Temporal Patterns Of Abundance Research Articles

Microbial species and intraspecies units exist and are maintained by ecological cohesiveness coupled to high homologous recombination.

Recent genomic analyses have revealed that microbial communities are predominantly composed of persistent, sequence-discrete species and intraspecies units (genomovars), but the mechanisms that create and maintain these units remain unclear. By analyzing closely-related isolate genomes from the same or related samples and identifying recent recombination events using a novel bioinformatics methodology, we show that high ecological cohesiveness coupled to frequent-enough and unbiased (i.e., not selection-driven) horizontal gene flow, mediated by homologous recombination, often underlie these diversity patterns. Ecological cohesiveness was inferred based on greater similarity in temporal abundance patterns of genomes of the same vs. different units, and recombination was shown to affect all sizable segments of the genome (i.e., be genome-wide) and have two times or greater impact on sequence evolution than point mutations. These results were observed in both Salinibacter ruber, an environmental halophilic organism, and Escherichia coli, the model gut-associated organism and an opportunistic pathogen, indicating that they may be more broadly applicable to the microbial world. Therefore, our results represent a departure compared to previous models of microbial speciation that invoke either ecology or recombination, but not necessarily their synergistic effect, and answer an important question for microbiology: what a species and a subspecies are.

Metagenomic time series reveals a Western English Channel viral community dominated by members with strong seasonal signals.

Marine viruses are key players of ocean biogeochemistry, profoundly influencing microbial community ecology and evolution. Despite their importance, few studies have explored continuous inter-seasonal viral metagenomic time series in marine environments. Viral dynamics are complex, influenced by multiple factors such as host population dynamics and environmental conditions. To disentangle the complexity of viral communities, we developed an unsupervised machine learning framework to classify viral contigs into "chronotypes" based on temporal abundance patterns. Analysing an inter-seasonal monthly time series of surface viral metagenomes from the Western English Channel, we identified chronotypes and compared their functional and evolutionary profiles. Results revealed a consistent annual cycle with steep compositional changes from winter to summer and steadier transitions from summer to winter. Seasonal chronotypes were enriched in potential auxiliary metabolic genes of the ferrochelatases and 2OG-Fe(II) oxygenase orthologous groups compared to non-seasonal types. Chronotypes clustered into four groups based on their correlation profiles with environmental parameters, primarily driven by temperature and nutrients. Viral contigs exhibited a rapid turnover of polymorphisms, akin to Red Queen dynamics. However, within seasonal chronotypes, some sequences exhibited annual polymorphism recurrence, suggesting that a fraction of the seasonal viral populations evolve more slowly. Classification into chronotypes revealed viral genomic signatures linked to temporal patterns, likely reflecting metabolic adaptations to environmental fluctuations and host dynamics. This novel framework enables the identification of long-term trends in viral composition, environmental influences on genomic structure, and potential viral interactions.

Impact of a national tsetse control programme to eliminate Gambian sleeping sickness in Uganda: a spatiotemporal modelling study.

Tsetse flies (Glossina) transmit Trypanosoma brucei gambiense, which causes gambiense human African trypanosomiasis (gHAT). As part of national efforts to eliminate gHAT as a public health problem, Uganda implemented a large-scale programme of deploying Tiny Targets, which comprise panels of insecticide-treated material which attract and kill tsetse. At its peak, the programme was the largest tsetse control operation in Africa. Here, we quantify the impact of Tiny Targets and environmental changes on the spatial and temporal patterns of tsetse abundance across North-Western Uganda. We leverage a 100-month longitudinal dataset detailing Glossina fuscipes fuscipes catches from monitoring traps between October 2010 and December 2019 within seven districts in North-Western Uganda. We fitted a boosted regression tree (BRT) model assessing environmental suitability, which was used alongside Tiny Target data to fit a spatiotemporal geostatistical model predicting tsetse abundance across our study area (~16 000 km2). We used the spatiotemporal model to quantify the impact of Tiny Targets and environmental changes on the distribution of tsetse, alongside metrics of uncertainty. Environmental suitability across the study area remained relatively constant over time, with suitability being driven largely by elevation and distance to rivers. By performing a counterfactual analysis using the fitted spatiotemporal geostatistical model, we show that deployment of Tiny Targets across an area of 4000 km2 reduced the overall abundance of tsetse to low levels (median daily catch=1.1 tsetse/trap, IQR=0.85-1.28). No spatial-temporal locations had high (>10 tsetse/trap/day) numbers of tsetse compared with 18% of locations for the counterfactual. In Uganda, Tiny Targets reduced the abundance of G. f. fuscipes and maintained tsetse populations at low levels. Our model represents the first spatiotemporal geostatistical model investigating the effects of a national tsetse control programme. The outputs provide important data for informing next steps for vector control and surveillance.

