Investigating differences in vigilance tactic use within and between the sexes in eastern grey kangaroos

Peer reviewedPostprin

Monetary non-neutrality and stabilisation policies 50 years after Lucas’s “expectations” paper: a roundtable discussion

peer reviewe

Reciprocal modulation of internal and external factors determines individual movements

Summary 1. Movement is fundamental to individual and population dynamics, as it allows individuals to meet their basic requirements. Although movement patterns reflect interactions between internal and external factors, only few studies have examined the effects of these factors on movement simultaneously, and they generally focused on particular biological contexts (e.g. dispersal, foraging). 2. However, the relative importance of these factors in driving individual routine movements might reflect a species' potential flexibility to cope with landscape changes and therefore buffer their potential impact on fitness. 3. We used data from GPS collars on Scandinavian brown bears to investigate the relative role of these factors, as well as an additional factor (period of the year) on routine movements at two spatial scales (hourly and daily relocations). 4. As expected, internal factors played a major role in driving movement, compared to external factors at both scales, but its relative importance was greater at a finer scale. In particular, the interaction between reproductive status and period of the year was one of the most influential variables, females being constrained by the movement capacity of their cubs in the first periods of the year. The effect of human disturbance on movement was also greater for females with cubs than for lone females. 5. This study showed how reciprocal modulation of internal and external factors is shaping space use of brown bears. We stress that these factors should be studied simultaneously to avoid the risk of obtaining context-dependent inferences. Moreover, the study of their relative contribution is also highly relevant in the context of multiple-use landscapes, as human activities generally affect the landscape more than they affect the internal states of an individual. Species or individuals with important internal constraints should be less responsive to changes in their environment as they have less freedom from internal constraints and should thus be more sensitive to human alteration of the landscape, as shown for females with cubs in this study

Age-related differences in the cloacal microbiota of a wild bird species

Background: Gastrointestinal bacteria play a central role in the health of animals. The bacteria that individuals acquire as they age may therefore have profound consequences for their future fitness. However, changes in microbial community structure with host age remain poorly understood. We characterised the cloacal bacteria assemblages of chicks and adults in a natural population of black-legged kittiwakes (Rissa tridactyla), using molecular methods. Results: We show that the kittiwake cloaca hosts a diverse assemblage of bacteria. A greater number of total bacterial OTUs (operational taxonomic units) were identified in chicks than adults, and chicks appeared to host a greater number of OTUs that were only isolated from single individuals. In contrast, the number of bacteria identified per individual was higher in adults than chicks, while older chicks hosted more OTUs than younger chicks. Finally, chicks and adults shared only seven OTUs, resulting in pronounced differences in microbial assemblages. This result is surprising given that adults regurgitate food to chicks and share the same nesting environment. Conclusions: Our findings suggest that chick gastrointestinal tracts are colonised by many transient species and that bacterial assemblages gradually transition to a more stable adult state. Phenotypic differences between chicks and adults may lead to these strong differences in bacterial communities. These data provide the framework for future studies targeting the causes and consequences of variation in bacterial assemblages in wild birds

Genome Evolution of Two Genetically Homogeneous Infectious Bursal Disease Virus Strains During Passages in vitro and ex vivo in the Presence of a Mutagenic Nucleoside Analog

The avibirnavirus infectious bursal disease virus (IBDV) is responsible for a highly contagious and sometimes lethal disease of chickens (Gallus gallus). IBDV genetic variation is well-described for both field and live-attenuated vaccine strains, however, the dynamics and selection pressures behind this genetic evolution remain poorly documented. Here, genetically homogeneous virus stocks were generated using reverse genetics for a very virulent strain, rvv, and a vaccine-related strain, rCu-1. These viruses were serially passaged at controlled multiplicities of infection in several biological systems, including primary chickens B cells, the main cell type targeted by IBDV in vivo. Passages were also performed in the absence or presence of a strong selective pressure using the antiviral nucleoside analog 7-deaza-2′-C-methyladenosine (7DMA). Next Generation Sequencing (NGS) of viral genomes after the last passage in each biological system revealed that (i) a higher viral diversity was generated in segment A than in segment B, regardless 7DMA treatment and viral strain, (ii) diversity in segment B was increased by 7DMA treatment in both viruses, (iii) passaging of IBDV in primary chicken B cells, regardless of 7DMA treatment, did not select cell-culture adapted variants of rvv, preserving its capsid protein (VP2) properties, (iv) mutations in coding and non-coding regions of rCu-1 segment A could potentially associate to higher viral fitness, and (v) a specific selection, upon 7DMA addition, of a Thr329Ala substitution occurred in the viral polymerase VP1. The latter change, together with Ala270Thr change in VP2, proved to be associated with viral attenuation in vivo. These results identify genome sequences that are important for IBDV evolution in response to selection pressures. Such information will help tailor better strategies for controlling IBDV infection in chickens

