Description
Overview
The Respiratory Pathogen ID/AMR Enrichment Panel (RPIP) Kit is a next-generation sequencing (NGS)-based respiratory pathogen panel and library prep and enrichment kit that targets > 280 respiratory pathogens and > 2000 antimicrobial resistance (AMR) markers in a single assay, providing both pathogen identification and associated AMR information.
Streamlined, sample-to-results workflow
Together with DRAGEN Microbial Enrichment Plus, the flexible and scalable sample-to-results workflow delivers a rapid, cost-effective solution for identifying pathogens associated with respiratory tract infections in clinical research settings.
View the DRAGEN Microbial Enrichment Plus app
Features of this workflow:
Comprehensive targeting of DNA and RNA respiratory pathogens and associated AMR markers/alleles that provide known predicted resistance to antimicrobial agents
Robust and sensitive detection of low-abundance respiratory pathogen and antimicrobial resistance alleles using various sequencing read lengths and depths
Sensitive detection of single or multiple targeted pathogens in low or high complexity samples
Powerful pathogen quantitation using 10 commercially available spike-in controls
Example workflow
Respiratory Pathogen ID/AMR Enrichment Panel Kit
MiniSeq System
MiSeq System
NextSeq 550 System
DRAGEN Microbial Enrichment Plus
Project recommendations
Instrument: Recommended number of samples
MiniSeq System: MiniSeq Rapid Kit: 20 samples per run based on 1M single reads per sample. MiniSeq High-Output Kit: 25 samples per run based on 1M single reads per sample.
MiniSeq Rapid Kit: 20 samples per run based on 1M single reads per sample. MiniSeq High-Output Kit: 25 samples per run based on 1M single reads per sample.
Rapid Kit: 1 × 100 bp. High-Output Kit: 1 × 75 bp
MiSeq System: MiSeq v3 Kit: 25 samples per run based on 2M paired-end reads per sample. MiSeq v2 Kit: 15 samples per run based on 2M paired-end reads per sample.
MiSeq v3 Kit: 25 samples per run based on 2M paired-end reads per sample. MiSeq v2 Kit: 15 samples per run based on 2M paired-end reads per sample.
MiSeq v3 Kit: 2 × 75 bp MiSeq v2 Kit: 2 × 150 bp
NextSeq 550 System: NextSeq 550 High-Output Kit: 384 (available indexes) samples per run based on 2M paired-end reads per sample. NextSeq 550 Mid-Output Kit: 130 samples per run based on 2M paired-end reads per sample.
NextSeq 550 High-Output Kit: 384 (available indexes) samples per run based on 2M paired-end reads per sample. NextSeq 550 Mid-Output Kit: 130 samples per run based on 2M paired-end reads per sample.
NextSeq 550 High-Output Kit: 2 × 75 bp. NextSeq 550 High-Output Kit: 2 × 150 bp. NextSeq 550 Mid-Output Kit: 2 × 75 bp. NextSeq 550 Mid-Output Kit: 2 × 150 bp.
Related applications and methods
Coronavirus sequencing
NGS can identify novel coronavirus variants, track COVID-19 transmission, and more. Compare NGS methods for various coronavirus sequencing goals.
Genomic surveillance of infectious diseases
NGS supports effective genomic surveillance strategies through identification of novel strains of coronavirus and other emerging infectious disease agents.
Comprehensive genomic coverage of critical viral pathogens
Target enrichment probes and the Respiratory Pathogen ID/AMR Panel Kit workflow provide uniform coverage of the two viruses in the panel that are tiled completely with probes.
Sensitive detection of four different pathogens
Using the Respiratory Pathogen ID/AMR Panel Kit, pathogens were detectable down to 100 genome copies except for A. fumigatus. Detection of Influenza A was more sensitive and detected to 10 genome copies.
Respiratory Pathogen ID/AMR Enrichment Kit Set A (RUO) (96 indexes, 96 samples)
20047050
Includes all reagents necessary for library prep and enrichment including Illumina RNA Prep with Enrichment kit reagents, IDT for Illumina DNA/RNA UD Indexes Set A, and Respiratory Pathogen ID/AMR Panel to prepare libraries from 96 samples followed by 32, 3-plex enrichment reactions. View less
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Respiratory Pathogen ID/AMR Enrichment Kit Set B (RUO) (96 indexes, 96 samples)
20046969
Includes all reagents necessary for library prep and enrichment including Illumina RNA Prep with Enrichment kit reagents, IDT for Illumina DNA/RNA UD Indexes Set B, and Respiratory Pathogen ID/AMR Panel to prepare libraries from 96 samples followed by 32, 3-plex enrichment reactions. View less
Respiratory Pathogen ID/AMR Enrichment Kit Set C (RUO) (96 indexes, 96 Samples)
20047051
Includes all reagents necessary for library prep and enrichment including Illumina RNA Prep with Enrichment kit reagents, IDT for Illumina DNA/RNA UD Indexes Set C, and Respiratory Pathogen ID/AMR Panel to prepare libraries from 96 samples followed by 32, 3-plex enrichment reactions. View less
Respiratory Pathogen ID/AMR Enrichment Kit Set D (RUO) (96 indexes, 96 Samples)
20047052
Includes all reagents necessary for library prep and enrichment including Illumina RNA Prep with Enrichment kit reagents, IDT for Illumina DNA/RNA UD Indexes Set D, and Respiratory Pathogen ID/AMR Panel to prepare libraries from 96 samples followed by 32, 3-plex enrichment reactions. View less
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How many reads are necessary per sample?
We generally recommend starting with 1M single reads, or 2M paired-end reads per sample using a minimum of 1 × 100 bp or 2 × 75 bp sequencing chemistries. These numbers are a starting point and should be optimized based on sample types and target abundance.
Can I use this kit and enrichment panel for other sample types besides respiratory?
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