About: Spliced Leader RNAs, Mitochondrial Gene Frameshifts and Multi-Protein Phylogeny Expand Support for the Genus Perkinsus as a Unique Group of Alveolates

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About: Spliced Leader RNAs, Mitochondrial Gene Frameshifts and Multi-Protein Phylogeny Expand Support for the Genus Perkinsus as a Unique Group of Alveolates Goto Sponge NotDistinct Permalink

An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Spliced Leader RNAs, Mitochondrial Gene Frameshifts and Multi-Protein Phylogeny Expand Support for the Genus Perkinsus as a Unique Group of Alveolates
Creator	Lin, Senjie Zhang, Huan Campbell, David Dungan, Christopher Sturm, Nancy
topic	covid:94a4251b88b47417be1ebffe98259c1d4c1e0b36#this
Source	PMC
abstract	The genus Perkinsus occupies a precarious phylogenetic position. To gain a better understanding of the relationship between perkinsids, dinoflagellates and other alveolates, we analyzed the nuclear-encoded spliced-leader (SL) RNA and mitochondrial genes, intron prevalence, and multi-protein phylogenies. In contrast to the canonical 22-nt SL found in dinoflagellates (DinoSL), P. marinus has a shorter (21-nt) and a longer (22-nt) SL with slightly different sequences than DinoSL. The major SL RNA transcripts range in size between 80–83 nt in P. marinus, and ∼83 nt in P. chesapeaki, significantly larger than the typical ≤56-nt dinoflagellate SL RNA. In most of the phylogenetic trees based on 41 predicted protein sequences, P. marinus branched at the base of the dinoflagellate clade that included the ancient taxa Oxyrrhis and Amoebophrya, sister to the clade of apicomplexans, and in some cases clustered with apicomplexans as a sister to the dinoflagellate clade. Of 104 Perkinsus spp. genes examined 69.2% had introns, a higher intron prevalence than in dinoflagellates. Examination of Perkinsus spp. mitochondrial cytochrome B and cytochrome C oxidase subunit I genes and their cDNAs revealed no mRNA editing, but these transcripts can only be translated when frameshifts are introduced at every AGG and CCC codon as if AGGY codes for glycine and CCCCU for proline. These results, along with the presence of the numerous uncharacterized ‘marine alveolate group I' and Perkinsus-like lineages separating perkinsids from core dinoflagellates, expand support for the affiliation of the genus Perkinsus with an independent lineage (Perkinsozoa) positioned between the phyla of Apicomplexa and Dinoflagellata.
has issue date	2011-05-24(xsd:dateTime)
bibo:doi	10.1371/journal.pone.0019933
bibo:pmid	21629701
has license	cc-by
sha1sum (hex)	94a4251b88b47417be1ebffe98259c1d4c1e0b36
schema:url	https://doi.org/10.1371/journal.pone.0019933
resource representing a document's title	Spliced Leader RNAs, Mitochondrial Gene Frameshifts and Multi-Protein Phylogeny Expand Support for the Genus Perkinsus as a Unique Group of Alveolates
has PubMed Central identifier	PMC3101222
has PubMed identifier	21629701
schema:publication	PLoS One
resource representing a document's body	covid:94a4251b88b47417be1ebffe98259c1d4c1e0b36#body_text
is http://vocab.deri.ie/void#inDataset of	https://covidontheweb.inria.fr:4443/about/id/http/ns.inria.fr/covid19/94a4251b88b47417be1ebffe98259c1d4c1e0b36
is schema:about of	named entity 'SPLICED' named entity 'Perkinsus' named entity 'separating' named entity 'clade' named entity 'prevalence' named entity 'gain' named entity 'These' named entity 'clade' named entity 'mitochondrial genes' named entity 'Perkinsus' named entity 'Gene' named entity 'CLADE' named entity 'CASES' covid:arg/94a4251b88b47417be1ebffe98259c1d4c1e0b36 named entity 'SLIGHTLY' named entity 'DINOFLAGELLATE' named entity 'HIGHER' named entity 'GROUP' named entity 'MITOCHONDRIAL GENE' named entity 'LINEAGE' named entity 'PERKINSUS' named entity 'MRNA EDITING' named entity 'DINOFLAGELLATA' named entity 'PROLINE' named entity 'RANGE' named entity 'BUT' named entity 'NUMEROUS' named entity 'THESE' named entity 'CYTOCHROME B' named entity 'SUPPORT' named entity 'MITOCHONDRIAL' named entity 'REVEALED' named entity 'GENES' named entity 'FOUND' named entity 'MOST OF' named entity '104' named entity 'INTRODUCED' named entity 'GROUP I' named entity 'PERKINSUS' named entity 'RNAS' named entity 'EXPAND' named entity 'RELATIONSHIP' named entity 'SPLICED' named entity 'ALVEOLATE' named entity 'TREES' named entity 'INTRON' named entity 'TRANSCRIPTS' named entity 'PHYLOGENY' named entity 'PROTEIN ' named entity 'MULTI' named entity 'ALVEOLATES' named entity 'GENUS' named entity 'NUCLEAR' named entity 'BRANCHED' named entity 'CODES' named entity 'GENUS' named entity 'UNDERSTANDING' named entity 'CCC' named entity 'GLYCINE' named entity 'INCLUDED' named entity 'PROTEIN ' named entity 'ENCODED' named entity 'CYTOCHROME C OXIDASE SUBUNIT I' named entity 'CLUSTERED' named entity 'LIKE' named entity 'BETTER' named entity 'PREVALENCE' named entity 'SPP' named entity 'CORE' named entity 'MULTI' named entity 'AGG' named entity 'SEQUENCES' named entity 'EXPAND' named entity 'TAXA' named entity 'AFFILIATION'

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