Proficiency testing of virus diagnostics based on bioinformatics analysis of simulated in silico high-throughput sequencing data sets

Quality management and independent assessment of high-throughput sequencing-based virus diagnostics have not yet been established as a mandatory approach for ensuring comparable results. The sensitivity and specificity of viral high-throughput sequence data analysis are highly affected by bioinformatics processing using publicly available and custom tools and databases and thus differ widely between individuals and institutions. Here we present the results of the COMPARE [Collaborative Management Platform for Detection and Analyses of (Re-) emerging and Foodborne Outbreaks in Europe] in silico virus proficiency test. An artificial, simulated in silico data set of Illumina HiSeq sequences was provided to 13 different European institutes for bioinformatics analysis to identify viral pathogens in high-throughput sequence data. Comparison of the participants’ analyses shows that the use of different tools, programs, and databases for bioinformatics analyses can impact the correct identification of viral sequences from a simple data set. The identification of slightly mutated and highly divergent virus genomes has been shown to be most challenging. Furthermore, the interpretation of the results, together with a fictitious case report, by the participants showed that in addition to the bioinformatics analysis, the virological evaluation of the results can be important in clinical settings. External quality assessment and proficiency testing should become an important part of validating high-throughput sequencing-based virus diagnostics and could improve the harmonization, comparability, and reproducibility of results. There is a need for the establishment of international proficiency testing, like that established for conventional laboratory tests such as PCR, for bioinformatics pipelines and the interpretation of such results

Ticks or lions: trading between allogrooming and vigilance in maternal care

International audienceBehavioural adjustments to predation risk may impose costs on prey species. While the vigilance–foraging conflict has been extensively investigated, other important fitness-related behaviours exclusive to scanning, such as grooming, have been overlooked. Yet, risk perception is expected to be more accurately assessed in these contexts as food-related parameters should not interfere. We studied individually recognizable impalas, Aepyceros melampus, and questioned the factors that shape maternal decision making in two exclusive components of maternal care with high benefits and costs: scanning for predators and grooming offspring to remove parasites. While studies generally infer prey alertness level, used as a proxy of risk perception, from the observed investment in vigilance, the vigilance–allogrooming context gave us the opportunity to directly assess alertness during the time spent head-up, and then to investigate its sources of variation and its consequences for allogrooming probability. We found a strong decrease in allogrooming probability when maternal alertness increased. Mothers were more alert in open (grassland) than in closed (bushland) habitats at a large scale. Increasing group size led both to lower maternal alertness and higher proportion of suckling time spent allogrooming, but only when surrounded by low vegetation, the reverse being true in high vegetation. Finally, mothers suckling female calves were more alert. Our results underline the determinant role of habitat, shaping both offspring predation risk and the relative conspicuousness or protective value of group mates. We discuss the potential fitness costs associated with the antipredator–antiparasite trade-off faced during maternal care. Our results suggest that prey behaviours other than foraging are essential to identify factors shaping risk perception

Using carbon and nitrogen isotopic values of body feathers to infer inter- and intra-individual variations of seabird feeding ecology during moult

To determine whether stable isotope measurements of body feathers can be used to investigate the isotopic niche of moulting (inter-nesting) adult seabirds, we examined the stable carbon (δ13C) and nitrogen (δ15N) isotopic composition of body feathers of breeding wandering albatrosses (Diomedea exulans) from Crozet Islands, southern Indian Ocean. First we showed that the isotopic composition of body feathers was not significantly different from that of wing feathers, being thus a safe alternative to flight feathers whose collection impairs the birds’ flying ability. Second, we looked at the variances in δ13C and δ15N values resulting from the isotopic measurement of a single feather, four different feathers, and a pool of four feathers per bird, to delineate the best isotopic analytical procedure. A two-step protocol is proposed that allows investigating both the intra- and inter-individual components of the niche width of the species. In a first step, isotopic measurements on a single feather per bird are used to define isotopic specialist from isotopic generalist populations. In a second step and for generalist populations only, measurements on additional (three) feathers per bird are used to delineate type A from type B isotopic generalists (Bearhop et al. in J Anim Ecol 73:1007–1012, 2004). Third, from a biological point of view, our data showed different moulting isotopic niches for adult males and females, and also within female wandering albatrosses. Since the isotopic composition of body feathers in this species reflects that of wing feathers, our results suggest that, after validation, body feathers have the potential for investigating the foraging ecology of other Procellariiforms and seabirds during the poorly known inter-nesting period