LOCUS       CP093099                4448 bp    DNA     circular BCT 06-MAY-2022
DEFINITION  Salmonella enterica subsp. enterica serovar Hadar strain
            PNUSAS018090 plasmid pPNUSAS018090_3, complete sequence.
ACCESSION   CP093099
VERSION     CP093099.1
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 4448)
  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  JOURNAL   Unpublished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 4448)
  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 4448)
  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..4448
                     /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_3"
                     /geo_loc_name="USA"
                     /collection_date="2017-06"
     gene            join(4224..4448,1..99)
                     /locus_tag="CID59_23065"
     CDS             join(4224..4448,1..99)
                     /locus_tag="CID59_23065"
                     /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="UPY14657.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQTCLDEKPARTGKLPSI
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLEQLRHAVLEKGTD
                     DDH"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            308..742
                     /locus_tag="CID59_23070"
                     /pseudo=""
     CDS             308..742
                     /locus_tag="CID59_23070"
                     /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            777..1268
                     /locus_tag="CID59_23075"
     CDS             777..1268
                     /locus_tag="CID59_23075"
                     /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="UPY14658.1"
                     /translation="MSSLLTLAKDLEQKSKAQQQSTGEMLKAAFSEHEQSVRAELSASA
                     RRISDAISAHEQSMSEAMEKNRRSVLLTAGRAWLTILMVSALLIATSGSILWWQGQQIT
                     DNYTHLRQQEDTLAKMTARTWGVRYQESSDGRRFLILPPGMQAEAIPYDGTTWIRLKQE
                     "
                     /name="MbeB family mobilization protein"
     gene            1275..1490
                     /locus_tag="CID59_23080"
     CDS             1275..1490
                     /locus_tag="CID59_23080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137422.1"
                     /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="UPY14659.1"
                     /translation="MTELEKQLLTALEQLHQDYSQRLDEWESAFAEWQKMSGLMQRENA
                     VLNERVSDLSTQVLSLSEQLRRLSGN"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2182..2409)
                     /locus_tag="CID59_23085"
     CDS             complement(2182..2409)
                     /locus_tag="CID59_23085"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010615788.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YgdI/YgdR family lipoprotein"
                     /protein_id="UPY14660.1"
                     /translation="MKKIFVSVFAAAVALSALTGCTRTSYAIHTNDGRTIVSDGKPTES
                     DSGLLGYKDANGVKQQINKADVKEVSEIPH"
                     /name="YgdI/YgdR family lipoprotein"
     gene            complement(2431..2664)
                     /locus_tag="CID59_23090"
     CDS             complement(2431..2664)
                     /locus_tag="CID59_23090"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008461706.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YgdI/YgdR family lipoprotein"
                     /protein_id="UPY14655.1"
                     /translation="MNKKTLLAAMMVALVTFAAAGCSSNQEIKTTDGRTIVTDGKPKVD