Succession changes of microbial community for inferring the time since deposition of saliva.

Saliva is a common biological examination material at crime scenes and has high application value in forensic case investigations. It can reflect the suspect's time of crime at the scene and provide evidence of the suspect's criminal facts. Even though many researchers have proposed their experimental protocols for estimating the time since deposition (TsD) of saliva, there is still a relative lack of research on the use of microorganisms to estimate TsD. In the current study, the succession change of microbial community in saliva with different TsD values was explored to discern the microbial markers related to TsD of saliva. We gathered saliva samples from six unrelated healthy Han individuals living in Guizhou, China and exposed these samples to indoor conditions at six time points (0, 1, 3, 7, 15, and 28 days). Temporal changes of microbial compositions in these samples were investigated by 16S rRNA sequencing (V3-V4 regions). By assessing temporal variation patterns of microbial abundance at the genus level, four bacteria (Brucella, Prevotella, Pseudomonas, and Fusobacterium) were observed to show good time dependence in these samples. In addition, the hierarchical clustering and principal co-ordinates analysis results revealed that these saliva samples could be classified into t-short (≤7 days) and t-long (>7 days) groups. In the end, the random forest model was developed to predict the TsD of these samples. For the model, the root mean square error, R2, and mean absolute error between predicted and actual TsD values were 1.5213, 0.9851, and 1.1969, respectively. To sum up, we identified TsD-related microbial markers in saliva samples, which could be viewed as valuable markers for inferring the TsD of saliva.

Artificial light at night drives diel activity patterns of synanthropic pipistrelle bats and their prey

The use of artificial light at night (ALAN) has increased drastically worldwide over the last decades. ALAN can have major effects on nocturnal communities, including insects and bats. Insects are attracted to street lights and few bat species take advantage of this by foraging on the attracted insects. ALAN potentially affects the temporal patterns of insect abundance and thereby bat foraging behaviour. In a natural dark environment, these patterns are usually bimodal, with an activity peak in the early evening and the morning. Little is known about how ALAN affects insect presence throughout the night, and whether the light spectrum plays a role. This is important, as these temporal changes may be a key driver of disturbances in bat-insect interactions. Here, we studied how white and red light affect insects' and bats' nightly activity patterns. The activity of insects and bats (Pipistrellus spp.) was recorded throughout the night at seven experimentally illuminated sites in a forest-edge ecosystem. ALAN disrupted activity patterns, with both insects and bats being more active throughout the night. ALAN facilitated all-night foraging in bats especially near white light, but these effects were attenuated near red light. The ability to forage throughout the night may be a key advantage causing synanthropic bats to dominate in illuminated environments, but this could also prove detrimental in the long term. As red light reduced disturbing effects of ALAN on insects and bats diel activity pattern, it opens the possibility of using spectral composition as a mitigation measure.

Bumble bee diet breadth increases with local abundance and phenophase duration, not intraspecific variation in body size

Patterns of abundance across space and time, and intraspecific variation in body size, are two species attributes known to influence diet breadth and the structure of interaction networks. Yet, the relative influence of these attributes on diet breadth is often assumed to be equal among taxonomic groups, and the relationship between intraspecific variation in body size on interaction patterns is frequently neglected. We observed bee–flower interactions in multiple locations across Montana, USA, for two growing seasons and measured spatial and temporal patterns of abundance, along with interspecific and intraspecific variation in body size for prevalent species. We predicted that the association between spatial and temporal patterns of abundance and intraspecific variation in body size, and diet breadth, would be stronger for bumble bee compared to non-bumble bee species, because species with flexible diets and long activity periods can interact with more food items. Bumble bees had higher local abundance, occurred in many local communities, more intraspecific variation in body size, and longer phenophases compared to non-bumble bee species, but only local abundance and phenophase duration had a stronger positive association with the diet breadth of bumble bee compared to non-bumble bee species. Communities with a higher proportion of bumble bees also had higher intraspecific variation in body size at the network-level, and network-level intraspecific variation in body size was positively correlated with diet generalization. Our findings highlight that the association between species attributes and diet breadth changes depending on the taxonomic group, with implications for the structure of interaction networks.

