Species Abundance Patterns in Complex Evolutionary Dynamics

An analytic theory of species abundance patterns (SAPs) in biological networks is presented. The theory is based on multispecies replicator dynamics equivalent to the Lotka-Volterra equation, with diverse interspecies interactions. Various SAPs observed in nature are derived from a single parameter. The abundance distribution is formed like a widely observed left-skewed lognormal distribution. As the model has a general form, the result can be applied to similar patterns in other complex biological networks, e.g. gene expression.Comment: 4 pages, 3 figures. Physical Review Letters, in pres

Discovery and Use of a Natural Mutation that Results in Severe Combined Immuno Deficiency in Pigs

Piglets from the low residual feed intake (RFI) line at ISU were found to be affected with a lethal autosomal recessive mutation that causes Severe Combined Immunodeficiency (SCID). Bone marrow allotransplantation rescued the immune deficiency in four of nine attempted transfers; the other five exhibited signs of severe graft versus host disease and were euthanized. A genome wide association study identified a 5.6 Mb region that contained the causative mutation. Affected haplotypes were traced back to the founders of the RFI population, who were sourced from the purebred Yorkshire population. The SCID pigs will be useful as a biomedical model, as pigs are anatomically and genetically more similar to humans than SCID mice, which are now widely used. Development of a genetic test for the causative mutation will be valuable to the swine industry, allowing breeders to identify carriers

Exploring the “Middle Earth” of network spectra via a Gaussian matrix function

We study a Gaussian matrix function of the adjacency matrix of artificial and real-world networks. We motivate the use of this function on the basis of a dynamical process modeled by the time-dependent Schrodinger equation with a squared Hamiltonian. In particular, we study the Gaussian Estrada index - an index characterizing the importance of eigenvalues close to zero. This index accounts for the information contained in the eigenvalues close to zero in the spectra of networks. Such method is a generalization of the so-called "Folded Spectrum Method" used in quantum molecular sciences. Here we obtain bounds for this index in simple graphs, proving that it reaches its maximum for star graphs followed by complete bipartite graphs. We also obtain formulas for the Estrada Gaussian index of Erdos-Renyi random graphs as well as for the Barabasi-Albert graphs. We also show that in real-world networks this index is related to the existence of important structural patters, such as complete bipartite subgraphs (bicliques). Such bicliques appear naturally in many real-world networks as a consequence of the evolutionary processes giving rise to them. In general, the Gaussian matrix function of the adjacency matrix of networks characterizes important structural information not described in previously used matrix functions of graphs

Habitable Zones in the Universe

Habitability varies dramatically with location and time in the universe. This was recognized centuries ago, but it was only in the last few decades that astronomers began to systematize the study of habitability. The introduction of the concept of the habitable zone was key to progress in this area. The habitable zone concept was first applied to the space around a star, now called the Circumstellar Habitable Zone. Recently, other, vastly broader, habitable zones have been proposed. We review the historical development of the concept of habitable zones and the present state of the research. We also suggest ways to make progress on each of the habitable zones and to unify them into a single concept encompassing the entire universe.Comment: 71 pages, 3 figures, 1 table; to be published in Origins of Life and Evolution of Biospheres; table slightly revise

Pollination and Predation Limit Fruit Set in a Shrub, Bourreria succulents (Boraginaceae), after Hurricanes on San Salvador Island, Bahamas 1

Hurricanes have been assumed to reduce the reproduction of plants, either directly by leaf stripping and stress or indirectly by reducing pollinators. I examined the pollination and fruit set of a common shrub, Bourreria succulenta , after hurricanes on San Salvador island, Bahamas. Contrary to the assumption of resource limitation, B. succulenta showed unusually prolific flowering after Hurricane Lili stripped leaves from most of the plants in October 1996. I predicted that the abundant flowering would saturate pollinators and that fruit set would be pollination-limited. Fruit set was strongly pollination-limited by 71 percent. Butterflies are probably the major pollinators and were present at the site, but they rarely visited B. succulenta flowers even though flowers were brimming with nectar. Nectarivorous birds (Bananaquits and Bahama Wbodstars) visit B. succulenta flowers, but their populations were decimated by Hurricane Lili and they rarely visited flowers during this time. Fruit set was also severely predation-limited; a moth caterpillar (Gelechiidae) was extremely abundant and ate buds, flowers, and fruits, causing a further 68 percent reduction in fruit set. Together, pollination limitation and predation limitation reduced fruit set to only 7 percent or less. Predation was also intense in 1999 after Hurricane Floyd and resulted in 11 percent fruit set or less. Whether or not hurricanes were the cause of limited pollinators or abundant predators, the resulting low fruit set could have population effects because hurricanes can provide opportunities for the recruitment of new plants. These results emphasize that understanding plant–animal interactions may be necessary for predicting the effects of hurricanes on plant reproductive success, which may affect subsequent recruitment. Species on small islands like San Salvador (150 km 2 ) with relatively few species may be especially vulnerable to environmental disturbances such as hurricanes.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/75721/1/j.1744-7429.2001.tb00184.x.pd

