Examination of a culturable microbial population from the gastrointestinal tract of the wood-eating loricariid catfish Panaque nigrolineatus

Fish play a critical role in nutrient cycling and organic matter flow in aquatic environments. However, little is known about the microbial diversity within the gastrointestinal tracts that may be essential in these degradation activities. Panaque nigrolineatus is a loricariid catfish found in the Neotropics that have a rare dietary strategy of consuming large amounts of woody material in its natural environment. As a consequence, the gastrointestinal (GI) tract of P. nigrolineatus is continually exposed to high levels of cellulose and other recalcitrant wood compounds and is, therefore, an attractive, uncharacterized system to study microbial community diversity. Our previous 16S rRNA gene surveys demonstrated that the GI tract microbial community includes phylotypes having the capacity to degrade cellulose and fix molecular nitrogen. In the present study we verify the presence of a resident microbial community by fluorescence microscopy and focus on the cellulose-degrading members by culture-based and 13C-labeled cellulose DNA stable-isotope probing (SIP) approaches. Analysis of GI tract communities generated from anaerobic microcrystalline cellulose enrichment cultures by 16S rRNA gene analysis revealed phylotypes sharing high sequence similarity to known cellulolytic bacteria including Clostridium, Cellulomonas, Bacteroides, Eubacterium and Aeromonas spp. Related bacteria were identified in the SIP community, which also included nitrogen-fixing Azospirillum spp. Our ability to enrich for specialized cellulose-degrading communities suggests that the P. nigrolineatus GI tract provides a favorable environment for this activity and these communities may be involved in providing assimilable carbon under challenging dietary conditions

Phylogenetic analysis of microbial communities in different regions of the gastrointestinal tract in Panaque nigrolineatus, a wood-eating fish

The Neotropical detritivorous catfish Panaque nigrolineatus imbibes large quantities of wood as part of its diet. Due to the interest in cellulose, hemi-cellulose and lignin degradation pathways, this organism provides an interesting model system for the detection of novel microbial catabolism. In this study, we characterize the microbial community present in different regions of the alimentary tract of P. nigrolineatus fed a mixed diet of date palm and palm wood in laboratory aquaria. Analysis was performed on 16S rRNA gene clone libraries derived from anterior and posterior regions of the alimentary tract and the auxiliary lobe (AL), an uncharacterized organ that is vascularly attached to the midgut. Sequence analysis and phylogenetic reconstruction revealed distinct microbial communities in each tissue region. The foregut community shared many phylotypes in common with aquarium tank water and included Legionella and Hyphomicrobium spp. As the analysis moved further into the gastrointestinal tract, phylotypes with high levels of 16S rRNA sequence similarity to nitrogen-fixing Rhizobium and Agrobacterium spp. and Clostridium xylanovorans and Clostridium saccharolyticum, dominated midgut and AL communities. However, the hindgut was dominated almost exclusively by phylotypes with the highest 16S rRNA sequence similarity to the Cytophaga-Flavobacterium-Bacteroides phylum. Species richness was highest in the foregut (Chao(1) = 26.72), decreased distally through the midgut (Chao(1) = 25.38) and hindgut (Chao(1) = 20.60), with the lowest diversity detected in the AL (Chao(1) = 18.04), indicating the presence of a specialized microbial community. Using 16S rRNA gene phylogeny, we report that the P. nigrolineatus gastrointestinal tract possesses a microbial community closely related to microorganisms capable of cellulose degradation and nitrogen fixation. Further studies are underway to determine the role of this resident microbial community in Panaque nigrolineatus

Instability of scale-free networks under node-breaking avalanches

The instability introduced in a large scale-free network by the triggering of node-breaking avalanches is analyzed using the fiber-bundle model as conceptual framework. We found, by measuring the size of the giant component, the avalanche size distribution and other quantities, the existence of an abrupt transition. This test of strength for complex networks like Internet is more stringent than others recently considered like the random removal of nodes, analyzed within the framework of percolation theory. Finally, we discuss the possible implications of our results and their relevance in forecasting cascading failures in scale-free networks.Comment: 4 pages, 4 figures, final version to be published in Europhys. Let

Diffusive transport in networks built of containers and tubes

We developed analytical and numerical methods to study a transport of non-interacting particles in large networks consisting of M d-dimensional containers C_1,...,C_M with radii R_i linked together by tubes of length l_{ij} and radii a_{ij} where i,j=1,2,...,M. Tubes may join directly with each other forming junctions. It is possible that some links are absent. Instead of solving the diffusion equation for the full problem we formulated an approach that is computationally more efficient. We derived a set of rate equations that govern the time dependence of the number of particles in each container N_1(t),N_2(t),...,N_M(t). In such a way the complicated transport problem is reduced to a set of M first order integro-differential equations in time, which can be solved efficiently by the algorithm presented here. The workings of the method have been demonstrated on a couple of examples: networks involving three, four and seven containers, and one network with a three-point junction. Already simple networks with relatively few containers exhibit interesting transport behavior. For example, we showed that it is possible to adjust the geometry of the networks so that the particle concentration varies in time in a wave-like manner. Such behavior deviates from simple exponential growth and decay occurring in the two container system.Comment: 21 pages, 18 figures, REVTEX4; new figure added, reduced emphasis on graph theory, additional discussion added (computational cost, one dimensional tubes

Evaluation of be-38 percent al alloy final report, 27 jun. 1964 - 28 feb. 1965

Mechanical properties, microstructural features, and general metallurgical quality of beryllium- aluminum allo

Evolutionary Dynamics on Small-Order Graphs

Abstract. We study the stochastic birth-death model for structured finite populations popularized by Lieberman et al. [Lieberman, E., Hauert, C., Nowak, M.A., 2005. Evolutionary dynamics on graphs. Nature 433, 312-316]. We consider all possible connected undirected graphs of orders three through eight. For each graph, using the Monte Carlo Markov Chain simulations, we determine the fixation probability of a mutant introduced at every possible vertex. We show that the fixation probability depends on the vertex and on the graph. A randomly placed mutant has the highest chances of fixation in a star graph, closely followed by star-like graphs. The fixation probability was lowest for regular and almost regular graphs. We also find that within a fixed graph, the fixation probability of a mutant has a negative correlation with the degree of the starting vertex. 1

Netons: Vibrations of Complex Networks

We consider atoms interacting each other through the topological structure of a complex network and investigate lattice vibrations of the system, the quanta of which we call {\em netons} for convenience. The density of neton levels, obtained numerically, reveals that unlike a local regular lattice, the system develops a gap of a finite width, manifesting extreme rigidity of the network structure at low energies. Two different network models, the small-world network and the scale-free network, are compared: The characteristic structure of the former is described by an additional peak in the level density whereas a power-law tail is observed in the latter, indicating excitability of netons at arbitrarily high energies. The gap width is also found to vanish in the small-world network when the connection range $r = 1$.Comment: 9 pages, 6 figures, to appear in JP