LOCUS       NZ_CP022067             4301 bp    DNA     circular CON 07-JAN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Hadar strain
            FDAARGOS_313 plasmid unnamed2, complete sequence.
ACCESSION   NZ_CP022067
VERSION     NZ_CP022067.2
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN06173326
            Assembly: GCF_002209205.2
KEYWORDS    RefSeq.
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 4301)
  AUTHORS   Zhao,S., McDermott,P., Tallon,L.J., Sadzewicz,L., Sengamalay,N.,
            Ott,S., Godinez,A., Nagaraj,S., Vavikolanu,K., Vyas,G., Nadendla,S.
            and Sichtig,H.
  TITLE     FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS):
            Supporting development and validation of Infectious Disease Dx tests
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4301)
  AUTHORS   Zhao,S., McDermott,P., Tallon,L.J., Sadzewicz,L., Sengamalay,N.,
            Ott,S., Godinez,A., Nagaraj,S., Vavikolanu,K., Vyas,G., Nadendla,S.
            and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-DEC-2017) Center for Devices and Radiological Health,
            US Food and Drug Administration, 10903 New Hampshire Avenue, Silver
            Spring, MD 20993-0002, USA
  REMARK    Sequence update by submitter
REFERENCE   3  (bases 1 to 4301)
  AUTHORS   Zhao,S., McDermott,P., Tallon,L., Sadzewicz,L., Sengamalay,N.,
            Ott,S., Godinez,A., Nagaraj,S., Vavikolanu,K., Nadendla,S.,
            George,J. and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-JUN-2017) Center for Devices and Radiological Health,
            US Food and Drug Administration, 10903 New Hampshire Avenue, Silver
            Spring, MD 20993-0002, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SMRT v. 2.3.0, HGAP v. 3.0
            Genome Coverage                   :: 412.341x
            Sequencing Technology             :: PacBio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/07/2024 01:43:16
            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)                     :: 4,872
            CDSs (total)                      :: 4,745
            Genes (coding)                    :: 4,583
            CDSs (with protein)               :: 4,583
            Genes (RNA)                       :: 127
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 19
            Pseudo Genes (total)              :: 162
            CDSs (without protein)            :: 162
            Pseudo Genes (ambiguous residues) :: 0 of 162
            Pseudo Genes (frameshifted)       :: 55 of 162
            Pseudo Genes (incomplete)         :: 123 of 162
            Pseudo Genes (internal stop)      :: 24 of 162
            Pseudo Genes (multiple problems)  :: 36 of 162
            Pseudo Genes (short protein)      :: 1 of 162
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP022067.2.
            On Mar 13, 2018 this sequence version replaced NZ_CP022067.1.
            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..4301
                     /organism="Salmonella enterica subsp. enterica serovar
                     Hadar"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_313"
                     /serovar="Hadar"
                     /isolation_source="Ground turkey"
                     /host="Environment"
                     /sub_species="enterica"
                     /culture_collection="FDA:FDAARGOS_313"
                     /db_xref="taxon:149385"
                     /plasmid="unnamed2"
                     /geo_loc_name="USA: MN"
                     /collection_date="2011"
                     /collected_by="FDA CVM"
     gene            124..>864
                     /locus_tag="CEP91_RS00025"
                     /old_locus_tag="CEP91_00020"