Spatial prey availability and pulsed reproductive tactics: Encounter risk in a canid-ungulate system.

Predation risk is a function of spatiotemporal overlap between predator and prey, as well as behavioural responses during encounters. Dynamic factors (e.g. group size, prey availability and animal movement or state) affect risk, but rarely are integrated in risk assessments. Our work targets a system where predation risk is fundamentally linked to temporal patterns in prey abundance and behaviour. For neonatal ungulate prey, risk is defined within a short temporal window during which the pulse in parturition, increasing movement capacity with age and antipredation tactics have the potential to mediate risk. In our coyote-mule deer (Canis latrans-Odocoileus hemionus) system, leveraging GPS data collected from both predator and prey, we tested expectations of shared enemy and reproductive risk hypotheses. We asked two questions regarding risk: (A) How does primary and alternative prey habitat, predator and prey activity, and reproductive tactics (e.g. birth synchrony and maternal defence) influence the vulnerability of a neonate encountering a predator? (B) How do the same factors affect behaviour by predators relative to the time before and after an encounter? Despite increased selection for mule deer and intensified search behaviour by coyotes during the peak in mule deer parturition, mule deer were afforded protection from predation via predator swamping, experiencing reduced per-capita encounter risk when most neonates were born. Mule deer occupying rabbit habitat (Sylvilagus spp.; coyote's primary prey) experienced the greatest risk of encounter but the availability of rabbit habitat did not affect predator behaviour during encounters. Encounter risk increased in areas with greater availability of mule deer habitat: coyotes shifted their behaviour relative to deer habitat, and the pulse in mule deer parturition and movement of neonatal deer during encounters elicited increased speed and tortuosity by coyotes. In addition to the spatial distribution of prey, temporal patterns in prey availability and animal behavioural state were fundamental in defining risk. Our work reveals the nuanced consequences of pulsed availability on predation risk for alternative prey, whereby responses by predators to sudden resource availability, the lasting effects of diversionary prey and inherent antipredation tactics ultimately dictate risk.

Modelling the habitat preferences of the NE-Atlantic Sea cucumber Holothuria forskali: Demographics and abundance

Sea cucumbers' historical demand, together with the depletion of several traditional species in the market, has popularized new target species from new fishing grounds. Holothuria forskali is one of those emergent species in the trade market. However, it is a species for which there is no relevant information to allow sustainable stock management. Fundamental knowledge of the populations' structure and habitat preferences are key elements without which any measure is inconsequent. This work aims to fill that gap by modelling temporal and spatial patterns of abundance and demographic structure of this species in a NE-Atlantic area, as a function of environmental features.For a period of 15 months, nine regular sampling campaigns collected data on density, individual length, individual conditions of occurrence (e.g. sheltered, on sand, on algae cover) and environmental parameters (water column, sediment, substrate cover and type), using random transects throughout a costal rocky-reef, considering habitat heterogeneity and substrate types. To determine the species' habitat preferences Generalized Linear Models were used to model density and demographic structure of the species as a function of environmental conditions. The models revealed that the main drivers shaping the distribution of H. forskali are neither abiotic nor biotic parameters of the water column, but physical stressors, like current intensity and depth, and substrate type in a patchy distribution pattern. Estuarine conditions are generally avoided, although with a size-dependent opportunistic strategy. Larger individuals show temporal and spatial displacement patterns towards suitable reproductive conditions (pre-breeding aggregation) and favourable feeding grounds and smaller size-classes tend to aggregate in higher numbers in more stable environments.Sustainable sources for market supply, like aquaculture, are still a long way from commercial production. So, these results are fundamental to support effective conservation measures for stock management of H. forskali.

