Female mate choice and male ornamentation in the stalk-eyed fly, diasemopsis meigenii

Female mate choice is a crucial driver of sexual selection, leading to the evolution of the diverse male sexual ornaments seen in nature. Yet little is known about the factors that cause variation in different components of female preference, or how these components interact to influence the series of choices that exert selection on male ornaments. Likewise, it is not known how the signals of genetic condition revealed by male ornaments, or reproductive capacity, vary across environments. But this variation is important for both the direct and indirect genetic benefits of female mate choice, as well as for the male-driven effects of reproductive investment on ejaculate allocation and sexual selection. Here, I use the sexually dimorphic African stalk-eyed fly species Diasemopsis meigenii to conduct empirical studies to address these issues. First, I manipulate female mating status (virgin versus mated) and use mathematical and statistical techniques to decompose mate choices made in a repeated sequential no-choice design into estimates of preference, and selection on the male ornament. I show that choosiness and selection, but not the preference function, are elevated in mated females. Second, I use larval diet manipulation and a series of crosses within and between a suite of inbred lines to investigate the across-environmental genetic condition dependence of male sexual ornaments relative to nonsexual traits. I find evidence for the heightened condition dependence of the male sexual trait (male eyespan), and for a novel gene-by-environment interaction in which the effects of genetic stress on sexual trait expression are masked in both high and low but not intermediate environments. Finally, I measure the effects of environmental (E) and genetic (G) stress on reproductive, fertility and attractiveness traits, and find evidence for a qualitative alignment of trait responses (all tend to be positive), but a negative integration across traits (traits that respond most to E respond least to G). The results have important implications for the operation of sexual selection in nature

Ranks of ideals in inverse semigroups of difunctional binary relations

The set Dn of all difunctional relations on an n element set is an inverse semigroup under a variation of the usual composition operation. We solve an open problem of Kudryavtseva and Maltcev (Publ Math Debrecen 78(2):253–282, 2011), which asks: What is the rank (smallest size of a generating set) of Dn? Specifically, we show that the rank of Dn is B(n)+n, where B(n) is the nth Bell number. We also give the rank of an arbitrary ideal of Dn. Although Dn bears many similarities with families such as the full transformation semigroups and symmetric inverse semigroups (all contain the symmetric group and have a chain of J-classes), we note that the fast growth of rank(Dn) as a function of n is a property not shared with these other families

Garside and quadratic normalisation: a survey

Starting from the seminal example of the greedy normal norm in braid monoids, we analyse the mechanism of the normal form in a Garside monoid and explain how it extends to the more general framework of Garside families. Extending the viewpoint even more, we then consider general quadratic normalisation procedures and characterise Garside normalisation among them.Comment: 30 page

Susceptibility to tuberculosis is associated with variants in the ASAP1 gene encoding a regulator of dendritic cell migration

Human genetic factors predispose to tuberculosis (TB). We studied 7.6 million genetic variants in 5,530 people with pulmonary TB and in 5,607 healthy controls. In the combined analysis of these subjects and the follow-up cohort (15,087 TB patients and controls altogether), we found an association between TB and variants located in introns of the ASAP1 gene on chromosome 8q24 (P = 2.6 × 10−11 for rs4733781; P = 1.0 × 10−10 for rs10956514). Dendritic cells (DCs) showed high ASAP1 expression that was reduced after Mycobacterium tuberculosis infection, and rs10956514 was associated with the level of reduction of ASAP1 expression. The ASAP1 protein is involved in actin and membrane remodeling and has been associated with podosomes. The ASAP1-depleted DCs showed impaired matrix degradation and migration. Therefore, genetically determined excessive reduction of ASAP1 expression in M. tuberculosis–infected DCs may lead to their impaired migration, suggesting a potential mechanism of predisposition to TB

On finite monoids of cellular automata.

For any group G and set A, a cellular automaton over G and A is a transformation τ:AG→AGτ:AG→AG defined via a finite neighbourhood S⊆GS⊆G (called a memory set of ττ) and a local function μ:AS→Aμ:AS→A. In this paper, we assume that G and A are both finite and study various algebraic properties of the finite monoid CA(G,A)CA(G,A) consisting of all cellular automata over G and A. Let ICA(G;A)ICA(G;A) be the group of invertible cellular automata over G and A. In the first part, using information on the conjugacy classes of subgroups of G, we give a detailed description of the structure of ICA(G;A)ICA(G;A) in terms of direct and wreath products. In the second part, we study generating sets of CA(G;A)CA(G;A). In particular, we prove that CA(G,A)CA(G,A) cannot be generated by cellular automata with small memory set, and, when G is finite abelian, we determine the minimal size of a set V⊆CA(G;A)V⊆CA(G;A) such that CA(G;A)=⟨ICA(G;A)∪V⟩CA(G;A)=⟨ICA(G;A)∪V⟩

