2009
-Guifré Torruella, Hiroshi Suga, Marta Riutort, Juli Peretó & Iñaki Ruiz-Trillo.
The evolutionary history of lysine biosynthesis pathways within eukaryotes.
Journal of Molecular Evolution 69(3): 240-248.
2008
-Iñaki Ruiz-Trillo, Andrew J. Roger, Gertraud Burger, Michael W. Gray & B. Franz Lang.
A phylogenomic investigation into the origin of Metazoa.
Molecular Biology and Evolution 25 (4): 664-672.
-E. Bapteste, E. Susko, J. Leigh, I. Ruiz-Trillo, J. Bucknam & W. F. Doolittle.
Alternative Methods for Concatenation of Core Genes Indicate a Lack of Resolution in Deep Nodes of the Prokaryotic Phylogeny.
Molecular Biology and Evolution 25(1): 83-91.
2007
-Iñaki Ruiz-Trillo, Gertraud Burger, Peter W. H. Holland, Nicole King, B. Franz Lang, Andrew J. Roger & Michael W. Gray.
The origins of multicellularity: a multi-taxon genome initiative.
Trends in Genetics 23(3): 113-118.
2006
-Iñaki Ruiz-Trillo, Christopher E. Lane, John M. Archibald & Andrew J. Roger.
Insights into the evolutionary origin and genome architecture of the unicellular opisthokonts Capsaspora owczarzaki and Sphaeroforma arctica.
Journal of Eukaryotic Microbiology 53(5): 1-6.
-Sina M. Adl, Iñaki Ruiz-Trillo & Melanie L. Wilson.
Observations on a Geocentrophora sp. (Lecitoepitheliata) flatworm from forest soils in Nova Scotia.
Journal of Natural History 40 (23-24): 1381-1387.
2004
-Iñaki Ruiz-Trillo, Yuji Inagaki, Lesley A. Davis, Sigmund Sperstad, Bjarne Landfald & Andrew J. Roger.
Capsaspora owczarzaki is an independent opisthokont lineage.
Current Biology 14: R946-R947.
-Iñaki Ruiz-Trillo, Marta Riutort, H. Matthew Fourcade, Jaume Baguñà & Jeffrey L. Boore.
Mitochondrial genome data support the basal position of Acoelomorpha and the polyphyly of the Platyhelminthes.
Molecular Phylogenetics and Evolution 33: 321- 332, 2004.
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