LOCUS       CP093138                4286 bp    DNA     circular BCT 05-MAY-2022
DEFINITION  Salmonella enterica strain PNUSAS127695 plasmid pPNUSAS127695_3,
            complete sequence.
ACCESSION   CP093138
VERSION     CP093138.1
DBLINK      BioProject: PRJNA230403
            BioSample: SAMN13795856
KEYWORDS    .
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4286)
  AUTHORS   Webb,H.E., Kim,J.Y., Tagg,K.A., de la Cruz,F., Penil,A., Tolar,B.,
            Ellison,Z., Schwensohn,C., Brandenburg,J., Nichols,M. and
            Folster,J.P.
  TITLE     Twenty-one complete Salmonella enterica serotype Hadar genomes
            collected from patients in the United States
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4286)
  AUTHORS   Tarr,C.L., Trees,E., Katz,L.S., Carleton-Romer,H.A., Stroika,S.,
            Kucerova,Z., Roache,K.F., Sabol,A.L., Besser,J. and Gerner-Smidt,P.
  CONSRTM   PulseNet: The National Subtyping Network for Foodborne Disease
            Surveillance
  TITLE     Direct Submission
  JOURNAL   Submitted (09-JAN-2020) Enteric Diseases Laboratory Branch, Centers
            for Disease Control and Prevention, 1600 Clifton Rd., MS C03,
            Atlanta, GA 30333, USA
REFERENCE   3  (bases 1 to 4286)
  AUTHORS   Webb,H.E., Kim,J.Y., Tagg,K.A., de la Cruz,F., Penil,A., Tolar,B.,
            Ellison,Z., Schwensohn,C., Brandenburg,J., Nichols,M. and
            Folster,J.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-MAR-2022) EDLB, Centers for Disease Control and
            Prevention, 1600 Clifton Road, Atlanta, GA 30333, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2022
            Assembly Method                   :: Unicycler v. 0.4.8
            Assembly Name                     :: PNUSAS127695_consensus
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 62x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 05/04/2022 09:14:48
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.1
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 4,698
            CDSs (total)                      :: 4,570
            Genes (coding)                    :: 4,449
            CDSs (with protein)               :: 4,449
            Genes (RNA)                       :: 128
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 19
            Pseudo Genes (total)              :: 121
            CDSs (without protein)            :: 121
            Pseudo Genes (ambiguous residues) :: 0 of 121
            Pseudo Genes (frameshifted)       :: 48 of 121
            Pseudo Genes (incomplete)         :: 87 of 121
            Pseudo Genes (internal stop)      :: 24 of 121
            Pseudo Genes (multiple problems)  :: 34 of 121
            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..4286
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="PNUSAS127695"
                     /db_xref="taxon:28901"
                     /plasmid="pPNUSAS127695_3"
                     /geo_loc_name="USA"
                     /collected_by="CDC"
     gene            complement(join(3450..4286,1..411))
                     /locus_tag="GUD44_23460"
     CDS             complement(join(3450..4286,1..411))
                     /locus_tag="GUD44_23460"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001522448.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA cytosine methyltransferase"
                     /protein_id="UPX62705.1"
                     /translation="MIKFVDLFSGTGGIRLGFEQAMKEIGLSTKCVKSSEIDKKACETY
                     KLNFDEESYCDIHDVDIDESFDVLLAGFPCQAFSYAGKQLGFADTRGTLFFEVERIIKK
                     NKPKLCLLENVRGLTSHDKGRTFSTILKSLHNLGYHVEYRLLNTSNFGVPQNRVRIYII
                     ASLEKEVTLTIPNDLGAKDTHNYKPSKGGHDFYTESKVSDILEDSPDESYDCSDWFKQR
