ArticlePlant physiology2007
Comparative cross-species alternative splicing in plants.
Article in Plant physiology, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed.
- Nucleotide-level distance metrics to quantify alternative splicing implemented in TranD.Nucleic acids research · 2024Article
- Gene expression and alternative splicing contribute to adaptive divergence of ecotypes.Heredity · 2024Article
- Unbiased Subgenome Evolution in Allotetraploid Species of Ephedra and Its Implications for the Evolution of Large Genomes in Gymnosperms.Genome biology and evolution · 2021Article
- Low temperature upregulatesHorticulture research · 2019Article
- Evolution of Alternative Splicing in Eudicots.Frontiers in plant science · 2019Article
- Analysis of Transcriptome and Epitranscriptome in Plants Using PacBio Iso-Seq and Nanopore-Based Direct RNA Sequencing.Frontiers in genetics · 2019Review
- Genome-wide analyses supported by RNA-Seq reveal non-canonical splice sites in plant genomes.BMC genomics · 2018Article
- Identification and analysis of alternative splicing events in Phaseolus vulgaris and Glycine max.BMC genomics · 2017Article
- Article
- Genome-Wide Study of the Tomato SlMLO Gene Family and Its Functional Characterization in Response to the Powdery Mildew Fungus Oidium neolycopersici.Frontiers in plant science · 2016Article
- Genome-wide cataloging and analysis of alternatively spliced genes in cereal crops.BMC genomics · 2015Article
- Evolutionary Character of Alternative Splicing in Plants.Bioinformatics and biology insights · 2015Review
- Identification, characterization, and utilization of single copy genes in 29 angiosperm genomes.BMC genomics · 2014Article
- Genome-wide identification and phylogenetic analysis of Family-1 UDP glycosyltransferases in maize (Zea mays).Planta · 2014Article
- A deep survey of alternative splicing in grape reveals changes in the splicing machinery related to tissue, stress condition and genotype.BMC plant biology · 2014Article
- Comprehensive analysis of alternative splicing in Digitalis purpurea by strand-specific RNA-Seq.PloS one · 2014Article
- Genome-wide landscape of alternative splicing events in Brachypodium distachyon.DNA research : an international journal for rapid publication of reports on genes and genomes · 2013Article
- Genome-wide survey of cold stress regulated alternative splicing in Arabidopsis thaliana with tiling microarray.PloS one · 2013Article
- Fine mapping of a major QTL for flag leaf width in rice, qFLW4, which might be caused by alternative splicing of NAL1.Plant cell reports · 2012Article
- Intron retention and 3'-UTR analysis of Arabidopsis Dicer-like 2 transcripts.Molecular biology reports · 2012Article
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Alternative splicing (AS) can add significantly to genome complexity. Plants are thought to exhibit less AS than animals. An algorithm, based on expressed sequence tag (EST) pairs gapped alignment, was developed that takes advantage of the relatively small intron and exon size in plants and directly compares pairs of ESTs to search for AS. EST pairs gapped alignment was first evaluated in Arabidopsis (Arabidopsis thaliana), rice (Oryza sativa), and tomato (Solanum lycopersicum) for which annotated genome sequence is available and was shown to accurately predict splicing events. The method was then applied to 11 plant species that include 17 cultivars for which enough ESTs are available. The results show a large, 3.7-fold difference in AS rates between plant species with Arabidopsis and rice in the lower range and lettuce (Lactuca sativa) and sorghum (Sorghum bicolor) in the upper range. Hence, compared to higher animals, plants show a much greater degree of variety in their AS rates and in some plant species the rates of animal and plant AS are comparable although the distribution of AS types may differ. In eudicots but not monocots, a correlation between genome size and AS rates was detected, implying that in eudicots the mechanisms that lead to larger genomes are a driving force for the evolution of AS.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.