Goal | Samples and number of replicate wells | Incubation conditions prior to DNA extraction | Community profile technique |
---|---|---|---|
Address batch and well reproducibility | Batch 1 × 1 | Step I: 16 hrs growth in SHI medium | 16S-454 pyrosequencing |
Batch 2 × 2 | |||
Batch 3 × 3 | |||
Saliva × 3 | Step II: 2 hrs starvation in CDM | ||
No incubation | |||
Address reproducibility between research laboratories | With sucrose × 2 without sucrose × 2 | 16 hrs growth in SHI medium with or without sucrose | DGGE |
Address temporal taxonomic diversity during biofilm development | Time course (hrs) = 3,6,9,12,16,48 | 48 hrs growth in SHI medium | WGS metagenomes Illumina HiSeq |