An integrative approach to phylogeny reveals patterns of environmental distribution and novel evolutionary relationships in a major group of ciliates

@article{Sun2016AnIA,
  title={An integrative approach to phylogeny reveals patterns of environmental distribution and novel evolutionary relationships in a major group of ciliates},
  author={P. Sun and J. Clamp and Dapeng Xu and Bangqin Huang and M. Shin},
  journal={Scientific Reports},
  year={2016},
  volume={6}
}
Peritrichs are a major group of ciliates with worldwide distribution. Yet, its internal phylogeny remains unresolved owing to limited sampling. Additionally, ecological distributions of peritrichs are poorly known. We performed substantially expanded phylogenetic analyses of peritrichs that incorporated SSU rDNA sequences of samples collected from three continents, revealing a number of new relationships between and within major lineages that greatly challenged the classic view of the group… Expand
Concatenated data and dense taxon sampling clarify phylogeny and ecological transitions within Hypotricha
TLDR
This study substantially increases the number of available hypotrich LSU rDNA gene sequences by the addition of 857 environmental sequences, and investigates whether a more divergent gene and dense taxon sampling could better resolve the phylogeny of Hypotricha and shed light on the patterns of ecological transitions in the evolutionary history of the group. Expand
Insights into the origin and evolution of Peritrichia (Oligohymenophorea, Ciliophora) based on analyses of morphology and phylogenomics.
TLDR
Evidence that spasmin is an important molecule to illustrate the phylogenetic position of Peritrichia within the class Oligohymenophorea, the monophyly of Per itrichia, and the diverse and rapid evolution of sessilid peritrichs is provided. Expand
Phylogeny of the families Zoothamniidae and Epistylididae (Protozoa: Ciliophora: Peritrichia) based on analyses of three rRNA-coding regions.
TLDR
Intrafamilial phylogeny of some peritrichs was investigated using information from three genes, which provided more robust interpretations than single-gene analyses, and evolutionary hypotheses can be inferred. Expand
Phylogenomics solves a long-standing evolutionary puzzle in the ciliate world: The subclass Peritrichia is monophyletic.
TLDR
These analyses resolve a long-standing debate in ciliate molecular phylogenetics and provide support for the classical view that the morphological features of the two peritrich orders Mobilida and Sessilida arose by descent from the same common ancestor and are not the result of convergence. Expand
Further consideration on the phylogeny of the Ciliophora: Analyses using both mitochondrial and nuclear data with focus on the extremely confused class Phyllopharyngea.
TLDR
Results from mitochondrial small subunit ribosome DNA corroborated those of nSSU-rDNA for highly supported clades, and the mtSSU -rDNA tree with its secondary structure gave topologies that could be explained by the morphology; therefore it can be useful in some cases towards better resolution of robust phylogenies. Expand
Incorporating mitogenome sequencing into integrative taxonomy: The multidisciplinary redescription of the ciliate Thuricola similis (Peritrichia, Vaginicolidae) provides new insights into the evolutionary relationships among Oligohymenophorea subclasses.
TLDR
This work presented the characterization on Thuricola similis Bock, 1963, a loricate peritrich (Oligohymenophorea), incorporating mitogenome sequencing into integrative taxonomy, and phylogenomic analyses based on a set of mitochondrial genes revealed that Thuricolas and Cothurnia are monophyletic genera, and Vaginicola could be a polyphyletic genus. Expand
The Morphology, Taxonomy, and Phylogenetic Analyses of Five Freshwater Colonial Peritrich Ciliates (Alveolata, Ciliophora), Including the Descriptions of Two New Species
  • Tong Wu, Zhe Wang, +6 authors Borong Lu
  • Medicine
  • Frontiers in Microbiology
  • 2021
The morphology and phylogeny of two new sessilid species, Zoothamnium weishanicum n. sp. and Epicarchesium sinense n. sp., two insufficiently known species, Zoothamnium arbuscula Ehrenberg, 1831 andExpand
Investigating the biodiversity of ciliates in the 'Age of Integration'.
TLDR
A review of current efforts toward integrative research into biodiversity of ciliates reveals a single, overarching concern-rapid progress will be achieved only by implementing a comprehensive strategy supported by one or more groups of active researchers. Expand
Morphology and Molecular Phylogeny of Peritrich Ciliate Epibionts on Pelagic Diatoms: Vorticella oceanica and Pseudovorticella coscinodisci sp. nov. (Ciliophora, Peritrichia).
TLDR
Consortia of the peritrich ciliate Vorticella oceanica and the planktonic diatom Chaetoceros coarctactus are reported from the South Atlantic Ocean, revealing a widespread distribution in tropical waters. Expand
Morphology and Phylogeny of Three Pseudovorticella Species (Ciliophora: Peritrichia) from Brackish Waters of China
TLDR
Phylogenetic analyses based on SSU rDNA sequences reveal that Pseudovorticella is not monophyletic and Z. hartwigi clusters with its congeners as expected. Expand
...
1
2
3
4
...

