg gggcgaaact gccacctgtt
     5161 cgaaatgacg cgcaaatggg cttacagggc gattcgtcag ggctggccag cgttctcaca
     5221 gtggcttgaa gcggtgatcc agcgtgtcga aatgtacaat gcatcgcttc ccgttccgct
     5281 ttcactggct gaatgtcggg ctattggcaa gagcattgcg aaatacacgc acaggaactt
     5341 cacgccggaa actttcgcac agtatgtggc tgatacgcac acgccagaaa ttcaggcagc
     5401 acgcggtcgc aagggcggga aggccaattc gtcagaaaat cagtcggaca aagggaaaaa
     5461 aag
//
