Size of the output promethION v. minION

[marinegeek]

Hey All,
I am designing an upcoming metagenomics experiment and wanted to ask the community about particular data outputs. I have several samples from similar geographic locations and wanted to look into maximizing coverage. Each sample has ~1ug DNA. The goal is to maximize the amount of genomes with 30x coverage. Using 16s data, and a brief calculation (with many assumptions) I need 18Gbp outputs for each sample if sequenced alone (one strategy I have is to also barcode and pool as there may be common genomes between sample sites). The R10.4 flowcell/chemistry kit in the literature seems to put out near the 18Gbp on metagenomic samples.

The question I have is, if I were to sequence on a promethION (send off to center) vs minION can I expect the same amount of data output given the amount of starting DNA is fixed i.e. 1ug? Or will the promethION most likely produce more data given the same starting DNA?

[cashalembic]

Hey All,
I am designing an upcoming metagenomics experiment and wanted to ask the community about particular data outputs. I have several samples from similar geographic locations and wanted to look into maximizing coverage. Each sample has ~1ug DNA. The goal is to maximize the amount of genomes with 30x coverage. Using 16s data, and a brief calculation (with many assumptions geometry dash) I need 18Gbp outputs for each sample if sequenced alone (one strategy I have is to also barcode and pool as there may be common genomes between sample sites). The R10.4 flowcell/chemistry kit in the literature seems to put out near the 18Gbp on metagenomic samples.

The question I have is, if I were to sequence on a promethION (send off to center) vs minION can I expect the same amount of data output given the amount of starting DNA is fixed i.e. 1ug? Or will the promethION most likely produce more data given the same starting DNA?

David gave the cliff notes. One point of I'd like to add is that we recently have upgraded some sequencing laptops to M3 Max chips from Intel/Nvidia architectures and these seem to not be very well supported. It took me almost 72 hours to re-call a dRNA Sequencing run from fast to high.

[Frank27]

Thanks for bringing this up. from what I've seen, the flow cell capacity and the quality of the library usually have a bigger impact than the starting DNA amount alone. If your goal is maximizing genome coverag, PromethION seems like the better choice, especially when working with complex metagenomic sample. I'd also compare the cost per gigabase before deciding.Clicks per second