The role of habitat heterogeneity and timescales on the recovery of reef epifaunal communities affected by a massive oil spill in the tropics

From August 2019 to January 2020 the Brazilian Coast was impacted by the largest oil spill in the Tropical oceans ever since. Paiva Beach, one of the most preserved sandy beaches in the northeast tropical Brazilian coast, was among the most affected regions by the oil spill in October 2019. This area has important reef systems that harbor abundant macroalgal assemblages with very diverse epifaunal communities. The present study aims to evaluate the impacts of the 2019 oil spill on epifauna associated with the seaweed species Jania capillacea and Penicillus capitatus collected in Paiva Beach from July 2019 to October 2022, and use the interaction macroalgae/epifauna/timescale as a proxy to quantify the effects of oil spills on communities structure and recovery. The epifauna of both algae did not suffer severe changes in abundance immediately after the spill, however, the abundance of taxa like echinoderms, sea spiders (Pycnogonida) and peracarid crustaceans dropped during or soon after the event, whereas others, like sabellid worms, had strong increase in abundance, possibly related to the spill. Both phytal assemblages also had distinct temporal patterns in species diversity and abundance, the last being strongly correlated to amphipod abundance for some taxa. The epifauna of J. capillacea had a short-term tendency of decrease in taxonomic diversity, whereas the epifaunal communities of P. capitatus gained a few taxa in the months immediately after the disaster. The diversity profiles of both communities returned to pre-spill conditions a few months later, with a slower abundance recovery in J. capillacea. Local environmental characteristics like landscape heterogeneity, connectivity with other environments, and critical-species (mainly amphipods) were possibly the main buffering factors for the phytal communities after the oil spill.

Recruitment of Juvenile Snapper (Lutjanidae) in the Middle Florida Keys: Temporal Trends and Fine-Scale Habitat Associations

Juvenile recruitment is a major factor in the establishment and maintenance of local population structures of coral reef fishes. An understanding of the factors that affect juvenile recruitment and survival help explain spatial and temporal patterns in adult abundance, especially of commercially and recreationally fished species. Here, we examined the distribution and juvenile recruitment of 5 snapper species: Mutton Snapper (Lutjanus analis), Lane Snapper (L. synagris), Schoolmaster (L. apodus), Gray Snapper (L. griseus), and Yellowtail Snapper (Ocyurus chrysurus) collected in 1,314 seine samples conducted between 2007 and 2019 in the Middle Florida Keys. We use a generalized linear modeling routine to assess juvenile recruitment of each species as a function of temporal, environmental, and benthic habitat variables. Interannual variability in juvenile recruitment ranged between 2 and 15—fold differences in mean predicted abundance between the highest and lowest producing years by species. Predicted recruitment varied dramatically by species in 2010 following a historic cold spell in south Florida. Three of the 5 species (Lane Snapper, Yellowtail Snapper, and Schoolmaster) exhibited the lowest observed yearly recruitment in that year, while Gray Snapper recruitment peaked. For all species, recruitment indices exhibited strong seasonal trends with peak abundances observed in the fall. Aquatic vegetation type, aquatic vegetation cover, distance from shore, and water temperature were the most important predictors of abundance. Results of this study highlight species—specific preferences for settlement habitat, demonstrate the importance of local—scale recruitment processes, and provide updated, management—relevant juvenile abundance indices for shallow water snapper in the Middle Florida Keys.

Feeding ecology of the Red-and-green Macaw (Ara chloropterus; Gray 1859) in a habitat mosaic from Cerrado.

