Kuba Sawicki
@kubasawicki.bsky.social
Bryologist, UWM Sequencing Core Lab
Researcher at Department of Botany and Evolutionary Ecology, University of Warmia and Mazury in Olsztyn, Poland
Researcher at Department of Botany and Evolutionary Ecology, University of Warmia and Mazury in Olsztyn, Poland
HTL pippetes arę bulletproof.
March 11, 2025 at 8:25 PM
HTL pippetes arę bulletproof.
Yes, but it's going slow, I mean translocation speed is much lower than DNA. I think we'll not achive 20Gbp from single FC. Anyway, in the case of RNA002 5-6Gbp was the best we could get.
March 8, 2025 at 10:47 PM
Yes, but it's going slow, I mean translocation speed is much lower than DNA. I think we'll not achive 20Gbp from single FC. Anyway, in the case of RNA002 5-6Gbp was the best we could get.
That's true, but in vitro culture doesn't eliminate endophytes. There are some Riccia specific bacteria living in thallus.
January 20, 2025 at 9:09 PM
That's true, but in vitro culture doesn't eliminate endophytes. There are some Riccia specific bacteria living in thallus.
Well, it's not that simple when working on bryophytes (collected in field) - in the best cases we got 60-65% of reads for nuclear genome, 3-7% of organellar genomes, 20-30% of contaminats (both endophytes and epiphytes).
January 20, 2025 at 8:26 PM
Well, it's not that simple when working on bryophytes (collected in field) - in the best cases we got 60-65% of reads for nuclear genome, 3-7% of organellar genomes, 20-30% of contaminats (both endophytes and epiphytes).
One cell is enough, the second one was for pore-C. When we resequenced another Riccia species, one minion fc provided only 15x coverage at single copy genes. But it was a field collected sample with alga and bacterial contaminants. Also these times we got only 12-16 Gbp from minion flow cells.
January 20, 2025 at 1:44 PM
One cell is enough, the second one was for pore-C. When we resequenced another Riccia species, one minion fc provided only 15x coverage at single copy genes. But it was a field collected sample with alga and bacterial contaminants. Also these times we got only 12-16 Gbp from minion flow cells.