LOCUS       CP093101                3223 bp    DNA     circular BCT 06-MAY-2022
DEFINITION  Salmonella enterica subsp. enterica serovar Hadar strain
            PNUSAS018090 plasmid pPNUSAS018090_5, complete sequence.
ACCESSION   CP093101
VERSION     CP093101.1
DBLINK      BioProject: PRJNA230403
            BioSample: SAMN07427456
KEYWORDS    .
SOURCE      Salmonella enterica subsp. enterica serovar Hadar
  ORGANISM  Salmonella enterica subsp. enterica serovar Hadar
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3223)
  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  JOURNAL   Unpublished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 3223)
  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 (28-JUL-2019) Enteric Diseases Laboratory Branch, Centers
            for Disease Control and Prevention, 1600 Clifton Rd., MS C03,
            Atlanta, GA 30333, USA
REFERENCE   3  (bases 1 to 3223)
  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                     :: PNUSAS018090_consensus
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 88x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 05/05/2022 15:34:38
            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)                     :: 4,630
            CDSs (total)                      :: 4,505
            Genes (coding)                    :: 4,397
            CDSs (with protein)               :: 4,397
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 19
            Pseudo Genes (total)              :: 108
            CDSs (without protein)            :: 108
            Pseudo Genes (ambiguous residues) :: 0 of 108
            Pseudo Genes (frameshifted)       :: 44 of 108
            Pseudo Genes (incomplete)         :: 80 of 108
            Pseudo Genes (internal stop)      :: 23 of 108
            Pseudo Genes (multiple problems)  :: 35 of 108
            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..3223
                     /organism="Salmonella enterica subsp. enterica serovar
                     Hadar"
                     /mol_type="genomic DNA"
                     /strain="PNUSAS018090"
                     /serovar="Hadar"
                     /isolation_source="stool"
                     /sub_species="enterica"
                     /db_xref="taxon:149385"
                     /plasmid="pPNUSAS018090_5"
                     /geo_loc_name="USA"
                     /collection_date="2017-06"
     gene            complement(join(3128..3223,1..99))
                     /locus_tag="CID59_23115"
     CDS             complement(join(3128..3223,1..99))
                     /locus_tag="CID59_23115"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001323484.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="UPY14666.1"
                     /translation="MLSALEQLQQDYSKRLDEWENAFAEWRTMSGLIQRENAALNERVT
                     VLSRQVQSLSEQLRRLSKG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(59..148)
                     /locus_tag="CID59_23120"
                     /pseudo=""
     CDS             complement(59..148)
                     /locus_tag="CID59_23120"
                     /inference="COORDINATES: protein motif:HMM:NF016769.2"
                     /note="incomplete; partial on complete genome; missing
                     C-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            complement(124..609)
                     /locus_tag="CID59_23125"
     CDS             complement(124..609)
                     /locus_tag="CID59_23125"
                     /inference="COORDINATES: protein motif:HMM:NF016710.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="UPY14667.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQTTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMLRMVSQTWLTIVLVSALLIASSAGILWWQGQQIL
                     ENYTTIREQKSTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGQFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            complement(644..1078)
                     /locus_tag="CID59_23130"
                     /pseudo=""
     CDS             complement(644..1078)
                     /locus_tag="CID59_23130"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial on complete genome; missing
                     C-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(1287..1610)
                     /locus_tag="CID59_23135"
     CDS             complement(1287..1610)
                     /locus_tag="CID59_23135"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="UPY14668.1"
                     /translation="MLTMWVTEDEHRRLLERCEGKQLAAWMRQTCLDEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQIVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2249..2419
                     /locus_tag="CID59_23140"
     CDS             2249..2419
                     /locus_tag="CID59_23140"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="UPY14664.1"
                     /translation="MHEPPVQSDYHARSGNYQLESNPERHDKSPVAVAIGNWVHGAEIV
                     ENAYRVLEVKA"
                     /name="replication initiation protein"
     gene            complement(2628..2960)
                     /locus_tag="CID59_23145"
     CDS             complement(2628..2960)
                     /locus_tag="CID59_23145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001070439.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="EmrE family multidrug efflux SMR transporter"
