The Arabidopsis genome: A foundation for plant research
Open accessAbstract
The sequence of the first plant genome was completed and published at the end of 2000. This spawned a series of large-scale projects aimed at discovering the functions of the 25,000+ genes identified in Arabidopsis thaliana (Arabidopsis). This review summarizes progress made in the past five years and speculates about future developments in Arabidopsis research and its implications for crop science. The provision of large populations of gene disruption lines to the research community has greatly accelerated the impact of genomics on many areas of plant science. The tools and community organization required for plant integrative and systems biology approaches are now ready to accomplish the next big step in plant biology—the integration of knowledge and modeling of biological processes. In the future, plant science will continue to be enriched by the alignment of high-quality basic research (generally conducted in Arabidopsis), with strategic objectives in crop plants. The sequence and analysis of an increasing number of crop plant genomes enhance this alignment and provide new insights into genome evolution and crop plant domestication.
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If the number of genes in sweetpotato is commensurate with that in Arabidopsis (25,000 genes), then the annotated unigenes (20,755 genes with unique protein accession numbers) likely represent more than 80% of genes in sweetpotato.
“Like [10,19], if we assumed that the number of genes in sweetpotato was commensurate with that in Arabidopsis (25,000 genes, [62]), our annotated unigenes (20,755 genes with unique protein accession numbers) would likely represent more than 80% of genes in sweetpotato.”
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Reactome: An integrated expert model of human molecular processes and access toolkit
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Aston, E., Channon, A., Belavkin, R. V., Krašovec, R., & Cg, K. (2016) · Conference on Artificial Life (ALIFE) · doi:10.1162/978-0-262-33936-0-ch035 · Cited by 2 · see citing works
Bioinformatic Resources for Plant Genomic Research
Kumar, V. S. S., & Sreekumar, N. (2023) · Current Bioinformatics · doi:10.2174/1574893618666230725123211 · Cited by 2 · see citing works
- Authors
- Bevan, M., & Walsh, S.
- Affiliations
- John Innes Centre (GB)
- Corresponding author
- Bevan, Michael
- Venue
- Genome Research
- Publisher
- Cold Spring Harbor Laboratory
- Published
- 2005-12
- Volume
- 15
- Issue
- 12
- Pages
- 1632-1642
- ISSN
- 1088-9051 (ISSN-L)
- OpenAlex
- W2166592994
- Cited by
- 153
- References
- 99
- Citations by year
- 2026: 4 · 2025: 3 · 2024: 5 · 2023: 4 · 2022: 8 · 2021: 2 · 2020: 15 · 2019: 10 · 2018: 5 · 2017: 8 · 2016: 6 · 2015: 5 · 2014: 7 · 2013: 7 · 2012: 9
- Type
- posted content
- Language
- en
- Open access
- hybrid
- doi.org
- Licence
- other-oa
- Locations
- Genome Research (publishedVersion, other-oa)
- PubMed (publishedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Mapping and Diversity in Plants and Animals
- Life Sciences › Agricultural and Biological Sciences › Plant Science › Plant Molecular Biology Research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Keywords
- Arabidopsis thaliana, plant genome, gene function discovery, plant systems biology, mathematical biology, cultivated plants, genome evolution, crop domestication, plant genomics
- MeSH terms
- Arabidopsis, Sequence Analysis, DNA, Gene Expression Regulation, Plant, DNA, Plant, Genome, Plant, Genomics
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 ›
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