@ARTICLE{TreeBASE2Ref25324,
author = {romain derelle and Purificaci?n L?pez-Garc?a and H?l?ne Timpano and David Moreira},
title = {A phylogenomic framework to study the diversity and evolution of stramenopiles.},
year = {2016},
keywords = {Bigyra, Gyrista, Cavalierista, Chaoista, Depressonucleata, phylogenomics},
doi = {10.1093/molbev/msw168},
url = {http://},
pmid = {},
journal = {Molecular Biology and Evolution},
volume = {33},
number = {11},
pages = {2890--2898},
abstract = {Stramenopiles or heterokonts constitute one of the most speciose and diverse clades of protists. It includes ecologically important algae (such as diatoms or large multicellular brown seaweeds), as well as heterotrophic (e.g., bicosoecids, MAST groups) and parasitic (e.g., Blastocystis, oomycetes) species. Despite their evolutionary and ecological relevance, deep phylogenetic relationships among stramenopile groups, inferred mostly from small-subunit rDNA phylogenies, remain unresolved, especially for the heterotrophic taxa. Taking advantage of recently released stramenopile transcriptome and genome sequences, as well as data from the genomic assembly of the MAST-3 species Incisomonas marina generated in our laboratory, we have carried out the first extensive phylogenomic analysis of stramenopiles, including representatives of most major lineages. Our analyses, based on a large data set of 339 widely distributed proteins, strongly support a root of stramenopiles lying between two clades, Bigyra and Gyrista (Pseudofungi plus Ochrophyta). Additionally, our analyses challenge the Phaeista-Khakista dichotomy of photosynthetic stramenopiles (ochrophytes) as two groups previously considered to be part of the Phaeista (Pelagophyceae and Dictyochophyceae), branch with strong support with the Khakista (Bolidophyceae and Diatomeae). We propose a new classification of ochrophytes within the two groups Chrysista and Diatomista to reflect the new phylogenomic results. Our stramenopile phylogeny provides a robust phylogenetic framework to investigate the evolution and diversification of this group of ecologically relevant protists.}
}
Taxa for Study 18548
Citation title:
"A phylogenomic framework to study the diversity and evolution of stramenopiles.".
Study name:
"A phylogenomic framework to study the diversity and evolution of stramenopiles.".
This study is part of submission 18548
(Status: Published).
Taxa
ID |
Taxon Label |
NCBI taxid |
uBIO namebankID |
2830647 |
Aplanochytrium kerguelense |
87111
|
3188964
|
2830632 |
Aplanochytrium stocchinoi |
215587
|
3508802
|
2830624 |
Aurantiochytrium limacinum |
|
|
2830648 |
Aureococcus anophagefferens |
44056
|
5447766
|
2830645 |
Bicosoecid sp |
|
|
2830621 |
Bigelowiella natans |
227086
|
3531870
|
2830658 |
Blastocystis ST4 |
|
|
2830619 |
Blastocystis hominis |
12968
|
5443920
|
2830656 |
Bolidomonas pacifica |
91992
|
5958690
|
2830659 |
Bolidomonas sp |
|
|
2830641 |
Cafeteria roenbergensis |
33653
|
5593845
|
2830642 |
Cafeteria sp |
|
|
2830636 |
Chattonella subsalsa |
44440
|
3532543
|
2830633 |
Chromera velia |
|
|
2830652 |
Chrysocystis fragilis |
|
|
2830617 |
Chrysoreinhardia sp |
|
|
2830623 |
Dictyocha speculum |
35687
|
3868479
|
2830660 |
Dinobryon sp |
|
|
2830638 |
Ectocarpus siliculosus |
2880
|
437095
|
2830640 |
Fibrocapsa japonica |
94617
|
1681849
|
2830637 |
Florenciella parvula |
236787
|
5974090
|
2830635 |
Heterosigma akashiwo |
2829
|
1682855
|
2830622 |
Incisomonas marina |
|
|
2830654 |
MAST4 |
|
|
2830649 |
Mallomonas Sp |
|
|
2830630 |
Minutocellus polymorphus |
265543
|
3869497
|
2830629 |
Ochromonas sp |
|
|
2830657 |
Oxytricha trifallax |
94289
|
5454443
|
2830655 |
Pelagomonas calceolata |
35677
|
5440157
|
2830620 |
Perkinsus marinus |
31276
|
3291231
|
2830661 |
Phytophthora infestans |
4787
|
3871566
|
2830628 |
Protocruzia adherens |
223996
|
5972627
|
2830639 |
Pseudopedinella elastica |
35684
|
5740799
|
2830618 |
Pteridomonas danica |
38822
|
5470860
|
2830643 |
Pythium ultimum |
431595
|
5956107
|
2830651 |
Rhizochromulina marina |
35674
|
5740806
|
2830625 |
Rhizosolenia setigera |
3005
|
3868674
|
2830634 |
Saprolegnia parasitica |
101203
|
2417915
|
2830631 |
Schizochytrium aggregatum |
4773
|
5991106
|
2830626 |
Synchroma pusillum |
|
|
2830646 |
Thalassiosira pseudonana |
35128
|
3868640
|
2830644 |
Thraustochytridae QPX |
|
|
2830627 |
Thraustochytrium sp |
|
|
2830653 |
Vaucheria litorea |
109269
|
427417
|
2830650 |
Vitrella brassicaformis |
|
|