"we are not working on herbarium samples etc., but with very low template concnetrations and sometimes meaterial with inhibitors. We often use BSA, and what helps a lot is also a robust PCR system - we use the Phusion polymerase, as a mastermix…"
"yes, we will submit longer sequences anyway. but it may be that identification tools will base on ITS only, and then people may tend to produce ITS only. The dimension of problem is a bit different between Glomeros and Ascos, in Glomeros it is a…"
as communicated we can not resolve close relatives for Glomeromycota, if using the ITS region only. Large intraspecific variability, and I doubt that any method can reliably resolve the species based on the ITS region only (other…"
"just another short note - regards "orthologues" - when I once tried to get RPB2 for Geosiphon (in Archaeosporales, an ancestral lineage in Glomeromycota), I got (beside dozens of other things), after a while of trying an RPC2 subunit (RNA…"
"Just to note, we also have problems with RPBs for the Glomeromycota. RPB2 for the ancestral Glomero-lineages we gave up already 2006 (AFTOL). Recent RPB1 PCRs using the recommended degenerate forward primer and rev. primers recommended by Dirk…"
"We are defining some epitypes for the Glomeromycota. Several types do not "exist" or material is mixed, or degraded - so these species are somehow "dead". They can be "redefined" by careful selection of epitypes, that…"
"further Glomeromycota SSU data of Glomus Group Ab (includes the fast growing Glomeromycs) recently were published, we are in progress of making some more sequences, too. So, enough data should be available.
"OK, this is 100 bp more (3') than our "AMF specific" (I write like this because no primer set is sure to be 100% specific) nested primers, and >100 bp less (3') than our outer primers. compatible regions, fits"
"our primers we use for Glomeromycota 200bp SSU+ITS region+800 bp LSU (1.8 kb or 1.5 kb in nested PCR) are in Krüger M, Stockinger H, Krüger C, Schüßler A (2009)
DNA-based species-level detection of arbuscular mycorrhizal fungi:…"
"we have SSU data - I will send you a draft of a paper in 3-4 weeks where you can get an idea abou the data. it is just that we do not intend to sequence many variants, as one can rel. easily show that species borders cannot be resolved…"
"In our case (Glomeromycota = arbuscular mycorrhizal fungi), the SSU shows intraspecific and intrasporal variability (several variants in one fungal asexual, multinucleated spore). But we use the SSU for robust phylogenetic analysis - in combination…"
"Dear all, we are also sampling (plant roots with colonizing fungi) and directly storing them in 80% EtOH. We later store at -20°C, also in 80% EtOH. Is there a comparison between storage in EtOH and DMSO? Differences in DNA extraction…"
I’m involved in the following aspects of barcoding:
Fieldwork/specimen collecting, 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
DNA barcoding of Glomeromycota,
AM fungi from South Ecuador,
454 Titanium pyrosequencing for barcode-based monitoring of Glomeromycota,
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