                     SDTGLVSYKDAHTGRTEQINRDKITNMSELDN"
                     /name="YgdI/YgdR family lipoprotein"
     gene            2824..3192
                     /locus_tag="CID59_23095"
     CDS             2824..3192
                     /locus_tag="CID59_23095"
                     /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="UPY14656.1"
                     /translation="MALLISLVVVAGLYYQFWYKPHRAPILRIWGIAPDGQEFRLLLTE
                     HGEKEAVLLFGKKSFVAVPDTQNLYGGCYYLYLEDAHKNELLIELNESDLYPGGAIELQ
                     HNGGRKIHCEILKVRWSR"
                     /name="hypothetical protein"
     Typing          4040..4118
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.75"
                     /coverage="100.0"
                     /evalue="2.7400000000000003e-32"
     Typing          complement(3476..3964)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.345"
                     /coverage="94.0"
                     /evalue="1.69e-147"
     Typing          90..1582
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="90.8"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          4225..4448
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.333"
                     /coverage="99.0"
                     /evalue="1.34e-41"
ORIGIN
        1 gacagggtgc agattgtggc ggcgctgatg gcaatcgatg ccggccttga gcagctgcgg
       61 cacgccgttc ttgagaaagg aacggacgat gatcattaaa tttcatccgc gcggtcgcgg
      121 cggtggcgcc gggccggtgg actatttgct gggtaaagac cggcagcgtg aaggcgccac
      181 cgtcctgcag ggcaagccgg aagaagtccg ggagctgatt gatgtgtcgc cttacgtgaa
      241 gaaatacacc tccggcgtac tgtcgtttgc ggaggcagat ctgcctcccg gccagcggga
      301 aaaactgatg gccagcttcg agcgtgttct gatgcccggc ctcgataaag atcagtacag
      361 cattctgtgg gtggagcacg cggacaaggg gcgtctggag ctgaactttc tgatccccaa
      421 taccgagctg ctgaccggca ggcggctcca gccgtactac gaccgcgccg accggccgcg
      481 catcgatgcc tggcagacgg tggtcaacgg ccggctgggg ctgcacgacc cgaacgcgcc
      541 ggaaaaccgg cgggcgctgg tcacgccgtc cgcgctgccg gaagcgaagc aggaagctgc
      601 ccaggcgatt acgcgcggcc tgcttgccct tgcctcatcc ggggagctga aaacccgtca
      661 ggacgtcact gaggcgctgg aaagcgcagg ttttgaggtg gtgcgcagca cgaaaagcag
      721 catcagcatt gccgacccgg acggggggcg aaacatccga ctgaagggag ccatctatga
      781 gcagtctttt aacgctggcg aaggacttgg agcagaaatc gaaagcgcag cagcagagta
      841 ccggcgagat gctgaaagcc gcattcagcg agcacgagca gtctgtcaga gcggaactga
      901 gcgcaagcgc gaggagaatc agcgacgcca tcagcgccca cgaacagagt atgagcgagg
      961 cgatggagaa aaaccggcgg agcgtgctgc tgacagccgg gagggcatgg ctcaccatcc
     1021 tgatggtgtc agcgctgctg atcgccacga gcgggagcat tctgtggtgg caggggcagc
     1081 agataaccga caattacaca catcttcgtc agcaggaaga taccctggcg aaaatgactg
     1141 cccggacgtg gggagtgcgc tatcaggaga gcagcgacgg ccggaggttc cttatcctgc
     1201 cgccggggat gcaagccgaa gccatcccct acgacgggac gacctggatc cgcctgaaac
     1261 aggagtagcg gaaaatgaca gagctggaaa agcagttgct gaccgcatta gagcagctac
     1321 atcaggacta ctcgcaaagg ctggacgaat gggagagcgc cttcgcggaa tggcagaaga
     1381 tgtctgggct tatgcaacgg gagaacgcgg tgctgaacga gcgcgtgtcg gacttgagca
     1441 cgcaggtgct gagtttaagc gagcagctgc gccgcttgtc cgggaactga atgccaccga
     1501 gttccggcag ggggagaatg agtatcagaa aacactggag ctggagcgcc agccgcagaa
     1561 aacctacaaa ggaccgacgc tgggctgacg gatgccggcc cgtgataaac cccaagaaga
     1621 agggctgcga aattccccgc taaatacgtc gtgatgcaaa gatcacggcc tataccaggg
