LOCUS       CP140740                4593 bp    DNA     circular BCT 01-FEB-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Newport str. CFSAN001891
            plasmid pCFSAN001891, complete sequence.
ACCESSION   CP140740
VERSION     CP140740.1
DBLINK      BioProject: PRJNA186035
            BioSample: SAMN01939070
KEYWORDS    .
SOURCE      Salmonella enterica subsp. enterica serovar Newport str. CFSAN001891
  ORGANISM  Salmonella enterica subsp. enterica serovar Newport str. CFSAN001891
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4593)
  AUTHORS   Hoffmann,M., Ferreira,C., Balkey,M., Bell,R. and Luo,Y.
  TITLE     Whole genome shotgun sequencing of cultured foodborne pathogen
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4593)
  CONSRTM   GenomeTrakr network: Whole genome sequencing for foodborne pathogen
            traceback
  TITLE     Direct Submission
  JOURNAL   Submitted (07-JUL-2020) Center for Food Safety and Applied
            Nutrition, US Food and Drug Administraion, 5100 Paint Branch Pkwy,
            College Park, MD, USA
REFERENCE   3  (bases 1 to 4593)
  AUTHORS   Hoffmann,M., Ferreira,C., Balkey,M., Bell,R. and Luo,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-DEC-2023) CFSAN, US FDA, 5001 Campus Drive, College
            Park, MD 20740, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Microbial Genome Analysis v. SMRTLink v11
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 360x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 12/18/2023 10:37:53
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,780
            CDSs (total)                      :: 4,656
            Genes (coding)                    :: 4,504
            CDSs (with protein)               :: 4,504
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 16
            Pseudo Genes (total)              :: 152
            CDSs (without protein)            :: 152
            Pseudo Genes (ambiguous residues) :: 0 of 152
            Pseudo Genes (frameshifted)       :: 76 of 152
            Pseudo Genes (incomplete)         :: 86 of 152
            Pseudo Genes (internal stop)      :: 23 of 152
            Pseudo Genes (multiple problems)  :: 28 of 152
            Pseudo Genes (short protein)      :: 1 of 152
            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..4593
                     /organism="Salmonella enterica subsp. enterica serovar
                     Newport str. CFSAN001891"
                     /mol_type="genomic DNA"
                     /strain="CFSAN001891"
                     /serovar="Newport"
                     /isolation_source="bird feces goose"
                     /sub_species="enterica"
                     /db_xref="taxon:1299204"
                     /plasmid="pCFSAN001891"
                     /geo_loc_name="USA:VA"
                     /collection_date="2011-08-18"
     gene            41..601
                     /locus_tag="D2O45_23875"
     CDS             41..601
                     /locus_tag="D2O45_23875"
                     /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="MbeB family mobilization protein"
                     /protein_id="WVK48260.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            608..841
                     /locus_tag="D2O45_23880"
     CDS             608..841
                     /locus_tag="D2O45_23880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /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="WVK48261.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFVTNNR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1529..2368)
                     /locus_tag="D2O45_23885"
     CDS             complement(1529..2368)
                     /locus_tag="D2O45_23885"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WVK48262.1"
