Protocol for mpox virus inactivation in containment level 3 for safe handling of animal samples
Bibliographic record
Abstract
High biocontainment is required to handle infectious mpox virus (MPXV) specimens, which can hinder research and diagnostic efforts during outbreaks. Here, we present a protocol for inactivating MPXV-contaminated animal samples using commercial lysis buffers. We describe steps for virus propagation and quantification and MPXV inactivation. We then detail procedures for validating the inactivation using a cell-based technique and qPCR. This protocol provides a framework for safely managing MPXV in lower-containment laboratories, facilitating downstream applications and improved outbreak management. • Guidelines for collecting animal samples from CL2 agriculture and spiking with MPXV • Steps to test DNA/RNA extraction kits for their effectiveness in inactivating MPXV • Guidance for inactivation that preserves nucleic acids for downstream applications • Procedure to confirm virus inactivation using cell infection assays and qPCR Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics. High biocontainment is required to handle infectious mpox virus (MPXV) specimens, which can hinder research and diagnostic efforts during outbreaks. Here, we present a protocol for inactivating MPXV-contaminated animal samples using commercial lysis buffers. We describe steps for virus propagation and quantification and MPXV inactivation. We then detail procedures for validating the inactivation using a cell-based technique and qPCR. This protocol provides a framework for safely managing MPXV in lower-containment laboratories, facilitating downstream applications and improved outbreak management.
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How this classification was reachedexpand
Full frame machine prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.
Distilled classifier scores by category (both heads)
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.004 | 0.005 |
| Meta-epidemiology (narrow) | 0.002 | 0.001 |
| Meta-epidemiology (broad) | 0.001 | 0.002 |
| Bibliometrics | 0.002 | 0.001 |
| Science and technology studies | 0.002 | 0.001 |
| Scholarly communication | 0.002 | 0.001 |
| Open science | 0.003 | 0.002 |
| Research integrity | 0.002 | 0.004 |
| Insufficient payload (model declined to judge) | 0.047 | 0.044 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".