Centrohelida is still searching for a phylogenetic home: Analyses of seven Raphidiophrys contractilis genes

Sakaguchi, Minoru; Inagaki, Yuji; Hashimoto, Takeji

doi:10.1016/j.gene.2007.09.003

Cited by 16 publications

(10 citation statements)

References 34 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…This model, however, would need to be modified as the widely used dihydrofolate reductasethymidylate synthase gene fusion is questionable for several reasons (see discussion in Kim et al 2006). Of course, this does not rule out the possibility that some protists, such as Telonemia or the centrohelid heliozoans that have not yet been placed with confidence (Shalchian-Tabrizi et al 2006;Sakaguchi et al 2007), might represent additional independent lineages. But generally, we believe that most eukaryotes fall into one of these megagroups.…”

Section: Discussionmentioning

confidence: 99%

Phylogenomics reveals a new ‘megagroup’ including most photosynthetic eukaryotes

2008

View full text Add to dashboard Cite

Advances in molecular phylogeny of eukaryotes have suggested a tree composed of a small number of supergroups. Phylogenomics recently established the relationships between some of these large assemblages, yet the deepest nodes are still unresolved. Here, we investigate early evolution among the major eukaryotic supergroups using the broadest multigene dataset to date (65 species, 135 genes). Our analyses provide strong support for the clustering of plants, chromalveolates, rhizarians, haptophytes and cryptomonads, thus linking nearly all photosynthetic lineages and raising the question of a possible unique origin of plastids. At its deepest level, the tree of eukaryotes now receives strong support for two monophyletic megagroups comprising most of the eukaryotic diversity.

show abstract

Section: Discussionmentioning

confidence: 99%

Phylogenomics reveals a new ‘megagroup’ including most photosynthetic eukaryotes

2008

View full text Add to dashboard Cite

show abstract

“…Although some small groups of heliozoans are now known to belong to Rhizaria or stramenopiles (heterokonts), the most distinctive core group of Heliozoa, the invariably heterotrophic Centroheliozoa, is the last substantial eukaryotic group not yet clearly placed on the tree. Based on weakly supported 18S ribosomal RNA trees and some intriguing ultrastructural similarities, a possible relationship between centrohelids and haptophytes was recently suggested (Cavalier-Smith and von der Heyden 2007), but molecular trees (even based on as many as seven genes) are generally inconsistent and inconclusive (Sakaguchi et al 2007). …”

Section: Large-scale Expressed Sequence Tag Sequencing Of Telonemia Amentioning

confidence: 99%

Large-Scale Phylogenomic Analyses Reveal That Two Enigmatic Protist Lineages, Telonemia and Centroheliozoa, Are Related to Photosynthetic Chromalveolates

Burki

Inagaki

Bråte

et al. 2009

Genome Biology and Evolution

Self Cite

140

137

View full text Add to dashboard Cite

Understanding the early evolution and diversification of eukaryotes relies on a fully resolved phylogenetic tree. In recent years, most eukaryotic diversity has been assigned to six putative supergroups, but the evolutionary origin of a few major “orphan” lineages remains elusive. Two ecologically important orphan groups are the heterotrophic Telonemia and Centroheliozoa. Telonemids have been proposed to be related to the photosynthetic cryptomonads or stramenopiles and centrohelids to haptophytes, but molecular phylogenies have failed to provide strong support for any phylogenetic hypothesis. Here, we investigate the origins of Telonema subtilis (a telonemid) and Raphidiophrys contractilis (a centrohelid) by large-scale 454 pyrosequencing of cDNA libraries and including new genomic data from two cryptomonads (Guillardia theta and Plagioselmis nannoplanctica) and a haptophyte (Imantonia rotunda). We demonstrate that 454 sequencing of cDNA libraries is a powerful and fast method of sampling a high proportion of protist genes, which can yield ample information for phylogenomic studies. Our phylogenetic analyses of 127 genes from 72 species indicate that telonemids and centrohelids are members of an emerging major group of eukaryotes also comprising cryptomonads and haptophytes. Furthermore, this group is possibly closely related to the SAR clade comprising stramenopiles (heterokonts), alveolates, and Rhizaria. Our results link two additional heterotrophic lineages to the predominantly photosynthetic chromalveolate supergroup, providing a new framework for interpreting the evolution of eukaryotic cell structures and the diversification of plastids.

show abstract

“…In addition, some eukaryotic lineages show no clear phylogenetic affinity to any of the six supergroups described above. Centrohelida is typically considered incertae sedis Sakaguchi et al, 2007). EFL genes have so far been identified in (i) the members of Chlorophyta (except the ulvophycean green alga Acetabularia), (ii) the mesostigmatophycean green alga Mesostigma viride, (iii) dinoflagellates and the perkinsid Perkinsus marinus, (iv) photosynthetic cryptomonads, (v) haptophytes, (vi) chytrid and zygomycete fungi, (vii) choanoflagellates, (viii) ichthyosporeans, and (ix) chlorarachniophytes (Keeling and Inagaki, 2004;Gile et al, 2006;Ruiz-Trillo et al, 2006;Noble et al, 2007).…”

Section: Contents Lists Available At Sciencedirectmentioning

confidence: 99%

“…The position of Centrohelida in global eukaryotic phylogeny has not yet been settled Sakaguchi et al, 2007). In the EFL phylogeny (Fig.…”

Section: Centrohelid Eflmentioning

confidence: 99%

“…vertically versus laterally inheritance), since (i) no strong affinity was recovered in the EFL phylogeny (Fig. 2), and (ii) the phylogenetic position of Centrohelida in the organismal phylogeny has been unresolved Sakaguchi et al, 2007). To unveil EFL evolution in Centrohelida, improvement of the EFL gene sampling is indispensable.…”

Section: Origin Of Efl Genes In Red Algae Foraminiferans and Centromentioning

confidence: 99%

See 1 more Smart Citation

Tracing back EFL gene evolution in the cryptomonads–haptophytes assemblage: Separate origins of EFL genes in haptophytes, photosynthetic cryptomonads, and goniomonads

Sakaguchi

Takishita

Matsumoto

et al. 2009

Gene

Self Cite

View full text Add to dashboard Cite

Centrohelida is still searching for a phylogenetic home: Analyses of seven Raphidiophrys contractilis genes

Cited by 16 publications

References 34 publications

Phylogenomics reveals a new ‘megagroup’ including most photosynthetic eukaryotes

Phylogenomics reveals a new ‘megagroup’ including most photosynthetic eukaryotes

Large-Scale Phylogenomic Analyses Reveal That Two Enigmatic Protist Lineages, Telonemia and Centroheliozoa, Are Related to Photosynthetic Chromalveolates

Tracing back EFL gene evolution in the cryptomonads–haptophytes assemblage: Separate origins of EFL genes in haptophytes, photosynthetic cryptomonads, and goniomonads

Contact Info

Product

Resources

About