ArticlePloS one2008
EST analysis of Ostreococcus lucimarinus, the most compact eukaryotic genome, shows an excess of introns in highly expressed genes.
Article in PloS one, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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17 citing papers in PubMed, 30 citations in OpenAlex.
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- Identification and functional analysis of mitogen-activated protein kinase kinase kinase (MAPKKK) genes in canola (Brassica napus L.).Journal of experimental botany · 2014Article
- Identification, expression and interaction analyses of calcium-dependent protein kinase (CPK) genes in canola (Brassica napus L.).BMC genomics · 2014Article
- Identification and characterization of CBL and CIPK gene families in canola (Brassica napus L.).BMC plant biology · 2014Article
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- Genome structure and metabolic features in the red seaweed Chondrus crispus shed light on evolution of the Archaeplastida.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
- Gene expression levels are correlated with synonymous codon usage, amino acid composition, and gene architecture in the red flour beetle, Tribolium castaneum.Molecular biology and evolution · 2012Article
- Characterization of the intronic portion of cadherin superfamily members, common cancer orchestrators.European journal of human genetics : EJHG · 2012Article
- Comparative evaluation of intron prediction methods and detection of plant genome annotation using intron length distributions.Genomics & informatics · 2012Article
- Why eukaryotic cells use introns to enhance gene expression: splicing reduces transcription-associated mutagenesis by inhibiting topoisomerase I cutting activity.Biology direct · 2011Article
- Spliceosomal intron size expansion in domesticated grapevine (Vitis vinifera).BMC research notes · 2011Article
- Gene expression: sizing it all up.Frontiers in genetics · 2011Article
- Characterization of a nitric oxide synthase from the plant kingdom: NO generation from the green alga Ostreococcus tauri is light irradiance and growth phase dependent.The Plant cell · 2010Article
- Construction and application of an electronic spatiotemporal expression profile and gene ontology analysis platform based on the EST database of the silkworm, Bombyx mori.Journal of insect science (Online) · 2010Article
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- In plants, expression breadth and expression level distinctly and non-linearly correlate with gene structure.Biology direct · 2009Article
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
backgroundThe genome of the pico-eukaryotic (bacterial-sized) prasinophyte green alga Ostreococcus lucimarinus has one of the highest gene densities known in eukaryotes, yet it contains many introns. Phylogenetic studies suggest this unusually compact genome (13.2 Mb) is an evolutionarily derived state among prasinophytes. The presence of introns in the highly reduced O. lucimarinus genome appears to be in opposition to simple explanations of genome evolution based on unidirectional tendencies, either neutral or selective. Therefore, patterns of intron retention in this species can potentially provide insights into the forces governing intron evolution. METHODOLOGY/PRINCIPAL
findingsHere we studied intron features and levels of expression in O. lucimarinus using expressed sequence tags (ESTs) to annotate the current genome assembly. ESTs were assembled into unigene clusters that were mapped back to the O. lucimarinus Build 2.0 assembly using BLAST and the level of gene expression was inferred from the number of ESTs in each cluster. We find a positive correlation between expression levels and both intron number (R = +0.0893, p = <0.0005) and intron density (number of introns/kb of CDS; R = +0.0753, p = <0.005). CONCLUSIONS/SIGNIFICANCE: In a species with a genome that has been recently subjected to a great reduction of non-coding DNA, these results imply the existence of selective/functional roles for introns that are principally detectable in highly expressed genes. In these cases, introns are likely maintained by balancing the selective forces favoring their maintenance with other mutational and/or selective forces acting on genome size.
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