Robust Inference of Monocot Deep Phylogeny Using an Expanded Multigene Plastid Data Set

By Sean, Graham, Jessie, Zgurski, Marc, McPherson, Donna, Cherniawsky, Jeffery, Saarela and 19 more. 2006

137 citations recorded by the source corpus.

We use multiple photosynthetic, chlororespiratory, and plastid translation apparatus loci and their associated noncoding regions (ca. 16 per taxon, prior to alignment) to make strongly supported inferences of the deep internal branches of monocot phylogeny. Most monocot relationships are robust (an average of ca. 91% bootstrap support per branch examined), including those poorly supported or unresolved in other studies. Our data strongly support a sister-group relationship between Asparagales and the commelinid monocots, the inclusion of the orchids in Asparagales, and the status of Petrosaviaceae as the sister group of all monocots except Acorus and Alismatales. The latter finding supports recognition of the order Petrosaviales. Also strongly supported is a placement of Petermannia disjunct from Colchicaceae (Liliales) and a sister-group relationship between Commelinales and Zingiberales. from highlight the remaining weak areas of monocot phylogeny, including Commelinales and Zingiberales. Liliales, and Pandanales. Despite substantial variation in the overall rate of molecular evolution among lineages, inferred amounts of change among codon-position data partitions are correlated with each other across the monocot tree, consistent with low incongruence between these partitions. Ceratophyllum and Chloranthaceae appear to have a destabilizing effect on the these partitions. Ceratoamong other angiosperms; the issue of monocot placement in broader angiosperm phylogeny remains problematic.

Subfields: Ecology, Evolution, Behavior and Systematics, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/4f14717b7ace3ed3e5eea48b65771df2cf15f0d5

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Citations in the corpus

Iridaceae ‘Out of Australasia’? Phylogeny, Biogeography, and Divergence Time Based on Plastid DNA Sequences (2008, background): “By this time outgroups to the Iridaceae were known to comprise Doryanthaceae, Ixiolirion (Ixioliriaceae), and Tecophilaeaceae, in that order (Fay et al. 2000; Graham et al. 2006; Pires et al. 2006).”
Inference of higher-order conifer relationships from a multi-locus plastid data set (2008, methodology): “…sequences, performed basecalling using Sequencher 4.1 (Gene Codes Corporation; Ann Arbor, Mich.), and added new sequences to an alignment (Graham et al. 2006) that includes sequences generated for previous studies of seed-plant phylogeny (Graham and Olmstead, 2000a, 2000b; Graham et al.…”
Assembling the Tree of the Monocotyledons: Plastome Sequence Phylogeny and Evolution of Poales1 (2010, methodology): “…of the resulting estimates of phylogenetic relationships in large taxonomic groups when combined with a reasonably dense and well-stratified sampling of taxa (Hillis, 1996; Givnish & Sytsma, 1997; Graybeal, 1998; Soltis et al., 1998; Hillis et al., 2003; Graham et al., 2006; Jansen et al., 2007).”