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GenBank: ABUUXZ000000000.1
LOCUS ABUUXZ010000000 190 rc DNA linear BCT 23-SEP-2024 DEFINITION Escherichia coli O157:H7 strain MJ924-1, whole genome shotgun sequencing project. ACCESSION ABUUXZ000000000 VERSION ABUUXZ000000000.1 DBLINK BioProject: PRJNA230969 BioSample: SAMN42094905 Sequence Read Archive: SRR29572022 KEYWORDS WGS. SOURCE Escherichia coli O157:H7 ORGANISM Escherichia coli O157:H7 Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia. REFERENCE 1 (bases 1 to 190) CONSRTM GenomeTrakr network: Whole genome sequencing for foodborne pathogen traceback TITLE Direct Submission JOURNAL Submitted (19-SEP-2024) Center for Food Safety and Applied Nutrition, US Food and Drug Administration, 5100 Paint Branch Pkwy, College Park, MD, USA COMMENT The Escherichia coli O157:H7 whole genome shotgun (WGS) project has the project accession ABUUXZ000000000. This version of the project (01) has the accession number ABUUXZ010000000, and consists of sequences ABUUXZ010000001-ABUUXZ010000190. 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 :: 19-SEP-2024 Assembly Method :: SKESA v. 2.2 Assembly Name :: PDT002388277.1 Long Assembly Name :: NCBI Pathogen Detection Assembly PDT002388277.1 Genome Coverage :: 115x Sequencing Technology :: ILLUMINA ##Genome-Assembly-Data-END## ##Genome-Annotation-Data-START## Annotation Date :: 09/23/2024 21:05:16 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 Annotation Software revision :: 2024-07-18.build7555 Genes (total) :: 5,595 CDSs (total) :: 5,498 Genes (coding) :: 5,230 CDSs (with protein) :: 5,230 Genes (RNA) :: 97 rRNAs :: 1, 1, 2 (5S, 16S, 23S) complete rRNAs :: 1 (5S) partial rRNAs :: 1, 2 (16S, 23S) tRNAs :: 85 ncRNAs :: 8 Pseudo Genes (total) :: 268 CDSs (without protein) :: 268 Pseudo Genes (ambiguous residues) :: 0 of 268 Pseudo Genes (frameshifted) :: 110 of 268 Pseudo Genes (incomplete) :: 137 of 268 Pseudo Genes (internal stop) :: 72 of 268 Pseudo Genes (multiple problems) :: 41 of 268 CRISPR Arrays :: 1 ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..190 /organism="Escherichia coli O157:H7" /mol_type="genomic DNA" /strain="MJ924-1" /isolation_source="bovine manure" /db_xref="taxon:83334" /geo_loc_name="USA: AZ" /collection_date="2014-01-06" /collected_by="Western Center for Food Safety (WCFS)" WGS ABUUXZ010000001-ABUUXZ010000190 //
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