ArticleGenome biology and evolution2011
Dynamics of gene duplication in the genomes of chlorophyll d-producing cyanobacteria: implications for the ecological niche.
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 18 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
18 citing papers in PubMed, 39 citations in OpenAlex.
- Plug-and-play evolution of the Klebsiella pneumoniae capsule locus enables serotype exchange across genetic backgrounds.PLoS biology · 2026Article
- Molecular Quantification of Total and ToxigenicToxins · 2025Article
- Duplicate Gene Expression and Possible Mechanisms of Paralog Retention During Bacterial Genome Expansion.Genome biology and evolution · 2024Article
- Discovery of ChlorophyllMicroorganisms · 2022Article
- Genomic and Functional Variation of the ChlorophyllMicroorganisms · 2022Article
- Bacterial Adaptation by a Transposition Burst of an Invading IS Element.Genome biology and evolution · 2021Article
- The Evolution of Interdependence in a Four-Way Mealybug Symbiosis.Genome biology and evolution · 2021Article
- BLAST from the Past: Impacts of Evolving Approaches on Studies of Evolution by Gene Duplication.Genome biology and evolution · 2021Article
- Homologs of Circadian Clock Proteins Impact the Metabolic Switch Between Light and Dark Growth in the CyanobacteriumFrontiers in plant science · 2021Article
- FeGenie: A Comprehensive Tool for the Identification of Iron Genes and Iron Gene Neighborhoods in Genome and Metagenome Assemblies.Frontiers in microbiology · 2020Article
- Expression of Novel Gene Content Drives Adaptation to Low Iron in the Cyanobacterium Acaryochloris.Genome biology and evolution · 2018Article
- Transcriptomic analysis illuminates genes involved in chlorophyll synthesis after nitrogen starvation in Acaryochloris sp. CCMEE 5410.Photosynthesis research · 2016Article
- An evolutionary perspective on protein moonlighting.Biochemical Society transactions · 2014Review
- Rapid TaqMan-based quantification of chlorophyll d-containing cyanobacteria in the genus Acaryochloris.Applied and environmental microbiology · 2014Article
- Chlorophyll d and Acaryochloris marina: current status.Photosynthesis research · 2013Review
- Interactions of photosynthesis with genome size and function.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2013Review
- Gene duplication as a mechanism of genomic adaptation to a changing environment.Proceedings. Biological sciences · 2012Review
- Dinitrogen fixation in a unicellular chlorophyll d-containing cyanobacterium.The ISME journal · 2012Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 5 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Gene duplication may be an important mechanism for the evolution of new functions and for the adaptive modulation of gene expression via dosage effects. Here, we analyzed the fate of gene duplicates for two strains of a novel group of cyanobacteria (genus Acaryochloris) that produces the far-red light absorbing chlorophyll d as its main photosynthetic pigment. The genomes of both strains contain an unusually high number of gene duplicates for bacteria. As has been observed for eukaryotic genomes, we find that the demography of gene duplicates can be well modeled by a birth-death process. Most duplicated Acaryochloris genes are of comparatively recent origin, are strain-specific, and tend to be located on different genetic elements. Analyses of selection on duplicates of different divergence classes suggest that a minority of paralogs exhibit near neutral evolutionary dynamics immediately following duplication but that most duplicate pairs (including those which have been retained for long periods) are under strong purifying selection against amino acid change. The likelihood of duplicate retention varied among gene functional classes, and the pronounced differences between strains in the pool of retained recent duplicates likely reflects differences in the nutrient status and other characteristics of their respective environments. We conclude that most duplicates are quickly purged from Acaryochloris genomes and that those which are retained likely make important contributions to organism ecology by conferring fitness benefits via gene dosage effects. The mechanism of enhanced duplication may involve homologous recombination between genetic elements mediated by paralogous copies of recA.
Indexed as
Identifiers
What OpenQuestion holds
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.