The DOI matches its Crossref record; 98 of the 99 references it cites were found in a registry or an index.
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.
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.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
The cited source says what the claim attributes to it.
In the citing paper
“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.”
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
Gene Ontology: tool for the unification of biology
Ashburner, M., Ball, C. A., Blake, J. A., Botstein, D., Butler, H., Cherry, J. M., Davis, A. P., Dolinski, K., Dwight, S. S., Eppig, J. T., et al. (2000) · Nature Genetics · doi:10.1038/75556 · Cited by 43,206
Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
Initiative, T. A. G. (2000) · Nature · doi:10.1038/35048692 · Cited by 9,301
Genome sequencing in microfabricated high-density picolitre reactors
Margulies, M., Egholm, M., Altman, W. E., Attiya, S., Bader, J. S., Bemben, L. A., Berka, J., Braverman, M. S., Chen, Y.-J., Chen, Z., et al. (2005) · Nature · doi:10.1038/nature03959 · Cited by 7,693
The Genome Sequence of Drosophila melanogaster
Adams, M. D., Celniker, S., Holt, R. A., Evans, C. A., Gocayne, J. D., Amanatides, P. G., Scherer, S. E., Li, P. W., Hoskins, R. A., Galle, R. F., et al. (2000) · Science · doi:10.1126/science.287.5461.2185 · Cited by 5,902
OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes
Li, L., Stoeckert, C. J., & Roos, D. S. (2003) · Genome Research · doi:10.1101/gr.1224503 · Cited by 5,707
Genome-Wide Insertional Mutagenesis of Arabidopsis thaliana
Alonso, J. M., Stepanova, A. N., Leisse, T. J., Kim, C. J., Chen, H., Shinn, P., Stevenson, D. K., Zimmerman, J., Barajas, P., Cheuk, R., et al. (2003) · Science · doi:10.1126/science.1086391 · Cited by 5,105
MYB transcription factors in Arabidopsis
Dubos, C., Stracke, R., Erich Grotewold, A., Weißhaar, B., Martin, C. R., & Lepiniec, L. (2010) · Trends in Plant Science · doi:10.1016/j.tplants.2010.06.005 · Cited by 4,885
Genome Sequence of the Nematode C. elegans : A Platform for Investigating Biology
Berg, J. (1998) · Science · doi:10.1126/science.282.5396.2012 · Cited by 4,458
The map-based sequence of the rice genome
International Rice Genome Sequencing Project, & Sasaki, T. (2005) · Nature · doi:10.1038/nature03895 · Cited by 3,843
Plant cis-acting regulatory DNA elements (PLACE) database: 1999
Higo, K., Ugawa, Y., Iwamoto, M., & Korenaga, T. (1999) · Nucleic Acids Research · doi:10.1093/nar/27.1.297 · Cited by 3,387
Flagged first, then by citations
1 of the 99 references couldn’t be matched to a known paper.
Cited by
Sorted by citations
Items 101–153 of 153
Keller, W. A., & Bekkaoui, F. (2009) · Botany · doi:10.1139/b09-029 · Cited by 2
Genomics of Temperature Stress
Martinez, P. A. (2016) · Springer eBooks · doi:10.1007/978-1-4939-3536-9_6 · Cited by 2
Open Innovation and Value Creation in Crop Genetics
Müller, M. L., & Campos, H. (2020) · Springer eBooks · doi:10.1007/978-3-030-50991-0_3 · Cited by 2
Cytokinin-induced gene expression in Arabidopsis
Lindsay, D. L. (2006) · University Library - University of Saskatchewan (University of Saskatchewan) · Cited by 2
The mitochondrial influence on nuclear gene expression in cytoplasmic male-sterile Brassica napus