In the Brazilian Cerrado, the Red-and-green Macaw (Ara chloropterus) populations are facing an accelerated rate of habitat loss. Despite this, their feeding areas and primary food sources remain poorly understood. In this study, I assessed the relationship between the diet of the Red-and-green Macaw and available food resources in a habitat mosaic from the fragmented Cerrado in Mato Grosso do Sul State, Brazil. Red-and-green Macaws fed on 20 native and five exotic species, mainly in dry habitats (Cerrado, dry forest, and an urban area along the Maracaju Cliffs) during the dry season, while year-round foraging in the riparian vegetation (Aquidauana River and streams). Then, the number of feeding macaws paralleled variations in food abundance and diversity, besides the number of food species. On the other hand, by using a wide variety of abundant foods, macaws' diet breadth presented high values throughout the year. The seasonal consumption of large-seeded fruits across the habitat mosaic displayed a gradient ranging from the urban area to dry habitats, along which macaws ate from exotic to Cerrado species. In this respect, Terminalia catappa seeds and Mangifera indica fruit pulp were important for Red-and-green Macaws in the urban area during the wet season, while Caryocar brasiliense seeds comprised the same in the Cerrado. At this site, both Dipteryx alata and Buchenavia tomentosa seeds composed much of the Red-and-green Macaws' diet during the dry season. Between those habitats, in the watercourse vegetation, macaws frequently foraged on palm fruits across seasons. Therefore, throughout the year, the abundance and variety of food resources strongly influenced the number of foraging Red-and-green Macaws across the habitat mosaic. Understanding the effect of varying seed availability on the spatial and temporal abundance patterns of Red-and-green Macaws, which primarily feed on large-seeded species, is central to developing effective conservation strategies. Due to the accelerated habitat loss, the Maracaju Cliffs emerge as crucial for the Red-and-green Macaw among the Cerrado remnants of Mato Grosso do Sul.

Waterbird community changes in the Wilderness Lakes, South Africa (Part 1 of 3): Herbivores and omnivores

Global and regional degradation and loss of aquatic systems can negatively affect wetland-dependent waterbirds. The Wilderness Lakes Complex in South Africa, which incorporates the Wilderness Ramsar site, supports populations of 68 waterbird species including eight which periodically occur in globally significant (1% population) numbers. The study aimed to document long-term spatial and temporal (including seasonal) patterns of abundance of herbivorous waterbirds in the Wilderness Lakes Complex, and where possible identify potential causes for observed trends. The abundance of waterbirds on these wetlands was determined biannually from 1992 to 2019, with counts conducted from a boat following a standardised route. Historical abundance data from the 1980s was also used to describe long-term abundance changes. Observed seasonality of four herbivorous waterbirds differed from published accounts. Long-term abundance trends indicated a combination of declining, increasing and stable populations which, in several instances, differed from regional (southern African) assessments. Significant long-term decreases have occurred in five herbivorous species in the lakes complex (Common Moorhen Gallinula chloropus, Red-knobbed Coot Fulica cristata, Yellow-billed Duck Anas undulata, Cape Shoveler Anas smithii, Cape Teal Anas capensis), whereas increases have occurred in two species (Spur-winged Goose Plectropterus gambensis, Egyptian Goose Alopochen aegyptiaca). Similar types of change occurred across multiple waterbodies, and in different seasons. The similarity of trends in spatially separated wetlands suggested either high interconnectivity of populations between wetland systems and/or some drivers of change of mobile species being broad scaled and regional, rather than system specific. Local reasons for changes potentially include increasing extent of cultivated fields, a proliferation of emergent macrophytes and loss of open sandbanks, changing food availability, increasing disturbance, and disease.Conservation implications: The fundamental character of the Wilderness Ramsar site has changed, with reduced abundance of several previously abundant herbivorous waterbirds. Drivers of change in species abundances are multifaceted, complex, and frequently poorly understood. Recommended local corrective actions include the management of emergent macrophytes, avian diseases, disturbance, and water quality.

Waterbird community changes in the Wilderness Lakes, South Africa (Part 2 of 3): Shorebirds

