Are local patterns of anthropoid primate diversity related to patterns of diversity at a larger scale?

Aims (1) To determine the relationship between local and regional anthropoid primate species richness. (2) To establish the spatial and temporal scale at which the ultimate processes influencing patterns of primate species coexistence operate. Location Continental landmasses of Africa, South America and Asia (India to China, and all islands as far south as New Guinea). Methods The local–regional species richness relationship for anthropoid primates is estimated by regressing local richness against regional richness (independent variable). Local richness is estimated in small, replicate local assemblages sampled in regions that vary in total species richness. A strong linear relationship is taken as evidence that local assemblages are unsaturated and local richness results from proportional sampling of the regional pool. An asymptotic curvilinear relationship is interpreted to reflect saturated communities, where strong biotic interactions limit local richness and local processes structure the species assemblage. As a further test of the assumption of local assemblage saturation, we looked for density compensation in high‐density local primate assemblages. Results The local–regional species richness relationship was linear for Africa and South America, and the slope of the relationship did not differ between the two continents. For Asia, curvilinearity best described the relationship between local and regional richness. Asian primate assemblages appear to be saturated and this is confirmed by density compensation among Asian primates. However, density compensation was also observed among African primates. The apparent assemblage saturation in Asia is not a species–area phenomenon related to the small size of the isolated islands and their forest blocks, since similar low local species richness occurs in large forests on mainland and/or peninsular Asia. Main conclusions In Africa and South America local primate assemblage composition appears to reflect the influence of biogeographic processes operating on regional spatial scales and historical time scales. In Asia the composition of primate assemblages are by‐and‐large subject to ecological constraint operating over a relatively small spatial and temporal scale. The possible local influence of the El Niño Southern Oscillations on the evolution and selection of life‐history characteristics among Asian primates, and in determining local patterns of primate species coexistence, warrants closer inspection.     

Comparison on DNA patterns of different ecotypes of European corn borer (Ostrinia nubilalis Hübner) in Hungary

For a molecular genetic study on Hungarian populations of European corn borer L5 stage larvae were collected from 14 places of three different regions of the country (uni- and bivoltine ecotypes). Additionally, the study included larvae from Egypt, too (multivoltine ecotype). Molecular examinations of European corn borer larvae using the study of mitochondrial cytochrome b (cyt b) revealed that by single strand conformation polimorphism (SSCP) the populations found in Hungary represented the same haplotype. Even the Egyptian sample showed no genetic divergence. Some minor deviatons were found in the case of a sample from Székkutas, but that did not prove the genetic divergence of the bivoltine ecotype either, since the other samples of South-East Hungary did not display this kind of genetic variation. On the basis of our investigations it can be said that the univoltine and bivoltine generations, have uniform genetic complements.     

Do lichens show latitudinal patterns of diversity?

No previous study has directly investigated whether lichens show latitudinal patterns of diversity. We used vouchered data and MaxEnt models to compile richness estimates (species, genera, and families) across the western coastal region of the US. Nonparametric multiplicative regression then sought the geographic factors or interactions of factors that explained the most variability in lichen richness. Collection density was the strongest predictor of raw estimates of richness at all taxonomic ranks. Latitude was the overall single-best predictor of MaxEnt modeled species, generic, and familial richness in all models. MaxEnt modeling was necessary to minimize collection bias, which otherwise obscured any other patterns of diversity. While geography explained a sizable portion of variance in lichen richness, it does not trend linearly with latitude. Instead, lichen diversity may be influenced by a compilation of regional and local factors including climate, disturbance, and competition.     

Some psychophysical determinants of discrete Moiré patterns

In a series of experiments we have investigated the perception of Moiré patterns as a function of spatial density, rotation and temporal display parameters. Results indicate that the local correlation extraction process involved in the perception of these patterns is not feature specific, yet is driven by excitatory (correlated) and inhibitory (uncorrelated) information under a form of spatial summation. These results are comparable with recent results on texture discrimination where texture interpoint distance distributions (dipole statistics) have also been discovered to have excitatory and inhibitory components.     

How strongly do sequence conservation patterns and empirical scales correlate with exposure patterns of transmembrane helices of membrane proteins?

