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Katja Kozjek edited this page Jul 9, 2020
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Welcome to the PacBio_AMF_workflow wiki!
Arbuscular mycorrhizal fungal (AMF) diversity and community composition under long-term organic and conventional farming affected by reduced summer precipitation.
- we examined 48 samples, 24 samples per time point
- single-molecule real time (SMRT) DNA sequencing was performed, 1.5kb long fragment (part of SSU and LSU, and entire ITS region) was amplified
- 4 Sequel SMRT cells were sequenced on PacBio Sequel platform (samples were prepared with SMRTbell™ Template Prep Kit 1.0-SPv3)
- CCS reads, in total 481165 were generated; 2500 to 19000 reads per sample
- demultiplexing with Lima (PacBio barcode demultiplexer)
- as next DADA2, version 1.12.1. in R version 3.6.1