     1681 ggaattatga aactgcttaa tgttattgaa gctgtactta actgcctgca tctggcggca
     1741 gaactgtggg agtggctgga aaagcatttg ccggttttcg gggccttcac gctgtttttg
     1801 ggctgaatcc tgccgtcatt cacctggctg catggctatg cagtcgggta aaaattatct
     1861 cccggcttaa cggaggatgt agcgttgctt aagccgggtt ttcgggtgcc aggtgccgtc
     1921 tgcgccgtca gtgccgatcc ggcggtgcag acaacggatg ttatggtaaa agcatgatgc
     1981 ctggcgggta cggaaaaatt gtggcgaccg agcctgcaga cgcaaaaatc cggcccatac
     2041 ttattcgtct ccttcatcag gaatgcagta ctatccagcc actgcaggta tttggccccc
     2101 agcgggggct ttttttgcct gttgttgggg cagataaaga aaagggccgc attagcggcc
     2161 cttttcggag agagcgatgc ctcaatgcgg aatttcagag acttctttaa cgtcggcttt
     2221 attgatctgc tgtttgacac catttgcgtc tttatagccc agcaggcctg agtctgattc
     2281 tgtaggcttg ccgtcgctga caattgtacg cccgtcgttg gtgtggatgg catagcttgt
     2341 gcgcgtgcag ccggttaggg ctgaaagcgc aactgccgct gcgaacactg aaacaaaaat
     2401 ctttttcaaa gccagctcct tttatccgta tcagttgtct agttcactca tgttggtaat
     2461 tttgtcacgg ttgatctgtt cggttcggcc tgtatgggca tctttgtagg atactaaccc
     2521 cgtatcactg tcaactttgg gtttgccgtc tgtaacgata gtgcgaccat ctgtggtttt
     2581 tatttcttgg tttgaagaac atccagcagc ggcaaaggtc accaacgcga ccatcatggc
     2641 cgccaacagc gtttttttat tcataatagg ttccctgctt aaaggtaaag tggatatggt
     2701 cactaaccat ctaagtatag gtcgtttttt catgcgaaaa gaggattgaa ggtgggcatc
     2761 atgcccagca gtaaaaatga atgaaaaacg attttggaat gttgcttgtt tttgaggatt
     2821 gaaatggcct tattaatttc actggttgta gtggcaggtc tttactatca attttggtat
     2881 aagccacata gagcgccgat cttgcgtata tgggggatcg cgcctgatgg acaagaattt
     2941 cgattattgc taacagagca tggagaaaaa gaggctgttt tactgttcgg aaagaaatct
     3001 tttgttgccg tgccagatac gcagaacctt tatggtgggt gttattacct ttatttagag
     3061 gatgctcaca agaacgagct tttaattgag ttaaacgaaa gtgatttata ccccggtggc
     3121 gcaatagaac ttcaacacaa cggcggtcgg aagattcatt gcgagatact aaaagtaagg
     3181 tggagtcgtt aactcaagta atgtttccta agtatgttga taggcaaaca tagtggtagt
     3241 tagtctctct gagtaaatga tcttcttgtg atcctgtcgt tacagtcgta atctcttgct
     3301 ctgaaaacga aaaaaccacc tggggaggtg gtttgatcga aggttaagtc agttggggaa
     3361 ctgcttaacc aggtaactgg gtatacgaga ccgcagaaac caaaaatgtt ctttcagtgt
     3421 agcctctctc aggcccatac ttcaagacct cttaatttgt ctctcgtata cctccagtta
     3481 ctaatggctg ctgccagtag cgatttttcg tgtctttccg ggttggactc aagacgatag
     3541 ttaccggata aggcgcagca gtcggactga acggggggtt cgtgcataca gtcaatcctg
     3601 gagcgaactg ccttcgcgga actgagtgtc aggcgtggaa tgagaaaccg cggccataac
     3661 agcggaatga caccggtaaa ccgaaaggca ggaatgcggg ggagcacgag ggagccatca
     3721 gggggaaacg cctggtatct ttaagccgca tcgggtttcg ccaccactga tttgagcgtc
     3781 agattctgtg atgcttgtca ggggggcgga gcctatggaa aaccggcagc gccgcatcct
     3841 tttttcccct cctgcattca cgtatttccc ccccacgtct ttatccgtga gtccgtaccg
     3901 ctcgccgcag ccgaacgacc gagcgtagcg agtcagtgag cgaggaagcg gaatatccac
     3961 cgggacaggc atcagcccct tacgcacctg agcctcatct cacagttttt atgactgact
     4021 atttcatccc gattcccgtc gtgccaccat agtaagccag tatacactcc gctagcgcta
     4081 cgtgactggt tcagggctgc gccccgaaac ccgccaaaag cctgacgcgc ctgcggcttg
     4141 tccaaccccg cgccgaccgg gaaaggcttt cccgcccgtc ccggcgttat caggagaccg
     4201 gtttgtcaga gaaacggaac aagatgctca ccatgtgggt gacggaggac gagcaccggc
     4261 ggctgctcga acgctgtgac ggcaggcagc tggcggcgtg gatgcggcag acctgtcttg
     4321 atgaaaagcc tgcgcgtacc ggaaagctac cctcgatctc gccggcgctg ctgcgccagc
     4381 ttgccggcat gggcaacaac ctgaaccaga tagcccgccg cgttaacgcc ggcggcggta
     4441 ccggccat
//
