Phenological Changes in the Southern Hemisphere

Current evidence of phenological responses to recent climate change is substantially biased towards northern hemisphere temperate regions. Given regional differences in climate change, shifts in phenology will not be uniform across the globe, and conclusions drawn from temperate systems in the northern hemisphere might not be applicable to other regions on the planet. We conduct the largest meta-analysis to date of phenological drivers and trends among southern hemisphere species, assessing 1208 long-term datasets from 89 studies on 347 species. Data were mostly from Australasia (Australia and New Zealand), South America and the Antarctic/subantarctic, and focused primarily on plants and birds. This meta-analysis shows an advance in the timing of spring events (with a strong Australian data bias), although substantial differences in trends were apparent among taxonomic groups and regions. When only statistically significant trends were considered, 82% of terrestrial datasets and 42% of marine datasets demonstrated an advance in phenology. Temperature was most frequently identified as the primary driver of phenological changes; however, in many studies it was the only climate variable considered. When precipitation was examined, it often played a key role but, in contrast with temperature, the direction of phenological shifts in response to precipitation variation was difficult to predict a priori. We discuss how phenological information can inform the adaptive capacity of species, their resilience, and constraints on autonomous adaptation. We also highlight serious weaknesses in past and current data collection and analyses at large regional scales (with very few studies in the tropics or from Africa) and dramatic taxonomic biases. If accurate predictions regarding the general effects of climate change on the biology of organisms are to be made, data collection policies focussing on targeting data-deficient regions and taxa need to be financially and logistically supported.     

Revisiting the Effect of Capture Heterogeneity on Survival Estimates in Capture-Mark-Recapture Studies: Does It Matter?

Recently developed capture-mark-recapture methods allow us to account for capture heterogeneity among individuals in the form of discrete mixtures and continuous individual random effects. In this article, we used simulations and two case studies to evaluate the effectiveness of continuously distributed individual random effects at removing potential bias due to capture heterogeneity, and to evaluate in what situation the added complexity of these models is justified. Simulations and case studies showed that ignoring individual capture heterogeneity generally led to a small negative bias in survival estimates and that individual random effects effectively removed this bias. As expected, accounting for capture heterogeneity also led to slightly less precise survival estimates. Our case studies also showed that accounting for capture heterogeneity increased in importance towards the end of study. Though ignoring capture heterogeneity led to a small bias in survival estimates, such bias may greatly impact management decisions. We advocate reducing potential heterogeneity at the sampling design stage. Where this is insufficient, we recommend modelling individual capture heterogeneity in situations such as when a large proportion of the individuals has a low detection probability (e.g. in the presence of floaters) and situations where the most recent survival estimates are of great interest (e.g. in applied conservation).     

Enterobacter cloacae, not Aeromonas species, a possible etiological agent in the formation of secondary tumors of crown gall

Abstract A novel aminotransferase catalysing the first step of lysine catabolism, the oxidative transamination of the ϵ-group of L -lysine, was found and characterised in the yeast Pichia guilliermondii . The enzyme, L -lysine : pyruvate aminotransferase (Lys-AT), is strongly derepressed in cells grown on L -lysine as sole nitrogen source and its activity is highly specific for both L -lysine and pyruvate. We could successfully isolate a regulatory mutant which is unable to use lysine as sole nitrogen source based on its inability to derepress the Lys-AT.     

A structure and evolution-guided Monte Carlo sequence selection strategy for multiple alignment-based analysis of proteins

MOTIVATION: Various multiple sequence alignment-based methods have been proposed to detect functional surfaces in proteins, such as active sites or protein interfaces. The effect that the choice of sequences has on the conclusions of such analysis has seldom been discussed. In particular, no method has been discussed in terms of its ability to optimize the sequence selection for the reliable detection of functional surfaces. RESULTS: Here we propose, for the case of proteins with known structure, a heuristic Metropolis Monte Carlo strategy to select sequences from a large set of homologues, in order to improve detection of functional surfaces. The quantity guiding the optimization is the clustering of residues which are under increased evolutionary pressure, according to the sample of sequences under consideration. We show that we can either improve the overlap of our prediction with known functional surfaces in comparison with the sequence similarity criteria of selection or match the quality of prediction obtained through more elaborate non-structure based-methods of sequence selection. For the purpose of demonstration we use a set of 50 homodimerizing enzymes which were co-crystallized with their substrates and cofactors.     

