LOCUS       CP093079                4448 bp    DNA     circular BCT 05-MAY-2022
DEFINITION  Salmonella enterica strain 2016K-0377 plasmid p2016K-0377_3,
            complete sequence.
ACCESSION   CP093079
VERSION     CP093079.1
DBLINK      BioProject: PRJNA230403
            BioSample: SAMN05250424
KEYWORDS    .
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            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  JOURNAL   Unpublished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 (22-JUL-2018) 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                     :: 2016K-0377_consensus
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 102x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 05/04/2022 09:48:30
            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)                     :: 4,574
            CDSs (total)                      :: 4,449
            Genes (coding)                    :: 4,341
            CDSs (with protein)               :: 4,341
            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"
                     /mol_type="genomic DNA"
                     /strain="2016K-0377"
                     /db_xref="taxon:28901"
                     /plasmid="p2016K-0377_3"
                     /geo_loc_name="USA"
                     /collected_by="CDC"
     gene            complement(join(4274..4448,1..32))
                     /locus_tag="BAA79_22835"
     CDS             complement(join(4274..4448,1..32))
                     /locus_tag="BAA79_22835"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001036746.1"
                     /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="UPX49432.1"
                     /translation="MMVALVTFAAAGCSSNQEIKTTDGRTIVTDGKPKVDSDTGLVSYK
                     DAHTGRTEQINRDKITNMSELDN"
                     /name="YgdI/YgdR family lipoprotein"
     gene            219..587
                     /locus_tag="BAA79_22840"
     CDS             219..587
                     /locus_tag="BAA79_22840"
                     /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="UPX49433.1"
                     /translation="MALLISLVVVAGLYYQFWYKPHRAPILRIWGIAPDGQEFRLLLTE
                     HGEKEAVLLFGKKSFVAVPDTQNLYGGCYYLYLEDAHKNELLIELNESDLYPGGAIELQ
                     HNGGRKIHCEILKVRWSR"
                     /name="hypothetical protein"
     gene            1619..1942
                     /locus_tag="BAA79_22845"
     CDS             1619..1942
                     /locus_tag="BAA79_22845"
                     /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="UPX49434.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQTCLDEKPARTGKLPSI
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLEQLRHAVLEKGTD
                     DDH"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2151..2585
                     /locus_tag="BAA79_22850"
                     /pseudo=""
     CDS             2151..2585
                     /locus_tag="BAA79_22850"
                     /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            2620..3111
                     /locus_tag="BAA79_22855"
     CDS             2620..3111
                     /locus_tag="BAA79_22855"
                     /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="UPX49429.1"
                     /translation="MSSLLTLAKDLEQKSKAQQQSTGEMLKAAFSEHEQSVRAELSASA
                     RRISDAISAHEQSMSEAMEKNRRSVLLTAGRAWLTILMVSALLIATSGSILWWQGQQIT
                     DNYTHLRQQEDTLAKMTARTWGVRYQESSDGRRFLILPPGMQAEAIPYDGTTWIRLKQE
                     "
