Please visit this link to request a project/reagents. Reagents will be allocated on first come/first serve basis and alignment with one health theme.
Do not send any samples to lab without first discussing project with Jordan. Please follow these guidelines when shipping samples. Note: all extracted samples must be sent in full-skirt 96 well plates. Samples to be extracted must be sent in screw top cryovials. A separate sheet with the sample layout is required to protect against damage to labels during shipping.
Protocol 1: Extraction of gDNA using DNeasy PowerSoil QIAcube HT
Protocol 1A: Alternate protocol: Extraction of gDNA using DNeasy PowerSoil Individual Columns
Protocol 2: Extraction of total RNA using RNeasy QIAcube HT
Protocol 1: Primary PCR
Optional Protocol 1.5: PCR Cleanup before indexing (for samples with significant dimer formation)
Protocol 2: Indexing PCR
Protocol 3: Pooling
Protocol 4: Size selection and cleanup
Protocol 1: High throughput Illumina DNA Prep
Protocol 1A: Alternate protocol: Scaled Illumina DNA prep in strip tubes
Protocol 2: QC + Normalization with iSeq
Protocol 1: VLP enrichment by filtration
Protocol 2: QIAamp MinElute Viral DNA extraction
Protocol 3: Scaled xGen ssDNA and Low Input DNA Library Prep
Protocol 4: QIAseq Whole Virome Library Prep
Protocol 1: Library QC By Tapestation D1000
Protocol 2: Library Quantification by NebNext qPCR
Protocol 3: Loading P1 600 cycle kits on NextSeq 2000
V4 16S rRNA denoising and processing
Fast quality control of shallow metagenomic sequencing using Kraken
Metagenomic processing on ROAR cluster with fastp, metaphlan, humann, and optional metaspades assembly
Simple cross sectional MGS analysis using outputs of previous script
