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Citrobacter braakii strain 510570-21 510570-21_#132, whole genome shotgun sequence

NCBI Reference Sequence: NZ_JBAFYC010000132.1

FASTA Graphics 

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)
//
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