Illumina Respiratory Pathogen ID/AMR Panel • Identify COVID-19 and determine viral variants and lineages Analysis powered by • Detect both DNA- and RNA-based respiratory pathogens simultaneously • Report full genome coverage of SARS-CoV-2 and Influenza A/B viruses • Profile Antimicrobial resistance (AMR) gene expression concurrently BACTERIA Achromobacter Elizabethkingia Bartonella henselae Cardiobacterium hominis Haemophilus influenzae Mycobacterium gordonae denitrificans meningoseptica Achromobacter Enterobacter cloacae Haemophilus Bartonella quintana Cardiobacterium valvarum Mycobacterium kansasii xylosoxidans complex parahaemolyticus Haemophilus Mycobacterium Acinetobacter baumannii Bordetella bronchiseptica Chlamydia pneumoniae Enterococcus faecalis parainfluenzae malmoense Mycobacterium Acinetobacter lwoffii Bordetella hinzii Chlamydia psittaci Enterococcus faecium Haemophilus pittmaniae parascrofulaceum Acinetobacter Mycobacterium Bordetella holmesii Chlamydia trachomatis Escherichia coli Hafnia alvei nosocomialis scrofulaceum Chromobacterium Acinetobacter pittii Bordetella parapertussis Eubacterium brachy Klebsiella variicola Mycobacterium szulgai violaceum Mycobacterium Actinomyces graevenitzii Bordetella pertussis Citrobacter freundii Eubacterium limosum Kytococcus sedentarius tuberculosis Actinomyces israelii Bordetella petrii Citrobacter koseri Eubacterium nodatum Leclercia adecarboxylata Mycobacterium xenopi Mycobacteroides Corynebacterium abscessus Actinomyces meyeri Brucella abortus Finegoldia magna Legionella anisa diphtheriae (Mycobacterium abscessus) Mycobacteroides chelonae Actinomyces naeslundii Brucella canis Corynebacterium jeikeium Francisella tularensis Legionella feeleii (Mycobacterium chelonae) Mycobacteroides Corynebacterium Fusobacterium immunogenum Actinomyces odontolyticus Brucella melitensis Legionella longbeachae propinquum necrophorum (Mycobacterium immunogenum) Corynebacterium Aeromonas caviae Brucella suis Fusobacterium nucleatum Legionella maceachernii Mycoplasma pneumoniae pseudodiphtheriticum Burkholderia cepacia Corynebacterium Aeromonas hydrophila Gemella haemolysans Legionella pneumophila Neisseria flavescens complex pseudotuberculosis Aeromonas sobria Burkholderia gladioli Corynebacterium striatum Gemella morbillorum Legionella wadsworthii Neisseria lactamica Aeromonas veronii Burkholderia glumae Corynebacterium ulcerans Gordonia araii Leptospira interrogans Neisseria meningitidis Aggregatibacter Burkholderia mallei Coxiella burnetii Gordonia bronchialis Leptotrichia buccalis Neisseria mucosa actinomycetemcomitans Aggregatibacter Burkholderia pseudomallei Cronobacter sakazakii Haemophilus haemolyticus Listeria monocytogenes Nocardia abscessus aphrophilus Arcanobacterium Burkholderia thailandensis Delftia acidovorans Kingella kingae Moraxella catarrhalis Nocardia arthritidis haemolyticum Klebsiella aerogenes Bacillus anthracis Campylobacter concisus Dialister pneumosintes Moraxella osloensis Nocardia beijingensis (Enterobacter aerogenes) Bacillus cereus Capnocytophaga gingivalis Dolosigranulum pigrum Klebsiella oxytoca Morganella morganii Nocardia brasiliensis Capnocytophaga Mycobacterium avium Bacillus thuringiensis Eikenella corrodens Klebsiella pneumoniae Nocardia cyriacigeorgica leadbetteri complex Capnocytophaga Klebsiella Bacteroides fragilis Elizabethkingia anophelis Mycobacterium fortuitum Nocardia farcinica sputigena quasipneumoniae For Research Use Only. Not for use in diagnostic procedures. BACTERIA, cont. Nocardia nova Pediococcus acidilactici Pseudomonas aeruginosa Serratia marcescens Streptococcus intermedius Ureaplasma urealyticum Peptostreptococcus Nocardia otitidiscaviarum Pseudomonas fluorescens Shewanella putrefaciens Streptococcus mitis Veilonella parvula anaerobius Streptococcus Nocardia transvalensis Prevotella buccae Pseudomonas stutzeri Slackia exigua Williamsia muralis pneumoniae Sphingomonas Nocardia veterana Prevotella intermedia Ralstonia pickettii Streptococcus pyogenes Yersinia enterocolitica paucimobilis Tatlockia micdadei Ochrobactrum anthropi Prevotella melaninogenica Raoultella ornithinolytica Staphylococcus aureus Yersinia pestis (Legionella micdadei) Stenotrophomonas Orientia tsutsugamushi Prevotella pleuritidis Raoultella planticola Treponema denticola maltophilia Pandoraea pulmonicola Proteus mirabilis Rhodococcus hoagii Streptococcus agalactiae Tropheryma whipplei Pantoea agglomerans Proteus penneri Rickettsia rickettsii Streptococcus anginosus Tsukamurella pulmonis Tsukamurella Parvimonas micra Proteus vulgaris Rothia mucilaginosa Streptococcus constellatus tyrosinosolvens Streptococcus Pasteurella multocida Providencia stuartii Salmonella enterica Ureaplasma parvum dysgalactiae