Taxonomic sufficiency and indicator taxa reduce sampling costs and increase monitoring effectiveness for ants

Preliminary Study on Hourly Dynamics of a Ground-Dwelling Invertebrate Community in a Farmland Vineyard

We evaluated the hourly dynamics of ground-dwelling invertebrate communities in farmland using infrared camera traps between August and September 2022. No significant variations within 24 h nor between any two time points of each day were observed in the taxonomic richness and abundance of the entire community. However, the periods from 4:00 to 7:00 and 13:00 to 20:00 showed relatively high taxonomic richness, while those from 2:00 to 6:00 and 16:00 to 21:00 showed relatively high abundance. Millipede abundance varied significantly in a 24 h period, with higher abundance from 3:00 to 4:00 and 1:00 to 2:00. Additionally, slug, beetle, and grasshopper abundances were significantly higher from 22:00 to 23:00, 17:00 to 18:00, and 23:00 to 24:00, respectively. The abundance of other taxa did not show significant variations between any two time points of a day. Predominant generalist predators showed positive correlation in their activity times. These results suggest that significant variations within each 24 h period are uncommon at either community or taxa (except for millipedes) levels in farmland ground-dwelling invertebrates. Further, while most taxa had significantly preferred active hours, the total community did not. Therefore, hourly dynamics should be considered to understand biodiversity maintenance.

Scale-Dependent Spatial Ecology of Paleotropical Leaf Litter Ants (Hymenoptera: Formicidae)

The grain for which an observer conducts a study is an important determinant of its outcome. Studies of ants have considered spatial grains spanning from single meters to entire forest ecosystems and found patterns related to nutrient availability, leaf litter depth, disturbance, and forest composition. Here, we examine a Bornean leaf litter ant community at small (1–4 m) and large (50–250 m) spatial scales and consider the differences in community structure using structured 1 m2 quadrats sampled via leaf litter sifting and Berlese extraction. We found that small-scale patterns in ant abundance and richness did not spatially autocorrelate within a plot until >1.5 m. Leaf litter characteristics, forest stand characteristics and sampling season were homogenous among our sites, suggesting that macro-scale stand variables are not largely regulating the small spatial scale ant communities: These may be driven by microclimate, competition, niche space, nutrient available, microclimatic conditions, or other localized effects. Further experimental work is needed to elicit causal mechanisms.

Living and dead bivalves are congruent surrogates for whole benthic macroinvertebrate communities in Puget Sound

To integrate paleoecological data with the “whole fauna” data used in biological monitoring, analyses usually must focus on the subset of taxa that are inherently preservable, for example by virtue of biomineralized hardparts, and those skeletal remains must also be identifiable in fragmentary or otherwise imperfect condition, thus perhaps coarsening analytical resolution to the genus or family level. Here we evaluate the ability of readily preserved bivalves to reflect patterns of compositional variation from the entire infaunal macroinvertebrate fauna as typically sampled by agencies in ocean monitoring, using data from ten long-established subtidal stations in Puget Sound, Washington State. Similarity in compositional variation among these stations was assessed for five taxonomic subsets (the whole fauna, polychaetes, malacostracans, living bivalves, dead bivalves) at four levels of taxonomic resolution (species, genera, families, orders) evaluated under four numerical transformations of the original count data (proportional abundance, square root- and fourth root-transformation, presence-absence). Using the original matrix of species-level proportional abundances of the whole fauna as a benchmark of “compositional variation,” we find that living and dead bivalves had nearly identical potential to serve as surrogates of the whole fauna; they were further offset from the whole fauna than was the polychaete subset (which dominates the whole fauna), but were far superior as surrogates than malacostracans. Genus- and family-level data were consistently strong surrogates of species-level data for most taxonomic subsets, and correlations declined for all subsets with increasing severity of data transformation, although this effect lessened for subsets with high community evenness. The strong congruence of death assemblages with living bivalves, which are themselves effective surrogates of compositional variation in the whole fauna, is encouraging for using bivalve dead-shell assemblages to complement conventional monitoring data, notwithstanding strong natural environmental gradients with potential to bias shell preservation.

