Spatial distribution patterns and movements of Holothuria arguinensis in the Ria Formosa (Portugal)

Holothurian populations are under pressure worldwide because of increasing demand for beche-de-mer, mainly for Asian consumption. Importations to this area from new temperate fishing grounds provide economic opportunities but also raise concerns regarding future over-exploitation. Studies on the habitat preferences and movements of sea cucumbers are important for the management of sea cucumber stocks and sizing of no-take zones, but information on the ecology and behavior of temperate sea cucumbers is scarce. This study describes the small-scale distribution and movement patterns of Holothuria arguinensis in the intertidal zone of the Ria Formosa national park (Portugal).Mark/recapture studieswere performed to record theirmovements over time on different habitats (sand and seagrass). H. arguinensis preferred seagrass habitats and did not show a size or life stage-related spatial segregation. Its density was 563 ind. ha−1 and mean movement speed was 10 m per day. Movement speed did not differ between habitats and the direction of movement was offshore during the day and shoreward during the night. Median home range size was 35 m2 and overlap among home ranges was 84%. H. arguinensis' high abundance, close association with seagrass and easy catchability in the intertidal zone, indicate the importance of including intertidal lagoons in future studies on temperate sea cucumber ecology since those systems might require different management strategies than fully submerged habitats

Forest soils further acidify in core Natura 2000 areas amongst unaware government policy

The intensification of agriculture and livestock husbandry has led to increasing atmospheric deposition of nitrogenous compounds and soil acidification. We field measured extremely acidic soils with pH &lt; 3 (i.e., soils with the acidity of domestic vinegar) over extensive areas of the forested national parks on sandy soils in the Netherlands. These areas show stress from the negative impacts of increased soil acidity on forest health and biodiversity. We demonstrate that soil acidity has worsened from an average pH of approximately 4.5 to the current average pH = 3.2 over the last 22 years for extensive areas of Natura 2000 forest soils in the Netherlands. Current government policy has been guided without knowledge of such extreme acidity because the field data sampling does not cover Natura 2000 areas, and soil acidification was estimated based on poorly calibrated atmospheric nitrogen deposition models. The policy challenge of soil acidification in Natura2000 areas is solvable with the following recommendations: • Implement regulatory action to biennially field sample soil pH across Natura 2000 forest parks, focusing on sandy soils with limited buffering capacity. • To include in models of nitrogen deposition all sources of nitrogen, including for example off-leash dog walking areas in Natura 2000 forest areas. • To use these soil pH field samples to regularly recalibrate estimates of soil pH from atmospheric nitrogen deposition models to better inform government, industry, and the agricultural sector about the ongoing impact of N deposition on already severely acidic soils. • To implement further significant reductions in the deposition of all nitrogen compounds on Natura 2000 areas.</p

Forest top canopy bacterial communities are influenced by elevation and host tree traits

Background: The phyllosphere microbiome is crucial for plant health and ecosystem functioning. While host species play a determining role in shaping the phyllosphere microbiome, host trees of the same species that are subjected to different environmental conditions can still exhibit large degrees of variation in their microbiome diversity and composition. Whether these intra-specific variations in phyllosphere microbiome diversity and composition can be observed over the broader expanse of forest landscapes remains unclear. In this study, we aim to assess the variation in the top canopy phyllosphere bacterial communities between and within host tree species in the temperate European forests, focusing on Fagus sylvatica (European beech) and Picea abies (Norway spruce).Results: We profiled the bacterial diversity, composition, driving factors, and discriminant taxa in the top canopy phyllosphere of 211 trees in two temperate forests, Veluwe National Parks, the Netherlands and Bavarian Forest National Park, Germany. We found the bacterial communities were primarily shaped by host species, and large variation existed within beech and spruce. While we showed that there was a core microbiome in all tree species examined, community composition varied with elevation, tree diameter at breast height, and leaf-specific traits (e.g., chlorophyll and P content). These driving factors of bacterial community composition also correlated with the relative abundance of specific bacterial families.Conclusions: While our results underscored the importance of host species, we demonstrated a substantial range of variation in phyllosphere bacterial diversity and composition within a host species. Drivers of these variations have implications at both the individual host tree level, where the bacterial communities differed based on tree traits, and at the broader forest landscape level, where drivers like certain highly plastic leaf traits can potentially link forest canopy bacterial community variations to forest ecosystem processes. We eventually showed close associations between forest canopy phyllosphere bacterial communities and host trees exist, and the consistent patterns emerging from these associations are critical for host plant functioning

Field estimation of fallen deadwood volume under different management approaches in two European protected forested areas