                     LEDIFEGDLNKVHGIRLIDTRNGNSLHSWDLGLKGECSNDEITFMNLLIANRRKHIFGT
                     HQDGKALSKAQIETFFKHSETTNIIKNLIKKGYLKEKNGLYNPVCGNMSFEVFKFLDPN
                     KVSITLTASDANRLGVYHNNRLRRLTPRECARLQGYPDSYILHPKDSMAYKQLGNAVSV
                     PVIKNIFLDIMKNNFI"
                     /name="DNA cytosine methyltransferase"
     gene            complement(408..1418)
                     /locus_tag="GUD44_23465"
     CDS             complement(408..1418)
                     /locus_tag="GUD44_23465"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000395670.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UPX62706.1"
                     /translation="MEFQELENSACLYWPKELAERAASISAISPLIETQDEFLSILTIS
                     TNKPTSCFDAVRLCNKISPNLFVKHLMVLSDIGGERLHRFFKDLDKIYPDRIMEFNIGN
                     SSYSYQFNSNRAWTTKNLNVEKSRLLQPVSDFTREMLDVCMLILWGGNTINNTNLPTEI
                     ENNCVLGNLIGNKEAIEQFVKERYIMVSRQTGGATANDLGHICEIFIKEKLYKLIDNNI
                     SLDGHHIDGVTHNDKDLTTFDIVAKNTTTKKCVGIEISFQVTTNSTIERKAGLAKSRRD
                     LLNSRGHKIAYVIDGSGNFQRSNAIKTIINHSDMTVNFSDNGINSLATFICETLK"
                     /name="hypothetical protein"
     gene            complement(2441..2635)
                     /locus_tag="GUD44_23470"
     CDS             complement(2441..2635)
                     /locus_tag="GUD44_23470"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="UPX62704.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQIRFEAESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2276..2361
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="8.58e-38"
     Typing          2672..2770
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.0"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          2895..3150
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.124"
                     /coverage="89.0"
                     /evalue="5.65e-115"
     Typing          complement(1706..2263)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.286"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 taaattatga agagatttta atattgttga aaatgttctt cctttatcat gtgaagttaa
       61 tccacgcaca ttctccaaaa gacataactt aggcttgttt ttctttatga ttctttctac
      121 ttcaaaaaat aatgtgcctc gggtgtctgc aaaaccaagt tgttttccag cataagagaa
      181 cgcctgacaa ggaaatcctg ccaataaaac atcgaagctt tcatctatat caacatcatg
      241 tatatcacaa tatgattctt cgtcgaagtt aagtttgtat gtttcgcatg cttttttgtc
      301 aatttctgag ctttttacgc attttgttga caatccaatt tctttcatgg cttgctcaaa
      361 accaagtcta ataccacctg tgccagaaaa aaggtcaaca aatttaatca tttcaatgtc
      421 tcgcagatga atgttgctag tgaatttata ccattatctg aaaagttaac ggtcatgtca
      481 ctatggttaa ttattgtttt gatggcattt gaacgctgaa aattaccaga cccatcaatc
      541 acatatgcta ttttatgtcc tcttgaattg agcaaatctc ttctgctttt ggctaatcct
      601 gcttttcttt ctattgttga gtttgttgta acttgaaaac ttatttcaat accaacacat
      661 ttttttgttg ttgtgttttt tgctacaata tcaaaagtcg taagatcttt atcgttatga
      721 gttacaccat cgatatggtg tccatctaga gatatattgt tatcaataag cttgtaaagt
      781 ttttctttta taaagatctc gcatatgtgt ccaagatcat ttgccgttgc acctcctgtt
      841 tgcctgctaa ccattatata tctttctttt acaaactgtt ctattgcttc tttgtttcca
      901 attaaattcc ccaaaacaca gttattttct atttcggttg gaagatttgt attgtttata
      961 gtattacctc cccataggat cagcatgcaa acatcaagca tttcacgtgt aaaatcactt
     1021 acaggttgca agagccgtga tttttccacg tttaaattct tggttgtcca tgctctattg
     1081 ctattgaatt ggtaagagta agagctattt cctatattga actccattat tctgtcgggg
     1141 tagatcttat ctaaatcttt aaagaagcga tgaagtcttt cgcctccaat atctgacaaa
     1201 accattaagt gcttgacaaa taggttgggt gatatcttat tgcataaccg tacggcatca
     1261 aaacaagatg taggcttatt tgttgatatt gttagtattg ataaaaattc atcttgggtc