VIRUSES Coxsackievirus A HHV6 Human Coronavirus NL63 Human parechovirus Influenza C virus Rhinovirus A Coxsackievirus B Human adenovirus B Human Coronavirus OC43 Influenza A virus (H1N1) Measles Virus Rhinovirus B MERS coronavirus (MERS- Cytomegalovirus (CMV) Human adenovirus C Human metapneumovirus Influenza A virus (H3N2) Rhinovirus C CoV) Human parainfluenza EBV Human adenovirus E Influenza A virus (H5N1) Mumps virus Rubella virus virus 1 Human parainfluenza Enterovirus A71 Human bocavirus 1 Influenza A virus (H7N9) Parvovirus B19 SARS coronavirus virus 2 Human parainfluenza Respiratory Syncytial Enterovirus D68 Human Coronavirus 229E Influenza A virus (H9N2) SARS-CoV-2 (2019-nCoV) virus 3 Virus A Herpes simplex virus 1 Human parainfluenza Respiratory Syncytial Varicella-zoster virus Human Coronavirus HKU1 Influenza B virus (HSV-1) virus 4 Virus B (HHV-3) FUNGI Lomentospora prolificans Sarocladium kiliense Alternaria alternata Blastomyces dermatitidis Curvularia lunata Pneumocystis jirovecii (Scedosporium prolificans) (Acremonium kiliense) Microascus cinereus Scedosporium Alternaria infectoria Candida auris Exophiala dermatitidis Purpureocillium lilacinum (Scopulariopsis cinereus) apiospermum Microascus cirrosus Apophysomyces elegans Cladophialophora bantiana Fusarium oxysporum Rasamsonia aegroticola Schizophyllum commune (Scopulariopsis paisii) Microasucus paisii Aspergillus flavus Coccidioides immitis Fusarium proliferatum Rasamsonia argillacea Scopulariopsis brevicaulis (Scopulariopsis brumptii) Aspergillus fumigatus Coccidioides posadasii Fusarium solani Mucor circinelloides Rhizomucor pusillus Sporothrix schenckii Syncephalastrum Aspergillus nidulans Cryptococcus gattii Fusarium verticillioides Mucor indicus Rhizopus azygosporus racemosum Aspergillus niger Cryptococcus neoformans Histoplasma capsulatum Mucor racemosus Rhizopus microsporus Talaromyces marneffei Cunninghamella Aspergillus terreus Lichtheimia corymbifera Paecilomyces variotii Rhizopus oryzae Trichosporon asahii bertholletiae Paracoccidioides Aspergillus versicolor Curvularia geniculata Lichtheimia ramosa Saksenaea vasiformis brasiliensis For Research Use Only. Not for use in diagnostic procedures. AMR markers on the Respiratory Pathogen ID/AMR Panel Gentamicin, Plazomicin, Paromomycin, Tobramycin, Streptomycin, Spectinomycin, Amikacin, Aminoglycosides Neomycin Beta-Lactam + Beta-Lactamase Amoxicillin + Clavulanic Acid, Ampicillin + Sublactam, Piperacillin + Tazobactam Inhibitor Carbapenems Ertapenem, Meropenem, Imipenem Cephalosporins (1st generaton) Cefazolin, Cefalexin Cephalosporins (2nd generaton) Cefaclor, Cefoxitin A. baumannii Cephalosporins (3rd generaton) Ceftazidime, Ceftriaxone, Cefotaxime, Cefixime E. faecalis E. faecium Cephalosporins (4th generaton Cefepime E. cloacae complex Diaminopyrimidine Trimethoprim E. coli K. pneumoniae Fluoroquinolones Ciprofloxacin, Norfloxacin, Levofloxacin, Ofloxacin, Moxifloxacin Bacteria P. aeruginosa Fosfomycin Fosfomycin S. aureus Antibacterials S. maltophilia Glycopeptides Vancomycin S. pneumoniae Lincosamides Clindamycin, Lincomycin Macrolides Clarithromycin, Azithromycin, Erythromycin Oxazolidinones Linezolid Penicillins Amoxicillin, Ampicillin, Methicillin, Oxacillin, Penicillin Polymyxins Colistin Sulfonamides Sulfamethoxazole Tetracyclines Tetracycline, Doxycycline First-line: Isoniazids Polyamine Antibiotics Isoniazid, Ethambutol, Pyrazinamide, Rifampin, Rifampicin Pyrazinamides M. tuberculosis complex Rifamycin Antibiotics M. abscessus Second-line: Ethionamides Mycobacteria Ethionamide, Para-Aminosalicylic Acid, Amikacin, Kanamycin, Streptomycin, Capreomycin, Para-Aminosalicylic Acids Antimycobacterials Ciprofloxacin, Levofloxacin, Moxifloxacin, Norfloxacin, Ofloxacin Aminoglycosides Fluoroquinolones Influenza A (H1N1) Neuraminidase Inhibitors Oseltamivir, Zanamivir, Peramivir, Laninamivir Influenza A (H3N2) Influenza A (H5N1) Viruses Endonuclease Inhibitors Baloxavir Influenza A H7N9) Antivirals Learn more For more information, visit www.illumina.com/products/by-type/sequencing-kits/library-prep-kits/respiratory-pathogen-id-panel.html To learn more about SARS-CoV-2 variant analysis with the Explify Respiratory Pathogen ID/AMR Panel Data Analysis Solution, see www.idbydna.com/rpipvariantsflyer Explore the IDbyDNA Explify Platform at www.idbydna.com/explify-platform/ Illumina • 1.800.809.4566 toll-free (US) • +1.858.202.4566 tel • [email protected] • www.illumina.com © 2021 Illumina, Inc. All rights reserved. All trademarks are the property of Illumina, Inc. or their respective owners. For specific trademark information, see www.illumina.com/company/legal.html. M-GL-00115 v1.0 For Research Use Only. Not for use in diagnostic procedures..