                     /name="MbeB family mobilization protein"
     gene            3118..3333
                     /locus_tag="BAA79_22860"
     CDS             3118..3333
                     /locus_tag="BAA79_22860"
                     /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="UPX49430.1"
                     /translation="MTELEKQLLTALEQLHQDYSQRLDEWESAFAEWQKMSGLMQRENA
                     VLNERVSDLSTQVLSLSEQLRRLSGN"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(4025..4252)
                     /locus_tag="BAA79_22865"
     CDS             complement(4025..4252)
                     /locus_tag="BAA79_22865"
                     /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="UPX49431.1"
                     /translation="MKKIFVSVFAAAVALSALTGCTRTSYAIHTNDGRTIVSDGKPTES
                     DSGLLGYKDANGVKQQINKADVKEVSEIPH"
                     /name="YgdI/YgdR family lipoprotein"
     Typing          1435..1513
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.75"
                     /coverage="100.0"
                     /evalue="2.7400000000000003e-32"
     Typing          complement(871..1359)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.345"
                     /coverage="94.0"
                     /evalue="1.69e-147"
     Typing          1620..1936
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.453"
                     /coverage="99.0"
                     /evalue="9.77e-61"
     Typing          1933..3425
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="90.8"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gcagcggcaa aggtcaccaa cgcgaccatc atggccgcca acagcgtttt tttattcata
       61 ataggttccc tgcttaaagg taaagtggat atggtcacta accatctaag tataggtcgt
      121 tttttcatgc gaaaagagga ttgaaggtgg gcatcatgcc cagcagtaaa aatgaatgaa
      181 aaacgatttt ggaatgttgc ttgtttttga ggattgaaat ggccttatta atttcactgg
      241 ttgtagtggc aggtctttac tatcaatttt ggtataagcc acatagagcg ccgatcttgc
      301 gtatatgggg gatcgcgcct gatggacaag aatttcgatt attgctaaca gagcatggag
      361 aaaaagaggc tgttttactg ttcggaaaga aatcttttgt tgccgtgcca gatacgcaga
      421 acctttatgg tgggtgttat tacctttatt tagaggatgc tcacaagaac gagcttttaa
      481 ttgagttaaa cgaaagtgat ttataccccg gtggcgcaat agaacttcaa cacaacggcg
      541 gtcggaagat tcattgcgag atactaaaag taaggtggag tcgttaactc aagtaatgtt
      601 tcctaagtat gttgataggc aaacatagtg gtagttagtc tctctgagta aatgatcttc
      661 ttgtgatcct gtcgttacag tcgtaatctc ttgctctgaa aacgaaaaaa ccacctgggg
      721 aggtggtttg atcgaaggtt aagtcagttg gggaactgct taaccaggta actgggtata
      781 cgagaccgca gaaaccaaaa atgttctttc agtgtagcct ctctcaggcc catacttcaa
      841 gacctcttaa tttgtctctc gtatacctcc agttactaat ggctgctgcc agtagcgatt
      901 tttcgtgtct ttccgggttg gactcaagac gatagttacc ggataaggcg cagcagtcgg
      961 actgaacggg gggttcgtgc atacagtcaa tcctggagcg aactgccttc gcggaactga
     1021 gtgtcaggcg tggaatgaga aaccgcggcc ataacagcgg aatgacaccg gtaaaccgaa
     1081 aggcaggaat gcgggggagc acgagggagc catcaggggg aaacgcctgg tatctttaag
     1141 ccgcatcggg tttcgccacc actgatttga gcgtcagatt ctgtgatgct tgtcaggggg
     1201 gcggagccta tggaaaaccg gcagcgccgc atcctttttt cccctcctgc attcacgtat
     1261 ttccccccca cgtctttatc cgtgagtccg taccgctcgc cgcagccgaa cgaccgagcg
     1321 tagcgagtca gtgagcgagg aagcggaata tccaccggga caggcatcag ccccttacgc
     1381 acctgagcct catctcacag tttttatgac tgactatttc atcccgattc ccgtcgtgcc
     1441 accatagtaa gccagtatac actccgctag cgctacgtga ctggttcagg gctgcgcccc
     1501 gaaacccgcc aaaagcctga cgcgcctgcg gcttgtccaa ccccgcgccg accgggaaag
     1561 gctttcccgc ccgtcccggc gttatcagga gaccggtttg tcagagaaac ggaacaagat