Extent, intensity and drivers of mammal defaunation:a continental-scale analysis across the Neotropics

Neotropical mammal diversity is currently threatened by several chronic human-induced pressures. We compiled 1,029 contemporary mammal assemblages surveyed across the Neotropics to quantify the continental-scale extent and intensity of defaunation and understand their determinants based on environmental covariates. We calculated a local defaunation index for all assemblages—adjusted by a false-absence ratio—which was examined using structural equation models. We propose a hunting index based on socioenvironmental co-variables that either intensify or inhibit hunting, which we used as an additional predictor of defaunation. Mammal defaunation intensity across the Neotropics on average erased 56.5% of the local source fauna, with ungulates comprising the most ubiquitous losses. The extent of defaunation is widespread, but more incipient in hitherto relatively intact major biomes that are rapidly succumbing to encroaching deforestation frontiers. Assemblage-wide mammal body mass distribution was greatly reduced from a historical 95th-percentile of ~ 14 kg to only ~ 4 kg in modern assemblages. Defaunation and depletion of large-bodied species were primarily driven by hunting pressure and remaining habitat area. Our findings can inform guidelines to design transnational conservation policies to safeguard native vertebrates, and ensure that the “empty ecosystem” syndrome will be deterred from reaching much of the New World tropics

Energy-neutral solar-powered street lighting with predictive and adaptive behaviour

Street lighting can enhance the safety and security of residential and commercial areas. However, its installation and operation is expensive: cables must be installed, and power is drawn from the grid which is typically dominated by non-renewable sources. A potential solution is the use of solar energy to power individual street lights locally. However, with limited energy storage and variable solar availability, existing lighting control strategies are unsuitable for this application. This paper describes the extension of an existing grid-powered street light management scheme, which responds to vehicles and pedestrians by dynamically changing the brightness of street lights in their vicinity, setting an optimal pattern of lighting. The proposed scheme, TALiSMaN-Green, achieves energy-neutral solar-powered operation. It maintains a consistent level of usefulness of street lights across a complete overnight period, regardless of the amount of energy stored at the beginning of the night. Unlike existing schemes, which may run out of energy during the night, it learns the dynamics of traffic volumes and sunrise times and budgets energy accordingly

Genetic test and genetic basis for SCID in pigs.

publication date: 2015-08-06; filing date: 2015-01-0

A comparison of the species– time relationship across ecosystems and taxonomic groups

The species Á/time relationship (STR) describes how the species richness of a community increases with the time span over which the community is observed. This pattern has numerous implications for both theory and conservation in much the same way as the species Á/area relationship (SAR). However, the STR has received much less attention and to date only a handful of papers have been published on the pattern. Here we gather together 984 community time-series, representing 15 study areas and nine taxonomic groups, and evaluate their STRs in order to assess the generality of the STR, its consistency across ecosystems and taxonomic groups, its functional form, and its relationship to local species richness. In general, STRs were surprisingly similar across major taxonomic groups and ecosystem types. STRs tended to be well fit by both power and logarithmic functions, and power function exponents typically ranged between 0.2 and 0.4. Communities with high richness tended to have lower STR exponents, suggesting that factors increasing richness may simultaneously decrease turnover in ecological systems. Our results suggest that the STR is as fundamental an ecological pattern as the SAR, and raise questions about the general processes underlying this pattern. They also highlight the dynamic nature of most species assemblages, and the need to incorporate time scale in both basic and applied research on species richness patterns

A comparison of the species– time relationship across ecosystems and taxonomic groups

The species Á/time relationship (STR) describes how the species richness of a community increases with the time span over which the community is observed. This pattern has numerous implications for both theory and conservation in much the same way as the species Á/area relationship (SAR). However, the STR has received much less attention and to date only a handful of papers have been published on the pattern. Here we gather together 984 community time-series, representing 15 study areas and nine taxonomic groups, and evaluate their STRs in order to assess the generality of the STR, its consistency across ecosystems and taxonomic groups, its functional form, and its relationship to local species richness. In general, STRs were surprisingly similar across major taxonomic groups and ecosystem types. STRs tended to be well fit by both power and logarithmic functions, and power function exponents typically ranged between 0.2 and 0.4. Communities with high richness tended to have lower STR exponents, suggesting that factors increasing richness may simultaneously decrease turnover in ecological systems. Our results suggest that the STR is as fundamental an ecological pattern as the SAR, and raise questions about the general processes underlying this pattern. They also highlight the dynamic nature of most species assemblages, and the need to incorporate time scale in both basic and applied research on species richness patterns