LOCUS NZ_JBAFYC010000132 5325 bp DNA linear CON 06-NOV-2024
DEFINITION Citrobacter braakii strain 510570-21 510570-21_#132, whole genome
shotgun sequence.
ACCESSION NZ_JBAFYC010000132 NZ_JBAFYC010000000
VERSION NZ_JBAFYC010000132.1
DBLINK BioProject: PRJNA224116
BioSample: SAMN38658767
Assembly: GCF_044428915.1
KEYWORDS WGS; RefSeq.
SOURCE Citrobacter braakii
ORGANISM Citrobacter braakii
Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria;
Enterobacterales; Enterobacteriaceae; Citrobacter; Citrobacter
freundii complex.
REFERENCE 1 (bases 1 to 5325)
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 5325)
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
JBAFYC010000132.1.
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 :: 71x
Sequencing Technology :: Illumina MiSeq
##Genome-Assembly-Data-END##
##Genome-Annotation-Data-START##
Annotation Provider :: NCBI RefSeq
Annotation Name :: GCF_044428915.1-RS_2024_11_05
Annotation Date :: 11/05/2024 14:10:15
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) :: 5,079
CDSs (total) :: 4,960
Genes (coding) :: 4,690
CDSs (with protein) :: 4,690
Genes (RNA) :: 119
rRNAs :: 7, 8, 10 (5S, 16S, 23S)
complete rRNAs :: 6 (5S)
partial rRNAs :: 1, 8, 10 (5S, 16S, 23S)
tRNAs :: 86
ncRNAs :: 8
Pseudo Genes (total) :: 270
CDSs (without protein) :: 270
Pseudo Genes (ambiguous residues) :: 0 of 270
Pseudo Genes (frameshifted) :: 27 of 270
Pseudo Genes (incomplete) :: 245 of 270
Pseudo Genes (internal stop) :: 15 of 270
Pseudo Genes (multiple problems) :: 16 of 270
##Genome-Annotation-Data-END##
FEATURES Location/Qualifiers
source 1..5325
/organism="Citrobacter braakii"
/mol_type="genomic DNA"
/submitter_seqid="510570-21_#132"
/strain="510570-21"
/isolation_source="cloacal sample"
/host="Pandion haliaetus"
/db_xref="taxon:57706"
/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 <1..904
/gene="mdoC"
/locus_tag="V5G94_RS23495"
/old_locus_tag="V5G94_23465"
CDS <1..904
/gene="mdoC"
/locus_tag="V5G94_RS23495"
/old_locus_tag="V5G94_23465"
/inference="COORDINATES: similar to AA
sequence:RefSeq:WP_016149914.1"
/GO_function="GO:0016740 - transferase activity [Evidence
IEA]"
/note="Derived by automated computational analysis using
gene prediction method: Protein Homology."
/codon_start=2
/transl_table=11
/product="glucans biosynthesis protein MdoC"
/protein_id="WP_396070531.1"
/translation="RVERVGIPMLTAIPLLTLPQFIMLQYVKGKADSWHTLSGYDKYN
ALAWELISHLWFLLVLVVLTTVSMWMFTQMKNRLTRSDAASAPAVSMTKLSLIFILLG
VGYAAVRRTIFILYPSILSDGMFNFIVMQTLFYAPFFILGALAFINPNLKALFTTPSR
GCTLGAAFAFVAYLLNQRYGNGDAWMYETEYVITMVMGLWMVNVVFSLGHRLLNFQSA
RVTYFVNASLFIYLVHHPLTLFFGAYITPHITSNLLGFLCGLLFVVGIAVILYEIHLR
IPVLKFLFSGKPPVKQDKNKAVAG"
gene complement(929..2368)
/locus_tag="V5G94_RS23500"
/old_locus_tag="V5G94_23470"
CDS complement(929..2368)
/locus_tag="V5G94_RS23500"
/old_locus_tag="V5G94_23470"
/inference="COORDINATES: similar to AA
sequence:RefSeq:NP_460119.3"
/note="Derived by automated computational analysis using
gene prediction method: Protein Homology."
/codon_start=1
/transl_table=11
/product="phospholipase D family protein"
/protein_id="WP_152903216.1"
/translation="MITRTDMTRLERAITPLCEDHPGECGILALDDSLDAFAARYRLT
EMAERTLDVQYYIWENDMSGLLLFSVLLAAAKRGVRVRLLLDDNNTPGLDDTLRLLDK
HPNIEVRLFNPFSFRILRALGYLTDFARLNRRMHNKSYTADGVVTLVGGRNIGDAYFG
AGEQPLFSDLDVMAIGPVVKDVADDFERYWHCRSVSTLQNVLEMSEPDSVQRIELPES
WYNDDITRRYLHKLETSQFMSSLDQRSLPLIWAKTRLLSDDPAKGEGKAPRHSLLPQR
LFDVMGSPTERIDIISAYFVPTRAGVAQLLRLVRKGVKIAILTNSLAANDVAIVHAGY
ARWRKKLLRYGVELYELKPTRDRVSVVHDRGLTGNSGSSLHAKTFSIDDRKVFIGSLN
FDPRSTLLNTEMGFVIESEVLAELIHKRFMQSQRDMAWQLRLDRWGRINWVDRLSGSE
QVLKKEPATGFWKRVLVKLASVLPIEWLL"
gene complement(2352..2894)
/gene="ymdB"
/locus_tag="V5G94_RS23505"
/old_locus_tag="V5G94_23475"
CDS complement(2352..2894)
/gene="ymdB"
/locus_tag="V5G94_RS23505"
/old_locus_tag="V5G94_23475"
/EC_number="3.1.1.106"
/inference="COORDINATES: similar to AA
sequence:RefSeq:WP_003832103.1"
/GO_function="GO:0003824 - catalytic activity [Evidence
IEA]"
/note="Derived by automated computational analysis using
gene prediction method: Protein Homology."
