@ARTICLE{TreeBASE2Ref16572,
author = {Frank N. Martin and Paul W. Tooley},
title = {Phylogenetic relationships among Phytophthora species inferred from sequence analysis of the mitochondrially-encoded cytochrome oxidase I and II gene.},
year = {2003},
keywords = {},
doi = {},
url = {},
pmid = {},
journal = {Mycologia},
volume = {95},
number = {2},
pages = {269--284},
abstract = {The phylogenetic relationships of 51 isolates representing 27 species of Phytophthora were assessed by sequence alignment of 568 bp of the mitochondrially-encoded cytochrome oxidase II gene. A total of 1299 bp of the cytochrome oxidase I gene also was examined for a subset of 13 species. The cox II gene trees constructed by a heuristic search based on maximum parsimony for a bootstrap 50% majority-rule consensus tree revealed 18 species grouping into 7 clades and 9 species unaffiliated with a specific clade. The phylogenetic relationships among species observed on cox II gene trees did not exhibit consistent similarities in groupings for morphology, pathogenicity, host range or temperature optima. The topology of the cox I gene trees constructed by a heuristic search based on maximum parsimony for a bootstrap 50% majority-rule consensus tree for 13 species of Phytophthora revealed 10 species grouping into 3 clades and 3 species unaffiliated with a specific clade. The groupings in general agreed with what was observed in the cox II tree. Species relationships observed for the cox II gene tree were in general agreement with those based on ITS regions, with some notable exceptions. Analysis of combined data sets of ITS and cox II generated a tree that did not differ substantially from analysis of ITS data alone, however, the results of a partition homogeneity test suggest that combining data sets may not be valid.}
}
Matrix 381 of Study 1039
Citation title:
"Phylogenetic relationships among Phytophthora species inferred from sequence analysis of the mitochondrially-encoded cytochrome oxidase I and II gene.".
This study was previously identified under the legacy study ID S774
(Status: Published).
Matrices
Title: ITS
Description: Legacy TreeBASE Matrix ID = M1225
Rows
Taxon Label |
Row Segments |
Characters 1?–30 |
Pythium aphanidermatum |
(none)
|
CCACACCATAAAAA-CTTTCCACGTGAACC |
Phytophthora syringae |
(none)
|
CCACACCTAAAAAA-CTT-CCACGTGAACC |
Phytophthora sojae |
(none)
|
CCACACCTAAGAAA-CTTTCCACGTGAACC |
Phytophthora pseudotsugae |
(none)
|
CCACACCTAAAAA--CTTTCCACGTGAACC |
Phytophthora phaseoli |
(none)
|
CCACACCTAAAAA--CTTTCCACGTGAACC |
Phytophthora palmivora |
(none)
|
CCACACCTAAAAAA-CTTTCCACGTGAACC |
Phytophthora nicotianae |
(none)
|
CCACACCTAAAAAAACTTTCCACGTGAACC |
Phytophthora mirabilis |
(none)
|
CCACACCTAAAAA--CTTTCCACGTGAACC |
Phytophthora megasperma |
(none)
|
CCACACCTAAAAAA-CTTTCCACGTGAACC |
Phytophthora megakarya |
(none)
|
CCACACCTAAAAA--CTTTCCACGTGAACC |
Phytophthora lateralis |
(none)
|
CCACACCTAAAAAA-CTT-CCACGTGAACC |
Phytophthora infestans |
(none)
|
CCACACCTAAAAA--CTTTCCACGTGAACC |
Phytophthora ilicis |
(none)
|
CCACACCTAAAAA--CTT-CCACGTGAACT |
Phytophthora heveae |
(none)
|
CCACACCTAAAAAA--TTTCCACGTGAACC |
Phytophthora gonapodyides |
(none)
|
CCACACCTAAAAAA-CTT-CCACGTGAACC |
Phytophthora fragariae rubi |
(none)
|
CCACACCTAAAAAA-CTTTCCACGTGAACC |
Phytophthora fragariae |
(none)
|
CCACACCTAAAAAA-CTTTCCACGTGAACC |
Phytophthora erythroseptica |
(none)
|
CCACACCTAAAAAA-CTTTCCACGTGAACC |
Phytophthora drechsleri |
(none)
|
CCACACCTAAAAAA-CTT-CCACGTGAACC |
Phytophthora cryptogea |
(none)
|
CCACACCTAAAAAA-CTTTCCACGTGAACC |
Phytophthora colocasiae |
(none)
|
CCACACCTAAAAAA-CTTTCCACGTGAACC |
Phytophthora citricola |
(none)
|
CCACACCTAAAAAA-CTTTTCACGTGAACC |
Phytophthora cinnamomi |
(none)
|
CCACACCTAAAAAA-CTTTCCACGTGAACC |
Phytophthora capsici |
(none)
|
CCACACCTAAAAAA-CTTTCCACGTGAACC |
Phytophthora cactorum |
(none)
|
CCACACCTAAAAA--CTTTCCACGTGAACC |
Phytophthora arecae |
(none)
|
CCACACCTAAAAA--CTTTCCACGTGAACC |
Columns
None of the columns has a description.