The inter-observer agreement of examining pre-school children with acute cough: a nested study

BACKGROUND: The presence of clinical signs have implications for diagnosis, prognosis and treatment. Therefore, the aim of this study was to examine the inter-observer agreement of clinical signs in pre-school children presenting to primary care. METHODS: A nested study comparing two clinical assessments within a prospective cohort of 256 pre-school children with acute cough recruited from eight general practices in Leicestershire, UK. We examined agreement (using kappa statistics) between unstandardised and standardised clinical assessments of tachypnoea, chest signs and fever. RESULTS: Kappa values were poor or fair for all clinical signs (range 0.12 to 0.39) with chest signs the most reliable. CONCLUSIONS: Primary care clinicians should be aware that clinical signs may be unreliable when making diagnosis, prognosis and treatment decisions in pre-school children with cough. Future research should aim to further our understanding of how best to identify abnormal clinical signs

Semigroups with operation-compatible Green’s quasiorders

We call a semigroup on which the Green’s quasiorder ≤ J (≤ L, ≤ R) is operation-compatible, a ≤ J-compatible (≤ L-compatible, ≤ R-compatible) semigroup. We study the classes of ≤ J-compatible, ≤ L-compatible and ≤ R-compatible semigroups, using the smallest operation-compatible quasiorders containing Green’s quasiorders as a tool. We prove a number of results, including the following. The class of ≤ L-compatible (≤ R-compatible) semigroups is closed under taking homomorphic images. A regular periodic semigroup is ≤ J-compatible if and only if it is a semilattice of simple semigroups. Every negatively orderable semigroup can be embedded into a negatively orderable ≤ J-compatible semigroup

Symmetry structure in discrete models of biochemical systems : natural subsystems and the weak control hierarchy in a new model of computation driven by interactions

© 2015 The Authors. Published by the Royal Society under the terms of the Creative Commons Attribution License http://creativecommons.org/licenses/by/4.0/, which permits unrestricted use, provided the original author and source are credited.Interaction Computing (IC) is inspired by the observation that cell metabolic/regulatory systems construct order dynamically, through constrained interactions between their components and based on a wide range of possible inputs and environmental conditions. The goals of this work are (1) to identify and understand mathematically the natural subsystems and hierarchical relations in natural systems enabling this, and (2) to use the resulting insights to define a new model of computation based on interactions that is useful for both biology and computation. The dynamical characteristics of the cellular pathways studied in Systems Biology relate, mathematically, to the computational characteristics of automata derived from them, and their internal symmetry structures to computational power. Finite discrete automata models of biological systems such as the lac operon, Krebs cycle, and p53-mdm2 genetic regulation constructed from Systems Biology models have canonically associated algebraic structures { transformation semigroups. These contain permutation groups (local substructures exhibiting symmetry) that correspond to "pools of reversibility". These natural subsystems are related to one another in a hierarchical manner by the notion of "weak control ". We present natural subsystems arising from several biological examples and their weak control hierarchies in detail. Finite simple non-abelian groups (SNAGs) are found in biological examples and can be harnessed to realize nitary universal computation. This allows ensembles of cells to achieve any desired finitary computational transformation, depending on external inputs, via suitably constrained interactions. Based on this, interaction machines that grow and change their structure recursively are introduced and applied, providing a natural model of computation driven by interactions.Peer reviewe

A phasing and imputation method for pedigreed populations that results in a single-stage genomic evaluation

<p>Abstract</p> <p>Background</p> <p>Efficient, robust, and accurate genotype imputation algorithms make large-scale application of genomic selection cost effective. An algorithm that imputes alleles or allele probabilities for all animals in the pedigree and for all genotyped single nucleotide polymorphisms (SNP) provides a framework to combine all pedigree, genomic, and phenotypic information into a single-stage genomic evaluation.</p> <p>Methods</p> <p>An algorithm was developed for imputation of genotypes in pedigreed populations that allows imputation for completely ungenotyped animals and for low-density genotyped animals, accommodates a wide variety of pedigree structures for genotyped animals, imputes unmapped SNP, and works for large datasets. The method involves simple phasing rules, long-range phasing and haplotype library imputation and segregation analysis.</p> <p>Results</p> <p>Imputation accuracy was high and computational cost was feasible for datasets with pedigrees of up to 25 000 animals. The resulting single-stage genomic evaluation increased the accuracy of estimated genomic breeding values compared to a scenario in which phenotypes on relatives that were not genotyped were ignored.</p> <p>Conclusions</p> <p>The developed imputation algorithm and software and the resulting single-stage genomic evaluation method provide powerful new ways to exploit imputation and to obtain more accurate genetic evaluations.</p