/codon_start=1
/transl_table=11
/product="O-acetyl-ADP-ribose deacetylase"
/protein_id="WP_101699915.1"
/translation="MQSRVHVLHGDITTVAVDVIVNAANSSLLGGGGVDGAIHRAAGP
ALLEACKQVIQQQGECPTGHAVITLAGALAAKAVIHTVGPVWQGGGHHEAERLEEAYL
NTLQLALANGYHSIAFPAISTGAYGYPRAAAAEIAVKTVLKFITRRALPDQIYLVCFD
DENAQLYKRLLTQQGDDHTD"
gene complement(2995..3315)
/locus_tag="V5G94_RS23510"
/old_locus_tag="V5G94_23480"
CDS complement(2995..3315)
/locus_tag="V5G94_RS23510"
/old_locus_tag="V5G94_23480"
/inference="COORDINATES: similar to AA
sequence:RefSeq:WP_016149911.1"
/note="Derived by automated computational analysis using
gene prediction method: Protein Homology."
/codon_start=1
/transl_table=11
/product="type 1 fimbrial protein"
/protein_id="WP_016152603.1"
/translation="MCTLLKRILSTSLCAFSLLTLPAIAQQITTGGVIHFRGAIVESP
CDVNRQQQQIELSCIRNGTNQNSLYNPQQLATAPQNVQEIATVKMHYLNEQKNMAILN
IEYK"
gene complement(3467..3799)
/gene="csgC"
/locus_tag="V5G94_RS23515"
/old_locus_tag="V5G94_23485"
CDS complement(3467..3799)
/gene="csgC"
/locus_tag="V5G94_RS23515"
/old_locus_tag="V5G94_23485"
/inference="COORDINATES: similar to AA
sequence:RefSeq:WP_003832099.1"
/note="Derived by automated computational analysis using
gene prediction method: Protein Homology."
/codon_start=1
/transl_table=11
/product="curli assembly chaperone CsgC"
/protein_id="WP_016152602.1"
/translation="MHTLLLIAALANQITFNTTQQGDMYTIIPQVTLTQPCVCEVQVL
AIRKGQGGQSQSQQKISLSVPANRPIELTKLSFNISSEDSVKIIVTVSDGQSLHLSQQ
WPDSNSHP"
gene complement(3861..4310)
/gene="csgA"
/locus_tag="V5G94_RS23520"
/old_locus_tag="V5G94_23490"
CDS complement(3861..4310)
/gene="csgA"
/locus_tag="V5G94_RS23520"
/old_locus_tag="V5G94_23490"
/inference="COORDINATES: similar to AA
sequence:RefSeq:NP_460115.1"
/note="Derived by automated computational analysis using
gene prediction method: Protein Homology."
/codon_start=1
/transl_table=11
/product="curli major subunit CsgA"
/protein_id="WP_006685125.1"
/translation="MKLLKVAAFAAIVVSGSALAGVVPQWGGNHHGGGSNYGPDSSLS
IYQYGSNNAANALQSDARKSDVTITQHGRGNGAVVGQGADDSTISLKQTGFQNNATID
QWNAKNADISVTQFGGRNGALVNQTASDSNVLIQQVGFGNNATANQH"
gene complement(4351..4806)
/gene="csgB"
/locus_tag="V5G94_RS23525"
/old_locus_tag="V5G94_23495"
CDS complement(4351..4806)
/gene="csgB"
/locus_tag="V5G94_RS23525"
/old_locus_tag="V5G94_23495"
/inference="COORDINATES: similar to AA
sequence:RefSeq:NP_706951.2"
/note="Derived by automated computational analysis using
gene prediction method: Protein Homology."
/codon_start=1
/transl_table=11
/product="curli minor subunit CsgB"
/protein_id="WP_101699914.1"
/translation="MKNKLLFMMFTMLGVPGIASATSYDLANSEYNFAVNELSKSSFN
QAAIIGQVGTANSANTRQGGSKLLSVISQEGSGNRAKTDQTGSYNFAYIDQTGSSNDA
SIKQGSYGNTAVIIQKGSGNKANITQYGTQKTAVVVQRQSHMAIRVTQR"
CONTIG join(JBAFYC010000132.1:1..5325)
//