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Quasispecies in population of compositional assemblies

Overview of attention for article published in BMC Ecology and Evolution, December 2014
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  • Above-average Attention Score compared to outputs of the same age and source (55th percentile)

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3 Wikipedia pages

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17 Dimensions

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Title
Quasispecies in population of compositional assemblies
Published in
BMC Ecology and Evolution, December 2014
DOI 10.1186/s12862-014-0265-1
Pubmed ID
Authors

Renan Gross, Itzhak Fouxon, Doron Lancet, Omer Markovitch

Abstract

BackgroundThe quasispecies model refers to information carriers that undergo self-replication with errors. A quasispecies is a steady-state population of biopolymer sequence variants generated by mutations from a master sequence. A quasispecies error threshold is a minimal replication accuracy below which the population structure breaks down. Theory and experimentation of this model often refer to biopolymers, e.g. RNA molecules or viral genomes, while its prebiotic context is often associated with an RNA world scenario. Here, we study the possibility that compositional entities which code for compositional information, intrinsically different from biopolymers coding for sequential information, could show quasispecies dynamics.ResultsWe employed a chemistry-based model, graded autocatalysis replication domain (GARD), which simulates the network dynamics within compositional molecular assemblies. In GARD, a compotype represents a population of similar assemblies that constitute a quasi-stationary state in compositional space. A compotype's center-of-mass is found to be analogous to a master sequence for a sequential quasispecies. Using single-cycle GARD dynamics, we measured the quasispecies transition matrix (Q) for the probabilities of transition from one center-of-mass Euclidean distance to another. Similarly, the quasispecies¿ growth rate vector (A) was obtained. This allowed computing a steady state distribution of distances to the center of mass, as derived from the quasispecies equation. In parallel, a steady state distribution was obtained via the GARD equation kinetics. Rewardingly, a significant correlation was observed between the distributions obtained by these two methods. This was only seen for distances to the compotype center-of-mass, and not to randomly selected compositions. A similar correspondence was found when comparing the quasispecies time dependent dynamics towards steady state. Further, changing the error rate by modifying basal assembly joining rate of GARD kinetics was found to display an error catastrophe, similar to the standard quasispecies model. Additional augmentation of compositional mutations leads to the complete disappearance of the master-like composition.ConclusionsOur results show that compositional assemblies, as simulated by the GARD formalism, portray significant attributes of quasispecies dynamics. This expands the applicability of the quasispecies model beyond sequence-based entities, and potentially enhances validity of GARD as a model for prebiotic evolution.

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Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 20 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United Kingdom 2 10%
Unknown 18 90%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 5 25%
Researcher 5 25%
Professor 3 15%
Other 1 5%
Student > Bachelor 1 5%
Other 1 5%
Unknown 4 20%
Readers by discipline Count As %
Agricultural and Biological Sciences 4 20%
Biochemistry, Genetics and Molecular Biology 3 15%
Chemistry 3 15%
Linguistics 1 5%
Computer Science 1 5%
Other 3 15%
Unknown 5 25%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 5. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 21 April 2019.
All research outputs
#7,047,742
of 25,374,647 outputs
Outputs from BMC Ecology and Evolution
#1,578
of 3,714 outputs
Outputs of similar age
#87,327
of 359,537 outputs
Outputs of similar age from BMC Ecology and Evolution
#33
of 76 outputs
Altmetric has tracked 25,374,647 research outputs across all sources so far. This one has received more attention than most of these and is in the 71st percentile.
So far Altmetric has tracked 3,714 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 12.5. This one has gotten more attention than average, scoring higher than 56% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 359,537 tracked outputs that were published within six weeks on either side of this one in any source. This one has done well, scoring higher than 75% of its contemporaries.
We're also able to compare this research output to 76 others from the same source and published within six weeks on either side of this one. This one has gotten more attention than average, scoring higher than 55% of its contemporaries.