     1621 gctcaccatg tgggtgacgg aggacgagca ccggcggctg ctcgaacgct gtgacggcag
     1681 gcagctggcg gcgtggatgc ggcagacctg tcttgatgaa aagcctgcgc gtaccggaaa
     1741 gctaccctcg atctcgccgg cgctgctgcg ccagcttgcc ggcatgggca acaacctgaa
     1801 ccagatagcc cgccgcgtta acgccggcgg cggtaccggc catgacaggg tgcagattgt
     1861 ggcggcgctg atggcaatcg atgccggcct tgagcagctg cggcacgccg ttcttgagaa
     1921 aggaacggac gatgatcatt aaatttcatc cgcgcggtcg cggcggtggc gccgggccgg
     1981 tggactattt gctgggtaaa gaccggcagc gtgaaggcgc caccgtcctg cagggcaagc
     2041 cggaagaagt ccgggagctg attgatgtgt cgccttacgt gaagaaatac acctccggcg
     2101 tactgtcgtt tgcggaggca gatctgcctc ccggccagcg ggaaaaactg atggccagct
     2161 tcgagcgtgt tctgatgccc ggcctcgata aagatcagta cagcattctg tgggtggagc
     2221 acgcggacaa ggggcgtctg gagctgaact ttctgatccc caataccgag ctgctgaccg
     2281 gcaggcggct ccagccgtac tacgaccgcg ccgaccggcc gcgcatcgat gcctggcaga
     2341 cggtggtcaa cggccggctg gggctgcacg acccgaacgc gccggaaaac cggcgggcgc
     2401 tggtcacgcc gtccgcgctg ccggaagcga agcaggaagc tgcccaggcg attacgcgcg
     2461 gcctgcttgc ccttgcctca tccggggagc tgaaaacccg tcaggacgtc actgaggcgc
     2521 tggaaagcgc aggttttgag gtggtgcgca gcacgaaaag cagcatcagc attgccgacc
     2581 cggacggggg gcgaaacatc cgactgaagg gagccatcta tgagcagtct tttaacgctg
     2641 gcgaaggact tggagcagaa atcgaaagcg cagcagcaga gtaccggcga gatgctgaaa
     2701 gccgcattca gcgagcacga gcagtctgtc agagcggaac tgagcgcaag cgcgaggaga
     2761 atcagcgacg ccatcagcgc ccacgaacag agtatgagcg aggcgatgga gaaaaaccgg
     2821 cggagcgtgc tgctgacagc cgggagggca tggctcacca tcctgatggt gtcagcgctg
     2881 ctgatcgcca cgagcgggag cattctgtgg tggcaggggc agcagataac cgacaattac
     2941 acacatcttc gtcagcagga agataccctg gcgaaaatga ctgcccggac gtggggagtg
     3001 cgctatcagg agagcagcga cggccggagg ttccttatcc tgccgccggg gatgcaagcc
     3061 gaagccatcc cctacgacgg gacgacctgg atccgcctga aacaggagta gcggaaaatg
     3121 acagagctgg aaaagcagtt gctgaccgca ttagagcagc tacatcagga ctactcgcaa
     3181 aggctggacg aatgggagag cgccttcgcg gaatggcaga agatgtctgg gcttatgcaa
     3241 cgggagaacg cggtgctgaa cgagcgcgtg tcggacttga gcacgcaggt gctgagttta
     3301 agcgagcagc tgcgccgctt gtccgggaac tgaatgccac cgagttccgg cagggggaga
     3361 atgagtatca gaaaacactg gagctggagc gccagccgca gaaaacctac aaaggaccga
     3421 cgctgggctg acggatgccg gcccgtgata aaccccaaga agaagggctg cgaaattccc
     3481 cgctaaatac gtcgtgatgc aaagatcacg gcctatacca gggggaatta tgaaactgct
     3541 taatgttatt gaagctgtac ttaactgcct gcatctggcg gcagaactgt gggagtggct
     3601 ggaaaagcat ttgccggttt tcggggcctt cacgctgttt ttgggctgaa tcctgccgtc
     3661 attcacctgg ctgcatggct atgcagtcgg gtaaaaatta tctcccggct taacggagga
     3721 tgtagcgttg cttaagccgg gttttcgggt gccaggtgcc gtctgcgccg tcagtgccga
     3781 tccggcggtg cagacaacgg atgttatggt aaaagcatga tgcctggcgg gtacggaaaa
     3841 attgtggcga ccgagcctgc agacgcaaaa atccggccca tacttattcg tctccttcat
     3901 caggaatgca gtactatcca gccactgcag gtatttggcc cccagcgggg gctttttttg
     3961 cctgttgttg gggcagataa agaaaagggc cgcattagcg gcccttttcg gagagagcga
     4021 tgcctcaatg cggaatttca gagacttctt taacgtcggc tttattgatc tgctgtttga
     4081 caccatttgc gtctttatag cccagcaggc ctgagtctga ttctgtaggc ttgccgtcgc
     4141 tgacaattgt acgcccgtcg ttggtgtgga tggcatagct tgtgcgcgtg cagccggtta
     4201 gggctgaaag cgcaactgcc gctgcgaaca ctgaaacaaa aatctttttc aaagccagct
     4261 ccttttatcc gtatcagttg tctagttcac tcatgttggt aattttgtca cggttgatct
     4321 gttcggttcg gcctgtatgg gcatctttgt aggatactaa ccccgtatca ctgtcaactt
     4381 tgggtttgcc gtctgtaacg atagtgcgac catctgtggt ttttatttct tggtttgaag
     4441 aacatcca
//
