Distinct gut microbiomes in two polar bear subpopulations inhabiting different sea ice ecoregions

Gut microbiomes were analyzed by 16S rRNA gene metabarcoding for polar bears (Ursus maritimus) from the southern Beaufort Sea (SB), where sea ice loss has led to increased use of land-based food resources by bears, and from East Greenland (EG), where persistent sea ice has allowed hunting of ice-associated prey nearly year-round. SB polar bears showed a higher number of total (940 vs. 742) and unique (387 vs. 189) amplicon sequence variants and higher inter-individual variation compared to EG polar bears. Gut microbiome composition differed significantly between the two subpopulations and among sex/age classes, likely driven by diet variation and ontogenetic shifts in the gut microbiome. Dietary tracer analysis using fatty acid signatures for SB polar bears showed that diet explained more intrapopulation variation in gut microbiome composition and diversity than other tested variables, i.e., sex/age class, body condition, and capture year. Substantial differences in the SB gut microbiome relative to EG polar bears, and associations between SB gut microbiome and diet, suggest that the shifting foraging habits of SB polar bears tied to sea ice loss may be altering their gut microbiome, with potential consequences for nutrition and physiology.

Allometric relationships of ecologically important Antarctic and Arctic zooplankton and fish species

Allometric relationships between body properties of animals are useful for a wide variety of purposes, such as estimation of biomass, growth, population structure, bioenergetic modelling and carbon flux studies. This study summarizes allometric relationships of zooplankton and nekton species that play major roles in polar marine food webs. Measurements were performed on 639 individuals of 15 species sampled during three expeditions in the Southern Ocean (winter and summer) and 2374 individuals of 14 species sampled during three expeditions in the Arctic Ocean (spring and summer). The information provided by this study fills current knowledge gaps on relationships between length and wet/dry mass of understudied animals, such as various gelatinous zooplankton, and of animals from understudied seasons and maturity stages, for example, for the krill Thysanoessa macrura and larval Euphausia superba caught in winter. Comparisons show that there is intra-specific variation in length–mass relationships of several species depending on season, e.g. for the amphipod Themisto libellula. To investigate the potential use of generalized regression models, comparisons between sexes, maturity stages or age classes were performed and are discussed, such as for the several krill species and T. libellula. Regression model comparisons on age classes of the fish E. antarctica were inconclusive about their general use. Other allometric measurements performed on carapaces, eyes, heads, telsons, tails and otoliths provided models that proved to be useful for estimating length or mass in, e.g. diet studies. In some cases, the suitability of these models may depend on species or developmental stages.

Spatial Distribution of Different Age Groups of Herring in Norwegian Sea, May 1996–2020

The commercially important Norwegian spring spawning herring is characterized by its extensive annual migrations and, on a decadal timescale, large shifts in migration patterns. These changes are not well understood, but have previously been linked to temperature, food availability, and size and age composition of the stock. Acoustic and trawl data from the International Ecosystem Surveys in the Nordic Seas, carried out annually in May since 1996, were used to analyze the spatial distribution of herring in the period 1996–2020. The dataset was disaggregated into age classes, and information about where the different age classes feed in May was derived. The analysis of herring feeding patterns in May confirms that the youngest age classes are generally found close to the Norwegian shelf, whereas the older age classes display larger variations in where they are distributed. During the period 1996–1998, the oldest age classes were found in the central and western Norwegian Sea. During the period 1999–2004, the whole stock migrated north after spawning, leaving the regions in the southern Norwegian Sea void of herring. Since 2005 the oldest herring has again congregated in the south-western Norwegian Sea, in the frontal zone between the cooler East Icelandic water and the warmer Atlantic water. There was a significant positive relationship both between stock size and distribution area and between stock size and density. Moreover, it is likely that the strong year classes 1991/1992 and 1998/1999, which were relatively old when the respective changes in migration patterns occurred, were important contributors to the changes observed in 1999 and 2005, respectively.