                     /pseudo=""
     CDS             124..>864
                     /locus_tag="CEP91_RS00025"
                     /old_locus_tag="CEP91_00020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016230929.1"
                     /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="MobA/MobL family protein"
                     /name="MobA/MobL family protein"
     gene            2527..3546
                     /locus_tag="CEP91_RS00035"
                     /old_locus_tag="CEP91_00035"
     CDS             2527..3546
                     /locus_tag="CEP91_RS00035"
                     /old_locus_tag="CEP91_00035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001271373.1"
                     /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_031603333.1"
                     /translation="MSAALQYFEENLPHRPYHTNDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDSSVKA
                     LKYAAAIERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLDAVIQRVEMYNASLPVPLSP
                     PECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKF"
                     /name="replication initiation protein"
     gene            complement(3807..4253)
                     /locus_tag="CEP91_RS00040"
                     /old_locus_tag="CEP91_00040"
     CDS             complement(3807..4253)
                     /locus_tag="CEP91_RS00040"
                     /old_locus_tag="CEP91_00040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000184721.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_050948166.1"
                     /translation="MTNREEWLSAKIAYINGLKSPSEQQRLLVLLAEKKNRTTTDEKTL
                     SALIRAEKTAEKAAAAKARVTAIIAAERKAAARAERKARDHELYKAAGLMIVAGLVDSK
                     TGKPKFSAAELVGALAGIAELPHNHPKWQEWERRGKELLTKDSA"
                     /name="conjugal transfer protein TraD"
     Typing          2528..3302
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.426"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          125..1980
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tatcaccttg tctgcctgcg tgtgagaccg taaaatcatc cctgattaat tcagggatgc
       61 gcacttagac gtttctctcc ttcgtcgaga aactgtgcgc tcctgcggag ggctaaaagg
      121 cagatggcta gttaccattg caccgttaaa actggtgcaa aaggcagtgc cttaaaacat
      181 gctgattaca tttccagaac cggcgaatac gagaactata aatcgcggga ggatctggag
      241 ttttcgtcat ccggtaacat gccatcatgg gcgaagaaaa atccctccga gctatggaaa
      301 gccgcagatg aatttgaacg aaaaaacggg acggcatacc gtgaaattga gatcgcgtta
      361 ccgcgtgaac tgacacgcga acaacggata gaacttgttg aagattttgt gcaaaaggaa
      421 cttggcgatc gccatgccta ccagtacgcg atccacaatc cgccaggtgc aattgacgga
      481 aaggaacaac cacacgcgca tatcatgttt tgcgagcgga ttaatgatgg tattgaacgc
      541 gatccgcagc agttttttaa acgtgctaac agcaaattac cggagagagg aggcgcaaaa
      601 aaggcacgct ttggtgaaac acaacaagag cgaaaatctg cccttgttga attacgttcc
      661 cgctgggcgg atgtgcagaa tgagcacctt gcgcgtcacg gtcacgagtc gcgcgtagat
      721 catcgttcgc tgaaagaaca gggtatcaat cgcacgccgg aagttcatct tggccccgtt
      781 caggccgcca gtctgaatgg tgagcagatt gttgcaatcc aggaacggag gaatgccgag
      841 cgggaactca agaccgccag agatgccgca aatgccattc agccggaaca ggagcaaaag
      901 caaaaaatca aggcagttga gcctgttcgt tctgcccgat taatggatga gtatcgggat
      961 gttgcccgga aagtgatcac actggagaca agacagaatg agagtcagga actggcgcta
     1021 aaacatcact tgtttatgaa ggcagaagcg aaagagcaag aactggcgaa actgaaagaa
     1081 caactaaaaa aaatggacga gcagcgttct gtttataaga acaagattga tgagaaaaaa
     1141 cagaatatta cagcgttagt tgaacagaaa aaatcgctcg agagaagttt tattggcctg
     1201 tttaaaggcg ggatgaaacg tgagcttgag gaacaaatca agacacaggt cagccaactg
     1261 gaaaagaccg agcacgaggt gaagcaattg gacgagaatt atcagcagct tcagatgcag
