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(A) Schematic overview of the protocol modifications incorporated into Rapid-RPIP v1 relative to the Standard RPIP workflow. Individual optimisation steps, selected to reduce turnaround time, and their estimated time savings are shown. (B) Relative abundance (%) of the ten ZymoBIOMICS-DNA/RNA mock community organisms recovered by two extraction methods <t>(Quick-DNA/RNA,</t> ZymoBIOMICS-DNA/RNA; mean of 2 replicates each) compared with the manufacturer theoretical composition. (C) RPKM concordance between standard and rapid cDNA synthesis protocols for RNA respiratory viruses (n = 6 organism–sample pairs). Dashed line: identity (y = x); solid line: linear regression with 95% CI. Spearman ρ and Pearson r (log₁₀-RPKM) annotated. (D) Coefficient of variation (log₁₀ scale) of RPKM values across three hybridisation times (30/60/90 min), grouped by pathogen type (Bacteria, RNA Virus, DNA Virus); n per group annotated.
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(A) Schematic overview of the protocol modifications incorporated into Rapid-RPIP v1 relative to the Standard RPIP workflow. Individual optimisation steps, selected to reduce turnaround time, and their estimated time savings are shown. (B) Relative abundance (%) of the ten ZymoBIOMICS-DNA/RNA mock community organisms recovered by two extraction methods <t>(Quick-DNA/RNA,</t> ZymoBIOMICS-DNA/RNA; mean of 2 replicates each) compared with the manufacturer theoretical composition. (C) RPKM concordance between standard and rapid cDNA synthesis protocols for RNA respiratory viruses (n = 6 organism–sample pairs). Dashed line: identity (y = x); solid line: linear regression with 95% CI. Spearman ρ and Pearson r (log₁₀-RPKM) annotated. (D) Coefficient of variation (log₁₀ scale) of RPKM values across three hybridisation times (30/60/90 min), grouped by pathogen type (Bacteria, RNA Virus, DNA Virus); n per group annotated.
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(A) Schematic overview of the protocol modifications incorporated into Rapid-RPIP v1 relative to the Standard RPIP workflow. Individual optimisation steps, selected to reduce turnaround time, and their estimated time savings are shown. (B) Relative abundance (%) of the ten ZymoBIOMICS-DNA/RNA mock community organisms recovered by two extraction methods <t>(Quick-DNA/RNA,</t> ZymoBIOMICS-DNA/RNA; mean of 2 replicates each) compared with the manufacturer theoretical composition. (C) RPKM concordance between standard and rapid cDNA synthesis protocols for RNA respiratory viruses (n = 6 organism–sample pairs). Dashed line: identity (y = x); solid line: linear regression with 95% CI. Spearman ρ and Pearson r (log₁₀-RPKM) annotated. (D) Coefficient of variation (log₁₀ scale) of RPKM values across three hybridisation times (30/60/90 min), grouped by pathogen type (Bacteria, RNA Virus, DNA Virus); n per group annotated.
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(A) Schematic overview of the protocol modifications incorporated into Rapid-RPIP v1 relative to the Standard RPIP workflow. Individual optimisation steps, selected to reduce turnaround time, and their estimated time savings are shown. (B) Relative abundance (%) of the ten ZymoBIOMICS-DNA/RNA mock community organisms recovered by two extraction methods <t>(Quick-DNA/RNA,</t> ZymoBIOMICS-DNA/RNA; mean of 2 replicates each) compared with the manufacturer theoretical composition. (C) RPKM concordance between standard and rapid cDNA synthesis protocols for RNA respiratory viruses (n = 6 organism–sample pairs). Dashed line: identity (y = x); solid line: linear regression with 95% CI. Spearman ρ and Pearson r (log₁₀-RPKM) annotated. (D) Coefficient of variation (log₁₀ scale) of RPKM values across three hybridisation times (30/60/90 min), grouped by pathogen type (Bacteria, RNA Virus, DNA Virus); n per group annotated.
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(A) Schematic overview of the protocol modifications incorporated into Rapid-RPIP v1 relative to the Standard RPIP workflow. Individual optimisation steps, selected to reduce turnaround time, and their estimated time savings are shown. (B) Relative abundance (%) of the ten ZymoBIOMICS-DNA/RNA mock community organisms recovered by two extraction methods <t>(Quick-DNA/RNA,</t> ZymoBIOMICS-DNA/RNA; mean of 2 replicates each) compared with the manufacturer theoretical composition. (C) RPKM concordance between standard and rapid cDNA synthesis protocols for RNA respiratory viruses (n = 6 organism–sample pairs). Dashed line: identity (y = x); solid line: linear regression with 95% CI. Spearman ρ and Pearson r (log₁₀-RPKM) annotated. (D) Coefficient of variation (log₁₀ scale) of RPKM values across three hybridisation times (30/60/90 min), grouped by pathogen type (Bacteria, RNA Virus, DNA Virus); n per group annotated.
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(A) Schematic overview of the protocol modifications incorporated into Rapid-RPIP v1 relative to the Standard RPIP workflow. Individual optimisation steps, selected to reduce turnaround time, and their estimated time savings are shown. (B) Relative abundance (%) of the ten ZymoBIOMICS-DNA/RNA mock community organisms recovered by two extraction methods <t>(Quick-DNA/RNA,</t> ZymoBIOMICS-DNA/RNA; mean of 2 replicates each) compared with the manufacturer theoretical composition. (C) RPKM concordance between standard and rapid cDNA synthesis protocols for RNA respiratory viruses (n = 6 organism–sample pairs). Dashed line: identity (y = x); solid line: linear regression with 95% CI. Spearman ρ and Pearson r (log₁₀-RPKM) annotated. (D) Coefficient of variation (log₁₀ scale) of RPKM values across three hybridisation times (30/60/90 min), grouped by pathogen type (Bacteria, RNA Virus, DNA Virus); n per group annotated.