Globally, many shorebirds, particularly the smaller migratory waders are declining, which can be attributed to multiple factors throughout their ranges. The Wilderness Lakes Complex in South Africa comprises two estuarine systems, that support diverse waterbird communities, including 17 abundant shorebirds. The study aimed to document long-term spatial and temporal patterns of abundance of shorebirds in the Wilderness Lakes Complex, and where possible identify potential causes for observed trends. The abundance of waterbirds on these wetlands was determined biannually from 1992 to 2019, with counts conducted from a boat following a standardised route. Historical abundance data from the 1980s were also used to describe long-term abundance changes. Ten shorebirds showed seasonal differences in abundances. Significant long-term decreases in abundance have occurred in seven shorebirds (Wood Sandpiper Tringa glareola, Marsh Sandpiper Tringa stagnatilis, Curlew Sandpiper Calidris ferruginea, Ruff Philomachus pugnax, Grey Heron Ardea cinerea, Greater Flamingo Phoenicopterus ruber, Black-winged Stilt Himantopus himantopus) and increases in three species (African Spoonbill Platalea alba, Little Egret Egretta garzetta, Glossy Ibis Plegadis falcinellus). Similar types of population changes occurred across multiple waterbodies and in different seasons. The similarity of shorebird abundance trends in spatially separated wetlands suggests either high interconnectivity of populations between wetlands systems and/or prominent drivers of change being broad scaled rather than system specific. Local reasons for changes potentially include the increasing spread of emergent macrophytes and resultant loss of open sandbanks, changing hydrodynamics, and alien fish proliferation, all likely changing food accessibility, as well as periodic high disturbance by waterbody users.Conservation implications: Changes in the abundances of several shorebirds, particularly small migratory waders, are substantial, with multiple likely local, regional and international drivers acting accumulatively. Recommended corrective actions include continuing involvement in the development and implementation of policies for waterbird conservation, and local management of emergent macrophytes, disturbance, and water level variability.

Waterbird community changes in the Wilderness Lakes, South Africa (Part 3 of 3): Diving piscivores and scavengers

Estuarine waterbodies typically support diverse and abundant waterbird communities. However, global environmental degradation as a result of anthropogenic activities is leading to species level changes in biodiversity, with top predators such as piscivorous waterbirds being particularly vulnerable to ecosystem changes. The study aimed to document long-term spatial and temporal patterns of abundance of piscivorous and scavenging waterbirds in the Wilderness Lakes Complex (WLC) in the Garden Route National Park, South Africa, and where possible identify potential causes for observed trends. The abundance of waterbirds on these wetlands was determined biannually from 1992 to 2019, with counts conducted from a boat following a standardised route. Historical waterbird abundance data from the 1980s were also used to describe long-term abundance changes. Eight of the species exhibited seasonal variability in abundance with most, excluding Common Tern Sterna hirundo, being more abundant in winter. Substantial changes occurred in the abundance of several species over the four-decade study period, notably increases in Cape Cormorant Phalacrocorax capensis and Great Crested Grebe Podiceps cristatus, and decreases in Common Tern and Black-necked Grebe Podiceps nigricollis. Long-term abundance trends indicate a combination of declining, increasing, and stable populations. Although some species have undergone contrasting abundance changes on different waterbodies in the WLC the dominant pattern was a similar direction of change on most or all waterbodies and in different seasons. Local reasons for changes probably include loss of sandbanks, changing prey availability, and the absence of recreational disturbance on some waterbodies.Conservation implications: Drivers of changes in the abundances of piscivores are likely to be multifaceted, functioning on multiple spatial and temporal scales, and affecting different species in different ways. Recommended local corrective actions include managing emergent macrophyte encroachment on sandbanks, reducing recreational disturbance, managing processes affecting indigenous fish stocks, and protecting nesting sites.

Similar temporal patterns in insect richness, abundance and biomass across major habitat types

Abstract While many studies on insect diversity report declines, others show stable, fluctuating or increasing trends. For a thorough understanding of insect trends and their effects on ecosystem functioning, it is important to simultaneously assess insect richness, abundance and biomass, and to report trends for multiple taxa. We analysed insect richness, abundance and biomass data for all insects and for eight insect taxa (Buprestidae, Cerambycidae, Carabidae, other Coleoptera, Aculeata, other Hymenoptera, Heteroptera and Lepidoptera) from 42 sites across Switzerland from 2000 to 2007, representing three major habitat types in Switzerland (agricultural, unmanaged [open and forested] and managed forest habitats). As potential drivers of temporal patterns, we evaluated weather‐ and land‐use‐related factors. As predictors, we included temperature and precipitation as well as the vegetation index and the habitat type, respectively. We found a consistent pattern of stable or increasing trends for richness, abundance and biomass of insects in total and the eight taxa over 8 years. Both overall patterns and six out of eight taxa (except for Cerambycidae and Lepidotpera) showed the highest values in agricultural habitats. However, when accounting for elevation, there was no difference in open habitats regardless of whether they were used agriculturally. Habitat types were the most important predictors, followed by weather‐ and vegetation‐related factors. Modelled responses to mean temperature were unimodal, whereas the standard deviation of temperature showed positive and precipitation negative effects. Longer time series are needed to draw robust inferences and to investigate potential negative effects of future warming.

