Phylogenetic relationships among 28 spirotrichous ciliates documented by rDNA

Hewitt, Elizabeth A.; Müller, Kirsten M.; Cannone, Jamie J.; Hogan, Daniel J.; Gutell, Robin R.; Prescott, David M.

doi:10.1016/s1055-7903(03)00097-6

Cited by 62 publications

(71 citation statements)

References 18 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…This group is often recovered in molecular phylogenies (e.g., Bernhard et al, 2001;Hewitt et al, 2003;Foissner et al, 2004;Schmidt et al, 2007;Shao et al, 2007;Yi et al, 2008a,b) and so they were in both our trees, however, with discrepant placement of Steinia sphagnicola and Sterkiella histriomuscorum. Nevertheless, stylonychine external affinities did not follow the same pattern in both trees.…”

Section: Tree Topologies and Nodal Supportmentioning

confidence: 69%

“…In our analyses, the Strongylidium + Pseudouroleptus group was closely related to the remaining Oxytricha granulifera populations and Paraurostyla viridis. According to Berger (2006), the latter may be a misidentified species, because of its ambiguous phylogenetic placement (Kelminson et al, 2002;Croft et al, 2003;Hewitt et al, 2003) and given that no morphological data were provided as evidence of correct identification. We decided to include it in our study to determine how it would be placed when analyzed in a broader taxon sample context than it originally was.…”

Section: Tree Topologies and Nodal Supportmentioning

confidence: 99%

“…During the last years, attempts to hypothesize the evolutionary relationships among the Stichotrichia (= Hypotricha in Berger, 2006) and closely related groups based on molecular data (e.g., Bernhard et al, 2001;Hewitt et al, 2003;Strüder-Kypke and Lynn, 2003;Foissner et al, 2004;Foissner and Stoeck, 2006) have given results that generally contradict other hypotheses and classification systems based on morphological data (e.g., de Puytorac et al, 1994;Berger and Foissner, 1997;Eigner, 1997Eigner, , 1999Eigner, , 2001Lynn and Small, 2002;Lynn, 2003;Agatha, 2004;Foissner et al, 2007).…”

Section: Introductionmentioning

confidence: 99%

“…The most remarkable are: i) the placement of Halteria grandinella among the flexible-body oxytrichids (Bernhard et al, 2001;Strüder-Kypke and Lynn, 2003), referred to as the "Halteria paradox" (see Foissner et al, 2007); ii) the separation of Uroleptus from the urostylids (Croft et al, 2003;Hewitt et al, 2003;Foissner et al, 2004;Stoeck, 2006, 2008), which led to the "Convergent Evolution of Urostylids and Uroleptids" (CEUU) hypothesis, and the polyphyly of the non-uroleptid urostylids, suggested in subsequent studies (Schmidt et al, 2007;Yi et al, 2008a,b); iii) the polyphyly of Oxytricha (Schmidt et al, 2007), and iv) the splitting of the Stichotrichia, which were polyphyletic in Yi et al (2008b).…”

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Comparative phylogenetic study of Stichotrichia (Alveolata: Ciliophora: Spirotrichea) based on 18S-rDNA sequences

Bn²,

Ml³

et al. 2009

Genet. Mol. Res.

View full text Add to dashboard Cite

ABSTrACT. Since molecular phylogenies of stichotrich ciliates started to be published, some remarkable contradictions to morphology-based classifications have been reported, such as the Convergent Evolution of Urostylids and Uroleptids (CEUU) hyphothesis, the Halteria paradox, the polyphyly of Oxytricha and of Stichotrichia. We hypothesized the internal phylogeny of 18S-rDNA from 53 morphological species of stichotrichs and their relationships with Hypotrichia and Oligotrichia using parsimony and neighbor-joining methods, including new data from Pseudouroleptus caudatus and Strongylidium pseudocrassum. Competing phylogenetic scenarios were compared using statistical tests, and the results suggest the reconsideration of both CEUU and the position of Halteria among flexible-body oxytrichids. The polyphyly of Oxytricha was not rejected and the monophyly of Stichotrichia was accepted based on parsimony analysis if Pseudoamphisiella is considered an external (discocephalid related) taxon.

show abstract

Section: Tree Topologies and Nodal Supportmentioning

confidence: 69%

Section: Tree Topologies and Nodal Supportmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Comparative phylogenetic study of Stichotrichia (Alveolata: Ciliophora: Spirotrichea) based on 18S-rDNA sequences

Bn²,

Ml³

et al. 2009

Genet. Mol. Res.