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(A) Schematic overview of the protocol modifications incorporated into Rapid-RPIP v1 relative to the Standard RPIP workflow. Individual optimisation steps, selected to reduce turnaround time, and their estimated time savings are shown. (B) Relative abundance (%) of the ten ZymoBIOMICS-DNA/RNA mock community organisms recovered by two extraction methods <t>(Quick-DNA/RNA,</t> ZymoBIOMICS-DNA/RNA; mean of 2 replicates each) compared with the manufacturer theoretical composition. (C) RPKM concordance between standard and rapid cDNA synthesis protocols for RNA respiratory viruses (n = 6 organism–sample pairs). Dashed line: identity (y = x); solid line: linear regression with 95% CI. Spearman ρ and Pearson r (log₁₀-RPKM) annotated. (D) Coefficient of variation (log₁₀ scale) of RPKM values across three hybridisation times (30/60/90 min), grouped by pathogen type (Bacteria, RNA Virus, DNA Virus); n per group annotated.
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(A) Schematic overview of the protocol modifications incorporated into Rapid-RPIP v1 relative to the Standard RPIP workflow. Individual optimisation steps, selected to reduce turnaround time, and their estimated time savings are shown. (B) Relative abundance (%) of the ten ZymoBIOMICS-DNA/RNA mock community organisms recovered by two extraction methods <t>(Quick-DNA/RNA,</t> ZymoBIOMICS-DNA/RNA; mean of 2 replicates each) compared with the manufacturer theoretical composition. (C) RPKM concordance between standard and rapid cDNA synthesis protocols for RNA respiratory viruses (n = 6 organism–sample pairs). Dashed line: identity (y = x); solid line: linear regression with 95% CI. Spearman ρ and Pearson r (log₁₀-RPKM) annotated. (D) Coefficient of variation (log₁₀ scale) of RPKM values across three hybridisation times (30/60/90 min), grouped by pathogen type (Bacteria, RNA Virus, DNA Virus); n per group annotated.
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(A) Schematic overview of the protocol modifications incorporated into Rapid-RPIP v1 relative to the Standard RPIP workflow. Individual optimisation steps, selected to reduce turnaround time, and their estimated time savings are shown. (B) Relative abundance (%) of the ten ZymoBIOMICS-DNA/RNA mock community organisms recovered by two extraction methods <t>(Quick-DNA/RNA,</t> ZymoBIOMICS-DNA/RNA; mean of 2 replicates each) compared with the manufacturer theoretical composition. (C) RPKM concordance between standard and rapid cDNA synthesis protocols for RNA respiratory viruses (n = 6 organism–sample pairs). Dashed line: identity (y = x); solid line: linear regression with 95% CI. Spearman ρ and Pearson r (log₁₀-RPKM) annotated. (D) Coefficient of variation (log₁₀ scale) of RPKM values across three hybridisation times (30/60/90 min), grouped by pathogen type (Bacteria, RNA Virus, DNA Virus); n per group annotated.
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dsp virus pathogen kit  (Qiagen)
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(A) Schematic overview of the protocol modifications incorporated into Rapid-RPIP v1 relative to the Standard RPIP workflow. Individual optimisation steps, selected to reduce turnaround time, and their estimated time savings are shown. (B) Relative abundance (%) of the ten ZymoBIOMICS-DNA/RNA mock community organisms recovered by two extraction methods <t>(Quick-DNA/RNA,</t> ZymoBIOMICS-DNA/RNA; mean of 2 replicates each) compared with the manufacturer theoretical composition. (C) RPKM concordance between standard and rapid cDNA synthesis protocols for RNA respiratory viruses (n = 6 organism–sample pairs). Dashed line: identity (y = x); solid line: linear regression with 95% CI. Spearman ρ and Pearson r (log₁₀-RPKM) annotated. (D) Coefficient of variation (log₁₀ scale) of RPKM values across three hybridisation times (30/60/90 min), grouped by pathogen type (Bacteria, RNA Virus, DNA Virus); n per group annotated.
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(A) Schematic overview of the protocol modifications incorporated into Rapid-RPIP v1 relative to the Standard RPIP workflow. Individual optimisation steps, selected to reduce turnaround time, and their estimated time savings are shown. (B) Relative abundance (%) of the ten ZymoBIOMICS-DNA/RNA mock community organisms recovered by two extraction methods (Quick-DNA/RNA, ZymoBIOMICS-DNA/RNA; mean of 2 replicates each) compared with the manufacturer theoretical composition. (C) RPKM concordance between standard and rapid cDNA synthesis protocols for RNA respiratory viruses (n = 6 organism–sample pairs). Dashed line: identity (y = x); solid line: linear regression with 95% CI. Spearman ρ and Pearson r (log₁₀-RPKM) annotated. (D) Coefficient of variation (log₁₀ scale) of RPKM values across three hybridisation times (30/60/90 min), grouped by pathogen type (Bacteria, RNA Virus, DNA Virus); n per group annotated.