                     /protein_id="UPY14665.1"
                     /translation="MNTYIFLGGAIVAEVIGTTFMKYSEGFTRLWPSVGTAISYCAAFY
                     LLSQTLENIPTGIAYAIWSGAGIVLISLAGWLVSGQKLDWPAIAGMFLICVGVLVINIF
                     SKSSAH"
                     /name="EmrE family multidrug efflux SMR transporter"
     ARG             complement(2629..2960)
                     /name="qacG"
                     /gene="qacG"
                     /gene_name="small multidrug resistance (SMR) antibiotic
                     efflux pump"
                     /tool="rgi"
                     /drug_class="disinfecting agents and antiseptics"
                     /identity="41.35"
                     /coverage="102.8"
     Typing          complement(1707..1898)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.308"
                     /coverage="89.0"
                     /evalue="3.38e-71"
     Typing          1878..2361
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.756"
                     /coverage="93.0"
                     /evalue="1.73e-132"
     Typing          complement(3..1297)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.75"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 aataagacca gacatcgtcc gccattccgc gaaggcgttc tcccactcgt ccagcctttt
       61 cgagtagtcc tgctgtagct gctctaatgc gctcagcaac tgtttttcca gctccgtcat
      121 gtgctatttc cccgccagta tcatccagct cgagtcctct ccgaactgtc ccgcttccgg
      181 gttcaccctc acgcagcggc gtctctgctc gccgcaggtc gagagctgta cgccgctgtt
      241 cctctctgac agcatggcct gcgtgctctt ctgctcccgg atggtcgtat agttctcgag
      301 tatctgctgc ccctgccacc acagaatgcc cgcgctcgac gctatcagca gcgcggagac
      361 cagaacgatg gtcagccacg tctggctgac catgcgcagc atccctttcg tgcgctggct
      421 catggctgag gacagcttcc ggtcgtggtc gaggatggcg gcgctgattc tcttctcgct
      481 ttcgctcagt tccgctctga cagacttctc gtgctcgctg aatgcggctt tcagcatctc
      541 gccggtagtc tgctgctgcg ctttcgattt ctgctctaag tccttcgcca gcgttaaaag
      601 actgttcata gatggctccc ttcagtcgga tgtttcgccc cccgtccggg tcggcaatgc
      661 tgatgctgct ttttgtggtg cgcaccacct caaaacctgc gctttccagc gcctcagtga
      721 cgtcctgacg cgttttcagc tccccggatg aggcaagggc aagcaggccg ctcgtaatcg
      781 cctgggcggc ttcctgcttc gcttccggca gcgcggaagg cgagaccagc acccgccggt
      841 tctccggcgc gttcgggtca tgcagcccca gcctgccgtt cactatggtc tgccaggcat
      901 cgatgcgcgg acggtcggcg cggtcgtaat acggctgtag ccgcttgccg gtcagaagct
      961 ccgtgttcgg gatcaggaag ttcagctcca gccgcccctt gtcccggtgc tcaacccaca
     1021 gcacgctgta ctggtcttta tcgagtccgg gcatcagaac ccgctcgaaa ctcgccatca
     1081 gcttttcgcg ctggccgggc ggtaaatcct gttcggcaaa agacagaacg ccggaagtgt
     1141 actttttggc gtagggcgag gcgtcgataa gctcccggac ttcatccggc ttcccctgca
     1201 gaacgctggc gccgtcgcgc tggcgatctt tacccagcag ataatcgacc ggcccgccgc
     1261 cgccgccgcg cccccgagga tgaaacttaa cgatcatcat cagcaccctt ttccagtacg
     1321 gcatgccgca accgctcgag tccggcatcg atggccatca gcgcggcgac aatctgcacg
     1381 cggtcgtgtc cgcttccacc accggcgtta acctggcggg caatctggtt aaggttgttc
     1441 cccatgccgg caagctgacg aagcagcgcc ggcgagatcg acggaagttt gccggcgcgt
     1501 gcgggcttct cgtccaggca cgtctgccgc atccaggccg cgagttgctt accctcgcag
     1561 cgctccagca gacgccggtg ctcgtcctca gtcacccaca tggtgagcat tttgctgcgt
     1621 ttgtctgcca atccggcctc ctgataacgc cgggacggac gggaaatctt ttcccggtcg
     1681 gcacggtgtt ggacaagccg caggcgcggc agtggtttta gcgggtttcg gggcgcagcc
     1741 ctgaaccagt cacgtagcgc tagcggagtg tatactggct aaacatgtta tgacggagtg
     1801 gcaatttatg aaagtgcttc atgtgacagg ggaaaaatgc ggctgccggg cgtaagtgca
     1861 aaatgcaggt ggtgatgaaa tgacgcctcc tcgctcactc ggtcgctacg ctcctgccgt
     1921 gagactgcgg cgggcgttac cagctcacag attacgggat aagcaaatgc cgctcgaagc
     1981 aggaaaggcc aagaaaagga tgcggagttg ccgtttttcc ataggctccg cccccctgac
     2041 gagtatcacg aaaatgacgc tcaaatcagc ggtggcgaaa cccgatgcgg cttaaagata
     2101 ccaggcgttt ccccctggtg gctccctcgt gctcccccgc attcctgcct ttcggtttac
     2161 cggtgtcatt ccgctgttat ggccgcggtt tctcattcca cgcctgaaac tcggttccgg
     2221 gtaggcagtt cgctccagga tggactgtat gcacgaaccc cccgttcagt ccgactacca
     2281 cgcccgttcc ggtaactatc aacttgagtc caacccggaa agacacgaca aatcgccagt
     2341 ggcggtagcc attggtaact gggttcacgg agcagagatt gtagagaatg cctacagagt
     2401 tcttgaagtg aaagcctgag tgcggctaca ctgaaaggac agtttaggta tctgcgctcc
     2461 gtgaaagcca gttaccatcg gaacaaagag ttggtagctc tgaattccgg caaacgaacc
     2521 accgttggta gcggtggttt ttttgtttac agggaaaaag attacgcgca gaaagaaagg
     2581 atctcaagga aatccttttg ctttggccaa tatgcttcgg taaaaagtta atgcgcagaa
     2641 gattttgaaa aaatattaat aaccaaaact ccaacgcaaa taaggaacat tcctgcaatt
     2701 gcgggccaat caagtttttg accgctaacc aaccaaccag ctaggcttat tagtacaatt
     2761 cccgcaccag accaaattgc gtaagcaata ccggtaggta tattttccaa tgtttgggaa
     2821 agcagataaa aggcagcgca ataacttatt gcagttccta cagacggcca caggcgtgta
     2881 aatccttctg aatatttcat aaaggtggtg cctatgactt cagccacaat agcccctccc
     2941 aggaaaatat atgtattcat aaaaatacct catgttgaaa aatttaaata tctttacata
     3001 acaactaatt aatagaaccc ggcttatcat agcgaaggac catgatgctg ccactgcgat
     3061 cgttccagct ccagcgcttt ctggtgctgc accgcccgct cctgctgccg gtgagtttct
     3121 atcgcgttca gcctttcgac aaccggcgca gctgctcgct caaactctgc acctgcctgc
     3181 tcaagaccgt gacgcgctcg ttcagcgccg cgttctcccg ttg
//