Direct and indirect effects of geographic and environmental factors on ant beta diversity across Amazon basin

Understanding the direct and indirect effects of niche and neutral processes in structuring species diversity is particularly challenging because environmental factors are often geographically structured. Here, we used Structural Equation Modeling to quantify direct and indirect effects of geographic distance, the Amazon River's opposite margins, and environmental differences in temperature, precipitation, and vegetation density (Normalized Difference Vegetation Index-NDVI) on ant beta diversity (Jaccard's dissimilarity) across Amazon basin. We used a comprehensive survey of ground-dwelling ant species from 126 plots distributed across eight sampling sites along a broad environmental gradient. We found that geographic distance and NDVI differences were the major direct predictors of ant composition dissimilarity. The major indirect effect was that of temperature through NDVI, whereas precipitation neither had direct or indirect detectable effects on beta diversity. Thus, ant compositional dissimilarity seems to be mainly driven by a combination of isolation by distance (through dispersal limitation) and selection imposed by vegetation density, and indirectly, by temperature. Our results suggest that neutral and niche processes have been similarly crucial in driving the current beta diversity patterns of Amazonian ground-dwelling ants.

Metabarcoding From Microbes to Mammals: Comprehensive Bioassessment on a Global Scale

Global biodiversity loss is unprecedented, and threats to existing biodiversity are growing. Given pervasive global change, a major challenge facing resource managers is a lack of scalable tools to rapidly and consistently measure Earth's biodiversity. Environmental genomic tools provide some hope in the face of this crisis, and DNA metabarcoding, in particular, is a powerful approach for biodiversity assessment at large spatial scales. However, metabarcoding studies are variable in their taxonomic, temporal, or spatial scope, investigating individual species, specific taxonomic groups, or targeted communities at local or regional scales. With the advent of modern, ultra-high throughput sequencing platforms, conducting deep sequencing metabarcoding surveys with multiple DNA markers will enhance the breadth of biodiversity coverage, enabling comprehensive, rapid bioassessment of all the organisms in a sample. Here, we report on a systematic literature review of 1,563 articles published about DNA metabarcoding and summarize how this approach is rapidly revolutionizing global bioassessment efforts. Specifically, we quantify the stakeholders using DNA metabarcoding, the dominant applications of this technology, and the taxonomic groups assessed in these studies. We show that while DNA metabarcoding has reached global coverage, few studies deliver on its promise of near-comprehensive biodiversity assessment. We then outline how DNA metabarcoding can help us move toward real-time, global bioassessment, illustrating how different stakeholders could benefit from DNA metabarcoding. Next, we address barriers to widespread adoption of DNA metabarcoding, highlighting the need for standardized sampling protocols, experts and computational resources to handle the deluge of genomic data, and standardized, open-source bioinformatic pipelines. Finally, we explore how technological and scientific advances will realize the promise of total biodiversity assessment in a sample—from microbes to mammals—and unlock the rich information genomics exposes, opening new possibilities for merging whole-system DNA metabarcoding with (1) abundance and biomass quantification, (2) advanced modeling, such as species occupancy models, to improve species detection, (3) population genetics, (4) phylogenetics, and (5) food web and functional gene analysis. While many challenges need to be addressed to facilitate widespread adoption of environmental genomic approaches, concurrent scientific and technological advances will usher in methods to supplement existing bioassessment tools reliant on morphological and abiotic data. This expanded toolbox will help ensure that the best tool is used for the job and enable exciting integrative techniques that capitalize on multiple tools. Collectively, these new approaches will aid in addressing the global biodiversity crisis we now face.

