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GenBank: ABJSQW000000000.1
LOCUS ABJSQW010000000 46 rc DNA linear BCT 08-DEC-2022 DEFINITION Staphylococcus pseudintermedius strain SPSE-22-VL-SD-NC-0024 isolate Canis lupus familiaris, whole genome shotgun sequencing project. ACCESSION ABJSQW000000000 VERSION ABJSQW000000000.1 DBLINK BioProject: PRJNA318594 BioSample: SAMN32112164 Sequence Read Archive: SRR22575679 KEYWORDS WGS. SOURCE Staphylococcus pseudintermedius ORGANISM Staphylococcus pseudintermedius Bacteria; Bacillati; Bacillota; Bacilli; Bacillales; Staphylococcaceae; Staphylococcus; Staphylococcus intermedius group. REFERENCE 1 (bases 1 to 46) CONSRTM Veterinary Laboratory Investigation and Response Network TITLE Direct Submission JOURNAL Submitted (08-DEC-2022) Center for Veterinary Medicine, US Food and Drug Administration, 8401 Muirkirk Rd, Laurel, MD, USA COMMENT The Staphylococcus pseudintermedius whole genome shotgun (WGS) project has the project accession ABJSQW000000000. This version of the project (01) has the accession number ABJSQW010000000, and consists of sequences ABJSQW010000001-ABJSQW010000046. The annotation was added by the assembly submitters using the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about stand-alone PGAP can be found here: https://github.com/ncbi/pgap/ This draft WGS assembly was generated by running SKESA to generate a de-novo assembly. The de-novo assembly was then concatenated with contigs generated using a guided assembler using antimicrobial resistance genes as baits to comprehensively catalog the set of resistance genes in the isolate. Note, some parts of the contigs derived from the guided assembler may overlap de-novo contigs, and other guided assembler contigs. De-novo contigs can be differentiated from guided assembler contigs by their names , which include either 'denovo' or 'guided'. ##Genome-Assembly-Data-START## Assembly Date :: 08-DEC-2022 Assembly Method :: SKESA v. 2.2 Assembly Name :: PDT001517158.1 Long Assembly Name :: NCBI Pathogen Detection Assembly PDT001517158.1 Genome Coverage :: 329x Sequencing Technology :: ILLUMINA ##Genome-Assembly-Data-END## ##Genome-Annotation-Data-START## Annotation Date :: 12/08/2022 21:10:58 Annotation Method :: Best-placed reference protein set; GeneMarkS-2+ Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Provider :: NCBI Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Annotation Software revision :: 2021-01-11.build5132 Genes (total) :: 2,430 CDSs (total) :: 2,363 Genes (coding) :: 2,315 CDSs (with protein) :: 2,315 Genes (RNA) :: 67 rRNAs :: 2, 2, 2 (5S, 16S, 23S) complete rRNAs :: 2 (5S) partial rRNAs :: 2, 2 (16S, 23S) tRNAs :: 56 ncRNAs :: 5 Pseudo Genes (total) :: 48 CDSs (without protein) :: 48 Pseudo Genes (ambiguous residues) :: 0 of 48 Pseudo Genes (frameshifted) :: 24 of 48 Pseudo Genes (incomplete) :: 22 of 48 Pseudo Genes (internal stop) :: 12 of 48 Pseudo Genes (multiple problems) :: 9 of 48 ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..46 /organism="Staphylococcus pseudintermedius" /mol_type="genomic DNA" /strain="SPSE-22-VL-SD-NC-0024" /isolate="Canis lupus familiaris" /isolation_source="Urine (Canis lupus familiaris)" /db_xref="taxon:283734" /geo_loc_name="USA: NC" /collection_date="2022-06-06" /collected_by="NCSU" WGS ABJSQW010000001-ABJSQW010000046 //
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