LOCUS       NZ_CP045765             4773 bp    DNA     circular CON 03-JAN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Heidelberg str. 41578
            plasmid p3CFSAN000318, complete sequence.
ACCESSION   NZ_CP045765
VERSION     NZ_CP045765.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN01088008
            Assembly: GCF_009648795.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Heidelberg str. 41578
  ORGANISM  Salmonella enterica subsp. enterica serovar Heidelberg str. 41578
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4773)
  AUTHORS   Mafiz,A., Kastanis,G. and Gonzalez Escalona,N.
  TITLE     Closed genomes of twenty-eight foodborne pathogens from the CFSAN
            verification set by a combination of long and short-reads
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4773)
  AUTHORS   Mafiz,A., Kastanis,G. and Gonzalez Escalona,N.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-NOV-2019) ORS/DM/MMSB, Food and Drug
            Administration-College Park, 5001 Campus Drive, College Park, MD
            20740-3835, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes, CANU v. 3.12.0, 1.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 23, 21, 16, 82x
            Sequencing Technology :: Oxford Nanopore GridION, Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/03/2024 06:53:19
            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)                     :: 4,859
            CDSs (total)                      :: 4,737
            Genes (coding)                    :: 4,617
            CDSs (with protein)               :: 4,617
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 120
            CDSs (without protein)            :: 120
            Pseudo Genes (ambiguous residues) :: 0 of 120
            Pseudo Genes (frameshifted)       :: 46 of 120
            Pseudo Genes (incomplete)         :: 85 of 120
            Pseudo Genes (internal stop)      :: 25 of 120
            Pseudo Genes (multiple problems)  :: 30 of 120
            Pseudo Genes (short protein)      :: 1 of 120
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP045765.1.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..4773
                     /organism="Salmonella enterica subsp. enterica serovar
                     Heidelberg str. 41578"
                     /mol_type="genomic DNA"
                     /strain="41578"
                     /serovar="Heidelberg"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:1124936"
                     /plasmid="p3CFSAN000318"
                     /geo_loc_name="USA:OH"
                     /collection_date="2011"
                     /collected_by="FDA"
     gene            67..618
                     /locus_tag="GH765_RS24075"
                     /old_locus_tag="GH765_24075"
     CDS             67..618
                     /locus_tag="GH765_RS24075"
                     /old_locus_tag="GH765_24075"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000654246.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000654246.1"
                     /translation="MKDMKAVVVFTGKDLNIMRTEGGSGYWHARTDRLNDADYLIAVRN
                     RRETWAVKDLEHGTAFLIAKITGCFKSPDYDDRNVITFDEYAEIHTPKAWKMLTDGQRY
                     PVAYLSAQEAFLRIGVTPEQLEWKKFHPSSPSVPNTVIPGLAEEKTEKLSLNEAIERAK
                     KDISNATGIDSSAITISIKI"
                     /name="hypothetical protein"
     gene            complement(817..1032)
                     /locus_tag="GH765_RS24080"
                     /old_locus_tag="GH765_24080"
     CDS             complement(817..1032)
                     /locus_tag="GH765_RS24080"
                     /old_locus_tag="GH765_24080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /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="WP_000137420.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMFGLMQRENA
                     ALSERVTGLSRQVQSLSEQLRRLSQG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1036..1521)
                     /locus_tag="GH765_RS24085"
                     /old_locus_tag="GH765_24085"
     CDS             complement(1036..1521)
                     /locus_tag="GH765_RS24085"
                     /old_locus_tag="GH765_24085"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /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="WP_001086855.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKVAFSEHEKFVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSTLLTASGASILWWQGQQIL
                     DNYTIIREQKSTQAMLSERNSGVQISTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            complement(<1556..2260)
                     /locus_tag="GH765_RS24565"
                     /old_locus_tag="GH765_24090"
                     /pseudo=""
     CDS             complement(<1556..2260)
                     /locus_tag="GH765_RS24565"
                     /old_locus_tag="GH765_24090"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     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(2199..2522)
                     /locus_tag="GH765_RS24095"
                     /old_locus_tag="GH765_24095"
     CDS             complement(2199..2522)
                     /locus_tag="GH765_RS24095"
                     /old_locus_tag="GH765_24095"
                     /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="WP_000957080.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLAEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3160..3243
                     /locus_tag="GH765_RS24570"
     CDS             3160..3243
                     /locus_tag="GH765_RS24570"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_071588017.1"
                     /translation="MHDPPVQSDRCALSGNYRLESNPDRHD"
                     /name="replication initiation protein"
     gene            complement(3837..4304)
                     /locus_tag="GH765_RS24100"
                     /old_locus_tag="GH765_24100"
     CDS             complement(3837..4304)
                     /locus_tag="GH765_RS24100"
                     /old_locus_tag="GH765_24100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011899450.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_153266272.1"
                     /translation="MPAPNNYGVAGSPNSAIAHPDGLDCYGRVPEINSKGDVIPAGDIF
                     LRVGRHTGPNRGFGVRHIWAEHEQELVKLGYATVNDVARFVRDIIRRGVPIYCEFNSTS
                     GKHRPAVLKSSVGIVILEPREAPETESGWIYVVVTAYTRRTAHGTLVGHIE"
                     /name="hypothetical protein"
     Typing          complement(2624..2811)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.34"
                     /coverage="87.0"
                     /evalue="2.7100000000000003e-47"
     Typing          2757..3269
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.636"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(714..2209)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.984"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aacacgaatt ctatcgtata gatttcataa aaaaatgaaa ttgactcacc tattaagggt
       61 ttctatatga aagatatgaa agctgttgtg gtttttaccg ggaaggattt gaacataatg
      121 agaaccgagg gggggtcagg ctactggcat gccagaacag acaggctcaa cgatgccgat
      181 tacctcatag cagtaagaaa cagaagggaa acgtgggcag taaaagacct ggaacacggc
      241 acagcattcc tgatcgccaa aattaccggg tgttttaaaa gccctgatta cgacgacagg
      301 aacgtcataa cctttgatga atacgcagaa attcacactc caaaagcatg gaaaatgcta
      361 accgatggtc agcgctatcc ggttgcttac ctgagcgcac aggaagcttt tttacgtatt
      421 ggggtaacac cggaacaact ggaatggaag aaattccatc cttcatcccc atcggttcct
      481 aatacagtga ttcctggtct ggctgaagag aaaacagaaa aactctccct taacgaggca
      541 attgaaagag ccaaaaagga tattagcaac gcaacaggga ttgatagctc agccataaca
      601 ataagcatca agatctgatg aagcgtgaac aacaagatag cagcctcatg ttctagaact
      661 gaacctgtgc gccagaaaca gcaagcccat gcttttccgg cgcacagatt caaagtgacg
      721 gaccgttgta cgttcgctgt cgctgagatc gttccagctc cagcgctttc tgatgctgcg
      781 ccgcccgttc ctgctcacga tgtgcctcta tcacgttcag ccttgtgaca accggcgcag
      841 ctgctcgctc aaactctgca cctgcctgct caagcccgtg acgcgctcgc tcagcgccgc
      901 gttctcccgt tgcataagac caaacatcgt ccgccattcc gcgaaggcgt tctcccactc
      961 gtccagcctt ttcgagtagt cctgctgtag ctgctctaat gcgctcagca actgtttttc
     1021 cagctccgtc atgtgctatt tccccgccag tatcatccag ctcgaatcct ctccgaaccg
     1081 tcccgcttcc gggttcaccc tcacgcagcg gcgtctctgc tctccgcagg tcgagatctg
     1141 cacgccgctg ttcctctcgg acagcatggc ctgcgtgctc ttctgctccc ggatgatcgt
     1201 gtaattgtcg agtatctgct gtccctgcca ccatagaatg cttgcgcccg atgctgtcag
     1261 cagtgtagac accaggacga tggtcagcca cgtctggctg accatacgca ccatgccttt
     1321 cgtgcgctgg ctcatggctg aggacagctt ccggtcgtgg tcgaggatgg cggcgctgat