Given the difficulty in determining high-resolution structures of helical membrane proteins, sequence-based prediction methods can be useful in elucidating diverse physiological processes mediated by this important class of proteins. Predicting the angular orientations of transmembrane (TM) helices about the helix axes, based on the helix parameters from electron microscopy data, is a classical problem in this regard. This problem has triggered the development of a number of different empirical scales. Recently, sequence conservation patterns were also made use of for improved predictions. Empirical scales and sequence conservation patterns (collectively termed as "prediction scales") have also found frequent applications in other research areas of membrane proteins: for example, in structure modeling and in prediction of buried TM helices. This trend is expected to grow in the near future unless there are revolutionary developments in the experimental characterization of membrane proteins. Thus, it is timely and imperative to carry out a comprehensive benchmark test over the prediction scales proposed so far to determine their pros and cons. In the current analysis, we use exposure patterns of TM helices as a golden standard, because if one develops a prediction scale that correlates perfectly with exposure patterns of TM helices, it will enable one to predict buried residues (or buried faces) of TM helices with an accuracy of 100%. Our analysis reveals several important points. (1) It demonstrates that sequence conservation patterns are much more strongly correlated with exposure patterns of TM helices than empirical scales. (2) Scales that were specifically parameterized using structure data (structure-based scales) display stronger correlation than hydrophobicity-based scales, as expected. (3) A nonnegligible difference is observed among the structure-based scales in their correlational property, suggesting that not every learning algorithm is equally effective. (4) A straightforward framework of optimally combining sequence conservation patterns and empirical scales is proposed, which reveals that improvements gained from combining the two sources of information are not dramatic in almost all cases. In turn, this calls for the development of fundamentally different scales that capture the essentials of membrane protein folding for substantial improvements.     

A contribution to the subgeneric systematics of Oligoryzomys (Rodentia,Muridae) from Argentina by means of PCR–RFLP patterns of mitochondrial DNA

Subgeneric recognition of rodents of the genus Oligoryzomys from Argentina is specially difficult because morphologic and morphometric criteria to identify species are poorly defined. In order to contribute to the unequivocal identification and geographic distribution of Oligoryzomys species, we studied the restriction fragment length polymorphism (PCR-RFLP) patterns of the D-loop region of the mitochondrial DNA in specimens collected from different regions of Argentina. PCR amplification products of 59 individuals were digested with five restriction enzymes. Patterns obtained were used to produce two phylogenetic consensus trees, one obtained with PAUP and the other with MIX analyses. All specimens from the Patagonia (southern region) clustered together and would correspond to O. longicaudatus. Individuals from the North grouped in four clusters (two of them comprising one individual), supported by high bootstrap values. The one including the 82% of the rodents from the northern region would correspond to the species O. chacoensis.     

The in situ formation of DNA · DNA duplexes of Drosophila virilis satellite DNA

The DNA of Drosophila virilis brains and imaginal discs was labeled in vitro to a specific activity of 6 X 10(-5) dpm/mug, using an organ culture medium. The DNA was fractionated on neutral and alkaline CsC1 gradients and the heavy strands of satellite I annealed in situ to denatured polytene chromosomes from squash preparations of larval salivary glands. Nuclease S1 from Aspergillus oryzae was used to digest the unpaired ssDNA, resulting in a distinct labeling of the alpha-heterochromatin in the chromocenter and a small amount of diffused labeling in the proximal beta-heterochromatic part of the X-Chromsome.     

Community-wide patterns of parasitism of a host “generalist” brood-parasitic cowbird

The brown-headed cowbird (Molothrusater) is a generalist obligate brood parasite. Despite intensive study and growing concern over the negative impact of cowbird parasitism on populations of many hosts, very little is known about the factors influencing community-wide patterns of cowbird parasitism. Using systematic nest searches, nest parasitism was studied over two breeding seasons at a study site in northeastern Illinois encompassing grassland, forest-edge, and forest habitat, supporting a diverse avian community. Parasitism was observed for 18 out of 34 altricial bird species found nesting at the study site. A total of 299 cowbird eggs and nestlings were found in 191 of a total of 593 nests. Analyses revealed several ecological and behavioral factors associated with frequency of parasitism and the resulting distribution of cowbird eggs. Much higher frequencies of parasitism were found in edge and forest habitats than in grassland. Within the edge habitat, open nests were parasitized significantly more often than cavity nests. Among open nests in the edge habitat, the two largest species were never parasitized. Host behavior, particularly egg-ejection behavior, was associated with a reduced observed frequency of parasitism, but at least three species known to eject cowbird eggs were sometimes parasitized. For six common hosts capable of rearing cowbirds, we found no correlation between level of parasitism and host nest-survivorship, suggesting that fine-grained assessments of host quality by female cowbirds do not influence patterns of parasitism among acceptable host species, or that differences in host quality are not great and/or predictable enough for such fine-grained assessments. Our results suggest that when a variety of possible nests are available, the level of parasitism on a particular species is a balance between a␣cowbird's preference for a particular species and the effectiveness of host species' defenses. A conceptual model was developed that incorporates the observed correlation of cowbird eggs or nestlings with habitat, nest-type, host species' body mass, and host behavioral defenses. Additional community-wide studies of cowbird parasitism will test if this model is applicable to other avian communities. Received: 20 December 1996 / Accepted: 17 May 1997     

How is it that microsatellites and random oligonucleotides uncover DNA fingerprint patterns?

