scholarly journals The UCSC repeat browser allows discovery and visualization of evolutionary conflict across repeat families

Mobile DNA ◽  
2020 ◽  
Vol 11 (1) ◽  
Author(s):  
Jason D. Fernandes ◽  
Armando Zamudio-Hurtado ◽  
Hiram Clawson ◽  
W. James Kent ◽  
David Haussler ◽  
...  
Genetics ◽  
2000 ◽  
Vol 154 (3) ◽  
pp. 1231-1238 ◽  
Author(s):  
David J Begun ◽  
Penn Whitley

Abstract NF-κB and IκB proteins have central roles in regulation of inflammation and innate immunity in mammals. Homologues of these proteins also play an important role in regulation of the Drosophila immune response. Here we present a molecular population genetic analysis of Relish, a Drosophila NF-κB/IκB protein, in Drosophila simulans and D. melanogaster. We find strong evidence for adaptive protein evolution in D. simulans, but not in D. melanogaster. The adaptive evolution appears to be restricted to the IκB domain. A possible explanation for these results is that Relish is a site of evolutionary conflict between flies and their microbial pathogens.


2019 ◽  
Vol 116 (19) ◽  
pp. 9463-9468 ◽  
Author(s):  
Katherine S. Geist ◽  
Joan E. Strassmann ◽  
David C. Queller

Evolutionary conflict can drive rapid adaptive evolution, sometimes called an arms race, because each party needs to respond continually to the adaptations of the other. Evidence for such arms races can sometimes be seen in morphology, in behavior, or in the genes underlying sexual interactions of host−pathogen interactions, but is rarely predicted a priori. Kin selection theory predicts that conflicts of interest should usually be reduced but not eliminated among genetic relatives, but there is little evidence as to whether conflict within families can drive rapid adaptation. Here we test multiple predictions about how conflict over the amount of resources an offspring receives from its parent would drive rapid molecular evolution in seed tissues of the flowering plant Arabidopsis. As predicted, there is more adaptive evolution in genes expressed in Arabidopsis seeds than in other specialized organs, more in endosperms and maternal tissues than in embryos, and more in the specific subtissues involved in nutrient transfer. In the absence of credible alternative hypotheses, these results suggest that kin selection and conflict are important in plants, that the conflict includes not just the mother and offspring but also the triploid endosperm, and that, despite the conflict-reducing role of kinship, family members can engage in slow but steady tortoise-like arms races.


2021 ◽  
Vol 288 (1942) ◽  
pp. 20202483
Author(s):  
Anna M. O’Brien ◽  
Chandra N. Jack ◽  
Maren L. Friesen ◽  
Megan E. Frederickson

Evolutionary biologists typically envision a trait’s genetic basis and fitness effects occurring within a single species. However, traits can be determined by and have fitness consequences for interacting species, thus evolving in multiple genomes. This is especially likely in mutualisms, where species exchange fitness benefits and can associate over long periods of time. Partners may experience evolutionary conflict over the value of a multi-genomic trait, but such conflicts may be ameliorated by mutualism’s positive fitness feedbacks. Here, we develop a simulation model of a host–microbe mutualism to explore the evolution of a multi-genomic trait. Coevolutionary outcomes depend on whether hosts and microbes have similar or different optimal trait values, strengths of selection and fitness feedbacks. We show that genome-wide association studies can map joint traits to loci in multiple genomes and describe how fitness conflict and fitness feedback generate different multi-genomic architectures with distinct signals around segregating loci. Partner fitnesses can be positively correlated even when partners are in conflict over the value of a multi-genomic trait, and conflict can generate strong mutualistic dependency. While fitness alignment facilitates rapid adaptation to a new optimum, conflict maintains genetic variation and evolvability, with implications for applied microbiome science.


Author(s):  
Murad Idris

This chapter examines the complex and ambiguous thought of Egyptian jurist Qāsim Amīn. Amīn’s work is fraught with issues of gender and freedom, which are occasioned by ideas about the sociological conditions of modernity that include the premise of natural selection in the competition between societies. Amīn worried that Egypt had made itself unable to compete fully in the evolutionary conflict between societies and linked the competition to normative questions about individual freedom and, especially, the position of women in society. At the same time, Amīn also sought to counter the universalist claims of certain interpreters and critics of Islam. Thus he sought to navigate unsteady terrain in describing the meaning of a progressive society without simply reproducing European ideas. Idris’s chapter demonstrates the difficulty of writing in ambiguous and profoundly asymmetric colonial circumstances. Seeking both to defend and reform Islamic societies – and both admiring and fearing colonial power – Amīn wrote divergent texts for different audiences: in French, he made defensive arguments; in Arabic, reformist. The conclusion of the chapter powerfully illustrates the ways in which the strategy would misfire: European commentators would in the end deploy Amīn’s Arabic language work as support for further imperial entrenchment.


2016 ◽  
Vol 113 (8) ◽  
pp. E978-E986 ◽  
Author(s):  
Tanya M. Pennell ◽  
Freek J. H. de Haas ◽  
Edward H. Morrow ◽  
G. Sander van Doorn

Evolutionary conflict between the sexes can induce arms races in which males evolve traits that are detrimental to the fitness of their female partners, and vice versa. This interlocus sexual conflict (IRSC) has been proposed as a cause of perpetual intersexual antagonistic coevolution with wide-ranging evolutionary consequences. However, theory suggests that the scope for perpetual coevolution is limited, if traits involved in IRSC are subject to pleiotropic constraints. Here, we consider a biologically plausible form of pleiotropy that has hitherto been ignored in treatments of IRSC and arrive at drastically different conclusions. Our analysis is based on a quantitative genetic model of sexual conflict, in which genes controlling IRSC traits have side effects in the other sex, due to incompletely sex-limited gene expression. As a result, the genes are exposed to intralocus sexual conflict (IASC), a tug-of-war between opposing male- and female-specific selection pressures. We find that the interaction between the two forms of sexual conflict has contrasting effects on antagonistic coevolution: Pleiotropic constraints stabilize the dynamics of arms races if the mating traits are close to evolutionary equilibrium but can prevent populations from ever reaching such a state. Instead, the sexes are drawn into a continuous cycle of arms races, causing the buildup of IASC, alternated by phases of IASC resolution that trigger the next arms race. These results encourage an integrative perspective on the biology of sexual conflict and generally caution against relying exclusively on equilibrium stability analysis.


Author(s):  
David C. Queller ◽  
Joan E. Strassmann

Evolutionary conflict occurs when two parties can each affect a joint phenotype, but they gain from pushing it in opposite directions. Conflicts occur across many biological levels and domains but share many features. They are a major source of biological maladaptation. They affect biological diversity, often increasing it, at almost every level. Because opponents create selection that can be strong, persistent, and malevolent, conflict often leads to accelerated evolution and arms races. Conflicts might even drive the majority of adaptation, with pathogens leading the way as selective forces. The evolution of conflicts is complex, with outcomes determined partly by the relative evolvability of each party and partly by the kinds of power that each evolves. Power is a central issue in biology. In addition to physical strength and weapons, it includes strength from numbers and complexity; abilities to bind and block; advantageous timing; and abilities to acquire, use, and distort information.


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