ArticleGenome research2009
Sequencing human-gibbon breakpoints of synteny reveals mosaic new insertions at rearrangement sites.
Article in Genome research, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
21 citing papers in PubMed, 33 citations in OpenAlex.
- A high-resolution map of small-scale inversions in the gibbon genome.Genome research · 2022Article
- Epigenetic maintenance of topological domains in the highly rearranged gibbon genome.Genome research · 2018Article
- Identification of DEP domain-containing proteins by a machine learning method and experimental analysis of their expression in human HCC tissues.Scientific reports · 2016Article
- Structural Variant Detection by Large-scale Sequencing Reveals New Evolutionary Evidence on Breed Divergence between Chinese and European Pigs.Scientific reports · 2016Article
- Article
- Unraveling the effect of genomic structural changes in the rhesus macaque - implications for the adaptive role of inversions.BMC genomics · 2014Article
- Hominoid fission of chromosome 14/15 and the role of segmental duplications.Genome research · 2013Article
- Whole-genome sequencing of Oryza brachyantha reveals mechanisms underlying Oryza genome evolution.Nature communications · 2013Article
- A comprehensive molecular cytogenetic analysis of chromosome rearrangements in gibbons.Genome research · 2012Article
- A non-human primate system for large-scale genetic studies of complex traits.Human molecular genetics · 2012Article
- Centromere remodeling in Hoolock leuconedys (Hylobatidae) by a new transposable element unique to the gibbons.Genome biology and evolution · 2012Article
- Characterizing complex structural variation in germline and somatic genomes.Trends in genetics : TIG · 2012Review
- Genome-wide mapping and assembly of structural variant breakpoints in the mouse genome.Genome research · 2010Article
- Mitochondrial evidence for multiple radiations in the evolutionary history of small apes.BMC evolutionary biology · 2010Article
- Advances in genome studies: The PAG 2010 conference.Functional & integrative genomics · 2010Article
- The origins and impact of primate segmental duplications.Trends in genetics : TIG · 2009Review
- New insights into centromere organization and evolution from the white-cheeked gibbon and marmoset.Molecular biology and evolution · 2009Article
- Distinct retroelement classes define evolutionary breakpoints demarcating sites of evolutionary novelty.BMC genomics · 2009Article
- Complex human chromosomal and genomic rearrangements.Trends in genetics : TIG · 2009Review
- Evolutionary breakpoints in the gibbon suggest association between cytosine methylation and karyotype evolution.PLoS genetics · 2009Article
Corrections and comments
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Authors and funding
12 authors at 3 institutions in 2 countries.
Funding
Abstract
The gibbon genome exhibits extensive karyotypic diversity with an increased rate of chromosomal rearrangements during evolution. In an effort to understand the mechanistic origin and implications of these rearrangement events, we sequenced 24 synteny breakpoint regions in the white-cheeked gibbon (Nomascus leucogenys, NLE) in the form of high-quality BAC insert sequences (4.2 Mbp). While there is a significant deficit of breakpoints in genes, we identified seven human gene structures involved in signaling pathways (DEPDC4, GNG10), phospholipid metabolism (ENPP5, PLSCR2), beta-oxidation (ECH1), cellular structure and transport (HEATR4), and transcription (ZNF461), that have been disrupted in the NLE gibbon lineage. Notably, only three of these genes show the expected evolutionary signatures of pseudogenization. Sequence analysis of the breakpoints suggested both nonclassical nonhomologous end-joining (NHEJ) and replication-based mechanisms of rearrangement. A substantial number (11/24) of human-NLE gibbon breakpoints showed new insertions of gibbon-specific repeats and mosaic structures formed from disparate sequences including segmental duplications, LINE, SINE, and LTR elements. Analysis of these sites provides a model for a replication-dependent repair mechanism for double-strand breaks (DSBs) at rearrangement sites and insights into the structure and formation of primate segmental duplications at sites of genomic rearrangements during evolution.
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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.