"For RPB1:
We used the RPB1 primers listed by Conrad (as developed by Ben Hall but modified by Sung?), but also designed a new RPB1C rev primer for Pyronemataceae a bit inside the original primer, which worked well. We sequenced the A-D region…"
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karen Hansen's Page
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karen Hansen replied to Conrad Schoch's discussion 'RPB1 and 2 problems' in the group Fungi"For RPB2:
For Pezizomycetes I found both DNA quality and specificity of primers matters. DNA extracted from fresh apothecia stored in DNA extraction buffer works best, but well dried, not too old apothecia works as well.
For amplification of…"
karen Hansen replied to Conrad Schoch's discussion 'Homopolymeric bases problem' in the group Fungi"Hi
Years ago I had this problem with three groups of Pezizaceae. They possessed sequences with short homopolymere regions of 8 to 12 Ts or As in different positions, which caused sequencing problems. I obtained the majority of these sequences…"
karen Hansen replied to Conrad Schoch's discussion 'RPB1 and 2 problems' in the group Fungi"Hi Conrad and Divakar,
I have just recently found the same "mistake" with the RPB1 primer. I think people have erroneously continued to cite the Matheny et al. (2002) paper, but this…"
karen Hansen joined Conrad Schoch's group
Fungi
To provide up-to-date information on fungal barcoding and to facilitate communication and the development of collaboration.
Profile Information
- Institution/Organization
- Swedish Museum of Natural History
- Title/Position
- Researcher/Faculty member
- If Other Title, please specify
- Researcher/Senior Curator of fungi
- I’m involved in or interested in the following iBOL Working Groups
- WG1.3 Fungi
- I’m involved in the following aspects of barcoding:
- Using barcode data in taxonomy/systematic biology
- Current Project(s)
- Pezizomycetes, Pyronemataceae, Pezizaceae, Peziza, Otidea
Comment Wall (1 comment)
- At 8:52am on October 25, 2010,
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