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Xenorhabdus szentirmaii strain 38 WTCHG_223154_283_1_contig_142, whole genome shotgun sequence

NCBI Reference Sequence: NZ_JACXBK010000142.1

FASTA Graphics 

LOCUS       NZ_JACXBK010000142      6265 bp    DNA     linear   CON 15-DEC-2024
DEFINITION  Xenorhabdus szentirmaii strain 38 WTCHG_223154_283_1_contig_142,
            whole genome shotgun sequence.
ACCESSION   NZ_JACXBK010000142 NZ_JACXBK010000000
VERSION     NZ_JACXBK010000142.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16091688
            Assembly: GCF_014697795.1
KEYWORDS    WGS; RefSeq.
SOURCE      Xenorhabdus szentirmaii
  ORGANISM  Xenorhabdus szentirmaii
            Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria;
            Enterobacterales; Morganellaceae; Xenorhabdus.
REFERENCE   1  (bases 1 to 6265)
  AUTHORS   Palma,L., Frizzo,L., Kaiser,S., Berry,C., Caballero,P., Bode,H.B.
            and Del Valle,E.E.
  TITLE     Genome Sequence Analysis of Native Xenorhabdus Strains Isolated
            from Entomopathogenic Nematodes in Argentina
  JOURNAL   Toxins (Basel) 16 (2), 108 (2024)
  REMARK    DOI: 10.3390/toxins16020108
REFERENCE   2  (bases 1 to 6265)
  AUTHORS   Palma,L., Caballero,P., Berry,C. and Del Valle,E.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-SEP-2020) Centro de Investigaciones y Transferencias,
            Centro de Investigaciones y Transferencias, Universidad Nacional de
            Villa Maria (CIT-CONICET), Av. Arturo Jauretche 1555, Villa Maria,
            Cordoba 5900, Argentina
COMMENT     REFSEQ INFORMATION: The reference sequence is identical to
            JACXBK010000142.1.
            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/
            
            ##Genome-Assembly-Data-START##
            Assembly Method        :: Velvet v. 1
            Genome Representation  :: Full
            Expected Final Version :: No
            Genome Coverage        :: 20 x
            Sequencing Technology  :: Illumina
            ##Genome-Assembly-Data-END##
            