View full text Add to dashboard Cite

show abstract

“…However, in cladistic analyses inferred from morphological data (Agatha, 2004a), Cyrtostrombidium is closer to some genera in Strombidiidae than to Tontoniidae. In recent years the ITS1-5.8S rDNA-ITS2 region and the large subunit ribosomal RNA gene (LSU rDNA), which are tandemly linked to the SSU rDNA gene, are increasingly used in phylogenetic analyses of ciliates (Gao et al, 2014;Hewitt et al, 2003;Huang et al, 2014;Liu, 2011;Marande et al, 2009;Yi et al, 2014;Zhao et al, 2015). Previously, phylogenetic trees inferred from just a few ITS1-5.8S rDNA-ITS2 region sequences have been applied in analyses of evolutionary relationships within the Oligotrichia Snoeyenbos-West et al, 2002).…”

Section: Introductionmentioning

confidence: 99%

Multi-gene-based phylogenetic analysis of oligotrich ciliates with emphasis on two dominant groups: Cyrtostrombidiids and strombidiids (Protozoa, Ciliophora)

Gao

Song

et al. 2016

Molecular Phylogenetics and Evolution

View full text Add to dashboard Cite

-based phylogenetic analysis of oligotrich ciliates with emphasis on two dominant groups: cyrtostrombidiids and strombidiids (Protozoa, Ciliophora), Molecular Phylogenetics and Evolution (2016), doi: http://dx.doi.org/10. 1016/j.ympev.2016.08.019 This is a PDF file of an unedited manuscript that has been accepted for publication. As a service to our customers we are providing this early version of the manuscript. The manuscript will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain. ABSTRACTPhylogenetic analyses of ciliated protists are frequently based on single molecular markers, usually the small subunit ribosomal RNA gene (SSU rDNA), despite the well-known limitations of this approach.Here, 78 new sequences of three linked genes (SSU rDNA, ITS1-5.8S rDNA-ITS2, LSU rDNA) were characterized and applied to phylogenetic analyses of oligotrichs (s. str.). It was found that: (1) and Apostrombidium is confirmed, which updates the evolutionary hypothesis for oligotrichs based on ciliary patterns; and (5) two relatively stable clades were found in the family Strombidiidae.

show abstract

Decoding the Decoding Region: Analysis of Eukaryotic Release Factor (eRF1) Stop Codon-Binding Residues

et al. 2005

View full text Add to dashboard Cite

Peptide synthesis in eukaryotes terminates when eukaryotic release factor 1 (eRF1) binds to an mRNA stop codon and occupies the ribosomal A site. Domain 1 of the eRF1 protein has been implicated in stop codon recognition in a number of experimental studies. In order to further pinpoint the residues of this protein involved in stop codon recognition, we sequenced and compared eRF1 genes from a variety of ciliated protozoan species. We then performed a series of computational analyses to evaluate the conservation, accessibility, and structural environment of each amino acid located in domain 1. With this new dataset and methodology, we were able to identify eight specific amino acid sites important for stop codon recognition and also to propose a set of cooperative paired substitutions that may underlie stop codon reassignment. Our results are more consistent with current experimental data than previously described models.

show abstract

Phylogenetic relationships among 28 spirotrichous ciliates documented by rDNA

Cited by 62 publications

References 18 publications

Comparative phylogenetic study of Stichotrichia (Alveolata: Ciliophora: Spirotrichea) based on 18S-rDNA sequences

Comparative phylogenetic study of Stichotrichia (Alveolata: Ciliophora: Spirotrichea) based on 18S-rDNA sequences

Multi-gene-based phylogenetic analysis of oligotrich ciliates with emphasis on two dominant groups: Cyrtostrombidiids and strombidiids (Protozoa, Ciliophora)

Decoding the Decoding Region: Analysis of Eukaryotic Release Factor (eRF1) Stop Codon-Binding Residues

Contact Info

Product

Resources

About