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Escherichia coli strain 510572-21 510572-21#304, whole genome shotgun sequence

NCBI Reference Sequence: NZ_JBAFYA010000304.1

FASTA Graphics 

LOCUS       NZ_JBAFYA010000304      2168 bp    DNA     linear   CON 06-NOV-2024
DEFINITION  Escherichia coli strain 510572-21 510572-21#304, whole genome
            shotgun sequence.
ACCESSION   NZ_JBAFYA010000304 NZ_JBAFYA010000000
VERSION     NZ_JBAFYA010000304.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN38658769
            Assembly: GCF_044428905.1
KEYWORDS    WGS; RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria;
            Enterobacterales; Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2168)
  AUTHORS   Loncaric,I., Szostak,M.P., Cabal-Rosel,A., Grunzweil,O.M.,
            Riegelnegg,A., Misic,D., Muller,E., Fessler,A.T., Braun,S.D.,
            Schwarz,S., Monecke,S., Ehricht,R., Ruppitsch,W., Spergser,J.,
            Lewis,A., Bloom,P.H. and Saggese,M.D.
  TITLE     Molecular characterization, virulence and antimicrobial and
            biocidal susceptibility of selected bacteria isolated from the
            cloaca of nestling ospreys (Pandion haliaetus) from Mono Lake,
            California, USA
  JOURNAL   PLoS One 19 (9), e0311306 (2024)
   PUBMED   39331631
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2168)
  AUTHORS   Loncaric,I.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-DEC-2023) Department of Pathobiology, Institute of
            Microbiology, Veterinary University Vienna, Veterinaerplatz 1,
            Vienna 1210, Austria
COMMENT     REFSEQ INFORMATION: The reference sequence is identical to
            JBAFYA010000304.1.
            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        :: SPAdes v. 3.15.2
            Genome Representation  :: Full
            Expected Final Version :: Yes
            Genome Coverage        :: 47x
            Sequencing Technology  :: Illumina MiSeq
            ##Genome-Assembly-Data-END##
            
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_044428905.1-RS_2024_11_05
            Annotation Date                   :: 11/05/2024 14:04:33
            Annotation Pipeline               :: NCBI Prokaryotic Genome
                                                 Annotation Pipeline (PGAP)
            Annotation Method                 :: Best-placed reference protein
                                                 set; GeneMarkS-2+
            Annotation Software revision      :: 6.8
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,961
            CDSs (total)                      :: 4,826
            Genes (coding)                    :: 4,555
            CDSs (with protein)               :: 4,555
            Genes (RNA)                       :: 135
            rRNAs                             :: 8, 14, 17 (5S, 16S, 23S)
            complete rRNAs                    :: 6 (5S)
            partial rRNAs                     :: 2, 14, 17 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 271
            CDSs (without protein)            :: 271
            Pseudo Genes (ambiguous residues) :: 0 of 271
            Pseudo Genes (frameshifted)       :: 77 of 271
            Pseudo Genes (incomplete)         :: 204 of 271
            Pseudo Genes (internal stop)      :: 35 of 271
            Pseudo Genes (multiple problems)  :: 40 of 271
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..2168
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /submitter_seqid="510572-21#304"
                     /strain="510572-21"
                     /isolation_source="cloacal sample"
                     /host="Pandion haliaetus"
                     /db_xref="taxon:562"
                     /geo_loc_name="USA: California, Mono Lake"
                     /lat_lon="38.0128 N 118.9762 W"
                     /collection_date="2021-07"
                     /collected_by="Miguel D. Saggese & Peter H. Bloom"
     gene            66..1184
                     /gene="gmd"
                     /locus_tag="V5G90_RS23130"
                     /old_locus_tag="V5G90_23135"
     CDS             66..1184
                     /gene="gmd"
                     /locus_tag="V5G90_RS23130"
                     /old_locus_tag="V5G90_23135"
                     /EC_number="4.2.1.47"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000549035.1"
                     /GO_function="GO:0008446 - GDP-mannose 4,6-dehydratase
                     activity [Evidence IEA]"
                     /GO_process="GO:0019673 - GDP-mannose metabolic process
                     [Evidence IEA]; GO:0000271 - polysaccharide biosynthetic
                     process [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GDP-mannose 4,6-dehydratase"
                     /protein_id="WP_023147645.1"
                     /translation="MHKKALITGVTGQDGSYLAEFLLEKGYEVHGIKRRSSSFNTDRV
                     DHIYQDPHSFNPKFHLHYGDLSDTSNLTRLLSEIQPDEVYNLGAMSHVAVSFESPEYT
                     ADVDAIGTLRLLEAIRFLGLEKKTRFYQASTSELYGLVQEIPQKETTPFYPRSPYAVA
                     KLYAYWITVNYRESYGMYACNGILFNHESPRRGETFVTRKITRGLSNIAQGLEKCLYL
                     GNMDSLRDWGHAKDYVKMQWLMLQQEQPEDYVIATGVQYSVRQFVDFAASELGIKLRF
                     EGHGVDEVGIVESVSGEDAPAVKVGDIIVAVDPRYFRPAEVETLLGDPSKAHDKLGWK
                     PETTLQEMVVEMVRKDLEAAKKHSLLKSHGYEVSISLE"
     gene            1188..2156
                     /locus_tag="V5G90_RS23135"
                     /old_locus_tag="V5G90_23140"
     CDS             1188..2156
                     /locus_tag="V5G90_RS23135"
                     /old_locus_tag="V5G90_23140"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016244813.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GDP-L-fucose synthase"
                     /protein_id="WP_000152895.1"
                     /translation="MTIKKRVFVAGHNGMVGSAIVRQLKNRDDIELVLRSRQELNLLN
                     AQDVNNFFANERIDEVYLAAAKVGGIVANNTYPADFIYENILIEANIIHAAHVNDVYK
                     LMFLGSSCIYPKYAKQPISESELLQGTLESTNEPYAIAKIAGIKLCESYNRQYNRDYR
                     SVMPTNLYGENDNFHPSNSHVIPALLRRFHEAKLEGLPQVVVWGSGTPMREFLHVDDM
                     AAASIYVMELDKALWQEQTQPMLSHINVGTGVDCSIKELAETISKVVGYQGEVVFDSA
                     KPDGTPRKLLDVSRLEGLGWKYQINLEAGLARTYDWFLKNQKSFRS"
CONTIG      join(JBAFYA010000304.1:1..2168)
//
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