Coral cover and rubble cryptofauna abundance and diversity at outplanted reefs in Okinawa, Japan

Global climate change is leading to damage and loss of coral reef ecosystems. On subtropical Okinawa Island in southwestern Japan, the prefectural government is working on coral reef restoration by outplanting coral colonies from family Acroporidae back to reefs after initially farming colonies inside protected nurseries. In order to establish a baseline for future comparisons, in this study we documented the current status of reefs undergoing outplanting at Okinawa Island, and nearby locations where no human manipulation has occurred. We examined three sites on the coast of Onna Village on the west coast of the island; each site included an outplanted and control location. We used (1) coral rubble sampling to measure and compare abundance and diversity of rubble cryptofauna; and (2) coral reef monitoring using Line Intercept Transects to track live coral coverage. Results showed that rubble shape had a positive correlation with the numbers of animals found within rubble themselves and may therefore constitute a reliable abundance predictor. Each outplanted location did not show differences with the corresponding control location in terms of rubble cryptofauna abundance, but outplanted locations had significantly lower coral coverage. Overall, differences between sites (Maeganeku1, Maeganeku2 and Manza, each including both outplanted and control locations) were significant, for both rubble cryptofauna and coral coverage. We recommend (1) to outplant colonies from more stress-resistant genera in place of Acropora, and (2) to conduct regular surveys to monitor the situation closely. With a lack of baseline data preceding impacts, rigorous monitoring over time can highlight trends towards increases or decreases in evaluated variables, allowing to obtain a clearer idea of the effects of transplants and on the trajectory of impacts due to climate change and local stressors . Finally, we also recommend (3) to establish conservation and sustainable practices that could aid the ongoing restoration efforts such as installing anchoring buoys to reduce impacts from anchoring, which could reduce coral mortality of both outplanted and native coral colonies.

New records of ants (Hymenoptera: Formicidae) for Colombia

Abstract Even though Colombia has high levels of ant species richness in the Neotropical region, this richness continues to increase. New records of the ant subfamilies Amblyoponinae, Dolichoderinae, Dorylinae, Myrmicinae, and Ponerinae are presented. Two species of Fulakora, two species of Azteca, one species of Cylindromyrmex, 25 species of Myrmicinae belonging to 12 genera (Acanthognathus, Basiceros, Daceton, Eurhopalothrix, Hylomyrma, Mycetomoellerius, Mycetophylax, Mycocepurus, Octostruma, Pheidole, Rogeria, and Talaridris), and one species of Leptogenys are registered for the first time for Colombia. Five species are new records for South America. For each species, the geographical distance of the record closest to the Colombian locality is offered. Several factors, such as access to previously unexplored conserved areas, sampling techniques that cover heterogeneous microhabitats such as leaf litter, and many more taxonomic researches have allowed the knowledge of ant fauna in Colombia to continue growing.

Congruence between arthropod and plant diversity in a biodiversity hotspot largely driven by underlying abiotic factors

Plants often form the basis of conservation planning and management. The effectiveness of plant diversity as a surrogate for arthropod diversity was assessed in natural areas in the Kogelberg Biosphere Reserve, a floral endemism hotspot in the Cape Floristic Region (CFR), South Africa. Arthropods and plants were sampled across 30 topographically heterogeneous sites in a spatially nested design. The relationship between plants and arthropods were quantified in terms of species richness, assemblage variation, and assemblage turnover. The influence of arthropod trophic groups, habitat association, and spatial scale were also explored. Generalized dissimilarity modelling was used to investigate differential influence of explanatory groups (geology, disturbance, local site characteristics, refuge, mesoclimate, terrain) on arthropod and plant turnover. Congruence in assemblage variation was restricted to local scales, and only present between plants and those arthropods associated with the foliar component of the habitat. Weak congruence in species turnover was due to differences in the relative importance of explanatory groups, with different variables within each explanatory group being important, and similar variables predicting different turnover patterns. For both groups, variables related to geology and fire history were important for assemblage turnover. These variables are already incorporated in conservation planning and management for plant diversity across the CFR. Overall plant diversity was a weak surrogate for the arthropod groups included in this study, suggesting that as an alternative, environmental surrogates for arthropod diversity perform better.

