Journal ArticleDOI
Green-colored plastids in the dinoflagellate genus Lepidodinium are of core chlorophyte origin.
Takuya Matsumoto,Fumihiko Shinozaki,Tomoko Chikuni,Akinori Yabuki,Kiyotaka Takishita,Masanobu Kawachi,Takeshi Nakayama,Isao Inouye,Tetsuo Hashimoto,Yuji Inagaki +9 more
TLDR
It is proposed that Lepidodiniumplastids are of core chlorophyte origin, and 85 sequences newly determined in this study and recent progress in plastid genome sequencing enabled us to prepare an alignment comprised of 11Plastid proteins from green algal taxa that appropriately cover the diversity of Chlorophyta.About:
This article is published in Protist.The article was published on 2011-04-01. It has received 58 citations till now. The article focuses on the topics: Plastid.read more
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Phylogeny and Molecular Evolution of the Green Algae
Frederik Leliaert,David Roy Smith,Hervé Moreau,Matthew D. Herron,Heroen Verbruggen,Charles F. Delwiche,Olivier De Clerck +6 more
TL;DR: Current understanding of organelle genome evolution in the green algae is summarized, genomic insights into the ecology of oceanic picoplanktonic prasinophytes, molecular mechanisms underlying the evolution of complexity in volvocine green algae, and the Evolution of genetic codes and the translational apparatus in green seaweeds are summarized.
Journal ArticleDOI
The Number, Speed, and Impact of Plastid Endosymbioses in Eukaryotic Evolution
TL;DR: Questions are examined about the number of endosymbiotic events needed to explain plastid diversity, whether the genetic contribution of the endOSymbionts to the host genome goes far beyond plastids-targeted genes, and whether organelle origins are best viewed as a singular transition involving one symbiont or as a gradual transition involving a long line of transient food/symbiont.
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Into the deep: new discoveries at the base of the green plant phylogeny.
TL;DR: Current insights into the origin and diversification of the green plant lineage are discussed and it is suggested that the earliest‐diverging Chlorophyta were motile planktonic unicellular organisms.
Journal ArticleDOI
Genomic perspectives on the birth and spread of plastids
TL;DR: The magnitude and potential impact of nucleus-to-nucleus endosymbiotic gene transfer in the evolution of complex algae, and the extent to which such transfers compromise the ability to infer the deep structure of the eukaryotic tree of life is explored.
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Kingdom Chromista and its eight phyla: a new synthesis emphasising periplastid protein targeting, cytoskeletal and periplastid evolution, and ancient divergences.
TL;DR: The origin, evolutionary diversification, and reasons for making chromists one kingdom despite highly divergent cytoskeletons and trophic modes are discussed, including improved explanations for periplastid/chloroplast protein targeting, derlin evolution, and ciliary/cytoskeletal diversification.
References
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RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
TL;DR: UNLABELLED RAxML-VI-HPC (randomized axelerated maximum likelihood for high performance computing) is a sequential and parallel program for inference of large phylogenies with maximum likelihood (ML) that has been used to compute ML trees on two of the largest alignments to date.
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An Improved General Amino Acid Replacement Matrix
Si Quang Le,Olivier Gascuel +1 more
TL;DR: This method further refine this method by incorporating the variability of evolutionary rates across sites in the matrix estimation and using a much larger and diverse database than BRKALN, which was used to estimate WAG.
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An Approximately Unbiased Test of Phylogenetic Tree Selection
TL;DR: It is shown that the AU test is less biased than other methods in typical cases of tree selection, as well as in the analysis of mammalian mitochondrial protein sequences.
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CONSEL: for assessing the confidence of phylogenetic tree selection
TL;DR: UNLABELLED CONSEL is a program to assess the confidence of the tree selection by giving the p-values for the trees using the multi-scale bootstrap technique, which is less biased than the other conventional p- values.
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The Evolution of Modern Eukaryotic Phytoplankton
Paul G. Falkowski,Miriam E. Katz,Andrew H. Knoll,Antonietta Quigg,John A. Raven,Oscar Schofield,F. J. R. Taylor +6 more
TL;DR: The geological, geochemical, and biological processes that contributed to the rise of the dinoflagellates, coccolithophores, and diatoms all contain plastids derived from an ancestral red alga by secondary symbiosis are examined.