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)
//