Spatial and temporal patterns of scyphozoan jellyfish abundance and growth in Icelandic coastal waters – a climate change perspective

ABSTRACT Scyphozoan jellyfish in Icelandic waters have received limited attention, despite apparent recent increases in blooms and changes in the regional oceanographic setting. The objectives of this study were to describe the species composition, abundance, phenology, and growth of scyphomedusae around Iceland and explore changes by comparing our findings with reports from the 1930s. Specimens were collected with a Bongo net in five regions around Iceland in the spring, summer, and autumn of 2008. Three jellyfish species were collected in the study, Aurelia aurita, followed by Cyanea capillata, and C. lamarckii. In the western and northwestern parts of Iceland, A. aurita abundance was highest in spring and summer, whereas in the North and East, abundances were highest in autumn. Cyanea capillata was not encountered in the Southwest, but in the west, Northwest, and North. There, numbers were highest in spring, whereas in the East, abundance was highest in autumn. Clockwise coastal current dispersal and regional interconnectivity are indicated. Weight-specific growth rates varied between 7.0 and 8.5% d−1 for A. aurita and 11.1 and 15.7% d−1 for C. capillata and are comparable to rates from often food-limited ecosystems at temperate latitudes. Presented evidence suggests that ephyrae and small medusae appear earlier in the season and in previously (in the 1930s) not occupied regions, while some regions (Southwest for C. capillata) were not populated anymore.

Loss, resilience and recovery of kelp forests in a region of rapid ocean warming.

Changes in kelp abundances on regional scales have been highly variable over the past half-century owing to strong effects of local and regional drivers. Here, we assess patterns and dominant environmental variables causing spatial and interspecific variability in kelp persistence and resilience to change in Nova Scotia over the past 40 years. We conducted a survey of macrophyte abundance at 251 sites spanning the Atlantic coast of Nova Scotia from 2019 to 2022. We use this dataset to describe spatial variability in kelp species abundances, compare species occurrences to surveys conducted in 1982 and assess changes in kelp abundance over the past 22 years. We then relate spatial and temporal patterns in abundance and resilience to environmental metrics. Our results show losses of sea urchins and the cold-tolerant kelp species Alaria esculenta, Saccorhiza dermatodea and Agarum clathratum in Nova Scotia since 1982 in favour of the more warm-tolerant kelps Saccharina latissima and Laminaria digitata. Kelp abundances have increased slightly since 2000, and Saccharina latissima and L. digitata are widely abundant in the region today. The highest kelp cover occurs on wave-exposed shores and at sites where temperatures have remained below thresholds for growth (21 °C) and mortality (23 °C). Moreover, kelp has recovered from turf dominance following losses at some sites during a warm period from 2010 to 2012. Our results indicate that dramatic changes in kelp community composition and a loss of sea urchin herbivory as a dominant driver of change in the system have occurred in Nova Scotia over the past 40 years. However, a broad-scale shift to turf-dominance has not occurred, as predicted, and our results suggest that resilience and persistence are still a feature of kelp forests in the region despite rapid warming over the past several decades.

Evaluation of sequential filtration and centrifugation to capture environmental DNA and survey microbial eukaryotic communities in aquatic environments.