Carlsson, J. ‐. (2007) · Epsilon Open Archive (Sveriges lantbruksuniversitet biblioteket (Swedish University of Agricultural Sciences)) · Cited by 2
Singh, D. P., Maurya, S., Prabha, R., Satnami, L., & Rai, N. (2025) · Springer eBooks · doi:10.1007/978-981-95-2294-1_8 · Cited by 1
de Mattos, J. S., Aecyo, P., Keepers, K. G., Tavares, M. M., Rosa, F. D., Palma‐Silva, C., Kane, N. C., Pinheiro, F., & Riaño‐Pachón, D. M. (2026) · Genome Biology and Evolution · doi:10.1093/gbe/evag057 · Cited by 1
Kumar, B. S., & Marg, R. P. (2014) · Cited by 1
Genetic Transformation of the Mycelia of Tremella fuciformis and Changes of Cytotoxicity
Shin, D.-I., & Park, H.-S. (2013) · The Korean Journal of Mycology · doi:10.4489/kjm.2013.41.4.287 · Cited by 1
Delatorre, C. A., & da Silva, A. A. (2008) · DOAJ (DOAJ: Directory of Open Access Journals) · Cited by 1
Potential for Yield Improvement
Spink, J., Mullins, E. D., & Berry, P. (2012) · Elsevier eBooks · doi:10.1016/b978-0-08-087872-0.00521-7 · Cited by 1
CHARACTERISING DIVERSITY IN THE BRASSICA GENOMES
Golicz, A. A., Bayer, P. E., Martinez, P. A., Lai, K., Lorenc, M. T., Alamery, S. F., Hayward, A. C., Tollenaere, R., Batley, J., Edwards, D., et al. (2013) · Acta Horticulturae · doi:10.17660/actahortic.2013.1005.1 · Cited by 1
Haq, I. U., Babar, M., Ali, H. M., Khan, N. A., Habib, A., Waris, M., & Jabeen, Z. (2024) · Springer eBooks · doi:10.1007/978-981-97-0814-7_9 · Cited by 1
Biotechnology for improved crop productivity and quality
de Sousa, C. S., Mendonça, M., Hassan, S., Barh, D., & de Carvalho, V. (2016) · CRC Press eBooks · doi:10.1201/b19543-11 · Cited by 1
Wāng, Y., Wáng, Y., Tan, Q., Gao, Y. N., Li, Y., & Bao, D. P. (2017) · BioMed Research International · doi:10.1155/2017/7198614 · Cited by 1
Regulation of organ development by auxin and the SHI/STY-family of transcriptional regulators
Ståldal, V. (2011) · Epsilon Open Archive (Sveriges lantbruksuniversitet biblioteket (Swedish University of Agricultural Sciences))
Khanal, N. (2011) · HARVEST (University of Saskatchewan)
Lorenc, M. T. (2015) · The University of Queensland · doi:10.14264/uql.2015.1070
Natural variation in Arabidopsis thaliana
Tang, C. (2015) · University of Southern California Digital Library · doi:10.25549/usctheses-m166
Ligand-receptor matchmaking: Signaling of the IDL proteins through the LRR-RLKs of the HAESA family
Kristiansen, T. (2009) · NORA - Norwegian Open Research Archives
Genomics and Molecular Breeding
Priyadarshan, P. M. (2017) · Springer eBooks · doi:10.1007/978-3-319-54506-6_13
Grass Gene Sequences and Traits
Kraehmer, H., & Gaines, T. A. (2019) · Grasses · doi:10.1002/9781119417095.ch3
Picking the high hanging fruit : automated ways to annotate awkward genes
hÉigeartaigh, S. Ó. (2012) · Arrow@dit (Dublin Institute of Technology)
O’Hara, L. E. (2019) · The Atrium (University of Guelph)
Investigating the Role of Cytokinin and Beta-1,3-Glucanases in Potato Tuber Dormancy and Sprouting
Hartmann, A. (2012) · OPUS FAU (Kooperativer Bibliotheksverbund Berlin-Brandenburg (KOBV), on behalf of the Universitätsbibliothek Erlangen-Nürnberg)
Exploring repeats in rice genomes: Identification, Characterization and its ApplicationsPreprint
Das, G., & Ghosh, I. (2022) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2022.01.24.477639
Trends in Arabidopsis Research post genome sequencing- A Scientometric studyPreprint
