Seed Plant Relationships and the Systematic Position of Gnetales Based on Nuclear and Chloroplast DNA: Conflicting Data, Rooting Problems, and the Monophyly of Conifers

By C. Rydin, M. Källersjö, E. M. Friis. INTERNATIONAL JOURNAL PLANT SCIENCES, 2002

177 citations recorded by the source corpus.

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

View Paper: https://www.semanticscholar.org/paper/aa3b2b45e983c6bfe595722ca79ecb060b635c06

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Citations in the corpus

A new classification and linear sequence of extant gymnosperms (2011, background): “Other studies have found Gnetidae as sister to all other extant seed plants (Rydin et al. 2002), but this does not fit the fossil record in a stratigraphic sense.”
Brief history of the gymnosperms: classification, biodiversity, phytogeography and ecology (2007, background): “…focussed on the systematic position of Gnetales, the position of Ginkgo biloba in molecular studies varies between a close relationship to conifers or to cycads (Hasebe et al. 1992; Bowe et al. 2000; Chaw et al. 2000; Frohlich & Parker 2000; Rydin et al. 2002; Schmidt & Schneider-Poetsch 2002).”
A SYSTEMATIC SURVEY OF FLORAL NECTARIES (2007, background): “In Orchidaceae, Smets et al. (2000) linked this lack to the presence of unilocular ovaries in most species.”
Seed ferns and the origin of angiosperms (2006, methodology): “…Rydin et al. 2002), but tests using likelihood and other methods suggest that this arrangement is a result of long-branch attraction, particularly affecting third codon positions (Sanderson et al. 2000, Magallón and Sanderson 2002, Rydin et al. 2002, Soltis et al. 2002, Burleigh and Mathews 2004).”
Inference of higher-order conifer relationships from a multi-locus plastid data set (2008, methodology): “The resulting large clade — comprising all extant conifers except Pinaceae — has been referred to informally as ‘‘conifers II’’ (e.g., Rydin et al. 2002), and more recently as Cupressophyta by Cantino et al. (2007).”
Tree of life for the genera of Chinese vascular plants (2016, background): “Prior studies using fast-evolving chloroplast genes (Magall on & Sanderson, 2002; Rydin et al., 2002) showed the same relationships that we recovered with more slowly evolving genes that were more easily aligned for the group (i.e., atpB, rbcL, andmatK).”
Pteridosperms are the backbone of seed-plant phylogeny1 (2006, background): “…contrasts in overall taxon sampling (Rydin and Källersjö 2002, Rydin et al. 2005), outgroup sampling to determine rooting (Rydin and Källersjö 2002, Rydin et al. 2002, 2005), and in the genomic compartments analyzed, which routinely generate conflicting signals (Rydin et al. 2002, 2005,…”
A Nonflowering Land Plant Phylogeny Inferred from Nucleotide Sequences of Seven Chloroplast, Mitochondrial, and Nuclear Genes (2007, methodology): “This observation has also been made in several earlier studies on volatility of the position of Gnetales when the third-codon positions alone or fast-evolving sites were used in analyses (Magallón and Sanderson 2002; Rydin et al. 2002; Burleigh and Mathews 2004).”
Early evolution of angiosperm pollen as inferred from molecular and morphological phylogenetic analyses (2005, methodology): “…with angiosperms (Goremykin et al. 1996, Chaw et al. 1997, 2000; Qiu et al. 1999, Bowe et al. 2000, Frohlich & Parker 2000, Sanderson et al. 2000, Rydin et al. 2002, Soltis et al. 2002, Burleigh & Mathews 2004, Nickerson & Drouin 2004; for congruent smaller-scale studies, see Donoghue & Doyle…”
A 567‐Taxon Data Set for Angiosperms: The Challenges Posed by Bayesian Analyses of Large Data Sets (2007, background): “More recent Bayesian studies by Rydin et al. (2002) and Qiu et al. (2005) for ca. 100 plant taxa and by Wurdack et al. (2005) for more than 200 plant species have pushed model-based inference beyond the limits typical of most maximum likelihood programs available to date (but see Guindon and…”
Integrating Molecular Phylogenetic and Paleobotanical Evidence on Origin of the Flower (2008, background): “A few analyses of ribosomal DNA have supported a relationship of angiosperms and Gnetales, but only weakly (Hamby and Zimmer 1992; Rydin et al. 2002), and analyses of other genes and sequences of several genes combined, some from all three genomes, give different trees (see reviews in Donoghue and…”
Interspecific variation in functional traits, not climatic differences among species ranges, determines demographic rates across 44 temperate and Mediterranean tree species (2010, methodology): “genus- and species-level polytomies were resolved by obtaining additional phylogenetic information from (i) the user-supplied data repository in Phylomatic for the Pinaceae (Rydin 2002), Rosaceae (Potter”
Use of Simultaneous Analyses to Guide Fossil‐Based Calibrations of Pinaceae Phylogeny (2008, unknown): “…matrix was assembled from a combination of GenBank accessions (Hipkins et al. 1990; Brunsfeld et al. 1994; Wakasugi et al. 1994; Wang et al. 1999, 2000; Conran et al. 2000; Gadek et al. 2000; Kusumi et al. 2000; Quinn et al. 2002; Rydin et al. 2002; Leebens-Mack et al. 2005) and new data (app.”
A fossil‐calibrated relaxed clock for Ephedra indicates an Oligocene age for the divergence of Asian and New World clades and Miocene dispersal into South America (2009, methodology): “…the psbAtrnH intergenic spacer (IGS) (Techen et al., 2006), the trnL gene, and the trnL–trnF IGS (Long et al., 2004), as well as nuclear ribosomal 18S (Rydin et al., 2002, 2004; Wang et al., 2005; Rydin & Korall, 2009), 26S (Rydin et al., 2002, 2004; Rydin & Korall, 2009), and internal transcribed…”