Sequential membrane filtration of water samples is commonly used to monitor the diversity of aquatic microbial eukaryotes. This capture method is efficient to focus on specific taxonomic groups within a size fraction, but it is time-consuming. Centrifugation, often used to collect microorganisms from pure culture, could be seen as an alternative to capture microbial eukaryotic communities from environmental samples. Here, we compared the two capture methods to assess diversity and ecological patterns of eukaryotic communities in the Thau lagoon, France. Water samples were taken twice a month over a full year and sequential filtration targeting the picoplankton (0.2-3 μm) and larger organisms (>3 μm) was used in parallel to centrifugation. The microbial eukaryotic community in the samples was described using an environmental DNA approach targeting the V4 region of the 18S rRNA gene. The most abundant divisions in the filtration fractions and the centrifugation pellet were Dinoflagellata, Metazoa, Ochrophyta, Cryptophyta. Chlorophyta were dominant in the centrifugation pellet and the picoplankton fraction but not in the larger fraction. Diversity indices and structuring patterns of the community in the two size fractions and the centrifugation pellet were comparable. Twenty amplicon sequence variants were significantly differentially abundant between the two size fractions and the centrifugation pellet, and their temporal patterns of abundance in the two fractions combined were similar to those obtained with centrifugation. Overall, centrifugation led to similar ecological conclusions as the two filtrated fractions combined, thus making it an attractive time-efficient alternative to sequential filtration.

Key bacterial taxa determine longitudinal dynamics of aromatic amino acid catabolism in infants’ gut

ABSTRACT The development of the gut microbiota in early life is linked to metabolic, neuronal, and immunological development. Recent studies have shown that bacterial production of short-chain fatty acids (SCFAs) and aromatic amino acid (AAA) catabolites in the gut can mediate host–microbe interactions. However, the dynamics of these microbiota-derived metabolites and the key bacterial taxa producing AAA catabolites during infancy are largely unknown. Here, we investigated the longitudinal dynamics of the microbiota and microbiota-derived SCFAs and AAA catabolites in more than 200 fecal samples from 25 healthy breast- or mixed-fed Danish infants during the first 6 months of life. We found that the gut microbiota composition and metabolism were highly individual but showed significant development over time. SCFAs and specific groups of AAA catabolites showed distinct temporal abundance patterns. Furthermore, we identified bacterial taxa responsible for the generation of AAA catabolites by associating the dynamics of gut microbial taxa and AAA catabolites and subsequently validating these associations in vitro by cultivation of strains representing the associated taxa. In addition to specific Bifidobacterium species being the main producers of aromatic lactic acids, we identified Peptostreptococcus anaerobius as the main producer of aromatic propionic acids, Ruminococcus gnavus as a main producer of tryptamine, and Enterococcus species as main tyramine producers in infants’ gut. Thus, our results showcase the temporal dynamics of key gut microbial metabolites in early life and demonstrate that the appearance and abundance of specific AAA catabolites result from the appearance and abundance of specific key bacterial taxa in infants’ gut.

Life History Patterns of the Atlantic Brief Squid, Lolliguncula brevis (Blainville, 1823), in the Charleston Harbor Estuary, South Carolina, USA

The Atlantic brief squid, Lolliguncula brevis, is a euryhaline cephalopod that inhabits shallow, continental shelf habitats from Argentina to the Bay of Fundy. In the southeastern United States, brief squid can account for a considerable portion of the estuarine animal biomass and are an important component of the diets of species with high priority for management and conservation. Historical data from South Carolina Department of Natural Resources suggest that brief squid exhibit spatially and temporally variable size-frequency distributions within the Charleston Harbor estuary. Prior to this study, however, detailed life history information for this species was lacking in the region. Samples of brief squid were collected monthly at four stations along a salinity gradient within the Charleston Harbor estuary in 2019 to investigate temporal and spatial patterns of abundance, sex, size, and maturity. Season and station were significantly related to brief squid abundance, which was greater for all sexes in spring, summer, and fall than in winter. Catches of brief squid were dominated by immature squid compared with mature squid. Excluding sexually indistinct squid, and across all seasons, significantly more males were collected than females. Mean brief squid size tended to be larger in May than in several other months of the year, largely due to the lower abundance of small squid in that month. Logistic regression analyses indicated that brief squid size-at-maturity occurred at 50.2 mm for males and 59.2 mm for females. The presence of both small and large brief squid throughout the year at all stations supports a pattern of overlapping cohorts, whereas the continual presence of immature brief squid at all stations suggests asynchronous recruitment. This study provides valuable life history information that can be used to support the conservation and management of organisms that are either prey or predators of brief squid within the Charleston Harbor estuary. Further research over multiple years and within other estuaries in the Georgia Bight is needed, however, to determine how the life history patterns observed in this study apply more broadly across the region.