ArticleGenome research2008
Evolutionary dynamics of nematode operons: easy come, slow go.
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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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, 39 citations in OpenAlex.
- CelEst: a unified gene regulatory network for estimating transcription factor activities in C. elegans.Genetics · 2025Article
- Genome annotation of Caenorhabditis briggsae by TEC-RED identifies new exons, paralogs, and conserved and novel operons.G3 (Bethesda, Md.) · 2022Article
- Transcriptional effects of electroporation on Echinococcus multilocularis primary cell culture.Parasitology research · 2022Article
- Resolution of polycistronic RNA by SL2RNA (New York, N.Y.) · 2020Article
- Genetic Interaction Network as an Important Determinant of Gene Order in Genome Evolution.Molecular biology and evolution · 2017Article
- Article
- The nematode homologue of Mediator complex subunit 28, F28F8.5, is a critical regulator ofPeerJ · 2017Article
- Genome-wide analysis of trans-splicing in the nematode Pristionchus pacificus unravels conserved gene functions for germline and dauer development in divergent operons.RNA (New York, N.Y.) · 2014Article
- Clusters of microRNAs emerge by new hairpins in existing transcripts.Nucleic acids research · 2013Article
- Article
- Trans-splicing and operons in C. elegans.WormBook : the online review of C. elegans biology · 2012Review
- RNA-seq analysis of the C. briggsae transcriptome.Genome research · 2012Article
- Expression of an entire bacterial operon in plants.Plant physiology · 2012Article
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- Article
- Large synteny blocks revealed between Caenorhabditis elegans and Caenorhabditis briggsae genomes using OrthoCluster.BMC genomics · 2010Article
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- Operons.Cellular and molecular life sciences : CMLS · 2009Review
- Loss of the insulator protein CTCF during nematode evolution.BMC molecular biology · 2009Article
- Germline expression influences operon organization in the Caenorhabditis elegans genome.Genetics · 2009Article
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
Operons are widespread in prokaryotes, but are uncommon in eukaryotes, except nematode worms, where approximately 15% of genes reside in over 1100 operons in the model organism Caenorhabditis elegans. It is unclear how operons have become abundant in nematode genomes. The "one-way street" hypothesis asserts that once formed by chance, operons are very difficult to break, because the breakage would leave downstream genes in an operon without a promoter, and hence, unexpressed. To test this hypothesis, we analyzed the presence and absence of C. elegans operons in Caenorhabditis briggsae, Caenorhabditis remanei, and Caenorhabditis brenneri, using Pristionchus pacificus and Brugia malayi as outgroups, and identified numerous operon gains and losses. Coupled with experimental examination of trans-splicing patterns, our comparative genomic analysis revealed diverse molecular mechanisms of operon losses, including inversion, insertion, and relocation, but the presence of internal promoters was not found to facilitate operon losses. In several cases, the data allowed inference of mechanisms by which downstream genes are expressed after operon breakage. We found that the rate of operon gain is approximately 3.3 times that of operon loss. Thus, the evolutionary dynamics of nematode operons is better described as "easy come, slow go," rather than a "one-way street." Based on a mathematic model of operon gains and losses and additional assumptions, we projected that the number of operons in C. elegans will continue to rise by 6%-18% in future evolution before reaching equilibrium between operon gains and losses.
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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.