Zur mathematischen Behandlung der Stoffaufnahme lebender Protoplaste

Zusammenfassung Die vorliegende Arbeit bringt unter bestimmten Voraussetzungen Ableitungen einfacher Formeln zur Berechnung von Permeationskonstanten aus den an nackten (plasmolysierten) Protoplasten beobachteten Volumänderungen, die während der Endosmose oder der Exosmose des auf seine Permeationsstärke untersuchten Anelektrolyten verlaufen. Für die Aufstellung der Formeln wurde gefordert: höchstmögliche Exaktheit, allgemeine Anwendungsmöglichkeit und eine Definition der Konstanten in hergebrachter Weise. — Um die Wasserpermeation in eine mathematische Beziehung zur Anelektrolytpermeation zu bringen, wird sie auf der Grundlage der osmotischen Unterdrucktheorie dem Fickschen Diffusionsgesetz unterstellt; für 19,5° C ist P_wasser=8 · k (P unter anderem auf die Einheit der Konzentrationsdifferenz und k unter anderem auf die Einheit der osmotischen Druckdifferenz bezogen). — Der Begriff der Protoplasten-Permeabilität wird an dem Beispiel der Wasseraufnahme eingehender erläutert. Einige neue Beziehungen zwischen der Protoplasten-Permeabilität und der Zeit bei der Wasser- und Anelektrolytaufnahme und -abg abe werden abgeleitet; sie geben, bezogen auf natürliche Zustandsgrößen, die Möglichkeit zu einem allgemeinen Vergleich der Eigenschaften verschiedenartiger Protoplaste unter natürlichen Bedingungen. — Im letzten Abschnitt wird das Verhältnis der Zeitdauer der Anelektrolytaufnahme zu der Zeitdauer der Abgabe einer gleich großen Anelektrolytmenge in seiner Abhängigkeit von den Milieuverhältnissen formelmäßig dargestellt.     

Does seasonality drive spatial patterns in demography? Variation in survival in African reed warblers Acrocephalus baeticatus across southern Africa does not reflect global patterns

Among birds, northern temperate species generally have larger clutches, shorter development periods and lower adult survival than similarly‐sized southern and tropical species. Even though this global pattern is well accepted, the driving mechanism is still not fully understood. The main theories are founded on the differing environmental seasonality of these zones (higher seasonality in the North). These patterns arise in cross‐species comparisons, but we hypothesized that the same patterns should arise among populations within a species if different types of seasonality select for different life histories. Few studies have examined this. We estimated survival of an azonal habitat specialist, the African reed warbler, across the environmentally diverse African subcontinent, and related survival to latitude and to the seasonality of the different environments of their breeding habitats. Data (1998–2010) collected through a public ringing scheme were analyzed with hierarchical capture‐mark‐recapture models to determine resident adult survival and its spatial variance across sixteen vegetation units spread across four biomes. The models were defined as state‐space multi‐state models to account for transience and implemented in a Bayesian framework. We did not find a latitudinal trend in survival or a clear link between seasonality and survival. Spatial variation in survival was substantial across the sixteen sites (spatial standard deviation of the logit mean survival: 0.70, 95% credible interval (CRI): 0.33–1.27). Mean site survival ranged from 0.49 (95% CRI: 0.18–0.80) to 0.83 (95% CRI: 0.62–0.97) with an overall mean of 0.67 (95% CRI: 0.47–0.85). A hierarchical modeling approach enabled us to estimate spatial variation in survival of the African reed warbler across the African subcontinent from sparse data. Although we could not confirm the global pattern of higher survival in less seasonal environments, our findings from a poorly studied region contribute to the study of life‐history strategies.     

Winter weather affects asp viper Vipera aspis population dynamics through susceptible juveniles

Detailed studies on mammals and birds have shown that the effects of climate variation on population dynamics often depend on population composition, because weather affects different subsets of a population differently. It is presently unknown whether this is also true for ectothermic animals such as reptiles. Here we show such an interaction between weather and demography for an ectothermic vertebrate by examining patterns of survival and reproduction in six populations of a threatened European snake, the asp viper ( Vipera aspis ), over six to 17 years. Survival was lowest among juvenile and highest among adult snakes. The estimated annual probability for females to become gravid ranged from 26% to 60%, and was independent of whether females had reproduced in the year before or not. Variation in juvenile survival was strongly affected by winter temperature, whereas adult survival was unaffected by winter harshness. A matrix population model showed that winter weather affected population dynamics predominantly through variation in juvenile survival, although the sensitivity of the population growth rate to juvenile survival was lower than to adult survival. This study on ectothermic vipers revealed very similar patterns to those found in long-lived endothermic birds and mammals. Our results thus show that climate and life history can interact in similar ways across biologically very different vertebrate species, and suggest that these patterns may be very general.     

An index to compare geographical distributions of species

We present an index for the dissimilarity/distance between geographical distributions based on reporting rates recorded on a regular lattice. Reporting rate data are common, for example, in bird atlas projects where observers fill in check lists of encountered species in a particular area. Our index is a variation of the Euclidean distance, with the contribution of each grid cell weighted by the number of checklists collected for the grid cell, and a scaling factor to ensure that the dissimilarity ranges between zero and one. Reporting rates were transformed to ordered percentile classes to make species with different mean reporting rates comparable. The index was developed for the comparison of distributions of The Atlas of Southern African Birds . We illustrate the dissimilarity index comparing distributions of whydahs and indigobirds (widowfinches), which are specialized brood parasites, to the distributions of their hosts: waxbills and other finches.