File:Minimum Evolution-Tree-of-C.cinnamoneus.svg
![File:Minimum Evolution-Tree-of-C.cinnamoneus.svg](https://upload.wikimedia.org/wikipedia/commons/thumb/c/c3/Minimum_Evolution-Tree-of-C.cinnamoneus.svg/603px-Minimum_Evolution-Tree-of-C.cinnamoneus.svg.png?20160307112854)
Original file (SVG file, nominally 866 × 861 pixels, file size: 811 KB)
Captions
Captions
Summary
[edit]DescriptionMinimum Evolution-Tree-of-C.cinnamoneus.svg |
Evolutionary relationships of Cortinarius cinnamoneus and relatives The evolutionary history was inferred using the Minimum Evolution method [1]. The optimal tree with the sum of branch length = 0.16207422 is shown. The percentage of replicate trees in which the associated taxa clustered together in the bootstrap test (1000 replicates) are shown next to the branches [2]. The tree is drawn to scale, with branch lengths in the same units as those of the evolutionary distances used to infer the phylogenetic tree. The evolutionary distances were computed using the Tamura 3-parameter method [3] and are in the units of the number of base substitutions per site. The rate variation among sites was modeled with a gamma distribution (shape parameter = 5). The ME tree was searched using the Close-Neighbor-Interchange (CNI) algorithm [4] at a search level of 2. The Neighbor-joining algorithm [5] was used to generate the initial tree. The analysis involved 38 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 588 positions in the final dataset. Evolutionary analyses were conducted in MEGA6 [6]. Type-sequences are in bold print. Incorrect identifications are marked with '**'. All C. cinnamoneus-sequences are reddish brown, correct ones are dark reddish gray, the incorrect pale reddish gray. Sources of used sequencesThe following sequences are taken from the NCBI Nucleotide-Genbank:
References1. Rzhetsky A. and Nei M. (1992). A simple method for estimating and testing minimum evolution trees. Molecular Biology and Evolution 9:945-967. 2. Felsenstein J. (1985). Confidence limits on phylogenies: An approach using the bootstrap. Evolution 39:783-791. 3. Tamura K. (1992). Estimation of the number of nucleotide substitutions when there are strong transition-transversion and G + C-content biases. Molecular Biology and Evolution 9:678-687. 4. Nei M. and Kumar S. (2000). Molecular Evolution and Phylogenetics. Oxford University Press, New York. 5. Saitou N. and Nei M. (1987). The neighbor-joining method: A new method for reconstructing phylogenetic trees. Molecular Biology and Evolution 4:406-425. 6. Tamura K., Stecher G., Peterson D., Filipski A., and Kumar S. (2013). MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. Molecular Biology and Evolution30: 2725-2729. |
|||
Date | ||||
Source | Own work Created with MEGA6 and Inkscape | |||
Author | Thkgk | |||
Permission (Reusing this file) |
I, the copyright holder of this work, hereby publish it under the following license:
|
Licensing
[edit]![]() ![]() |
This file is made available under the Creative Commons CC0 1.0 Universal Public Domain Dedication. |
The person who associated a work with this deed has dedicated the work to the public domain by waiving all of their rights to the work worldwide under copyright law, including all related and neighboring rights, to the extent allowed by law. You can copy, modify, distribute and perform the work, even for commercial purposes, all without asking permission.
http://creativecommons.org/publicdomain/zero/1.0/deed.enCC0Creative Commons Zero, Public Domain Dedicationfalsefalse |
File history
Click on a date/time to view the file as it appeared at that time.
Date/Time | Thumbnail | Dimensions | User | Comment | |
---|---|---|---|---|---|
current | 11:28, 7 March 2016 | ![]() | 866 × 861 (811 KB) | Thkgk (talk | contribs) | == {{int:filedesc}} == {{Information |Description= '''Evolutionary relationships of ''Cortinarius cinnamoneus'' and relatives''' The evolutionary history was inferred using the Minimum Evolution method [1]. The optimal tree with the sum of branch len... |
You cannot overwrite this file.
File usage on Commons
There are no pages that use this file.
Metadata
This file contains additional information such as Exif metadata which may have been added by the digital camera, scanner, or software program used to create or digitize it. If the file has been modified from its original state, some details such as the timestamp may not fully reflect those of the original file. The timestamp is only as accurate as the clock in the camera, and it may be completely wrong.
Short title | Cortinarius cinnamoneus-Minimal-Evolution-Tree |
---|---|
Width | 865.91858 |
Height | 860.76056 |