The DOI matches its Crossref record; 130 of the 130 references it cites were found in a registry or an index.
Genome-wide analyses of alternative splicing in plants: Opportunities and challenges
Open accessAbstract
Alternative splicing (AS) creates multiple mRNA transcripts from a single gene. While AS is known to contribute to gene regulation and proteome diversity in animals, the study of its importance in plants is in its early stages. However, recently available plant genome and transcript sequence data sets are enabling a global analysis of AS in many plant species. Results of genome analysis have revealed differences between animals and plants in the frequency of alternative splicing. The proportion of plant genes that have one or more alternative transcript isoforms is ∼20%, indicating that AS in plants is not rare, although this rate is approximately one-third of that observed in human. The majority of plant AS events have not been functionally characterized, but evidence suggests that AS participates in important plant functions, including stress response, and may impact domestication and trait selection. The increasing availability of plant genome sequence data will enable larger comparative analyses that will identify functionally important plant AS events based on their evolutionary conservation, determine the influence of genome duplication on the evolution of AS, and discover plant-specific cis-elements that regulate AS. This review summarizes recent analyses of AS in plants, discusses the importance of further analysis, and suggests directions for future efforts.
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
1 retracted
The RNA-binding protein FCA is an abscisic acid receptor
Razem, F. A., El-Kereamy, A., Abrams, S. R., & Hill, R. D. (2006) · Nature · doi:10.1038/nature04373 · Cited by 375
RetractedInitial sequencing and analysis of the human genome
International Human Genome Sequencing Consortium, Whitehead Institute for Biomedical Research, C. F. G. R., Lander, E. S., Linton, L. M., Birren, B., Nusbaum, C., Zody, M. C., Baldwin, J., Devon, K., Dewar, K., et al. (2001) · Nature · doi:10.1038/35057062 · Cited by 24,216
The sequence of the human genome
Venter, J. C., Adams, M. D., Myers, E. W., Li, P. W., Mural, R. J., Sutton, G. G., Smith, H. O., Yandell, M., Evans, C. A., Holt, R. A., et al. (2001) · Science · doi:10.1126/science.1058040 · Cited by 13,909
The map-based sequence of the rice genome
International Rice Genome Sequencing Project, & Sasaki, T. (2005) · Nature · doi:10.1038/nature03895 · Cited by 3,797
Korf, I. (2004) · BMC Bioinformatics · doi:10.1186/1471-2105-5-59 · Cited by 3,192
AUGUSTUS: ab initio prediction of alternative transcripts
Stanke, M., Keller, O., Gunduz, I., Hayes, A., Waack, S., & Morgenstern, B. (2006) · Nucleic Acids Research · doi:10.1093/nar/gkl200 · Cited by 2,829
Mechanisms of Alternative Pre-Messenger RNA Splicing
Black, D. L. (2003) · Annual Review of Biochemistry · doi:10.1146/annurev.biochem.72.121801.161720 · Cited by 2,704
Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies
Haas, B. J. (2003) · Nucleic Acids Research · doi:10.1093/nar/gkg770 · Cited by 2,296
Listening to silence and understanding nonsense: exonic mutations that affect splicing
Cartegni, L., Chew, S. L., & Krainer, A. R. (2002) · Nature Reviews Genetics · doi:10.1038/nrg775 · Cited by 2,209
The Physcomitrella Genome Reveals Evolutionary Insights into the Conquest of Land by Plants
Rensing, S. A., Lang, D., Zimmer, A. D., Terry, A., Salamov, A., Shapiro, H., Nishiyama, T., Perroud, P.-F., Lindquist, E. A., Kamisugi, Y., et al. (2008) · Science · doi:10.1126/science.1150646 · Cited by 1,852
Self-citation
Cited by
Kalyna, M., Simpson, C. G., Syed, N. H., Lewandowska, D., Marquez, Y., Kusenda, B., Marshall, J., Fuller, J., Cardle, L., McNicol, J., et al. (2012) · Nucleic Acids Research · doi:10.1093/nar/gkr932 · Cited by 480
Alternative splicing: Enhancing ability to cope with stress via transcriptome plasticity
Mastrangelo, A. M., Marone, D., Laidò, G., De Leonardis, A. M., & De Vita, P. (2012) · Plant Science · doi:10.1016/j.plantsci.2011.09.006 · Cited by 277
Metadata
- Authors
- Barbazuk, W. B., Fu, Y., & McGinnis, K. M.
- Venue
- Genome Research
- Publisher
- Cold Spring Harbor Laboratory
- Published
- 2008-07-30
- Volume
- 18
- Issue
- 9
- Pages
- 1381-1392
- ISSN
- 1088-9051 (ISSN-L)
- OpenAlex
- W2105927944
- Cited by
- 375
- References
- 130
- Type
- posted content
- 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: Genome-wide analyses of alternative splicing in plants: Opportunities and challenges. https://app.cochat.ai/papers/10.1101/gr.053678.106
- The paper
- Barbazuk, W. B., Fu, Y., & McGinnis, K. M. (2008). Genome-wide analyses of alternative splicing in plants: Opportunities and challenges. Genome Research. https://doi.org/10.1101/gr.053678.106
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.
