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pr2database / pr2-primers

Scripts for paper Vaulot et al. 2022
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primers designed by White et al. (1990) #3

Closed frederic-mahe closed 5 years ago

frederic-mahe commented 5 years ago

Some of the 18S and ITS primers listed in that book chapter from 1990 are still in use today. We should add the 18S primers to our database.

NS1 (forward): GTAGTCATATGCTTGTCTC
NS2 (reverse): GGCTGCTGGCACCAGACTTGC
NS3 (forward): GCAAGTCTGGTGCCAGCAGCC
NS4 (reverse): CTTCCGTCAATTCCTTTAAG
NS5 (forward): AACTTAAAGGAATTGACGGAAG
NS6 (reverse): GCATCACAGACCTGTTATTGCCTC
NS7 (forward): GAGGCAATAACAGGTCTGTGATGC
NS8 (reverse): TCCGCAGGTTCACCTACGGA

There is no doi, but a scan of the chapter is available.

Also, it might be interesting to include ITS1 (TCCGTAGGTGAACCTGCGG) as it is anchored in the 18S. It is so widely used for fungi studies that, at the very least, it would increase the visibility of this repository.

vaulot commented 5 years ago

Thanks a lot Fred, I have added them the MySQL database and will refresh the web page latter. I also added the ITS ones (I am collecting ITS and 28S primers as well, can be useful latter)....