                     /translation="MLTLFIFFVLLIAACFFCFAPPRRGYDRNEIIPYKIKLSINKYRL
                     YIYSSGKVRQYLLFLVILSLYYSIAEPFKSELIKNISYSLMAAFIFDTGLNFSKENITK
                     GVISTRWHNDLYSSFERMKAINKIYYPSNKEINTEGLSKAITSSLFNDDANSFAKRDFR
                     LMWDLSSEKYLSYKEIIIRKGDKLDAVCLRFINDDYKFLVNFNRDEEVFKYFPSIMQPS
                     LKTYRALSRLVNSIKDPSRFKFTTESLEMELLEYLELRNELFNDIEEVMGSYAQRAP"
                     /name="hypothetical protein"
     gene            complement(2560..2709)
                     /locus_tag="D2O45_23890"
     CDS             complement(2560..2709)
                     /locus_tag="D2O45_23890"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WVK48257.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPERHVKTPLAAAIGNRLEELVLK
                     LCAG"
                     /name="replication initiation protein"
     gene            complement(3379..3570)
                     /locus_tag="D2O45_23895"
     CDS             complement(3379..3570)
                     /locus_tag="D2O45_23895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /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="WVK48258.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3633..3956
                     /locus_tag="D2O45_23900"
     CDS             3633..3956
                     /locus_tag="D2O45_23900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /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="WVK48259.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGHWSSIDRVHVVAALMAIEGELRQLRQAVREQGGR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          3207..3291
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          complement(2638..3196)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.761"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3947..4593
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.32e-140"
ORIGIN
        1 ccggaggggg ggcggaatct caggctaaag ggggcgctgt atgagcaatc ttttacaaat
       61 gggaacggac ttcgagaaga aactgaaaga gcgagccgct tctaccgaga acatgctgaa
      121 cagcgagttc aggaagctag aagagtctgt agacaaggca ctgagcttaa acaggcagaa
      181 aatcagagac gctatcagcg aacatacaac atccgtgaaa cagcaactgg atacgctgag
      241 caccaccgtg agcacgcagc tcagcaccac agaggccgaa ctgtcccggc agcagaaaaa
      301 cctgctctgg caggtgatca aagggcgggt actgtttccg gcgctgaccg cgctcagcgt
      361 cacgggcggc attttcctgg ggtgctgggg gctgattcag tggcaggaaa gcaggattgc
      421 gaaaaatatc ttgaccatca gagagcagga aaacacgctg gcgaaactcg aggcaaaaac
      481 ctggggggtg acgttcgtca atggcgagaa cgggaaattt ctggtgctgc cggacggggt
      541 gaaaggggaa aacacctgga cggtgggcga caagaacgcc gtgaggctgg tcagggagta
      601 aacgagtatg acggaactgg aagggcattt gctgaacgcc ttagagcatt tgcaacagga
      661 ctatatgcgg cggctgaacg agtgggagag cgccttcgca gaattgcaga agatgcacgc
      721 ggttacgcaa cagaacaacg cgatactgaa cgagcgtgtc gtgaacttga gtcagcaggt
      781 gcagctatta gccggacaag tcgaccgctt gagtcggtta tttgtcacga acaacagata
      841 agggatgaac aggagcgtca ggcgcaggag cttgcccggc gctggcatga agagcaggaa
      901 cccgaagcgc ggatctggcg tggcccgtca atggggatgt gaccggggta ccccctgaaa
      961 tcgagccagt ttgtggcacg ccctacccgg atggcgccaa tgttaatgta cgtacattag
     1021 cattaacaat atccaaacct ccccattttg ccccgttcga cggctggaac gtgcgaaact
     1081 gatcgtcatt cagtttcgcg cataactatg catgaggtta aaatttacca ggcgcgatcg
     1141 cggcagtttt tcgggtggtt tgttgctgtt tttacctgtc tgctgccgtg atcgcgctga
     1201 acgcgtttaa gcggtacgcg caatgcgacg ttatggtaaa tacggagtat tttaattgcg
     1261 ggcctttgtt gtatatctct gtcgtttgtc cccgggggga agcattactg ctaacaagtc
     1321 ccgtgagaaa actgcgcaat cgtattgcgc accatgaacc tattctcaac cgcaatctgg
     1381 aggatgattt tgctacgata aagagaatta tcgcgtatcg gtgtcagcat tcattggagt
     1441 ggatgctgaa aaaccaggtg ttactccctc tacttacact taaacctctc taaaaatata
     1501 agtaagtact atcgagggct atcatgaact atggtgccct ctgagcatag ctacccatta
