LOCUS       CP123779                4095 bp    DNA     circular BCT 02-JUN-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Adelaide strain H3-X1
            plasmid pSalH3-X1_2, complete sequence.
ACCESSION   CP123779
VERSION     CP123779.1
DBLINK      BioProject: PRJNA959347
            BioSample: SAMN34310249
KEYWORDS    .
SOURCE      Salmonella enterica subsp. enterica serovar Adelaide
  ORGANISM  Salmonella enterica subsp. enterica serovar Adelaide
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4095)
  AUTHORS   Montecillo,A.D., Codia,A., Baybay,Z.K., Pantua,H.D., Tubeza,N.P.,
            Vicera,L.N. and Jamora,R.M.
  TITLE     Serotyping, antibiogram and whole-genome sequencing of Salmonella
            enterica subsp. enterica H3-X1 from eggshell rinse from select egg
            retail stores in Barangay Batong Malake, Los Banos, Laguna,
            Philippines
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4095)
  AUTHORS   Montecillo,A.D., Codia,A., Baybay,Z.K., Pantua,H.D., Tubeza,N.P.,
            Vicera,L.N. and Jamora,R.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-APR-2023) Research, BioAssets Corporation, 34 Pres.
            J.P. Laurel Highway, San Roque, City of Santo Tomas, Batangas 4234,
            Philippines
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Trycycler v. v0.5.4
            Assembly Name                     :: BAC_Saladel_1.0
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 37.0x
            Sequencing Technology             :: Oxford Nanopore Flongle
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 04/24/2023 15:11:07
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,543
            CDSs (total)                      :: 4,424
            Genes (coding)                    :: 3,830
            CDSs (with protein)               :: 3,830
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 594
            CDSs (without protein)            :: 594
            Pseudo Genes (ambiguous residues) :: 0 of 594
            Pseudo Genes (frameshifted)       :: 500 of 594
            Pseudo Genes (incomplete)         :: 90 of 594
            Pseudo Genes (internal stop)      :: 50 of 594
            Pseudo Genes (multiple problems)  :: 45 of 594
            Pseudo Genes (short protein)      :: 1 of 594
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            Bacteria and source DNA available from Microbiology Division,
            Institute of Biological Sciences, University of the Philippines Los
            Banos.
            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..4095
                     /organism="Salmonella enterica subsp. enterica serovar
                     Adelaide"
                     /mol_type="genomic DNA"
                     /strain="H3-X1"
                     /serovar="Adelaide"
                     /isolation_source="eggshell rinse from eggs sold at select
                     retail stores"
                     /sub_species="enterica"
                     /db_xref="taxon:29473"
                     /plasmid="pSalH3-X1_2"
                     /geo_loc_name="Philippines: Los Banos, Laguna"
                     /lat_lon="14.16 N 121.24 E"
                     /collection_date="2023-01-23"
                     /collected_by="Nelieza Tubeza, Laurence Vicera"
     gene            complement(462..671)
                     /locus_tag="QGM53_22685"
     CDS             complement(462..671)
                     /locus_tag="QGM53_22685"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014538403.1"
                     /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="WGP04373.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWESAFAEWRTMCGLMQRENA
                     ALSERVTDLSTQVLSLSEQLRRLS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(675..1160)
                     /locus_tag="QGM53_22690"
     CDS             complement(675..1160)
                     /locus_tag="QGM53_22690"
                     /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="WGP04374.1"
                     /translation="MNSLLTLAKDLEQKSKVQQQTTGEMLKAAFSEHEKSVRAELNESE