Minisatellites, microsatellites, and short random oligonucleotides all uncover highly polymorphic DNA fingerprint patterns in Southern analysis of genomic DNA that has been digested with a restriction enzyme having a 4-bp specificity. The polymorphic nature of the fragments is attributed to tandem repeat number variation of embedded minisatellite sequences. This explains why DNA fingerprint fragments are uncovered by minisatellite probes, but does not explain how it is that they are also uncovered by microsatellite and random oligonucleotide probes. To clarify this phenomenon, we sequenced a large bovine genomic BamHI restriction fragment hybridizing to the Jeffreys 33.6 minisatellite probe and consisting of small and large Sau3A-resistant subfragments. The large Sau3A subfragment was found to have a complex architecture, consisting of two different minisatellites, flanked and separated by stretches of unique DNA. The three unique sequences were characterized by sequence simplicity, that is, a higher than chance occurrence of tandem or dispersed repetition of simple sequence motifs. This complex repetitive structure explains the absence of Sau3A restriction sites in the large Sau3A subfragment, yet provides this subfragment with the ability to hybridize to a variety of probe sequences. It is proposed that a large class of interspered tracts sharing this complex yet simplified sequence structure is found in the genome. Each such tract would have a broad ability to hybridize to a variety of probes, yet would exhibit a dearth of restriction sites. For each restriction enzyme having 4-bp specificity, a subclass of such tracts, completely lacking the corresponding restriction sites, will be present. On digestion with the given restriction enzyme, each such tract would form a large fragment. The largest fragments would be those that contained one or more long minisatellite tracts. Some of these large fragments would be highly polymorphic by virtue of the included minisatellite sequences; by virtue of their complex structure, all would be capable of hybridizing to a wide variety of probes, uncovering a DNA fingerprint pattern.     

Do molecular markers reflect patterns of differentiation in adaptive traits of conifers?

We have examined patterns of variation of several kinds of molecular markers (isozymes, RFLPs of ribosomal DNA and anonymous low-copy number DNA, RAPDs and microsatellites) and an adaptive trait [date of bud set in Scots pine (Pinus sylvestris L.)]. The study included Finnish Scots pine populations (from latitude 60°N to 70°N) which experience a steep climatic gradient. Common garden experiments show that these populations are adapted to the location of their origin and genetically differentiated in adaptive quantitative traits, e.g. the date of bud set in first-year seedlings. In the northernmost population, bud set took place about 21 days earlier than in the southernmost population. Of the total variation in bud set, 36.4% was found among the populations. All molecular markers showed high levels of within-population variation, while differentiation among populations was low. Among all the studied markers, microsatellites were the most variable (H_e=0.77). Differences between populations were small, G_ST was less than 0.02. Our study suggests that molecular markers may be poor predictors of the population differentiation of quantitative traits in Scots pine, as exemplified here by bud-set date.     

Can ecological stoichiometry help explain patterns of biological invasions?

Several mechanisms for biological invasions have been proposed, yet to date there is no common framework that can broadly explain patterns of invasion success among ecosystems with different resource availabilities. Ecological stoichiometry (ES) is the study of the balance of energy and elements in ecological interactions. This framework uses a multi‐nutrient approach to mass‐balance models, linking the biochemical composition of organisms to their growth and reproduction, which consequently influences ecosystem structure and functioning. We proposed a conceptual model that integrates hypotheses of biological invasions within a framework structured by fundamental principles of ES. We then performed meta‐analyses to compare the growth and production performances of native and invasive organisms under low‐ and high‐nutrient conditions in terrestrial and aquatic ecosystems. Growth and production rates of invasive organisms (plants and invertebrates) under both low‐ and high‐nutrient availability were generally larger than those of natives. Nevertheless, native plants outperformed invasives in aquatic ecosystems under low‐nutrient conditions. We suggest several distinct stoichiometry‐based mechanisms to explain invasion success in low‐ versus high‐nutrient conditions; low‐nutrient conditions: higher resource‐use efficiency (RUE; C:nutrient ratios), threshold elemental ratios (TERs), and trait plasticity (e.g. ability of an organism to change its nutrient requirements in response to varying nutrient environmental supply); high‐nutrient conditions: higher growth rates and reproductive output related to lower tissue C:nutrient ratios, and increased trait plasticity. Interactions of mechanisms may also yield synergistic effects, whereby nutrient enrichment and enemy release have a disproportionate effect on invasion success. To that end, ES provides a framework that can help explain how chemical elements and energy constrain key physiological and ecological processes, which can ultimately determine the success of invasive organisms.     