Kumar, S., Kushwaha, A. K., Thribhuvan, R., Balakrishnan, M., & Krishnan, P. (2022) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2022.02.22.481563
Genome informatics: present status and future prospects in agriculture
Yadav, P. K., Jasrotia, R. S., & Jaiswar, A. (2022) · Elsevier eBooks · doi:10.1016/b978-0-323-89778-5.00011-8
Kraehmer, H. (2019) · Grasses · doi:10.1002/9781119417095.ch1
de Jesus, F. A., Zsögön, A., & Peres, L. E. P. (2014) · doi:10.1002/9781118820971.ch6
Jung, Y., Park, S.-A., Ahn, B.-O., Yun, D., Ji, H., Lee, G.-S., Park, Y.-W., Suh, S., Baek, H.-J., & Lee, M. C. (2008) · Journal of Plant Biotechnology · doi:10.5010/jpb.2008.35.4.307
Batista, E. D. R. (2023) · Digital Library of Theses and Dissertations (Universidade de São Paulo) · doi:10.11606/d.11.2023.tde-14092023-091312
Desenvolvimento floral em maracujazeiro
da Silva, M. B. (2022) · doi:10.47749/t/unicamp.2022.1238793
Innes, R. W. (2024) · Elsevier eBooks · doi:10.1016/b978-0-12-822429-8.00020-0
Bioinformatics tools for plant pangenomics: Analysis, assembly, and visualization
Noor, F., Fatima, K., Farukh, M., & Qamar, M. T. U. (2025) · Elsevier eBooks · doi:10.1016/b978-0-443-26791-8.00002-9
Wang, Z., Fang, B., Chen, J., Zhang, X., Luo, Z., Huang, L., Chen, X., & Li, Y. (2020) · Figshare · doi:10.6084/m9.figshare.12880604
Wang, Z., Fang, B., Chen, J., Zhang, X., Luo, Z., Huang, L., Chen, X., & Li, Y. (2020) · Figshare · doi:10.6084/m9.figshare.12880616
Wang, Z., Fang, B., Chen, J., Zhang, X., Luo, Z., Huang, L., Chen, X., & Li, Y. (2020) · Figshare · doi:10.6084/m9.figshare.12880619
Molecular mechanisms optimizing photosynthesis during high light stress in plants
Yin, L. (2014) · Gothenburg University Publications Electronic Archive (Gothenburg University)
Wang, Z., Fang, B., Chen, J., Zhang, X., Luo, Z., Huang, L., Chen, X., & Li, Y. (2020) · Figshare · doi:10.6084/m9.figshare.12880610
Wang, Z., Fang, B., Chen, J., Zhang, X., Luo, Z., Huang, L., Chen, X., & Li, Y. (2020) · Figshare · doi:10.6084/m9.figshare.12880625
Wang, Z., Fang, B., Chen, J., Zhang, X., Luo, Z., Huang, L., Chen, X., & Li, Y. (2020) · Figshare · doi:10.6084/m9.figshare.12880601
Wang, Z., Fang, B., Chen, J., Zhang, X., Luo, Z., Huang, L., Chen, X., & Li, Y. (2020) · Figshare · doi:10.6084/m9.figshare.12880631
Wang, Z., Fang, B., Chen, J., Zhang, X., Luo, Z., Huang, L., Chen, X., & Li, Y. (2020) · Figshare · doi:10.6084/m9.figshare.12880628
Wang, Z., Fang, B., Chen, J., Zhang, X., Luo, Z., Huang, L., Chen, X., & Li, Y. (2020) · Figshare · doi:10.6084/m9.figshare.12880613
Wang, Z., Fang, B., Chen, J., Zhang, X., Luo, Z., Huang, L., Chen, X., & Li, Y. (2020) · Figshare · doi:10.6084/m9.figshare.12880598
Carbon Nanoparticles in Plant Genetic Engineering
Waqar, R., Iqbal, J., Abbasi, B. A., Mumtaz, A. S., Munir, A., Kaleem, M., Anas, M., Sattar, M. M., Farooqi, A., Ijaz, S., et al. (2026) · Smart nanomaterials technology · doi:10.1007/978-981-95-4165-2_3
Zhang, J., Zhao, Z., Lu, H., & Yan, Z. (2026) · International Journal of Biological Macromolecules · doi:10.1016/j.ijbiomac.2026.152629
Mao, J., Sun, J., & Tian, Z. (2026) · Model Organisms Research · doi:10.1016/j.mores.2026.100032
Metadata
- 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 ›
Are you an author, or do you see a problem with this page? Request a review