Protocols

All sampling methods, data generated and analytical workflows for the Australian Microbiome initiative activities are publicly accessible. The requirements for access and use of the data, as well as appropriate acknowledgements in communications that arise from the initiative consortium’s work are defined in the Data policy and Communication policy.


Initiative workflows

The protocols and workflows from the Australian Microbiome are being reviewed. A complete scientific manual is being prepared and will be made available here. Find the latest draft here.

🦠 Sample collection and processing
🧬 Soils
🧬 Marine sediments
🧬 Pelagic waters
🧬 Coastal waters
🧬 Seagrasses
🧬 Seaweeds
🧬 Sponges
🧬 Corals

🦠 Contextual metadata
🧬 Core metadata
🧬 Environmental descriptors
🧬 Physical metadata
🧬 Chemical metadata

🦠 Sequencing workflows
🧬 Bacterial 16S rRNA gene amplicon
🧬 Archaeal 16S rRNA gene amplicon
🧬 Eukaryotic 18Sv4 rRNA gene amplicon
🧬 Eukaryotic 18Sv9 rRNA gene amplicon
🧬 Fungal ITS amplicon
🧬 Metagenomics
🧬 Metatranscriptomics

🦠 Bioinformatic and analytics workflows
🧬 Bacterial and Archaeal 16S rRNA gene amplicon
🧬 Eukaryotic 18S rRNA gene amplicon
🧬 Fungal ITS amplicon
🧬 Metagenomics
🧬 Metatranscriptomics
🧬 Miscellaneous analytical codes


Data access

Data portal access to primary and processed sequence data with associated contextual metadata


Code

GitHub repository of analytic workflows


External resources

Genomic Standard Consortium