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Staphylococcus aureus VET0063R adZEl-supercont1.39, whole genome shotgun sequence

NCBI Reference Sequence: NZ_KK227024.1

FASTA Graphics 

LOCUS       NZ_KK227024             3873 bp    DNA     linear   CON 05-NOV-2023
DEFINITION  Staphylococcus aureus VET0063R adZEl-supercont1.39, whole genome
            shotgun sequence.
ACCESSION   NZ_KK227024 NZ_JIUU01000000
VERSION     NZ_KK227024.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN02403985
            Assembly: GCF_000640735.1
KEYWORDS    WGS; RefSeq.
SOURCE      Staphylococcus aureus VET0063R
  ORGANISM  Staphylococcus aureus VET0063R
            Bacteria; Bacillati; Bacillota; Bacilli; Bacillales;
            Staphylococcaceae; Staphylococcus.
REFERENCE   1  (bases 1 to 3873)
  AUTHORS   Feldgarden,M., Price,L., Nordstrom,L., Larsen,J.,
            Contente-Cuomo,T., Andersen,P., Young,S., Zeng,Q., Gargeya,S.,
            Abouelleil,A., Alvarado,L., Chapman,S.B., Gainer-Dewar,J.,
            Goldberg,J., Griggs,A., Gujja,S., Hansen,M., Howarth,C.,
            Imamovic,A., Larimer,J., Murphy,C., Naylor,J., Pearson,M.,
            Poon,T.W., Priest,M., Roberts,A., Saif,S., Shea,T., Sykes,S.,
            Wortman,J., Nusbaum,C. and Birren,B.
  CONSRTM   The Broad Institute Genomics Platform, The Broad Institute Genome
            Sequencing Center for Infectious Disease
  TITLE     The Genome Sequence of Staphylococcus aureus VET0063R
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3873)
  AUTHORS   Feldgarden,M., Price,L., Nordstrom,L., Larsen,J.,
            Contente-Cuomo,T., Andersen,P., Young,S., Zeng,Q., Gargeya,S.,
            Abouelleil,A., Alvarado,L., Chapman,S.B., Gainer-Dewar,J.,
            Goldberg,J., Griggs,A., Gujja,S., Hansen,M., Howarth,C.,
            Imamovic,A., Larimer,J., Murphy,C., Naylor,J., Pearson,M.,
            Poon,T.W., Priest,M., Roberts,A., Saif,S., Shea,T., Sykes,S.,
            Wortman,J., Nusbaum,C. and Birren,B.
  CONSRTM   The Broad Institute Genomics Platform, The Broad Institute Genome
            Sequencing Center for Infectious Disease
  TITLE     Direct Submission
  JOURNAL   Submitted (07-APR-2014) Broad Institute of MIT and Harvard, 7
            Cambridge Center, Cambridge, MA 02142, USA
COMMENT     REFSEQ INFORMATION: The reference sequence is identical to
            KK227024.1.
            Please be aware that the annotation is done automatically with
            little or no manual curation.
            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       :: allpaths v. R48559
            Assembly Name         :: Stap_aure_VET0063R_V1
            Genome Coverage       :: 84.0x
            Sequencing Technology :: Illumina
            ##Genome-Assembly-Data-END##
            
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/05/2023 01:25:16
            Annotation Pipeline               :: NCBI Prokaryotic Genome
                                                 Annotation Pipeline (PGAP)
            Annotation Method                 :: Best-placed reference protein
                                                 set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,850
            CDSs (total)                      :: 2,784
            Genes (coding)                    :: 2,677
            CDSs (with protein)               :: 2,677
            Genes (RNA)                       :: 66
            rRNAs                             :: 5, 4, 4 (5S, 16S, 23S)
            complete rRNAs                    :: 5, 1, 2 (5S, 16S, 23S)
            partial rRNAs                     :: 3, 2 (16S, 23S)
            tRNAs                             :: 49
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 107
            CDSs (without protein)            :: 107
            Pseudo Genes (ambiguous residues) :: 0 of 107
            Pseudo Genes (frameshifted)       :: 47 of 107
            Pseudo Genes (incomplete)         :: 54 of 107
            Pseudo Genes (internal stop)      :: 28 of 107
            Pseudo Genes (multiple problems)  :: 18 of 107
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..3873
                     /organism="Staphylococcus aureus VET0063R"
                     /mol_type="genomic DNA"
                     /submitter_seqid="adZEl-supercont1.39"
                     /strain="VET0063R"
                     /host="Homo sapiens"
                     /db_xref="taxon:1422402"
                     /geo_loc_name="Netherlands"
                     /collection_date="2008-08-21"
     gene            complement(<1..2327)
                     /locus_tag="W401_RS17350"
                     /old_locus_tag="W401_02704"
     CDS             complement(<1..2327)
                     /locus_tag="W401_RS17350"
                     /old_locus_tag="W401_02704"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001566815.1"
                     /GO_process="GO:0007155 - cell adhesion [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="fibrinogen-binding adhesin SdrG C-terminal
                     domain-containing protein"
                     /protein_id="WP_078098863.1"
                     /translation="MKSNLRYGIRKHKLGAASVFLGTMIVVGMGQEKEAAASEQNNTT
                     VEESGNSATESKASETQTTTNNVNTIDETQSYSATSTEQPSQSTQVTTEEAPTTVQAP
                     KAETSRVDLPSEKAADKGIVGTQVDTTQPSNVSEIKPRMKRSADVTAASEKEVVEEAK
                     VTGTDVTSKVKVEEGSEIVGHNNKETNVVNPHNAERVTLKYKWKFEDGIKPGDYFDFT
                     LSNNVETHGISPLRKVPDIKSKDGQVMAVGEVNEERKIRYTFKEYVQGKKDLKAELDL
                     NLFIDPTTVTKRGNQNIEVTLGEKKISKQFDIKYLDGVKDNWGVTVNGRIHTLNKQEG
                     RFSHFAYVKPNNQSLTSVTVTGQVTSGYKQNAKNPTVKVYKHIGSDELAESVYGDVLD
                     ETKFEDVTDKLSLTLTGNGGYTLDFSELDKTKNYVIKYEGDYNSSASDLNFQTKLSGY
                     HNYYYSYYPVQLTWNNGVAFYSNNAQGDGKDKPKEPIIEHSTPIELEFKSEPPMEKHE
                     LTGTVEESDDSKPIDFEYHTAVEGAEGHAEGTIETEEDSIHVDFEESTHENSKHHADV
                     VEYEEDTNPGGGQVTTESNLVEFDEESTKGIVTGAVSDHTTVEDTKEYTTESNLIELV
                     DELPEEHGQAQGPIEEITENNHHISHSGLGTENGHGNYGVIDEIEENSHVDIKSELGY
                     EGGQNSGNQSFEEDTEEDKPKYEQGGNIVDIDFDSVPQIHGQNNGNQSFEEDTEEDKP
                     KYEQGGNIIDIDFDSVPQIHGFNKHNEIIEEDTNK"
     gene            complement(3007..>3873)
                     /gene="fnbA"
                     /locus_tag="W401_RS17355"
                     /old_locus_tag="W401_02705"
                     /pseudo
     CDS             complement(3007..>3873)
                     /gene="fnbA"
                     /locus_tag="W401_RS17355"
                     /old_locus_tag="W401_02705"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000794614.1"
                     /note="incomplete; too short partial abutting assembly
                     gap; missing N-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="fibronectin-binding protein FnbA"
CONTIG      join(JIUU01000042.1:1..3873)
//
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