Habitat light sets the boundaries for the rapid evolution of cichlid fish vision, while sexual selection can tune it within those limits

Cichlid fishes’ famous diversity in body coloration is accompanied by a highly diverse and complex visual system. Although cichlids possess an unusually high number of seven cone opsin genes, they express only a subset of these during their ontogeny, accounting for their astonishing interspecific variation in visual sensitivities. Much of this diversity is thought to have been shaped by natural selection as cichlids inhabit a variety of habitats with distinct light environments. Also, sexual selection might have contributed to the observed visual diversity, and sexual dimorphism in coloration potentially co‐evolved with sexual dimorphism in opsin expression. We investigated sex‐specific opsin expression of several cichlids from Africa and the Neotropics and collected and integrated datasets on sex‐specific body coloration, species‐specific visual sensitivities, lens transmission and habitat light properties for some of them. We comparatively analyzed this wide range of molecular and ecological data, illustrating how integrative approaches can address specific questions on the factors and mechanisms driving diversification, and the evolution of cichlid vision in particular. We found that both sexes expressed opsins at the same levels ‐ even in sexually dimorphic cichlid species – which argues against coevolution of sexual dichromatism and differences in sex‐specific visual sensitivity. Rather, a combination of environmental light properties and body coloration shaped the diversity in spectral sensitivities among cichlids. We conclude that although cichlids are particularly colorful and diverse and often sexually dimorphic, it would appear that natural rather than sexual selection is a more powerful force driving visual diversity in this hyper‐diverse lineage

Unification in the Description Logic EL

The Description Logic EL has recently drawn considerable attention since, on the one hand, important inference problems such as the subsumption problem are polynomial. On the other hand, EL is used to define large biomedical ontologies. Unification in Description Logics has been proposed as a novel inference service that can, for example, be used to detect redundancies in ontologies. The main result of this paper is that unification in EL is decidable. More precisely, EL-unification is NP-complete, and thus has the same complexity as EL-matching. We also show that, w.r.t. the unification type, EL is less well-behaved: it is of type zero, which in particular implies that there are unification problems that have no finite complete set of unifiers.Comment: 31page

Diving into divergence: Differentiation in swimming performances, physiology and gene expression between locally‐adapted sympatric cichlid fishes

Sympatric speciation occurs without geographical barriers and is thought to often be driven by ecological specialization of individuals that eventually diverge genetically and phenotypically. Distinct morphologies between sympatric populations occupying different niches have been interpreted as such differentiating adaptive phenotypes, yet differences in performance and thus likely adaptiveness between them were rarely tested. Here, we investigated if divergent body shapes of two sympatric crater lake cichlid species from Nicaragua, one being a shore‐associated (benthic) species while the other prefers the open water zones (limnetic), affect cruising (Ucrit) and sprinting (Usprint) swimming abilities ‐ performances particularly relevant to their respective lifestyles. Furthermore, we investigated species differences in oxygen consumption (MO2) across different swimming speeds and compare gene expression in gills and white muscle at rest and during exercise. We found a superior cruising ability in the limnetic Amphilophus zaliosus compared to the benthic A. astorquii, while sprinting was not different, suggesting that their distinct morphologies affect swimming performance. Increased cruising swimming ability in A. zaliosus was linked to a higher oxygen demand during activity (but not rest), indicating different metabolic rates during exercise ‐ a hypothesis supported by coinciding gene expression patterns of gill transcriptomes. We identified differentially expressed genes linked to swimming physiology, regulation of swimming behaviour and oxygen intake. A combination of physiological and morphological differences may thus underlie adaptations to these species’ distinct niches. This complex ecological specialization likely resulted in morphological and physiological trade‐offs that contributed to the rapid establishment and maintenance of divergence with gene flow

Conservation and novelty in the microRNA genomic landscape of hyperdiverse cichlid fishes

