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Mitochondrial data from the dark ages (1989): Suillus mt-DNAs vary 3X in size, and the COI region varies about 5-fold

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Mitochondrial data from the dark ages (1989): Suillus mt-DNAs vary 3X in size, and the COI region varies about 5-fold - PowerPoint PPT Presentation


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Mitochondrial data from the dark ages (1989): Suillus mt-DNAs vary 3X in size, and the COI region varies about 5-fold. The ITS region has become the de facto bar- coding region for ectomycorrhizal fungi for the following reasons:.

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slide1

Mitochondrial data from the dark ages (1989):

Suillus mt-DNAs vary 3X in size, and the COI region varies about 5-fold

slide2
The ITS region has become the de facto bar- coding region for ectomycorrhizal fungi for the following reasons:
  • Its easy to amplify in almost everything with general and fungal specific primers
  • In most taxa it has useful variation at approximately the morpho-species level
  • Paralogous copies are seldom a problem
  • There is a large existing database for it, including a recently well vouchered one (UNITE http://unite.ut.ee/)
problems with the its region for ectomycorrhizal fungi
Problems with the ITS region for Ectomycorrhizal fungi
  • Database is not well populated for some groups (particularly among the Ascomycetes)
  • Does not align well beyond sub-generic comparisons
  • Occasionally too large or too divergent to amplify (Tulasnella, Cantharellus)
glomeromycota am fungi
Glomeromycota (AM fungi)
  • ITS seldom used for technical reasons (difficult to “nest”)
  • ITS may often have paralogous copies
  • 18S (and 25S) more often used, but clearly are not variable enough.