Laboratory Workflow: Sample Reception to Final Report¶

Overview¶

This document describes the end-to-end workflow for processing avian genetic testing samples at SENO's laboratory, from sample reception through to final report delivery.

Workflow Diagram¶

Sample Receipt → Registration → Inspection → DNA Extraction
                                                  ↓
                                            PCR/qPCR Setup
                                                  ↓
                                            Amplification
                                                  ↓
                                          Post-PCR Analysis
                                                  ↓
                                          Result Interpretation
                                                  ↓
                                               QC Review
                                                  ↓
                                              Reporting

Step 1: Sample Reception¶

1.1 Physical Receipt¶

1.2 Sample Acceptance Criteria¶

Step 2: Registration & Labeling¶

Step 3: Sample Inspection¶

3.1 Laboratory Inspection¶

3.2 Chain of Custody Continuation¶

Each transfer between technicians is logged: time, technician ID, sample count.

Step 4: DNA Extraction¶

See DNA Extraction SOP for detailed protocol.

4.1 Batch Processing¶

4.2 Post-Extraction QC¶

Step 5: PCR/qPCR Setup¶

5.1 Pre-PCR Preparation¶

• All work performed in Class 1,000 pre-PCR room
• Dedicated PCR pipettes (filter tips only)
• UV-decontaminated workstation (30 min before use)
• Reagents thawed on ice, vortexed 5 s, spun 10 s

5.2 Plate Layout¶

5.3 Thermal Cycling¶

See specific protocol: - Sexing: CHD PCR Protocol - Disease: PBFD qPCR Validation or panel-specific protocol

Step 6: Post-PCR Analysis¶

6.1 Sexing — Gel Electrophoresis¶

6.2 Disease — qPCR Analysis¶

6.3 DNA Fingerprinting — Capillary Electrophoresis¶

Step 7: Result Interpretation¶

7.1 Automated Rules (LIMS)¶

7.2 Manual Review (Technician)¶

• All "Inconclusive" results reviewed by senior technician
• All "Weak positive" results reviewed by QC officer
• Discordant duplicates (sexing: male/female from same sample) → repeat with alternate primers
• Fingerprinting profiles with < 10/12 loci called → re-run

Step 8: QC Review¶

8.1 Batch QC Review¶

8.2 Batch Release¶

All QC criteria must pass before any results from the batch are released.

Step 9: Reporting¶

9.1 Report Format¶

9.2 Delivery Methods¶

Step 10: Sample Storage & Disposal¶

Estimated Turnaround Times¶

Lab turnaround: 1–2 working days for most tests.Total client turnaround (incl. shipping): 7–10 business days.