A new species of Archaeoryctes from the Middle Paleocene of China and the phylogenetic diversification of Didymoconidae

Didymoconidae are an enigmatic group of Asian endemic insectivorous mammals. We describe the new didymoconid species Archaeoryctes wangi sp. nov. from the Upper Member of the Wanghudun Formation (Middle Paleocene). This new species from the Qianshan Basin (Anhui Province, China) forms an interesting geographical intermediate between A. notialis from South China and A. borealis and A. euryalis from the Mongolian Plateau. To better understand the origin and evolutionary diversification of Didymoconidae, we performed a cladistic and stratocladistic study of the Didymoconidae and various outgroups. This study of dental material did not resolve the higher level affinities of Didymoconidae, but confirms the validity of the family and its distinctiveness from the morphologically similar Sarcodontidae. Moreover, our results corroborate the current didymoconid classification with the distinction of three subfamilies: “Ardynictinae”, Kennatheriinae and Didymoconinae; “Ardynictinae” are a paraphyletic stemgroup for the two other subfamilies. Our results suggest three distinct didymoconid radiations: (1) primitive ardynictines appeared in South China from the start of the Nongshanian; their evolution continues on the Mongolian Plateau with (2) the radiation of more evolved ardynictines and kennatheriines at the start of the Middle Eocene Arshantan and (3) the origin of didymoconines at the start of the Late Eocene Ergilian

How many weights can a cyclic code have ?

Upper and lower bounds on the largest number of weights in a cyclic code of given length, dimension and alphabet are given. An application to irreducible cyclic codes is considered. Sharper upper bounds are given for the special cyclic codes (called here strongly cyclic), {whose nonzero codewords have period equal to the length of the code}. Asymptotics are derived on the function $\Gamma(k,q),$ {that is defined as} the largest number of nonzero weights a cyclic code of dimension $k$ over \F_q can have, and an algorithm to compute it is sketched. The nonzero weights in some infinite families of Reed-Muller codes, either binary or $q$-ary, as well as in the $q$-ary Hamming code are determined, two difficult results of independent interest.Comment: submitted on 21 June, 201

LCD Codes from tridiagonal Toeplitz matrice

Double Toeplitz (DT) codes are codes with a generator matrix of the form $(I,T)$ with $T$ a Toeplitz matrix, that is to say constant on the diagonals parallel to the main. When $T$ is tridiagonal and symmetric we determine its spectrum explicitly by using Dickson polynomials, and deduce from there conditions for the code to be LCD. Using a special concatenation process, we construct optimal or quasi-optimal examples of binary and ternary LCD codes from DT codes over extension fields.Comment: 16 page

Red Queen Coevolution on Fitness Landscapes

Species do not merely evolve, they also coevolve with other organisms. Coevolution is a major force driving interacting species to continuously evolve ex- ploring their fitness landscapes. Coevolution involves the coupling of species fit- ness landscapes, linking species genetic changes with their inter-specific ecological interactions. Here we first introduce the Red Queen hypothesis of evolution com- menting on some theoretical aspects and empirical evidences. As an introduction to the fitness landscape concept, we review key issues on evolution on simple and rugged fitness landscapes. Then we present key modeling examples of coevolution on different fitness landscapes at different scales, from RNA viruses to complex ecosystems and macroevolution.Comment: 40 pages, 12 figures. To appear in "Recent Advances in the Theory and Application of Fitness Landscapes" (H. Richter and A. Engelbrecht, eds.). Springer Series in Emergence, Complexity, and Computation, 201

The maximum number of minimal codewords in an [n,k]−[n,k]-code

Upper and lower bounds are derived for the quantity in the title, which is tabulated for modest values of $n$ and $k.$ An application to graphs with many cycles is given.Comment: 6 pp. Submitte

Heating pulse tests under constant volume on natural Boom clay. Experimental results and numerical simulations

Boom clay is a potential geological host formation for High Level Nuclear Waste in Belgium. Impact of thermal loads may play an important role on this clay formation. To this aim, heating pulse tests on intact borehole samples were carried out using an axi-symmetric heating cell. Heating tests under nearly constant volume conditions and different target temperatures (maximum 85°C) were performed under controlled hydraulic boundary conditions. Selected test result are presented and afterwards calibrated and simulated using CODE_BRIGHT.Peer ReviewedPostprint (author’s final draft

Graph theoretic analysis of protein interaction networks of eukaryotes

Thanks to recent progress in high-throughput experimental techniques, the datasets of large-scale protein interactions of prototypical multicellular species, the nematode worm Caenorhabditis elegans and the fruit fly Drosophila melanogaster, have been assayed. The datasets are obtained mainly by using the yeast hybrid method, which contains false-positive and false-negative simultaneously. Accordingly, while it is desirable to test such datasets through further wet experiments, here we invoke recent developed network theory to test such high throughput datasets in a simple way. Based on the fact that the key biological processes indispensable to maintaining life are universal across eukaryotic species, and the comparison of structural properties of the protein interaction networks (PINs) of the two species with those of the yeast PIN, we find that while the worm and the yeast PIN datasets exhibit similar structural properties, the current fly dataset, though most comprehensively screened ever, does not reflect generic structural properties correctly as it is. The modularity is suppressed and the connectivity correlation is lacking. Addition of interlogs to the current fly dataset increases the modularity and enhances the occurrence of triangular motifs as well. The connectivity correlation function of the fly, however, remains distinct under such interlogs addition, for which we present a possible scenario through an in silico modeling.Comment: 7 pages, 6 figures, 2 table

Critical Networks Exhibit Maximal Information Diversity in Structure-Dynamics Relationships

Network structure strongly constrains the range of dynamic behaviors available to a complex system. These system dynamics can be classified based on their response to perturbations over time into two distinct regimes, ordered or chaotic, separated by a critical phase transition. Numerous studies have shown that the most complex dynamics arise near the critical regime. Here we use an information theoretic approach to study structure-dynamics relationships within a unified framework and how that these relationships are most diverse in the critical regime

Effect of edge removal on topological and functional robustness of complex networks

We study the robustness of complex networks subject to edge removal. Several network models and removing strategies are simulated. Rather than the existence of the giant component, we use total connectedness as the criterion of breakdown. The network topologies are introduced a simple traffic dynamics and the total connectedness is interpreted not only in the sense of topology but also in the sense of function. We define the topological robustness and the functional robustness, investigate their combined effect and compare their relative importance to each other. The results of our study provide an alternative view of the overall robustness and highlight efficient ways to improve the robustness of the network models.Comment: 21 pages, 9 figure

Community-driven dispersal in an individual-based predator-prey model

We present a spatial, individual-based predator-prey model in which dispersal is dependent on the local community. We determine species suitability to the biotic conditions of their local environment through a time and space varying fitness measure. Dispersal of individuals to nearby communities occurs whenever their fitness falls below a predefined tolerance threshold. The spatiotemporal dynamics of the model is described in terms of this threshold. We compare this dynamics with the one obtained through density-independent dispersal and find marked differences. In the community-driven scenario, the spatial correlations in the population density do not vary in a linear fashion as we increase the tolerance threshold. Instead we find the system to cross different dynamical regimes as the threshold is raised. Spatial patterns evolve from disordered, to scale-free complex patterns, to finally becoming well-organized domains. This model therefore predicts that natural populations, the dispersal strategies of which are likely to be influenced by their local environment, might be subject to complex spatiotemporal dynamics.Comment: 43 pages, 7 figures, vocabulary modifications, discussion expanded, references added, Ecological Complexity accepte