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A transcriptomic approach to ribbon worm systematics (Nemertea): resolving the Pilidiophora problem.

Artikel i vetenskaplig tidskrift
Författare S.C.S ANDRADE
H MONTENEGRO
M Strand
M SCHWARTZ
H Kajihara
J.M Turbeville
J.L NORENBURG
Per Sundberg
G Giribet
Publicerad i Molecular biology and evolution
Volym 31
Nummer/häfte 12
Sidor 3206-3215
ISSN 0737-4038
Publiceringsår 2014
Publicerad vid Institutionen för biologi och miljövetenskap
Sidor 3206-3215
Språk en
Länkar dx.doi.org/10.1093/molbev/msu253
Ämneskategorier Biologiska vetenskaper

Sammanfattning

Resolving the deep relationships of ancient animal lineages has proven difficult using standard Sanger-sequencing approaches with a handful of markers. We thus reassess the relatively well-studied phylogeny of the phylum Nemertea (ribbon worms)—for which the targeted gene approaches had resolved many clades but had left key phylogenetic gaps—by using a phylogenomic approach using Illumina-based de novo assembled transcriptomes and automatic orthology prediction methods. The analysis of a concatenated data set of 2,779 genes (411,138 amino acids) with about 78% gene occupancy and a reduced version with 95% gene occupancy, under evolutionary models accounting or not for site-specific amino acid replacement patterns results in a well-supported phylogeny that recovers all major accepted nemertean clades with the monophyly of Heteronemertea, Hoplonemertea, Monostilifera, being well supported. Significantly, all the ambiguous patterns inferred from Sanger-based approaches were resolved, namely the monophyly of Palaeonemertea and Pilidiophora. By testing for possible conflict in the analyzed supermatrix, we observed that concatenation was the best solution, and the results of the analyses should settle prior debates on nemertean phylogeny. The study highlights the importance, feasibility, and completeness of Illumina-based phylogenomic data matrices.

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