Journal: medRxiv

Article Title: Same-day hybrid capture workflow for diagnosis and surveillance of respiratory pathogens

doi: 10.64898/2026.10.09.26365131

Figure Lengend Snippet: (A) Schematic overview of the protocol modifications incorporated into Rapid-RPIP v1 relative to the Standard RPIP workflow. Individual optimisation steps, selected to reduce turnaround time, and their estimated time savings are shown. (B) Relative abundance (%) of the ten ZymoBIOMICS-DNA/RNA mock community organisms recovered by two extraction methods (Quick-DNA/RNA, ZymoBIOMICS-DNA/RNA; mean of 2 replicates each) compared with the manufacturer theoretical composition. (C) RPKM concordance between standard and rapid cDNA synthesis protocols for RNA respiratory viruses (n = 6 organism–sample pairs). Dashed line: identity (y = x); solid line: linear regression with 95% CI. Spearman ρ and Pearson r (log₁₀-RPKM) annotated. (D) Coefficient of variation (log₁₀ scale) of RPKM values across three hybridisation times (30/60/90 min), grouped by pathogen type (Bacteria, RNA Virus, DNA Virus); n per group annotated.

Article Snippet: To this end, the ZymoBIOMICS DNA/RNA Miniprep Kit for nucleic acid extraction was replaced with the Quick-DNA/RNA Pathogen Miniprep Kit (Zymo Research, R1042), and samples were processed according to the manufacturer’s instructions.

Techniques: Extraction, cDNA Synthesis, Hybridization, Bacteria, Virus