                     KRISAAIHDHDRMLSSAMSQRTKGMLRMVSQTWLTIVLVSVLLIASSAGILWWQGQQIL
                     DNYTTIREQKSTQAMLSERNSGVQLTTCGEERRRCVRVNPDAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            complement(1195..1629)
                     /locus_tag="QGM53_22695"
                     /pseudo=""
     CDS             complement(1195..1629)
                     /locus_tag="QGM53_22695"
                     /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            complement(1838..2160)
                     /locus_tag="QGM53_22700"
                     /pseudo=""
     CDS             complement(1838..2160)
                     /locus_tag="QGM53_22700"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            complement(3194..3463)
                     /locus_tag="QGM53_22705"
     CDS             complement(3194..3463)
                     /locus_tag="QGM53_22705"
                     /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="WGP04370.1"
                     /translation="MNGQEFRLLLTEHGEKEAVLLFGKKSFVAVPDTQNLYGGCYYLYL
                     EDAHKNELLIELNESDLYPGGAIELQHNGGRKIHCEILKVRWSR"
                     /name="hypothetical protein"
     gene            3545..3778
                     /locus_tag="QGM53_22710"
     CDS             3545..3778
                     /locus_tag="QGM53_22710"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008461706.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_component:
                     GO:0005886 - plasma membrane [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="YgdI/YgdR family lipoprotein"
                     /protein_id="WGP04371.1"
                     /translation="MNKKTLLAAMMVALVTFAAAGCSSNQEIKTTDDRTIVTDGKPKVD
                     SDTGLVSYKDAHTGRTEQINRDKITNMSELDN"
                     /name="YgdI/YgdR family lipoprotein"
     gene            3800..4027
                     /locus_tag="QGM53_22715"
     CDS             3800..4027
                     /locus_tag="QGM53_22715"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010615788.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_component:
                     GO:0005886 - plasma membrane [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="YgdI/YgdR family lipoprotein"
                     /protein_id="WGP04372.1"
                     /translation="MKKIFVSVFAAAVALSALTGCTRTSYAIHTNDGRTIVSDGKPTES
                     DSGLLGYKDANGVKQQINKADVKEVSEIPH"
                     /name="YgdI/YgdR family lipoprotein"
     Typing          complement(2269..2347)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.8899999999999995e-34"
     Typing          2423..2911
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.747"
                     /coverage="94.0"
                     /evalue="7.82e-151"
     Typing          complement(353..1848)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.998"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(1856..2160)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.059"
                     /coverage="95.0"
                     /evalue="1.5700000000000008e-59"
ORIGIN
        1 aaaagccccc gctgggggcc aaatacctgc agtggctgga tagtactgca ttcctgatga
       61 aggagacgaa taagtatggg ccggattttt gcgtctgcag gctcggtcgc cacaattttt
      121 ccgtacccgc caggcatcat gcttttacca taacatccct tgcccgcacc tctccggacg
      181 ggttcagcgc gaatgcggcg tcagtcctgc aaaaccgaca gtaaaccacc ccgcaaaccg
      241 tgcattctgc gcctgataaa tctcacccga ctgcatagcc atgcagccgg gtgaatggca
      301 ccgggtttcg gcgcagatcc tcaatgaaag ccccgtttta tccggttatc acagcgacgg
      361 accgtcatac tcctgctgac gctgcgatcg ttccagctcc agcgctttct ggtgctgcgc
      421 tgcgcgctcc tgctcccggt gtgcctcgat gtcgttcagc cttacgacaa ccggcgcagc
      481 tgctcgctta aactcagcac ctgcgtgctc aagtccgtga cgcgctcgct cagcgctgcg
      541 ttctcccgtt gcataagacc acacatcgtc cgccattccg cgaaggcgct ctcccactcg
      601 tccagccttt tcgagtagtc ctgctgtagc tgctctaatg cgctcagcaa ctgtttttcc
      661 agttccgtca tgtgctattt ccccgccagt atcatccagc tcgaatcctc tccgaaccgt
      721 cccgcgtccg ggttcaccct cacgcagcgg cgtcgttcct ctccgcaggt cgtgagctgc
      781 acgccgctgt tcctctcgga cagcatggcc tgcgtgctct tctgctcccg gatggtcgtg