Should hunting mortality mimic the patterns of natural mortality?

With growing concerns about the impact of selective harvesting on natural populations, researchers encourage managers to implement harvest regimes that avoid or minimize the potential for demographic and evolutionary side effects. A seemingly intuitive recommendation is to implement harvest regimes that mimic natural mortality patterns. Using stochastic simulations based on a model of risk as a logistic function of a normally distributed biological trait variable, we evaluate the validity of this recommendation when the objective is to minimize the altering effect of harvest on the immediate post-mortality distribution of the trait. We show that, in the absence of compensatory mortality, harvest mimicking natural mortality leads to amplification of the biasing effect expected after natural mortality, whereas an unbiased harvest does not alter the post-mortality trait distribution that would be expected in the absence of harvest. Although our approach focuses only on a subset of many possible objectives for harvest management, it illustrates that a single strategy, such as hunting mimicking natural mortality, may be insufficient to address the complexities of different management objectives with potentially conflicting solutions.     

On the visual orientation of random dot Moiré patterns

We studied the orientation perception of dot patterns with Moiré effect. The Moiré effect was achieved by rotating the original patterns over small angles. When the angle was increased the effect disappeared while the characteristics of orientation estimation remained unchanged. For relatively small angles the subjects performance can be described by a model based on the concept of least squared distance axis. For large angles of rotation this model has began to be unsufficient and a more refined model is proposed here.     

Awesome or ordinary? Global diversity patterns of oribatid mites

Diversity of most above-ground organisms increases with decreasing latitude, but the biogeographical and macroecological diversity patterns of below-ground animals have been poorly studied. We investigated the latitudinal diversity gradient in a primarily below-ground living soil taxon, oribatid mites. Furthermore, oribatid mite species richness from islands and mainlainds was tested for correlation with the size of the respective area (island or mainland) to evaluate if their species–area relationships are similar to those of above-ground taxa. The results suggest that for oribatid mites 1) diversity increases from the boreal to the warm temperate region but not further to the tropics, and 2) species–area relationships for islands and mainlands are similar to those of above-ground taxa, but this is mainly caused by very small islands, such as Cocos islands, and very large islands, such as Madagascar. When these islands are excluded the species–area relationship strongly differs from those of typical islands. The results support the view that below-ground animal taxa are generalists that inhabit wide niches. Most small islands have relatively rich oribatid mite faunas, supporting the observation that a large number of species can coexist in a small area (high α-diversity).     

Growth patterns of neuronal dendrites — an attempted probabilistic description

A mathematical model of dendritic branching patterns of cortical neurons is presented which describes the ontogenetic development as a function of space and time. Comparison with experimental data from the literature suggests strongly that the growth rate of a dendrite fluctuates around a mean value; the mean value is probably age-dependent. Furthermore, at the site of a bifurcation a variable delay in outgrowth for one of the two daughter segments is conjectured.     

Spatial–temporal patterns of methane dynamics in Lake Taihu

Many European lakes are monitored according to the EU Water Framework Directive (WFD), with focus on phytoplankton biomass and species composition. However, the low-frequency WFD monitoring may miss short-term phytoplankton changes. This is an important issue because short-term extreme meteorological events (heat waves and heavy rain) are predicted to increase in frequency and intensity with climate change. We used records from Lake Mondsee (Austria) from 2009 to 2015 to test if a reduction from monthly to seasonal sampling affected the average annual phytoplankton biovolume. Furthermore, we combined inverted light microscopy, FlowCAM and flow cytometry to estimate the effect of sampling during extreme events on average phytoplankton biovolume. Relative to monthly sampling, seasonal sampling significantly overestimated phytoplankton biomass. A heat wave in 2015 and two episodes of heavy rain in 2015 and 2016 caused species-specific changes; biovolumes of chlorophytes and the filamentous cyanobacterium Planktothrix rubescens (De Candolle ex Gomont) Anagnostidis & Komárek increased significantly during the heat wave. Using live material with FlowCAM and flow cytometry, we detected small and fragile cells and colonies that were either ignored or underrepresented by analysing fixed samples with light microscopy. We suggest a modified sampling and analysis strategy to capture short-term changes within the phytoplankton community.