Size and structure of the Mediterranean medicinal leech, Hirudo verbana populations inhabiting wetlands around Lake Eğirdir, Turkey

In the present study size and structure of the Mediterranean medicinal leech (Hirudo verbana Carena, 1820) populations inhabiting wetlands around Lake Eğirdir (Turkey) were investigated. Population size was estimated by removal methods, age classes were estimated for the first time in leeches (Hirudinea) using “Modal Progression Analysis” of body length frequencies using Bhattacharya's method. The population size and biomass of medicinal leeches around Lake Eğirdir were estimated to be 1,562,696 ± 805,613 leeches and 467.26 ± 172.91 kg, respectively. Three age classes were identified; the age group of 0+ was dominant with 78.6%. While 89.9% of the individuals weighed less than 1 g, whereas the broodstock was estimated to represent only 7%. Body weight, body length and condition factor were found to be 0.52 ± 1.19 g, 4.5 ± 2.4 cm and 0.620 ± 0.123, respectively. This study reveals that the population size of H. verbana in the wetlands around Lake Eğirdir is relatively well preserved and there is no significant threat to the sustainability of the exploitation of the medicinal leech populations. It is concluded that the stability of the lake's water budget, the variety and abundance of the host in the undamaged wetlands, the socioeconomic structure of the leech collectors, the sales policies, and the effective activities of conservation and control units might affect conservation status of the medicinal leech populations inhabiting wetlands around Lake Eğirdir.

Olfactory receptor subgenome and expression in a highly olfactory procellariiform seabird

Procellariiform seabirds rely on their sense of smell for foraging and homing. Both genomes and transcriptomes yield important clues about how olfactory receptor (OR) subgenomes are shaped by natural and sexual selection, yet no transcriptomes have been made of any olfactory epithelium of any bird species thus far. Here we assembled a high-quality genome and nasal epithelium transcriptome of the Leach’s storm-petrel (Oceanodroma leucorhoa) to extensively characterize their OR repertoire. Using a depth-of-coverage-assisted counting method, we estimated over 160 intact OR genes (∼500 including OR fragments). This method reveals the highest number of intact OR genes and the lowest proportion of pseudogenes compared to other waterbirds studied, and suggests that rates of OR gene duplication vary between major clades of birds, with particularly high rates in passerines. OR expression patterns reveal two OR genes (OR6-6 and OR5-11) highly expressed in adults, and four OR genes (OR14-14, OR14-12, OR10-2, and OR14-9) differentially expressed between age classes of storm-petrels. All four genes differentially expressed between age classes were more highly expressed in chicks compared to adults, suggesting that ORs genes may exhibit ontogenetic specializations. Three highly differentially expressed OR genes also had high copy number ratios, suggesting that expression variation may be linked to copy number in the genome. We provide better estimates of OR gene number by using a copy number-assisted counting method, and document ontogenetic changes in OR gene expression that may be linked to olfactory specialization. These results provide valuable insight into the expression, development, and macroevolution of olfaction in seabirds.

A Bimodal Pattern and Age-Related Growth of Intra-Annual Wood Cell Development of Chinese Fir in Subtropical China

Age plays an important role in regulating the intra-annual changes in wood cell development. Investigating the effect of age on intra-annual wood cell development would help to understand cambial phenology and xylem formation dynamics of trees and predict the growth of trees accurately. Five intermediate trees in each stand (total of 5 stands) in five age groupings of Chinese fir (Cunninghamia lanceolata Hook.) plantations in subtropical China were monitored on micro-cores collected weekly or biweekly from January to December in 2019. We modeled the dynamics of wood cell development with a mixed effects model, analyzed the age effect on intra-annual wood cell development, and explored the contribution of rate and duration of wood cell development on intra-annual wood cell development. We found a bimodal pattern of wood cell development in all age classes, and no matter the date of peak or the maximal number of cells the bimodal patterns were similar in all age classes. In addition, compared with the older trees, the younger trees had the longest duration of wood cell development because of the later end of wood cell development and a larger number of wood cells. The younger trees had the faster growth rate than the older trees, but the date of the maximal growth rate in older trees was earlier than younger trees, which led to the production of more wood cells in the younger trees. Moreover, we found that the number of cells in wood cell formation was mostly affected by the rate (92%) rather than the duration (8%) of wood cell formation.

PREVALENCE OF INTRAERYTHROCYTIC PARASITES IN MAROCHELYS TEMMINCKII, EMYDOIDEA BLANDINGII, TERRAPENE CAROLINA CAROLINA, AND TERRAPENE ORNATA ORNATA

Few studies have characterized the prevalence of intraerythrocytic parasites in free-ranging chelonian populations or their occurrence across habitats. It is hypothesized that chelonians in different habitats have different exposures to vectors and thus, differences in hemoparasite presence. This study explored the prevalence and intensity of intraerythrocytic parasites by examining blood smears from four species of Illinois turtles: wild Blanding’s turtles (Emydoidea blandingii), eastern box turtles (Terrapene carolina carolina) (EBT), and ornate box turtles (Terrapene ornata ornata) (OBT) and headstarted alligator snapping turtles (Macrochelys temminckii) (AST). Intraerythrocytic parasites were identified in all examined species except for the alligator snapping turtle. For all age classes, Blanding’s turtles had both the highest prevalence of hemoparasites and intensity of infection of all sampled species, while adult Blanding’s turtles had a significantly higher prevalence than juveniles (P<0.05). As this is the first study of hemoparasites in Illinois chelonians, further research is needed to identify the specific species of intraerythrocytic parasite, the potential vectors, and the effect these hemoparasites have on the health of chelonians.