      841 taattgtcga gtatctgctg cccctgccac catagaatgc ccgcacttga ggctatcagc
      901 agcacggaga ccaggacgat ggtcagccac gtctggctga ccatgcgcag catccctttc
      961 gtacgctggc tcatggctga ggacagcatc cggtcgtggt cgtggatggc ggcgctgatt
     1021 ctcttctcgc tttcgttcag ttccgctctg acagacttct cgtgctcgct gaatgcggct
     1081 ttcagcatct cgccggtagt ctgctgctgc actttcgatt tctgctctaa gtccttcgcc
     1141 agcgttaaaa gactgttcat agatggctcc cttcagtcgg atgtttcgcc ccccgtccgg
     1201 gtcggcaatg ctgatgctgc tttttgtggt gcgaaccacc tcaaaacctg cgctttccag
     1261 cgcctcagtg acgtcctgac gcgttttcag ctccccggac gaggctaagg ccagtaaacc
     1321 ccgcgtaatc gcctgagcgg cttcctgctt cgtttccggc agcgcggacg gcgtgaccag
     1381 tgcccgccgg ttttccggcg cgttcgggtc gtgcagcccc agactgccgt tcacgatggt
     1441 ctgccaggca tcaatgcgag gacggtcggc gcggtcatag tatggctgga gccgtttgcc
     1501 ggtcagcagc tccgtgttcg ggatcaggaa gttcagctcc agccgcccct tgtcccggtg
     1561 ctcaacccac agcacgctgt actggtcttt atcgagtccg ggcatcagaa cccgctcgaa
     1621 gctcgccatc agcgtttcac gctgcccggg cggtaagtcc tgttcggcaa aggacagcac
     1681 cccggaggtg tactttttgg cgtagggcga ggcgtcgata agctcccgga cttcctccgg
     1741 cttcccctga agaacgctgg caccgtcgcg ctggcggtct ttccccagca gataatcaac
     1801 cgggccggca ccgcctccgc gtccccgggg atgaaactta acgatcatcg tcagcccctt
     1861 ttccagtacg gcatgccgca gccgctcgag tccggcatcg atggccatca gcgcggcgac
     1921 gacctgcacg cggtcgagac cgctactgcc accggcgtta acctggcggg caatctggtt
     1981 gaggttgttc cccatgccgg caagctgacg aagcagcgcc ggcgagatcg agggaagttt
     2041 gccggcccgg gcgggcttct cgtccaggca cgtctgccgc atccaggccg cgagctgttt
     2101 accgtcgcag cgttccagca gacggcggtg ctcatcttct gttacccaca tcgtgagcat
     2161 tttgctgcgt ttgtctgcca atccggcctc ctgataacgc cgggacgggc gggaaatctt
     2221 ttcccggtcg gcgcggtgtt gggcaagccg caggcgcgtc agtggcattt agcgggtttc
     2281 ggggcgcagc cctgaaccag tcacgtagcg ctagcggagt gtatactggc ttactatggt
     2341 ggcacgacgg gaatcgggat gaaatagtca gtcatgaaaa ctgtgagatg aggctcaggt
     2401 gcgtaagagg ctgatgcctg tcccggtgga tattccgctt cctcgctcac tgactcgcta
     2461 cgctcggtcg ttcggctgcg gcgagcggta cggactcacg gataaagacg tggcggggaa
     2521 atacgtgaat gcaggagggg aagaaaggat gcgccgctgc cggttttcca taggctccgc
     2581 ccccctgaca agcatcacag aatctgacgc tcaaatcagt ggtggcgaaa cccgatgcgg
     2641 cttaaagata ccaggcgttt ccccctgatg gctccctcgt gctcccccgc attcctgcct
     2701 ttcggtttac cggtgtcatt ccgctgttat ggccgcggtt tctcattcca cgcctgacac
     2761 tcagttccgc gaaggcagtt cgctccagga ttgactgtat gcacgaaccc cccgttcagt
     2821 ccgactgctg cgccttatcc ggtaactatc gtcttgagtc caacccggaa agacacgaaa
     2881 aatcgctact ggcagcagcc attagtaact ggaggtatac gagagacaaa ttaagaggtc
     2941 ttgaagtatg ggcctgagag aggctacact gaaagaacag ttttggtttc tgcggtctcg
     3001 tatacccagt tacctggtta agcagttccc caactgactt aaccttcgat caaaccacct
     3061 ccccaggtgg ttttttcgtt ttcagagcaa gagattacga ctgtaacgac aggatcacaa
     3121 gaagatcatt tactcagaga gactaactac cactatgttt gcctatcaac atacttagga
     3181 aacattactt gagttaacga ctccacctta cttttagtat ctcgcaatga atcttccgac
     3241 cgccgttgtg ttgaagttct attgcgccac cggggtataa atcactttcg tttaactcaa
     3301 ttaaaagctc gttcttgtga gcatcctcta aataaaggta ataacaccca ccataaaggt
     3361 tctgcgtatc tggcacggca acaaaagatt tctttccgaa cagtaaaaca gcctcttttt
     3421 ctccatgctc tgtcagcaat aatcgaaatt cttgtccatt caatcctctt ttcgcatgaa
     3481 aaaacgacct atacttagat ggttagtgac catatccact ttacctttaa gcagggaacc
     3541 tattatgaat aaaaaaacgc tgttggcggc catgatggtc gcgttggtga cctttgccgc
     3601 tgctggatgt tcttcaaacc aagaaataaa aaccacagat gatcgcacta tcgttacaga
     3661 cggcaaaccc aaagttgaca gtgatacggg attagtatcc tacaaagatg cccatacagg
     3721 ccgaaccgaa cagatcaacc gtgacaaaat taccaacatg agtgaactag acaactgata
     3781 cggataaaag gagctggctt tgaaaaagat ttttgtttca gtgttcgcag cggcagttgc
     3841 gctttcagcc ctaaccggct gcacgcgcac aagctatgcc atccacacca acgacgggcg
     3901 tacaattgtc agcgacggca agcctacaga atcagactca ggcctgctgg gctataaaga
     3961 cgcaaatggt gtcaaacagc agatcaataa agccgacgtt aaagaagtct ctgaaattcc
     4021 gcattgaggc atcgctctct ccgaaaaggg ccgctaatgc ggcccttttc tttatctgcc
     4081 ccaacaacag gcaaa
//
