ArticleGenome research2008
Dispensability of mammalian DNA.
Article in Genome research, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 47 citations in OpenAlex.
- Accessible, Realistic Genome Simulation with Selection Using stdpopsim.Molecular biology and evolution · 2025Article
- Accessible, realistic genome simulation with selection using stdpopsim.bioRxiv : the preprint server for biology · 2025Article
- Perfect and imperfect views of ultraconserved sequences.Nature reviews. Genetics · 2022Review
- Functional and structural basis of extreme conservation in vertebrate 5' untranslated regions.Nature genetics · 2021Article
- Article
- Complexity and conservation of regulatory landscapes underlie evolutionary resilience of mammalian gene expression.Nature ecology & evolution · 2018Article
- Dynamics of genome size evolution in birds and mammals.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
- "Reverse Genomics" Predicts Function of Human Conserved Noncoding Elements.Molecular biology and evolution · 2016Article
- Highly constrained intergenic Drosophila ultraconserved elements are candidate ncRNAs.Genome biology and evolution · 2015Article
- Expression of transcribed ultraconserved regions of genome in rat cerebral cortex.Neurochemistry international · 2014Article
- Abnormal dosage of ultraconserved elements is highly disfavored in healthy cells but not cancer cells.PLoS genetics · 2014Article
- The mystery of extreme non-coding conservation.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2013Review
- Enhancers: five essential questions.Nature reviews. Genetics · 2013Review
- Article
- The evolution of ultraconserved elements with different phylogenetic origins.BMC evolutionary biology · 2012Article
- Hundreds of conserved non-coding genomic regions are independently lost in mammals.Nucleic acids research · 2012Article
- Neutralizing the function of a β-globin-associated cis-regulatory DNA element using an artificial zinc finger DNA-binding domain.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- Identification and characterization of lineage-specific highly conserved noncoding sequences in Mammalian genomes.Genome biology and evolution · 2012Article
- Organizational heterogeneity of vertebrate genomes.PloS one · 2012Article
- Human genetics and genomics a decade after the release of the draft sequence of the human genome.Human genomics · 2011Review
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In the lab, the cis-regulatory network seems to exhibit great functional redundancy. Many experiments testing enhancer activity of neighboring cis-regulatory elements show largely overlapping expression domains. Of recent interest, mice in which cis-regulatory ultraconserved elements were knocked out showed no obvious phenotype, further suggesting functional redundancy. Here, we present a global evolutionary analysis of mammalian conserved nonexonic elements (CNEs), and find strong evidence to the contrary. Given a set of CNEs conserved between several mammals, we characterize functional dispensability as the propensity for the ancestral element to be lost in mammalian species internal to the spanned species tree. We show that ultraconserved-like elements are over 300-fold less likely than neutral DNA to have been lost during rodent evolution. In fact, many thousands of noncoding loci under purifying selection display near uniform indispensability during mammalian evolution, largely irrespective of nucleotide conservation level. These findings suggest that many genomic noncoding elements possess functions that contribute noticeably to organism fitness in naturally evolving populations.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.