     1561 cttcttctat gtcattgaat aattcatttc ttaactctaa gtattctagt aactccattt
     1621 ctaatgactc tgtcgtgaac ttaaatctag aaggatcttt gattgagttt actagtcttg
     1681 ataacgctct atatgttttg agtgaaggtt gcattataga tggaaagtat ttgaaaacct
     1741 cttcatctct gttgaaatta actaaaaact tgtagtcatc atttataaat ctcaagcata
     1801 cagcgtcaag cttatcgcct tttcttatta ttatttcttt ataggaaaga tatttttcag
     1861 aagataagtc ccacatcaag cgaaaatctc tctttgcgaa cgagttcgcg tcatcattga
     1921 aaagagatga tgtgatggct ttggatagac cttctgtgtt tatctctttg ttggatgggt
     1981 agtaaatttt attaattgct ttcattctct caaatgatga atataggtca ttatgccacc
     2041 ttgttgaaat cactccttta gttatattct ccttgctaaa attaagccct gtatcaaaaa
     2101 taaatgcagc catcagtgaa tatgatatgt tttttattaa ctcagactta aatggttccg
     2161 ctatggagta gtacagtgat aaaataacta aaaataaaag gtattgtctt acctttcccg
     2221 atgagtatat gtaaaggcga tatttattta ttgatagttt tattttgtat ggaatgatct
     2281 catttctgtc atatcctctt cgtggtggag caaaacaaaa gaaacatgca gctattaata
     2341 aaacaaaaaa gatgaacagt gtaagcaagt tcggctcctg tgtatgctca ctatgcatga
     2401 ttgtcttgag atctaacgat cctgaaggta gtcttgtccg taaacgaaaa aaccgcccag
     2461 caaggcggct tttcgaaggt tctcagagca gcaactcttt gaaccaaggt aactggcttg
     2521 gaggagcaca gccaccaaat ctgtcctttc agtttagcct taaccggcgc ataacttcaa
     2581 gactaactcc tctaaacggt taccaatggc tgctgccagt ggcgttttta cgtgtctttc
     2641 cgggttggac tcaagacgat agttaccgga taaggcgcag cggtcgggct gaacgggggg
     2701 ttcgtgcaca cagcccagct tggagcgaac gacctacacc gggccgagat accaacagcg
     2761 tgagctatga gaaagcgcca cgcttcccga agggagaaag gcggacaggt atccggtaag
     2821 cggcagggtc ggaacaggag agcgcacgag ggagcttcca gggggaaacg cctggtatct
     2881 ttatagtcct gtcgggtttc gccacctctg acttgagcat ctgtttttgt gatgctcgtc
     2941 aggggggcgg agcctatgga aaaacgccag cggcgcggcc ttcttcctgt tcctggcctt
     3001 ttgctcacat gtttcttttg gcgttatccc ctgattctgt ggataaccgc atcaccgtct
     3061 ttgagtgagc tgataccgct cgccgcagcc gaacgaccga gcgtagcgag tcagtgagcg
     3121 aggaagcgga agagcgcctg atgcggcatt ttctccttac gcatctgtgc ggtatttcac
     3181 accgcatatg gtgcactttt cttataatcc gcactgatgc cacatagtta agccagtata
     3241 cactccgcta tcgctacgtg actgggtcag ggctgcgccc cgacacccgc taaaacccgc
     3301 tgacgcgccc tgacgggctt gtctgctccc ggcatccgct cacaggcaag ctgtgaacgt
     3361 ctccgggagc tgcatgtttc agttgctttc accgtcatcg ccgaagcgtg cgaggcaact
     3421 acggtagagt tcgtcggcgt ggtcgtgaag tgattcgcag atgtctgcct gttcgtccgc
     3481 gtccagctcg ttgagttttt ccagcagggt cagcgtctgg cttctgataa agcgggccat
     3541 gttaagggct gttttttcct gtttggtcat ggtcttaagg ctccttaata ggggattttt
     3601 tagggggaat gataccgatg aaacgcgaga agatgctcac gatacgggtt agcgatgagg
     3661 agcacgcccg gttactggaa cgctgcgagg gtaaacgact ggcagaatgg atgcggcggg
     3721 tctgtctggg ggagccggtt gcgcgcacag gaaaactgcc gacactatcg ccgccattgc
     3781 tgcggcatct ggctgccatc gggaacaatc tgaaccagac agcccggaag gtgaacagcg
     3841 gccactggtc ttcgattgac cgggttcatg tggtggccgc tctgatggcc atcgagggtg
     3901 aattgcgcca gttgcggcag gctgtcaggg aacagggggg acgggatgat agttaaattt
     3961 catgccaggg ggaaaggcgg tggaagtggc ccggtcgatt acctgctggg gcgggagcgt
     4021 aaccgcgaag gcgcaacggt gctccggggt aacccggaag aaatccggga actcattgat
     4081 gccacgccat tttcgaagaa atacacgtca ggcgttctgt cgttcgcgga gaaggagtta
     4141 ccgccgggtg aacgcgaaag agtgatgacg agctttgagc gtgttcttat gcccggtctc
     4201 gaaaaagacc agtacagcat tctctgggtg gaacaccagg ataaggggcg gctcgaactg
     4261 aattttgtca ttccgaacat ggaactacag agcggtaagc gcctccagcc gtactacgac
     4321 cgtgcggaca ggccgaggat aaatgcctgg cagacgctgg ttaatcatca ttacgggctg
     4381 cgtgacccga acgcaccgga gaacagacgg acgcttgtca caccgaataa tctgccaaaa
     4441 gcaaaacagg aggccgcaga agcgattaca cggggtcttg aggcgcttta ccgtgccgga
     4501 gcaataaaaa cgcgtcagga tgtcactgag gcgctcacag cggcaggttt tgaggtggtg
     4561 aggacaacca gaagcagtat cagtattgcc gac
//
