Bondarzewiaceae Maximum Likelihood-Tree
Evolutionary relationships of Cortinarius cinnamoneus and relatives
Figure. Bondarzewiaceae-Tree analysis by Maximum Likelihood method The evolutionary history was inferred by using the Maximum Likelihood method based on the Tamura-Nei model [1]. The tree with the highest log likelihood (-4470.5118) is shown. The percentage of trees in which the associated taxa clustered together is shown next to the branches. A user-specified tree was used as an initial tree in the heuristic search. A discrete Gamma distribution was used to model evolutionary rate differences among sites (5 categories (+G, parameter = 0.5299)). The rate variation model allowed for some sites to be evolutionarily invariable ([+I], 39.2989% sites). The tree is drawn to scale, with branch lengths measured in the number of substitutions per site. The analysis involved 31 nucleotide sequences. All positions with less than 95% site coverage were eliminated. That is, fewer than 5% alignment gaps, missing data, and ambiguous bases were allowed at any position. There were a total of 874 positions in the final dataset. The percentage of replicate trees in which the associated taxa clustered together in the bootstrap test (500 replicates) are shown next to the branches. Evolutionary analyses were conducted in MEGA7 [2].
Incorrect identifications are marked with a red '*'. The branch with the Bondarzewiaceae is drawed ticker.
Sources of used sequences
All sequences are taken from the NCBI Nucleotide-Genbank:
- Heterobasidion abietinum KJ651510
- Heterobasidion irregulare KJ651537
- Heterobasidion amyloideum KJ651512
- []Echinodontium tinctorium AF506430
- Bondarzewia podocarpi KJ583221
- Bondarzewia montana DQ234539
- Bondarzewia berkeleyi KJ583216
- Amylosporus bracei KJ807076
- Amylosporus campbellii KJ807077
- Wrightoporia rubella KJ807084
- Wrightoporia avellanea AF506488
- Stereum hirsutum AF506479
- Wrightoporia lenta AF506489
- Hericium coralloides AF506459
- Hericium americanum AF506458
- Hericium erinaceum AF506460
- Amylostereum areolatum AF506405
- Amylostereum laevigatum AF506407
- Amylostereum chailletii AF506406
- Echinodontium ryvardenii AF506431
- Echinodontium tinctorium AF393056
- Lentinellus cochleatus AF506417
- Lentinellus ursinus AF506419
- Lentinellus auricula AF506415
- Lactarius volemus AF506413
- Lactarius leonis AF506411
- Russula aurantiaca AF506427
- Russula violacea AF506465
- Auricularia auricula-judae JN712676
- Exidia glandulosa AF506493
References
1. Tamura K. and Nei M. (1993). Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Molecular Biology and Evolution 10:512-526.
2. Kumar S., Stecher G., and Tamura K. (2015). MEGA7: Molecular Evolutionary Genetics Analysis version 7.0 for bigger datasets.Molecular Biology and Evolution (submitted).
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