     1321 tctataagag ggcttatggc gctaatagat gctgctcttt ctgcaagttc tttgggccaa
     1381 tataagcatg cgctattttc taattcttgg aactccatga ttattccttg gtaaaactat
     1441 ccaaatagac cttgagttac acccctatga tgggtaatct ctacgggcgt aaacgaaaaa
     1501 acccacgttc tcaggcgtgg gtttttcgaa ggttagaagt ttctcaggct ttctaaccca
     1561 aggtaacagg gcgtacaaga ccgctgccac caaatctgtc ctttcagtgt agccgcagtc
     1621 gggccttcac ttcaagaact ccgtatcagc aatttcttgt acaccctcta ccaatggctg
     1681 ctgacagtgg cgttaagtcg tgtcttaccg ggttggactc aagacgatag ttaccggata
     1741 aggcgcagcg gtcgggctga acggggggtt cgtgcacaca gcccagcttg gagcgaacgg
     1801 cctacaccga gccgagatac caacagcgtg agctatgaga aagcgccacg cttcccgaag
     1861 ggagaaaggc ggacaggtat ccggtaagcg gcagggtcgg aacaggagag cgcacgaggg
     1921 agcttccagg gggaaacgcc tggtatcttt atagtcctgt cgggtttcgc cacctctgac
     1981 ttgagcgtcg atttctgtga tgctcgtcag gggggcggag cctatggaaa aacgccagcg
     2041 gcgtggcctt ttccgggttc ttgttttttg ctcacatgtt tcctttggcg ttatcccctg
     2101 attctgtgga taaccgcatt accgtctttg agtgagctga taccgctcgc cgcagccgaa
     2161 cgaccgagcg cagcgagtca gtgagcgagg aagcggaaaa gcgcctggac gcgcattttc
     2221 tccttacgca tctgtgcggc atttcacacc cggcatgggg cacttttcat acaatctgca
     2281 ctgatgccgc atagttaagc cagtatacac tccgctatcg ctacgtgact gggtcatggc
     2341 tgcgccccga cacccgctaa aaccccctga cgcgccctga cgggcttgtc tgctgacgaa
     2401 aacgcccacg ggaaagccgt gaccgcctcc gtcagcttcg ttatgttcct gtttcacttt
     2461 cggcctcaaa gcgaatctgg atgctgttct ggagttcttc tgcgagttcg tgcagtcgtt
     2521 cgcacatggc cgcctgttcg tcggcatcca gagcatccag tttttcaagc agtgtcaggc
     2581 tctggctttt gataaatcgc gccatattca gcgcagtttg ttgttgtttg ttcaccttcc
     2641 gttgttctcc gtcagttccg ggtgtcgggg ggaccctgag caggtggtaa ttgtaagacg
     2701 ttgcgggcga cggtattaca attgcacatc ctgtcctgtt tctttaggac gtatcatggc
     2761 acagcatatc aactgataaa taatccctgt gcagtgcagc cgctgttgca taaaatttcg
     2821 ctctgcgtcg agtgtttctt aatcaataat tccgctgata ctccggaaaa acgcgagtct
     2881 gttctcatgc ctgaaatgcc cacaccccac gcaaaaacaa ttttttgctg atttttcttt
     2941 ataaatagag agttatgaca aattagttct tcttgctctc tttgtgatat ttaaaaaagc
     3001 ggtgtcggcg cggtgttgta gctgcgccaa caccgctttt taggggtggt actgactatt
     3061 ttcataaaaa acatcacttt atattagggg tgctgctagc ggcgcggtgt gtttttttac
     3121 aggacgcccc tgggggcgct gctaggggtg tctgttcaga tatgtagcaa tgagtcaggg
     3181 attcacgaac tgaaaatgtc cgaaaatgtg ccttatgggc accgtatgta accaaaccga
     3241 tcgccattca ctttcatgca tagctatgca gtgagctgaa agcgatcctg acgcattttt
     3301 ccggttttta ctgggtaaaa catctctttt tgcggtatct gcgtcagaat cgcgttcagc
     3361 gcgttttagc ggtgcgcgta atgcgacgtt atggtaaatc tgttaaattt aattaaataa
     3421 ccatagagca gttttgctag taatatggtt tatataaagt tattcttcat tatatcaaga
     3481 aaaatatttt taatgactgg tacgcttaca gcattcccta attgtttata tgccatgcta
     3541 tcttttgggt gtaagatata tgagtctggg taaccttgta gtcttgcgca ttctcttggc
     3601 gtaaggcgtc gcagtctatt gttgtgatag actccaagtc tattggcatc agatgccgta
     3661 agtgtaattg acactttatt tgggtcaagg aatttgaata cttcaaaaga catatttccg
     3721 caaactgggt tgtatagtcc gtttttctct ttaaggtaac cctttttaat tagatttttt
     3781 attatgttgg tggtttcgct atgtttaaaa aatgtttcaa tttgtgcttt tgacaaagcc
     3841 ttgccgtctt ggtgtgtgcc aaaaatatgc tttctacggt ttgcaattaa taaattcatg
     3901 aaagttattt catcatttga gcactcgcct tttagcccaa gatcccaaga gtgcaaggag
     3961 tttccgttcc ttgtgtcaat tagcctgatt ccatgaactt tatttaggtc accttcaaaa
     4021 atgtcttcaa ggcgttgctt gaaccaatcg ctgcaatcat atgactcgtc tggactatcc
     4081 tctagtatgt cagaaacttt tgattctgta taaaaatcat gaccaccttt ggatggtttg
     4141 taattgtgcg tatctttggc tccaagatca ttaggaatag taagtgttac ctctttttct
     4201 aatgaggcta ttatatatat tctaacccta ttttgaggga caccaaaatt acttgtgttt
     4261 aatagtctgt attcaacatg ataccc
//