References

SHOWING 1-10 OF 61 REFERENCES
Freshwater Perkinsea and marine-freshwater colonizations revealed by pyrosequencing and phylogeny of environmental rDNA
TLDR
Only a few successful transitions between these habitats have taken place over the entire history of Perkinsea, suggesting that the boundary between marine and fresh waters may constitute a barrier to cross-colonizations for intracellular parasites. Expand
Phylogenetic detection of novel Cryptomycota in an Iowa (United States) aquifer and from previously collected marine and freshwater targeted high-throughput sequencing sets.
TLDR
This study significantly expands the boundary of known Cryptomycota sequence diversity and characterizes the phylogenetic distribution of this diversity in aquatic environments, which is generalizable to discovery of novel micro-eukaryotic diversity from any lineage. Expand
An ITS-based phylogenetic framework for the genus Vorticella: finding the molecular and morphological gaps in a taxonomically difficult group
TLDR
Molecular systematics for this group of ciliates are moved to the infrageneric level by sequencing additional molecular markers—fast-evolving internal transcribed spacer regions—in a broad sample of 66 individual samples of 28 morphospecies of Vorticella collected from Asia, North America and Europe. Expand
Pyrosequencing for assessing diversity of eukaryotic microbes: analysis of data on marine planktonic ciliates and comparison with traditional methods.
TLDR
The findings confirm the potential of pyrosequencing for quantifying microbial diversity, but also highlight the importance of careful evaluation of py rosequencing processing for using this method to address ecological questions. Expand
Molecular phylogeny of the family Vorticellidae (Ciliophora, Peritrichia) using combined datasets with a special emphasis on the three morphologically similar genera Carchesium, Epicarchesium and Apocarchesium.
TLDR
P phylogenetic analyses of vorticellids based on the sequence of the small-subunit (SSU) rRNA gene, including one species of the genus Apocarchesium, for which no sequence has previously been reported are performed to explore further the phylogenetic relationship between the three morphologically similar genera. Expand
A Molecular Phylogenetic Investigation of Zoothamnium (Ciliophora, Peritrichia, Sessilida) 1
TLDR
It is apparent that Zoothamnium is a richly diverse genus and that a much more intensive investigation will be necessary to resolve its phylogeny, indicating that characteristics of stalk and peristomial structure traditionally used to differentiate taxa at the generic level and above may not be uniformly reliable. Expand
Expanded Phylogenetic Representation of Genera Opercularia and Epistylis Sheds Light on the Evolution and Higher‐Level Taxonomy of Peritrich Ciliates (Ciliophora: Peritrichia)
TLDR
The results support the recognition of two major clades within Peritrichia, and suggest that these two clades should be formally recognized as orders, and propose the names Vorticellida and Operculariida to designate them. Expand
Placing environmental next-generation sequencing amplicons from microbial eukaryotes into a phylogenetic context.
TLDR
V4 amplicons from European nearshore sampling sites are used to infer that rather than being primarily terrestrial and freshwater, colpodean ciliates may have repeatedly transitioned from terrestrial/freshwater to marine environments. Expand
Phylogenetic Relationships of the Subclass Peritrichia (Oligohymenophorea, Ciliophora) with Emphasis on the Genus Epistylis, Inferred from Small Subunit rRNA Gene Sequences
TLDR
It is concluded that the perstomial area, especially the peristomial lip, might be the important phylogenetic character within the genus Epistylis. Expand
Molecular and Morphological Characterization of a Poorly Known Marine Ciliate, Myoschiston duplicatum Precht, : Implications for Phylogenetic Relationships between Three Morphologically Similar Genera — Zoothamnium, Myoschiston, and Zoothamnopsis (Ciliophora, Peritrichia, Zoothamniidae)
TLDR
The morphology and molecular phylogeny of Myoschiston duplicatum, a peritrich ciliate that has been recorded as an epibiont of crustaceans, but which is also identified on marine algae from Korea, is studied to provide an improved diagnosis and phylogenetic relationship in the family Zoothamniidae between the three morphologically similar genera. Expand
...
1
2
3
4
5
...