The DOI matches its Crossref record; 44 of the 44 references it cites were found in a registry or an index.
Utility of 17 chloroplast genes for inferring the phylogeny of the basal angiosperms
Abstract
Sequences from 14 slowly evolving chloroplast genes (including three highly conserved introns) were obtained for representative basal angiosperm and seed‐plant taxa, using novel primers described here. These data were combined with published sequences from atpB, rbcL, and newly obtained sequences from ndhF. Combined data from these 17 genes permit sturdy, well‐resolved inference of major aspects of basal angiosperm relationships, demonstrating that the new primers are valuable tools for sorting out the deepest events in flowering plant phylogeny. Sequences from the inverted repeat (IR) proved to be particularly reliable (low homoplasy, high retention index). Representatives of Cabomba and Illicium were the first two successive branches of the angiosperms in an initial sampling of 19 exemplar taxa. This result was strongly supported by bootstrap analysis and by two small insertion/deletion events in the slowly evolving introns. Several paleoherb groups (representatives of Piperales) formed a strongly supported clade with taxa representing core woody magnoliids (Laurales, Magnoliales, and Winteraceae). The monophyly of the sampled eudicots and monocots was also well supported. Analyses of three major partitions of the data showed many of the same clades and supported the rooting seen with all the data combined. While Amborella trichopoda was supported as the sister group of the remaining angiosperms when we added Amborella and Nymphaea odorata to the analysis, a strongly conflicting rooting was observed when Amborella alone was added.
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CONFIDENCE LIMITS ON PHYLOGENIES: AN APPROACH USING THE BOOTSTRAP
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TESTING SIGNIFICANCE OF INCONGRUENCE
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An Empirical Test of Bootstrapping as a Method for Assessing Confidence in Phylogenetic Analysis
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Cases in which Parsimony or Compatibility Methods will be Positively Misleading
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Cases in which parsimony or compatibility methods will be positively misleading.
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Phylogenetics of Seed Plants: An Analysis of Nucleotide Sequences from the Plastid Gene rbcL
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Cited by
Becker, A. (2003) · Molecular Phylogenetics and Evolution · doi:10.1016/s1055-7903(03)00207-0 · Cited by 990
Methods for Obtaining and Analyzing Whole Chloroplast Genome Sequences
Jansen, R. K., Raubeson, L. A., Boore, J. L., dePamphilis, C. W., Chumley, T. W., Haberle, R. C., Wyman, S. K., Alverson, A. J., Peery, R., Herman, S. J., et al. (2005) · Methods in Enzymology · doi:10.1016/s0076-6879(05)95020-9 · Cited by 464
Zahn, L. M., Kong, H., Leebens-Mack, J. H., Kim, S., Soltis, P. S., Landherr, L. L., Soltis, D. E., dePamphilis, C. W., & Ma, H. (2005) · Genetics · doi:10.1534/genetics.104.037770 · Cited by 371
Utility of Low-Copy Nuclear Gene Sequences in Plant Phylogenetics
Sang, T. (2002) · Critical Reviews in Biochemistry and Molecular Biology · doi:10.1080/10409230290771474 · Cited by 357
Goremykin, V. V. (2003) · Molecular Biology and Evolution · doi:10.1093/molbev/msg159 · Cited by 293
Metadata
- Authors
- Graham, S. W., & Olmstead, R. G.
- Venue
- American Journal of Botany
- Publisher
- Wiley
- Published
- 2000-11
- Volume
- 87
- Issue
- 11
- Pages
- 1712-1730
- ISSN
- 0002-9122 (ISSN-L)
- 1537-2197
- OpenAlex
- W2110245550
- Cited by
- 340
- References
- 44
- FWCI
- 36.83
- Type
- journal article
- Language
- en
- Open access
- closed
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