     1321 gctgataatg aacagaagaa tttctcacac tcaccggaat atcagtattc ggaagcggtt
     1381 ttgagcggga tacctcgttc gattttaaaa ctgcaattcg ctctgttgcc cagtgagagc
     1441 actatcgcct tcaacaagaa tgtactggac gtagaacaac gaaaagaagc tgctatagct
     1501 gccgaacttt gccttagtga agatgagcgg cggcaaatca ggcgagagat tcaggatgtt
     1561 ctaaacgggg acgcctgcga agggcagcag acagaaactc tccagcagaa acgtcccgag
     1621 aaagatgcgc acatcgagtg ggaacgggaa gaatctccgc aagtcgtcat cccaaaaact
     1681 tatgtttttt tctctgcgtg caggggcgtt aagacagaaa tcaggccgtt tgagtcgtgc
     1741 gatgatgcta tcgagtgggg gttggttgag tgtgaacttc atgatcgttt taagcgtgat
     1801 ctcattgttt atcgagttga tgctgaattg ataggaaaag gtgatgatac agtgatgaaa
     1861 aatgccgaac gcattgatct tactgatgaa cttgaaggat ggaatcagca aacacacatc
     1921 gaaaaagaga gcctttttga acgagtacag cagcggtcac aagatgatga gctggagatg
     1981 tagttactga cgcgcttcgc ttgtccaacg cctcacagac cgcgaaagga tttcgcgtcc
     2041 cgttcaccgt ttggctgtga tgtatagtga gaatgcaacc gcaacctaac tacttgtttg
     2101 cacggtagaa aaacaaaaac ggaagcattc tcaaaaatgt tctaatgtgc ttttttcaga
     2161 acggcaagtt tgtcattttg ccccgttcgc ccttctgaac ggtcgaaact gttcgcgaat
     2221 cgcttttgtg catagttatg caggcccctg aaaacaattc tgacgcattt ttctggttta
     2281 ccctggtgtt tccttgtctt tttgcgtttt ttgcgtcaga aagcgactga gggcgtttta
     2341 aggggtacgt acaacgggag ttatggtaaa tggatcggtt ttgcgggaag actcgacagg
     2401 ttttgtcgtt gggggtagtg taagcgactg aaaaacaaac gcccctgaaa ttcgtgtctc
     2461 tccgccaaga ttgtcacgaa aatacagggg cgatgtcggt cgataacctg gaaggaatcg
     2521 taacacatga gcgccgcgct tcaatacttc gaagaaaatt taccccaccg tccctatcac
     2581 acgaatgatc tcgcttttgg tcttcgcatc tccggcaaag ggcgtgcgct tcttgcgcgg
     2641 tacatccagc agaaccagcc tcatgcgcag ttctggctgg tttttgacgt tgaccgcgag
     2701 ggggccgcga ttgactggag cgaccggaac gcccccgcgc cgaacatcac cgtaaaaaat
     2761 cctgtgaacg gtcatgctca cctgctctac gcactcaata tcgccgtgag aaccgcgccg
     2821 gacagctcgg ttaaggcgct gaaatatgcc gccgcgattg aacgttcgct gtgtgagaaa
     2881 ctttgtgctg atgtgaacta cagcggactg atttgcaaaa atccgttcca cctggaatgg
     2941 caggtgatgg agtggcgcga ggaagcctat accctcgatg aactggcaga ttatctcgat
     3001 ttgagcgcct cagagcgtcg tagcatcgat aaacattacg ggatggggcg aaactgccac
     3061 ctgtttgaaa tgacgcgcaa atgggcttac agggcgattc gtcagggctg gccagcattc
     3121 tcacagtggc ttgatgccgt gattcagcgt gtcgaaatgt acaacgcatc gcttcccgtt
     3181 ccgctttctc cgcctgaatg tcgggctatt ggcaagagca ttgcgaaata cacgcacagg
     3241 aacttcacgc cggaaacttt cgcacagtat gtggctgata cgcacacgcc agaaattcag
     3301 gcagcacgcg gtcgcaaggg cgggaaggcc aattcgtcag aaaatcagtc ggacaaaggg
     3361 aaaaaaagcg ccgctgttcg gtggactgct aacgacgaca aacgtcgtag ggcgcttgat
     3421 atgtatatct tgggagcgtc aacggaagat attgcagtgg cggttggtgt tagcagccgg
     3481 actattcgac gctggatgga taattctgga gaatggttaa ccaagaaaca aataattaaa
     3541 ttttaattaa cagaaaaatg acaattaccc cctgtttttg ttaatggatg gttaaattcg
     3601 cggacatgaa caagcctata tcagataaca gcgcctttcg gcgtcttttt gagcagcggg
     3661 ctttccggcg gttttctcct gtcagcccag caatggtgcg gcttaccgca tgattgaggt
     3721 ggttgtgctc gccgcagtct catgaccgag cgtagcgagc gaatgagcga ggaagcacca
     3781 gggaaccgga acgtgaacgg aggctcttac gcactgtctt tggttagtag ctccttcccg
     3841 cgtctttccc attcctgcca ttttggatgg ttgtgcggta gctctgcgat tcctgcgagt
     3901 gcgcctacca gttcggcagc actaaacttt ggttttccgg ttttgctgtc caccagtcct
     3961 gccacaatca tgaggcctgc ggccttgtag agttcatgat cccgcgcctt tcgttccgcc
     4021 cttgcggctg ccttccgttc tgccgctatg attgccgtta ccctggcttt tgctgcggct
     4081 gctttctctg cggttttttc tgcccgtatc agtgcggaca acgttttttc atccgtcgtt
     4141 gttcggtttt ttttctctgc cagtaacaca agtaatctct gctgctctga cggtgatttc
     4201 agtccgttga tgtaggcaat ttttgcactt aaccactctt cacgatttgt cattcttacc
     4261 tctgcacttt tgccgttaat gtgagttgtt attgtgcata a
//