Fallen deadwood is essential for biodiversity and nutrient cycling in forest ecosystems. In modern forest management, there is growing interest in developing accurate and efficient methods for field estimation of deadwood volume due to its many benefits (e.g. carbon storage, habitat creation, erosion control). The most common methods for deadwood inventories are fixed-area sampling (FAS) and line-intersect sampling (LIS) methods. While the estimations of deadwood volume by LIS generally show results comparable to FAS estimations, active management (e.g. production forestry clearcutting, logging, and thinning activities) can impair LIS accuracy by changing local deadwood patterns. Yet, the comparison of LIS and FAS methods has typically focused on production forests where deadwood is limited and deadwood volumes are comparably low. In this study, we assessed fallen deadwood volume in two large national parks—one being a more actively managed landscape (including, e.g., selective thinning for maintaining cultural–historical values and enhancing recreational opportunities) with overall lower levels of fallen deadwood, and the other having a strict non-intervention approach with higher levels of deadwood. No significant differences between average FAS and LIS estimations of deadwood volumes were detected. Additional experimentations using simulated data under varied stand conditions confirmed these results. Although line-intersect sampling showed a slight overestimation and some variability at the individual plot level, it remains an efficient, time-saving field sampling method providing comparable results to the more laborious fixed-area sampling. Line-intersect sampling may be especially suitable for rapid field inventories where relative changes in deadwood volume rather than absolute deadwood volumes are of large interest. Due to its practicality, flexibility, and relative accuracy, line-intersect sampling may gain wider use in natural resource management to inform national park managers, foresters, and ecologists

Metabarcoding of shrimp stomach content: harnessing a natural sampler for fish biodiversity monitoring

This is the peer reviewed version of the following article: Siegenthaler, A., Wangensteen Fuentes, O.S., Soto, A.Z., Benvenuto, C., Corrigan, L, & Mariani, S. (2018). Metabarcoding of shrimp stomach content: harnessing a natural sampler for fish biodiversity monitoring. Molecular Ecology Resources. https://doi.org/10.1111/1755-0998.12956, which has been published in final form at https://doi.org/10.1111/1755-0998.12956. This article may be used for non-commercial purposes in accordance with Wiley Terms and Conditions for Use of Self-Archived Versions.Given their positioning and biological productivity, estuaries have long represented key providers of ecosystem services, and consequently remain under remarkable pressure from numerous forms of anthropogenic impact. The monitoring of fish communities in space and time are one of the most widespread and established approaches to assess the ecological status of estuaries and other coastal habitats, but traditional fish surveys are invasive, costly, labour intensive and highly selective. Recently, the application of metabarcoding techniques, on either sediment or aqueous environmental DNA, has rapidly gained popularity. Here, we evaluate the application of a novel, high through‐put DNA‐based monitoring tool to assess fish diversity, based on the analysis of the gut contents of a generalist predator/scavenger, the European brown shrimp, Crangon crangon. Sediment and shrimp samples were collected from eight European estuaries and DNA metabarcoding (using both 12S and COI markers) was carried out to infer fish assemblage composition. We detected 32 teleost species (16 and 20, for 12S and COI respectively). Twice as many species were recovered using metabarcoding than by traditional net surveys. By comparing and interweaving trophic, environmental DNA and traditional survey‐based techniques, we show that the DNA‐assisted gut content analysis of a ubiquitous, easily accessible, generalist species may serve as a powerful, rapid and cost‐effective tool for large scale, routine estuarine biodiversity monitoring

Aversive responses of captive sandbar sharks Carcharhinus plumbeus to strong magnetic fields

This experimental study focused on the possible deterrent effect of permanent magnets on adult sandbar sharks Carcharhinus plumbeus. Results showed that the presence of a magnetic field significantly reduced the number of approaches of conditioned C. plumbeus towards a target indicating that adult C. plumbeus can be deterred by strong magnetic fields. These data, therefore, confirm that the use of magnetic devices to reduce shark by-catch is a promising avenue

MOTU table Brown shrimp diet metabarcoding

Table including the taxonomic assignment (using ecotag), the abundances per sample and the sequence of 8,352 COI-MOTUs found in sediment and pooled Crangon crangon stomach samples collected from 24 sites in the Netherlands, Portugal and United Kingdom. Ordered in the following columns: (A) id, (B) rank, (C) scientific_name, (D) best_identity, (E) superkingdom, (F) kingdom, (H) phylum, (H) class, (I) order, (J) family, (K) genus, (L) species, (M to AI) abundances in the different sediment samples, (AJ to CI) abundances in the different full stomach samples, (CJ-CL) abundances in the different empty stomach samples, (CM) sequence_length, (CN) sequence