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_014697795.1-RS_2024_12_14
            Annotation Date                   :: 12/14/2024 03:58:16
            Annotation Pipeline               :: NCBI Prokaryotic Genome
                                                 Annotation Pipeline (PGAP)
            Annotation Method                 :: Best-placed reference protein
                                                 set; GeneMarkS-2+
            Annotation Software revision      :: 6.9
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,378
            CDSs (total)                      :: 4,321
            Genes (coding)                    :: 4,113
            CDSs (with protein)               :: 4,113
            Genes (RNA)                       :: 57
            rRNAs                             :: 2, 6 (16S, 23S)
            complete rRNAs                    :: 1, 1 (16S, 23S)
            partial rRNAs                     :: 1, 5 (16S, 23S)
            tRNAs                             :: 45
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 208
            CDSs (without protein)            :: 208
            Pseudo Genes (ambiguous residues) :: 0 of 208
            Pseudo Genes (frameshifted)       :: 59 of 208
            Pseudo Genes (incomplete)         :: 143 of 208
            Pseudo Genes (internal stop)      :: 53 of 208
            Pseudo Genes (multiple problems)  :: 41 of 208
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..6265
                     /organism="Xenorhabdus szentirmaii"
                     /mol_type="genomic DNA"
                     /submitter_seqid="WTCHG_223154_283_1_contig_142"
                     /strain="38"
                     /isolation_source="soil"
                     /host="nematode"
                     /db_xref="taxon:290112"
                     /geo_loc_name="Argentina"
                     /collection_date="01-Jan-2014"
     gene            41..1303
                     /locus_tag="ID859_RS20005"
                     /old_locus_tag="ID859_19730"
                     /pseudo
     CDS             41..1303
                     /locus_tag="ID859_RS20005"
                     /old_locus_tag="ID859_19730"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012989088.1"
                     /note="internal stop; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="tyrosine-type recombinase/integrase"
     gene            1450..1938
                     /locus_tag="ID859_RS20010"
                     /old_locus_tag="ID859_19735"
     CDS             1450..1938
                     /locus_tag="ID859_RS20010"
                     /old_locus_tag="ID859_19735"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001519848.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_323861247.1"
                     /translation="MITINEIKEEAFKFRHLLENCDKSKTELVLECFPVMSCTLSSML
                     LSYHFLKLWPELELKGVRAATGKNNEITHYWLEIGDVVIDITGDQYNIINAKELNREI
                     VLSRPFTSVHISYQKKSYLYKLFKVQEKECFVYGFPTIEEDFIEEMELSYSQLLNQTK
                     CT"
     gene            2516..2725
                     /locus_tag="ID859_RS20015"
                     /old_locus_tag="ID859_19740"
     CDS             2516..2725
                     /locus_tag="ID859_RS20015"
                     /old_locus_tag="ID859_19740"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012989072.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="AlpA family transcriptional regulator"
                     /protein_id="WP_323861248.1"
                     /translation="MPAITTSKESLIRLPEVQRRTGYSKAWIYRLIKEDKFPKQVKIG
                     PRSVAFVESEIDGWVDQRIAESRGI"
     gene            complement(2798..2977)
                     /locus_tag="ID859_RS20020"
                     /old_locus_tag="ID859_19745"
     CDS             complement(2798..2977)
                     /locus_tag="ID859_RS20020"
                     /old_locus_tag="ID859_19745"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013185561.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_092514019.1"
                     /translation="MSTHKNIRRGNPPFQFRLDPELRELMEIAQAQDGDESLAAWIKR
                     LIRKELQSRGIESNP"
     gene            3110..5884
                     /locus_tag="ID859_RS20025"
                     /old_locus_tag="ID859_19750"
     CDS             3110..5884
                     /locus_tag="ID859_RS20025"
                     /old_locus_tag="ID859_19750"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013185393.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF927 domain-containing protein"
                     /protein_id="WP_323861249.1"
                     /translation="MADTQHNQTRLKFTSLDKSGSQKPLEFIQTVKQSAMYHWEKLLP
                     ACGIDIPAKDKHGACPICGGTDRFQFIDDHHHGNWHCRQCDVPNYGDGLDLVAKTKGI
                     SITEAAKIVADVLALPLPEPKPARKTIQTTQSIADRVAALMAQTIAGQSPYLTTKGLH
                     CSNQRLQSDNSAVLRLVTLDGKVTGAQIIKPNGEKKLLTGSQKKGAFIALSALEDNPD
                     TVIITEGYATALTASQLCEEAVLAALDAGNLISVAQSVRKRWPDTKIIIAADNDWHHP
                     DELDKSGKPKANIGKISAEKVAVAVNGWITLPPTEHKADWDDYRQQYGIEAAKQAFNN
                     GLYQVGDKVTVSKSAVGHSDECREKDSDPFKPHIDIRNTGIYWVEPKEQGGEIVEVEK
                     WLSDYMEIVGIGNDGSEGYLIIKLRQEGTGKYIVEALPRREIGMPVGWARLRSRGMNI
                     TVKNSLLPILAEHLQRSGDRREWVVTQKEGWHCGAYVMPDGEIIGQPYMPVAFSGGTS
                     AIAGYVVRGSAEQWKTHVASLMKGNRSMMLGVLVGLAAPLNSLTGGSCFGVHLFAQSS
                     AGKTTTVEAASSLYGDPEELKLSWHGTNHGLNNEAAARNDGFMPIDEIGQSSNPKEVA
                     NSAYSLFNGVGKIQGKREGGNRAVIRWKIAALSTGEEDLETFLIKGGITPKAGQLVRL
                     LSVPFIDTEFFNGYEDGDSHARAIKRESKRYCGAAGREWILWLSEHQEQAIELTTRKE
                     KEWLDSLPEEASAQVKRVAVRFALLDATGELVTHITGWGREACHTAIKQSFDDWLADF
                     GIGNREKYQVITRARDFIQKYGLSRFQPYTYGRPNGDIDTAHAMRINGLAGYLVHNRR
                     DDGLVEYHIIPSVFEGEILQGLQKKTAFEALEEAGMLIKTEKDRFISKTISVNGTQGR
                     FVVLIFRDED"
CONTIG      join(JACXBK010000142.1:1..6265)
//
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