The DOI matches its Crossref record; 26 of the 26 references it cites were found in a registry or an index.
The Evolution of Ribosomal DNA Divergent Paralogues and Phylogenetic Implications
Open accessAbstract
Although nuclear ribosomal DNA (rDNA) repeats evolve together through concerted evolution, some genomes contain a considerable diversity of paralogous rDNA. This diversity includes not only multiple functional loci but also putative pseudogenes and recombinants. We examined the occurrence of divergent paralogues and recombinants in Gossypium, Nicotiana, Tripsacum, Winteraceae, and Zea ribosomal internal transcribed spacer (ITS) sequences. Some of the divergent paralogues are probably rDNA pseudogenes, since they have low predicted secondary structure stability, high substitution rates, and many deamination-driven substitutions at methylation sites. Under standard PCR conditions, the low stability paralogues amplified well, while many high-stability paralogues amplified poorly. Under highly denaturing PCR conditions (i.e., with dimethylsulfoxide), both low- and high-stability paralogues amplified well. We also found recombination between divergent paralogues. For phylogenetics, divergent ribosomal paralogues can aid in reconstructing ancestral states and thus serveas good outgroups. Divergent paralogues can also provide companion rDNA phylogenies. However, phylogeneticists must discriminate among families of divergent paralogues and recombinants or suffer from muddled and inaccurate organismal phylogenies.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Kimura, M. (1980) · Journal of Molecular Evolution · doi:10.1007/bf01731581 · Cited by 29,778
Evolutionary trees from DNA sequences: A maximum likelihood approach.
Felsenstein, J. (1981) · Journal of Molecular Evolution · doi:10.1007/bf01734359 · Cited by 14,571
Ribosomal DNA: Molecular Evolution and Phylogenetic Inference
Hillis, D. M., & Dixon, M. T. (1991) · The Quarterly Review of Biology · doi:10.1086/417338 · Cited by 2,573
The its Region of Nuclear Ribosomal DNA: A Valuable Source of Evidence on Angiosperm Phylogeny
Baldwin, B. G., Sanderson, M. J., Porter, J. M., Wojciechowski, M. F., Campbell, C. S., & Donoghue, M. J. (1995) · Annals of the Missouri Botanical Garden · doi:10.2307/2399880 · Cited by 1,850
Smith, G. P. (1976) · Science · doi:10.1126/science.1251186 · Cited by 1,212
fastDNAml: a tool for construction of phylogenetic trees of DNA sequences using maximum likelihood
Olsen, G. J., Matsuda, H., Hagstrom, R., & Overbeek, R. (1994) · Bioinformatics · doi:10.1093/bioinformatics/10.1.41 · Cited by 1,108
Simple methods for testing the molecular evolutionary clock hypothesis.
Tajima, F. (1993) · Genetics · doi:10.1093/genetics/135.2.599 · Cited by 947
Wendel, J. F., Schnabel, A., & Seelanan, T. (1995) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.92.1.280 · Cited by 828
A simulation comparison of phylogeny algorithms under equal and unequal evolutionary rates.
(1994) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040126 · Cited by 824
Performance of Phylogenetic Methods in Simulation
Huelsenbeck, J. P. (1995) · Systematic Biology · doi:10.1093/sysbio/44.1.17 · Cited by 668
Cited by
Ribosomal ITS sequences and plant phylogenetic inference
Álvarez, I., & Wendel, J. F. (2003) · Molecular Phylogenetics and Evolution · doi:10.1016/s1055-7903(03)00208-2 · Cited by 1,877
Phylogenetic Overdispersion in Floridian Oak Communities
Cavender‐Bares, J., Ackerly, D. D., Baum, D. A., & Bazzaz, F. A. (2004) · The American Naturalist · doi:10.1086/386375 · Cited by 934
Diversity and community structure of symbiotic dinoflagellates from Caribbean coral reefs
T., L. (2002) · Marine Biology · doi:10.1007/s00227-002-0829-2 · Cited by 729
Dinsdale, A., Cook, L., Riginos, C., Buckley, Y. M., & Barro, P. D. (2010) · Annals of the Entomological Society of America · doi:10.1603/an09061 · Cited by 676
Pennington, R. T., Lavin, M., Prado, D. E., Pendry, C. A., Pell, S. K., & Butterworth, C. A. (2004) · Philosophical Transactions of the Royal Society of London. Series B: Biological Sciences · doi:10.1098/rstb.2003.1435 · Cited by 493
Metadata
- Authors
- Buckler, E. S., Ippolito, A., & Holtsford, T. P.
- Venue
- Genetics
- Publisher
- Oxford University Press (OUP)
- Published
- 1997-03-01
- Volume
- 145
- Issue
- 3
- Pages
- 821-832
- ISSN
- 0016-6731 (ISSN-L)
- 1943-2631
- OpenAlex
- W1880671068
- Cited by
- 506
- References
- 26
- FWCI
- 27.35
- Type
- journal article
- Language
- en
- Open access
- bronze
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
How to cite
Cite CoChat for the checks on this page, and the paper for its own findings.
- This page
- CoChat. (2026). Citation check: The Evolution of Ribosomal DNA Divergent Paralogues and Phylogenetic Implications. https://app.cochat.ai/papers/10.1093/genetics/145.3.821
- The paper
- Buckler, E. S., Ippolito, A., & Holtsford, T. P. (1997). The Evolution of Ribosomal DNA Divergent Paralogues and Phylogenetic Implications. Genetics. https://doi.org/10.1093/genetics/145.3.821
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
