Speciation and Bursts of Evolution

Venditti, Chris; Pagel, Mark

doi:10.1007/s12052-008-0049-4

Cited by 14 publications

(11 citation statements)

References 21 publications

(22 reference statements)

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“…This pattern has also been found in the diversification pattern of human languages [51,52], which exhibited strong imbalances too. The asymmetries have been proposed to be evidence of punctuated equilibrium [53,54].…”

Section: Adaptive Radiations and Tree Imbalancesupporting

confidence: 68%

“…As it occurs with the tree of life [46][47][48]50] technological trees are highly imbalanced, largely a consequence of accelerated diversification events tied to innovations. This pattern has also been found in the diversification pattern of human languages [51,52], which exhibited strong imbalances too. The asymmetries have been proposed to be evidence of punctuated equilibrium [53,54].…”

Section: Adaptive Radiations and Tree Imbalancesupporting

confidence: 68%

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Punctuated equilibrium in the large-scale evolution of programming languages

Valverde

Solé

2015

J. R. Soc. Interface.

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The analogies and differences between biological and cultural evolution have been explored by evolutionary biologists, historians, engineers and linguists alike. Two well-known domains of cultural change are language and technology. Both share some traits relating the evolution of species, but technological change is very difficult to study. A major challenge in our way towards a scientific theory of technological evolution is how to properly define evolutionary trees or clades and how to weight the role played by horizontal transfer of information. Here, we study the large-scale historical development of programming languages, which have deeply marked social and technological advances in the last half century. We analyse their historical connections using network theory and reconstructed phylogenetic networks. Using both data analysis and network modelling, it is shown that their evolution is highly uneven, marked by innovation events where new languages are created out of improved combinations of different structural components belonging to previous languages. These radiation events occur in a bursty pattern and are tied to novel technological and social niches. The method can be extrapolated to other systems and consistently captures the major classes of languages and the widespread horizontal design exchanges, revealing a punctuated evolutionary path.

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Section: Adaptive Radiations and Tree Imbalancesupporting

confidence: 68%

Section: Adaptive Radiations and Tree Imbalancesupporting

confidence: 68%

Punctuated equilibrium in the large-scale evolution of programming languages

Valverde

Solé

2015

J. R. Soc. Interface.

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“…Examples of punctuated equilibrium are provided by the evolution of mammalian body weight [12], hominoid body size [13], several morphological traits of rockfish [14], intersexual signalling of cranes [15] and many other data [16 -22]. Clearly, both gradual and burst-like evolution does happen, but their relative importance remains controversial [23][24][25][26]. Of course, there can be many causes for alternating episodes of stasis and evolution and of punctuation in molecular and morphological evolution.…”

Section: Introductionmentioning

confidence: 99%

Bursts of amino acid replacements in protein evolution

et al. 2019

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Evolution can occur both gradually and through alternating episodes of stasis and rapid changes. However, the prevalence and magnitude of fluctuations of the rate of evolution remain obscure. Detecting a rapid burst of changes requires a detailed record of past evolution, so that events that occurred within a short time interval can be identified. Here, we use the phylogenies of the Baikal Lake amphipods and of Catarrhini, which contain very short internal edges which make this task feasible. We detect six salient bursts of evolution of individual proteins during such short time periods, each involving between six and 38 amino acid substitutions. These bursts were extremely unlikely to have occurred neutrally, and were apparently caused by positive selection. On average, in the course of a time interval required for one synonymous substitution per site, a protein undergoes a strong burst of rapid evolution with probability at least approximately 0.01.

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“…Examples of punctuated equilibrium are provided by the evolution of mammalian body weight (Mattila and Bokma, 2008), hominoid body size (Bokma, 2002), several morphological traits of rockfish (Ingram, 2011), intersexual signalling of cranes (Ø Mooers, Vamosi and Schluter, 1999), and many other data (Wolf et al, 2006;Hunt, 2007Hunt, , 2008Strotz and Allen, 2013;Bedford et al, 2014;Hunt, Hopkins and Lidgard, 2015;Voje, 2016). Clearly, both gradual and burst-like evolution does happen, but their relative importance remains controversial (Pagel, Venditti and Meade, 2006;Venditti and Pagel, 2008;Pennell, Harmon and Uyeda, 2014).…”

Section: Introductionmentioning

confidence: 99%

Bursts of amino acid replacements in protein evolution

Stolyarova

Neretina

Bazykin

et al. 2017

Preprint

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Evolution can occur both gradually and through alternating episodes of stasis and rapid changes. However, the prevalence and magnitude of fluctuations of the rate of evolution remains obscure. Detecting a rapid burst of changes requires a detailed record of past evolution, so that events that occurred within a short time interval can be identified. Here, we use the phylogenies of the Baikal Lake amphipods and of Catarrhini, which contain very short internal edges facilitating this task. We detect 6 radical bursts of evolution of individual proteins during such short time periods, each involving between 6 and 38 amino acid substitutions. These bursts were extremely unlikely to have occurred neutrally, and were apparently caused by positive selection. On average, in the course of a time interval required for one synonymous substitution per site, a protein undergoes a strong burst of rapid evolution with probability at least ~0.01.

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Speciation and Bursts of Evolution

Cited by 14 publications

References 21 publications

Punctuated equilibrium in the large-scale evolution of programming languages

Punctuated equilibrium in the large-scale evolution of programming languages

Bursts of amino acid replacements in protein evolution

Bursts of amino acid replacements in protein evolution

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