Fungi
To provide up-to-date information on fungal barcoding and to facilitate communication and the development of collaboration.
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Tiago Andrade
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Environmental Barcoding
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Tiago Andrade's Discussions
PCR for fungi's COI region (cytochrome oxidase I)
9 Replies
Hi, I'm trying to amplify the region of mitochondrial DNA in conidial fungi that synthesizes protein for cytochrome oxidase I, using primers AHyFu-F and AHyFu-R, but without success. It's welcome…Continue
Tags: fungi, conidial, AHyFu-F, AHyFu-R, COX1
Started this discussion. Last reply by Tiago Andrade Jan 29, 2011.
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Tiago Andrade replied to Tiago Andrade's discussion 'PCR for fungi's COI region (cytochrome oxidase I)'
Alright, Isaac.
Thank you for your suggestion.
Thanks for your help too, Diego.
Tiago
Isaac Chow replied to Tiago Andrade's discussion 'PCR for fungi's COI region (cytochrome oxidase I)'
Hi Tiago,
I understand you may try to work out alternative solution for the fungi barcoding, but you may also notice that it is way harder for you to try other regions else apart from ITS, not only because of the major focusing on the ITS,…
Tiago Andrade replied to Tiago Andrade's discussion 'PCR for fungi's COI region (cytochrome oxidase I)'
Look,I know about the sucess of ITS, as I use ITS to amplify my fungi sames too. But, I am using cO1 as a test. I am testing co1 according Seifert at al (2009). I still do not sequence, but by eletroforesis results, maybe the the amount of…
Isaac Chow replied to Tiago Andrade's discussion 'PCR for fungi's COI region (cytochrome oxidase I)'
Hi Diego,
I understand that it is always easier to amplify with trnH-psbA/ rbcL universal primers and with the matK, it is not always that lucky.
Alignment and re-design conserved primers will be a good move, however, it will only…
Diego Pignataro replied to Tiago Andrade's discussion 'PCR for fungi's COI region (cytochrome oxidase I)'
Hi Isaac,
Thanks a lot for ur replay. Yes, I did..how?..well I performed an alignment with a group of peperomias and search the more conservated region (above 500bp) et voilá. BUT I do have problems with my cinchonas samples..not worked it…
Isaac Chow replied to Tiago Andrade's discussion 'PCR for fungi's COI region (cytochrome oxidase I)'
Hi Diego,
If you are concerning the ITS regions, I would suggest the ITS4/5 (White et al, 1990).
Further, have you manager to solve your matK amplification that was raised at Mar 2010? If not, I would more than happy to provide some…
Diego Pignataro replied to Tiago Andrade's discussion 'PCR for fungi's COI region (cytochrome oxidase I)'
I´m agree with Isaac. I will try this primers in my fungus sampels next week. Now we are trying to get an appropiate DNA extraction protocol (basidiomicetos) do you suggest one?
I will try with this:
Rapid DNA Extraction for Screening…
Diego Pignataro replied to Tiago Andrade's discussion 'PCR for fungi's COI region (cytochrome oxidase I)'
I´m agree with Isaac. I will try this primers in my fungus sampels next week. Now we are trying to get an appropiate DNA extraction protocol (basidiomicetos) do you suggest one?
I will try with this:
Rapid DNA Extraction for Screening…
Isaac Chow replied to Tiago Andrade's discussion 'PCR for fungi's COI region (cytochrome oxidase I)'
why would you like to get the COI amplified in fungi species, consider the co-existing of more than one species, you could probably get noise even with ITS primers
Profile Information
- Institution/Organization
- State University of Feira de Santana - UEFS
- Title/Position
- Undergraduate student
- Website
- http://www.uefs.br/portal
- I’m involved in, or am interested in the following barcoding initiatives
- DNA Barcoding Initiative for Conservation, Plant Working Group, Database Working Group, Data Analysis Working Group, Leading Labs Network
- I’m involved in or interested in the following iBOL Working Groups
- WG1.3 Fungi, WG2.1 Barcoding Biotas, WG2.3 Methodological Innovation
- Keywords about my barcoding projects (separate each choice with a comma)
- fungi, hyphomycetes, phylogenetics, Beltrania, DNA extraction, DNA amplification, PCR, DNA sequencing
- I’m involved in the following aspects of barcoding:
- Fieldwork/specimen collecting, Museum work/specimen curation, Labwork/generating barcode sequences, Management of barcode data, Analysis of barcode data, Using barcode data in taxonomy/systematic biology, Using barcode data for other applications, Organizing/managing barcoding projects, Science policy related to barcoding
- Current Project(s)
- Barcode dos microfungos do Semi-árido da Bahia depositados na CCMB
(Barcode of the microfungi from Semi-arid of the Bahia deposited in thw CCMB)
Comment Wall (1 comment)
- At 9:51am on March 8, 2010,
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