ArticleGenome research2004
Whole genome sequence comparisons and "full-length" cDNA sequences: a combined approach to evaluate and improve Arabidopsis genome annotation.
Article in Genome research, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
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Who cites it
43 citing papers in PubMed.
- Linking discoveries, mechanisms, and technologies to develop a clearer perspective on plant long noncoding RNAs.The Plant cell · 2023Review
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- Two interacting proteins are necessary for the editing of the NdhD-1 site in Arabidopsis plastids.The Plant cell · 2012Article
- Identification of a DNA methylation-independent imprinting control region at the Arabidopsis MEDEA locus.Genes & development · 2012Article
- Characterization of the Arabidopsis augmin complex uncovers its critical function in the assembly of the acentrosomal spindle and phragmoplast microtubule arrays.The Plant cell · 2012Article
- Augmin plays a critical role in organizing the spindle and phragmoplast microtubule arrays in Arabidopsis.The Plant cell · 2011Article
- Infection of Arabidopsis thaliana by Phytophthora parasitica and identification of variation in host specificity.Molecular plant pathology · 2011Article
- Construction and characterization of a cDNA library from wheat infected with Fusarium graminearum Fg 2.International journal of molecular sciences · 2011Article
- Targeted SNP discovery in Atlantic salmon (Salmo salar) genes using a 3'UTR-primed SNP detection approach.BMC genomics · 2010Article
- Comparative genomic analysis of 1047 completely sequenced cDNAs from an Arabidopsis-related model halophyte, Thellungiella halophila.BMC plant biology · 2010Article
- Article
- Two closely related genes of Arabidopsis encode plastidial cytidinediphosphate diacylglycerol synthases essential for photoautotrophic growth.Plant physiology · 2010Article
- Article
- Characterization of full-length sequenced cDNA inserts (FLIcs) from Atlantic salmon (Salmo salar).BMC genomics · 2009Article
- A new set of ESTs and cDNA clones from full-length and normalized libraries for gene discovery and functional characterization in citrus.BMC genomics · 2009Article
- Functional genomics using RIKEN Arabidopsis thaliana full-length cDNAs.Journal of plant research · 2009Review
- A Plasmodium falciparum FcB1-schizont-EST collection providing clues to schizont specific gene structure and polymorphism.BMC genomics · 2009Article
- Possible diversifying selection in the imprinted gene, MEDEA, in Arabidopsis.Molecular biology and evolution · 2009Article
- Novel long non-protein coding RNAs involved in Arabidopsis differentiation and stress responses.Genome research · 2009Article
- A conifer genomics resource of 200,000 spruce (Picea spp.) ESTs and 6,464 high-quality, sequence-finished full-length cDNAs for Sitka spruce (Picea sitchensis).BMC genomics · 2008Article
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14 authors.
Funding
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Abstract
To evaluate the existing annotation of the Arabidopsis genome further, we generated a collection of evolutionary conserved regions (ecores) between Arabidopsis and rice. The ecore analysis provides evidence that the gene catalog of Arabidopsis is not yet complete, and that a number of these annotations require re-examination. To improve the Arabidopsis genome annotation further, we used a novel "full-length" enriched cDNA collection prepared from several tissues. An additional 1931 genes were covered by new "full-length" cDNA sequences, raising the number of annotated genes with a corresponding "full-length" cDNA sequence to about 14,000. Detailed comparisons between these "full-length" cDNA sequences and annotated genes show that this resource is very helpful in determining the correct structure of genes, in particular, those not yet supported by "full-length" cDNAs. In addition, a total of 326 genomic regions not included previously in the Arabidopsis genome annotation were detected by this cDNA resource, providing clues for new gene discovery. Because, as expected, the two data sets only partially overlap, their combination produces very useful information for improving the Arabidopsis genome annotation.
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