Metabarcoding in two isolated populations of wild roe deer (Capreolus capreolus) reveals variation in gastrointestinal nematode community composition between regions and among age classes

Background Gastrointestinal nematodes are ubiquitous for both domestic and wild ungulates and have varying consequences for health and fitness. They exist as complex communities of multiple co-infecting species, and we have a limited understanding of how these communities vary in different hosts, regions and circumstances or of how this affects their impacts. Methods We have undertaken ITS2 rDNA nemabiome metabarcoding with next-generation sequencing on populations of nematode larvae isolated from 149 fecal samples of roe deer of different sex and age classes in the two isolated populations of Chizé and Trois Fontaines in France not co-grazing with any domestic ungulate species. Results We identified 100 amplified sequence variants (ASVs) that were assigned to 14 gastrointestinal nematode taxa overall at either genus (29%) or species (71%) level. These taxa were dominated by parasites classically found in cervids—e.g. Ostertagia leptospicularis, Spiculopteragia spp. Higher parasite species diversity was present in the Trois Fontaines population than in the Chizé population including the presence of species more typically seen in domestic livestock (Haemonchus contortus, Bunostomum sp., Cooperia punctata, Teladorsagia circumcincta). No differences in parasite species diversity or community composition were seen in the samples collected from three zones of differing habitat quality within the Chizé study area. Young roe deer hosted the highest diversity of gastrointestinal nematodes, with more pronounced effects of age apparent in Trois Fontaines. The effect of host age differed between gastrointestinal nematode species, e.g. there was little effect on O. leptospicularis but a large effect on Trichostrongylus spp. No effect of host sex was detected in either site. Conclusions The presence of some livestock parasite species in the Trois Fontaines roe deer population was unexpected given the isolation of this population away from grazing domestic livestock since decades. Overall, our results illustrate the influence of host traits and the local environment on roe deer nemabiome and demonstrate the power of the nemabiome metabarcoding approach to elucidate the composition of gastrointestinal nematode communities in wildlife. Graphical Abstract

Time budget of daily activity of silvery lutung (Trachypithecus cristatus) in coastal forest habitat at Gunung Padang, West Sumatra

Primate’s time budgets are the important aspect to investigate their ecological influences in their habitat. This study collected data on daily activities in a group of silvery lutung (Trachypithecus cristatus) in coastal forest habitat at Gunung Padang, West Sumatra, Indonesia from August 2018 – July 2019, using instantaneous scan sampling method with 10-min intervals. This study analyzed the activity of wild silvery lutungs in study site, with emphasis on the age-sex differences and montly changes in their activity budget. This group spent most of time resting in their daily activity (average 47.50% of the total daytime resting), then followed by moving, feeding, grooming and other activities (conflict, nursing, urinating-defecating, playing, etc.). Resting peaked simultaneously in the morning and peaked back in the afternoon while moving and feeding decreased in this period. Their time budgets showed significant monthly variation: they spent a higher value of time feeding from September - Oktober 2018. They also differed among different sex-age classes: nursing females spent more time for actively moving, whereas adult male and single females devoted more time to resting, feeding, and grooming. These differences in their time budgets may reflect fundamental differences in reproductive biology, parental investment and development among the different age-sex classes.

The effect of COVID-19 vaccination in Italy and perspectives for living with the virus

COVID-19 vaccination is allowing a progressive release of restrictions worldwide. Using a mathematical model, we assess the impact of vaccination in Italy since December 27, 2020 and evaluate prospects for societal reopening after emergence of the Delta variant. We estimate that by June 30, 2021, COVID-19 vaccination allowed the resumption of about half of pre-pandemic social contacts. In absence of vaccination, the same number of cases is obtained by resuming only about one third of pre-pandemic contacts, with about 12,100 (95% CI: 6,600-21,000) extra deaths (+27%; 95% CI: 15–47%). Vaccination offset the effect of the Delta variant in summer 2021. The future epidemic trend is surrounded by substantial uncertainty. Should a pediatric vaccine (for ages 5 and older) be licensed and a coverage >90% be achieved in all age classes, a return to pre-pandemic society could be envisioned. Increasing vaccination coverage will allow further reopening even in absence of a pediatric vaccine.