ArticleGenome biology and evolution2011
Comparative analysis of teleost genome sequences reveals an ancient intron size expansion in the zebrafish lineage.
Article in Genome biology and evolution, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Whole-body single-cell atlas of an adult vertebrate in homeostasis and regeneration.bioRxiv : the preprint server for biology · 2026Article
- Review
- The reference genome of Macropodus opercularis (the paradise fish).Scientific data · 2024Article
- Advances in Vertebrate (Cyto)Genomics Shed New Light on Fish Compositional Genome Evolution.Genes · 2023Article
- Intron size minimisation in teleosts.BMC genomics · 2022Article
- Intronic regions of theHeliyon · 2020Article
- Hybrid genome assembly and annotation of Danionella translucida.Scientific data · 2019Article
- Evolutionary divergence of 3' UTRs in cichlid fishes.BMC genomics · 2018Article
- The Most Developmentally Truncated Fishes Show Extensive Hox Gene Loss and Miniaturized Genomes.Genome biology and evolution · 2018Article
- Population genetic diversity in zebrafish lines.Mammalian genome : official journal of the International Mammalian Genome Society · 2018Article
- COGNATE: comparative gene annotation characterizer.BMC genomics · 2017Article
- Transcriptome analysis of pancreatic cells across distant species highlights novel important regulator genes.BMC biology · 2017Article
- The genetic map of goldfish (Carassius auratus) provided insights to the divergent genome evolutions in the Cyprinidae family.Scientific reports · 2016Article
- Rapid genomic DNA changes in allotetraploid fish hybrids.Heredity · 2015Article
- Increased functional protein expression using nucleotide sequence features enriched in highly expressed genes in zebrafish.Nucleic acids research · 2015Article
- Molecular cloning and functional characterization of zebrafish Slc4a3/Ae3 anion exchanger.Pflugers Archiv : European journal of physiology · 2014Article
- Reverse transcriptase and intron number evolution.Stem cell investigation · 2014Article
- Function-valued traits in evolution.Journal of the Royal Society, Interface · 2013Article
- In with the old, in with the new: the promiscuity of the duplication process engenders diverse pathways for novel gene creation.International journal of evolutionary biology · 2012Article
- Transposon-derived and satellite-derived repetitive sequences play distinct functional roles in Mammalian intron size expansion.Evolutionary bioinformatics online · 2012Article
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5 authors.
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Abstract
We have developed a bioinformatics pipeline for the comparative evolutionary analysis of Ensembl genomes and have used it to analyze the introns of the five available teleost fish genomes. We show our pipeline to be a powerful tool for revealing variation between genomes that may otherwise be overlooked with simple summary statistics. We identify that the zebrafish, Danio rerio, has an unusual distribution of intron sizes, with a greater number of larger introns in general and a notable peak in the frequency of introns of approximately 500 to 2,000 bp compared with the monotonically decreasing frequency distributions of the other fish. We determine that 47% of D. rerio introns are composed of repetitive sequences, although the remainder, over 331 Mb, is not. Because repetitive elements may be the origin of the majority of all noncoding DNA, it is likely that the remaining D. rerio intronic sequence has an ancient repetitive origin and has since accumulated so many mutations that it can no longer be recognized as such. To study such an ancient expansion of repeats in the Danio, lineage will require further comparative analysis of fish genomes incorporating a broader distribution of teleost lineages.
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