MicroRNAs (miRNAs) play crucial roles in the post-transcriptional control of messenger RNA (mRNA). These miRNA-mRNA regulatory networks are present in nearly all organisms and contribute to development, phenotypic divergence, and speciation. To examine the miRNA landscape of cichlid fishes, one of the most species-rich families of vertebrates, we profiled the expression of both miRNA and mRNA in a diverse set of cichlid lineages. Among these, we found that conserved miRNAs differ from recently arisen miRNAs (i.e. lineage specific) in average expression levels, number of target sites, sequence variability, and physical clustering patterns in the genome. Furthermore, conserved miRNA target sites tend to be enriched at the 5′ end of protein-coding gene 3′ UTRs. Consistent with the presumed regulatory role of miRNAs, we detected more negative correlations between the expression of miRNA-mRNA functional pairs than in random pairings. Finally, we provide evidence that novel miRNA targets sites are enriched in genes involved in protein synthesis pathways. Our results show how conserved and evolutionarily novel miRNAs differ in their contribution to the genomic landscape and highlight their particular evolutionary roles in the adaptive diversification of cichlids

Thermodynamic gauge-theory cascade

It is proposed that the cooling of a thermalized SU($N$) gauge theory can be formulated in terms of a cascade involving three effective theories with successively reduced (and spontaneously broken) gauge symmetries, SU($N$) $\to$ U(1)$^{N-1}$ $\to$ Z$_N$. The approach is based on the assumption that away from a phase transition the bulk of the quantum interaction inherent to the system is implicitly encoded in the (incomplete) classical dynamics of a collective part made of low-energy condensed degrees of freedom. The properties of (some of the) statistically fluctuating fields are determined by these condensate(s). This leads to a quasi-particle description at tree-level. It appears that radiative corrections, which are sizable at large gauge coupling, do not change the tree-level picture qualitatively. The thermodynamic self-consistency of the quasi-particle approach implies nonperturbative evolution equations for the associated masses. The temperature dependence of these masses, in turn, determine the evolution of the gauge coupling(s). The hot gauge system approaches the behavior of an ideal gas of massless gluons at asymptotically large temperature. A negative equation of state is possible at a stage where the system is about to settle into the phase of the (spontaneously broken) Z$_N$ symmetry.Comment: 25 pages, 6 figures, 1 reference added, minor corrections in text, errors in Sec. 3.2 corrected, PRD versio

Hadro-Chemistry and Evolution of (Anti-) Baryon Densities at RHIC

The consequences of hadro-chemical freezeout for the subsequent hadron gas evolution in central heavy-ion collisions at RHIC and LHC energies are discussed with special emphasis on effects due to antibaryons. Contrary to naive expectations, their individual conservation, as implied by experimental data, has significant impact on the chemical off-equilibrium composition of hadronic matter at collider energies. This may reflect on a variety of observables including source sizes and dilepton spectra.Comment: 4 pages ReVTeX incl. 3 ps-figs, submitted to PR

Diffusion on random site percolation clusters. Theory and NMR microscopy experiments with model objects

Quasi two-dimensional random site percolation model objects were fabricate based on computer generated templates. Samples consisting of two compartments, a reservoir of H$_2$O gel attached to a percolation model object which was initially filled with D$_2$O, were examined with NMR (nuclear magnetic resonance) microscopy for rendering proton spin density maps. The propagating proton/deuteron inter-diffusion profiles were recorded and evaluated with respect to anomalous diffusion parameters. The deviation of the concentration profiles from those expected for unobstructed diffusion directly reflects the anomaly of the propagator for diffusion on a percolation cluster. The fractal dimension of the random walk, $d_w$, evaluated from the diffusion measurements on the one hand and the fractal dimension, $d_f$, deduced from the spin density map of the percolation object on the other permits one to experimentally compare dynamical and static exponents. Approximate calculations of the propagator are given on the basis of the fractional diffusion equation. Furthermore, the ordinary diffusion equation was solved numerically for the corresponding initial and boundary conditions for comparison. The anomalous diffusion constant was evaluated and is compared to the Brownian case. Some ad hoc correction of the propagator is shown to pay tribute to the finiteness of the system. In this way, anomalous solutions of the fractional diffusion equation could experimentally be verified for the first time.Comment: REVTeX, 12 figures in GIF forma