     1381 tctcttctcg ctttcgctca gttccgctct gacaaacttc tcgtgctcgc tgaatgcgac
     1441 tttcagcatc tcgccggtac tctgctgctg cgctttcgat ttctgctcta agtccttcgc
     1501 cagcgttaaa agactgttca tagatggctc ccttcagtcg gatgtttcgc cccccgtccg
     1561 ggtcggcaat gctgatgctg ctttttgtgg tgcgcaccac ctcaaaacct gcgctttcta
     1621 gcgcctcagt gacgtcctgg cgggttttca gccccccgga cgaggctaag gccagtaaac
     1681 cccgtgtaat tgcctgagcg gcttcctgct tcgttttcgg cagcgcggac ggcgtgacca
     1741 gcgcccgccg gttttcaggc gcgttcgggt catgcagccc cagcctgccg ttcacgatgg
     1801 tctgccaggc atcaatgcgc ggacggtcgg cgcggtcgta atacggctgg agacgcctgc
     1861 ctgtcagcag ctccatgttc gggatcagga agttcagctc cagccgcccc ttatcctggt
     1921 gctcaaccca tagcacgctg tactggtctt tatcgagtcc gggcatcaga acccgttcaa
     1981 agctcgccat cagcttttcg cgctgcccgg gcggtaaatc cttttcggca aaggacagga
     2041 cgccggatgt gtactttttt gcgtagggcg aggcgtcgat aagctccctg acttcttccg
     2101 gcttcccctg cagaacggtg gcgccgtcgc gctgtcggtc tttccccagc agataatcca
     2161 ccggaccggc gccaccgccg cgccctcgcg ggtgaaactt aacgatcatc gtctgcaccc
     2221 ttttccagca cggcatgccg cagccgctcg agtccggcat ctatggccat cagcgcggcg
     2281 acgacctgca cgcggtcgtg cccgctgccg ccaccggcgt taacctgccg ggcaatctgg
     2341 ttgaggttat tccccatgcc ggcaagctga cgaagcagcg ccggcgagat tgagggaagc
     2401 ttgccggcgc gggcgggttt ctcggccagg cacgtctggc gcatccaggc tgcaagctgt
     2461 ttaccgtcgc agcgttccag cagacggcgg tgctcatctt cggtcaccca catggtgagc
     2521 atcttgttcc gtttctctga caaaccgatc tcctgataac gccgggacgg gcgggaaatc
     2581 ttttcccggt cggcgcggtg ttggacaagc cgcaggcgcg tcagtggttt tagcaggttt
     2641 cggggcgcag ccctgaacca gtcacgtagc gctagcggag tgtatactgg ctcaatatgt
     2701 tacggcggag taacacgtaa tgaaagtgct tcatgtggca ggagaaaaat gcagctgcag
     2761 ggcgtacagg agaaaatgga ggttacggtg atatgacgcc tcctcgctca ctcggtcgct
     2821 tccgctcctg acgttcggct gcggcgggcg ttacctgcaa acggataaga gcaaaggcat
     2881 acggcatggc aagcaggaca ggaaaaggat gcggcgctgc cgtttttcca taggctccgc
     2941 ccccctgaca agcatcacga aatctgacgc tcaaatcagt ggtggcgaaa cccgacagga
     3001 cttaaagata ccaggcgttt ccccctggtg gctccctcgt gcgctctcct gttcctgcct
     3061 ttcggtttac cggtgtcatt ccgctgttat ggccgcgttt atctcattcc acgcctgaca
     3121 ctcagttccg ggtaggcagt tcgctccaag ctggactgta tgcacgaccc ccccgttcag
     3181 tccgaccgct gcgccttgtc cggtaactat cgtcttgagt ccaacccgga tagacacgac
     3241 taatcgccat tggcaacggc cactggtaag caggatgtgc gagagatgta acgagagttc
     3301 ttgaagtggc ggcctaactg aggctacact gaaaggacag tatttggtga catgtctcgc
     3361 acaagactgt taccacggtt agagaatctg ccaggattaa ctaaccttcg aaaaaaccac
     3421 ctgccagggt ggttttttcg tttctgagca agagactacg acgagccact gatgatctca
     3481 agtgttcatt tctgatattc acagcagaat aactgttagg atatagggta tctatagcca
     3541 ggagcttcaa gaaatccaga cacagcaatg gattccaggg ttatcgaaaa aaattagtat
     3601 ataggttgca accaaaatgt tggttgcaaa tctacatcac gatgtttatg attattgtac
     3661 tgcaagagca ttcgcagggg gcatcaacca gtaataggcc ttctgtgccg ggcagtcaga
     3721 tggctggtca tctgccgggt agttacgaca agcgtcggtt tctgaaccct atgtgctaag
     3781 gaaatgctgc gactaccaac gaattcataa agggcgcttt ttagcgccct atttttttat
     3841 tcaatatgac caaccaaagt accgtgcgcc gtccttcgtg tgtacgcagt cacaacgaca
     3901 tagatccaac ctgactcagt ttcaggcgct tctctgggct caagaattac gatgcctacc
     3961 gacgacttta gcactgcagg ccgatgttta ccgcttgtac tgttgaactc gcaatatatt
     4021 ggtacgccac gacgaataat atcccggaca aaacgagcca catcattaac ggtcgcatat
     4081 cccagcttaa ccagttcctg ctcgtgctca gcccagatat ggcgaacacc aaagccccgg
     4141 ttagggccag tatgcctacc aacacgcaag aagatgtcgc cagcaggaat aacatcacct
     4201 ttagaattaa tttcagggac acggccatag caatcaagcc catcagggtg agctatagcg
     4261 ctgttaggtg aaccagctac accgtaattg tttggagcag gcacaaaacg atccttattg
     4321 agtagagtcc gcatatggta ccagagagga aacaagcgga aggagcccaa gaaaaaagca
     4381 gagacgataa aaagaatcct tatggattat ttttttgtcc tttcatcctt ggcgcataag
     4441 gatatcacac ctgaaaatgt gacgtgcgaa tcgccctagc agctagattt accataacat
     4501 cccttgcccg caccgctccg gacgggttca gcgtgaaagc ggcgttagcc cggtaaaacc
     4561 ggcagtaaac tccccgctaa accgcgcatt ctgcgcctga taaatttcac gcggctgcat
     4621 agccatgcag ccacgtgaat ggctcatgct ttcaatgtat atcctcgtcc aagcccctgt
     4681 tttaaccggt ttatcaaaaa aacaaacagg aagccttatc actaacaata aaagaggtag
     4741 ggggctgcat tttatcgcat aaaaaacatt tac
//
