AOAC SPADA Meeting

EDGE Bioinformatics Pipeline • Developed by LANL and Navy • Quality trim and filter • Host removal • Map reads to reference • Assembly • Contig‐based taxonomy  classification • MetaPhlAn • Kraken mini • Phylogenetic analysis

• Reads‐based taxonomy classification • GOTTCHA bacterial and viral • BWA

• Result reported from consensus of  BWA, Kraken mini, and contig‐based

Validation Results

• 15/16 organisms correctly identified • Inter‐assay repeatability was 100% • Intra‐assay reproducibility was 100%

Accuracy of  Platform (%)

UCC Number

Reference Sequence ID

EDGE Result

BACI002 BACI229 BACI232 BRUC106 BRUC076 BURK109 FRAN002 FRAN004 YERS086 YERS114 ACIN001 BACI012 STAP014 PSEU001 SALM001 BURK001

Bacillus anthracis

Bacillus anthracis

100

Bacillus thuringiensis

Bacillus thuringiensis

99.82

Bacillus cereus Brucella abortus Brucella canis

Bacillus cereus Brucella abortus Brucella canis

100 100 100 100 100 100 100 100 100 100 100 100 100

Burkholderia thailandensis Francisella philomiragia

Burkholderia thailandensis Francisella philomiragia

Francisella tularensis

Francisella tularensis

Yersinia pseudotuberculosis Yersinia pseudotuberculosis

Yersinia pestis

Yersinia pestis

Acinetobacter baumannii

Acinetobacter baumannii

Bacillus anthracis

Bacillus anthracis

Staphylococcus aureus

Staphylococcus aureus

Pseudomonas aeruginosa Pseudomonas aeruginosa

Salmonella enteritidis Burkholderia cepacia

Salmonella enteritidis

Burkholderia lata

99.98