A new species of Amazonian snouted treefrog (Hylidae: Scinax) with description of a novel species-habitat association for an aquatic breeding frog

The genus Scinax is one of the most specious genera of treefrogs of the family Hylidae. Despite the high number of potential new species of Scinax revealed in recent studies, the rate of species descriptions for Amazonia has been low in the last decade. A potential cause of this low rate may be the existence of morphologically cryptic species. Describing new species may not only impact the taxonomy and systematics of a group of organisms but also benefit other fields of biology. Ecological studies conducted in megadiverse regions, such as Amazonia, often meet challenging questions concerning insufficient knowledge of organismal alpha taxonomy. Due to that, detecting species-habitat associations is dependent on our ability to properly identify species. In this study, we first provide a description of a new species (including its tadpoles) of the genus Scinax distributed along heterogeneous landscapes in southern Amazonia; and secondly assess the influence of environmental heterogeneity on the new species' abundance and distribution. Scinax ruberoculatus sp. nov. differs from all nominal congeners by its small size (SVL 22.6-25.9 mm in males and 25.4-27.5 mm in females), by having a dark brown spot on the head and scapular region shaped mainly like the moth Copiopteryx semiramis (or a human molar in lateral view, or a triangle), bicolored reddish and grey iris, snout truncate in dorsal view, bilobate vocal sac in males, by its advertisement call consisting of a single pulsed note with duration of 0.134-0.331 s, 10-23 pulses per note, and dominant frequency 1,809-1,895 Hz. Both occurrence and abundance of the new species are significantly influenced by silt content in the soil. This finding brings the first evidence that edaphic factors influence species-habitat association in Amazonian aquatic breeding frogs.

Evaluation of Malaise and Yellow Pan Trap Performance to Assess Velvet Ant (Hymenoptera: Mutillidae) Diversity in a Neotropical Savanna

Given the global biodiversity crisis, it is crucial to identify methods best suited for conducting inventories. We evaluated the relative merits of Malaise traps (MT) and ground-level yellow pan traps (YPT) to sample male velvet ants (Hymenoptera: Mutillidae) in a Neotropical savanna biodiversity hotspot. We compared richness, number of captures, evenness, composition, and body size of male velvet ants (Hymenoptera: Mutillidae) sampled with both methods in four sites at Parque Nacional da Chapada dos Veadeiros, central Brazil, during 19 d. We expected reduced diversity and smaller body size of velvet ants sampled with YPT, because they target visually oriented insects that are active closer to the ground, whereas MT represent a passive method that intercepts insects flying at different heights. Richness, total number of captures, and evenness of species and genera were significantly higher in MT. The body size of velvet ants captured with MT was significantly larger than those found in YPT. Generalized linear model and nonmetric multidimensional scaling analyses revealed a clear difference in the patterns of abundances and composition of velvet ants sampled with MT and YPT, especially for the genera Darditilla, Traumatomutilla, Lomachaeta, Pseudomethoca, Tallium, and Ephuta. YPT were effective at capturing few species that were rare in MT but, overall, MT were much more effective than YPT. We found similar patterns when using either species or genus for assessing samples obtained with MT or YPT, suggesting that ecological studies on Neotropical velvet ants may not require taxonomic resolution to the species level.

The utility of DNA metabarcoding for studying the response of arthropod diversity and composition to land-use change in the tropics

Metabarcoding potentially offers a rapid and cheap method of monitoring biodiversity, but real-world applications are few. We investigated its utility in studying patterns of litter arthropod diversity and composition in the tropics. We collected litter arthropods from 35 matched forest-plantation sites across Xishuangbanna, southwestern China. A new primer combination and the MiSeq platform were used to amplify and sequence a wide variety of litter arthropods using simulated and real-world communities. Quality filtered reads were clustered into 3,624 MOTUs at ≥97% similarity and the taxonomy of each MOTU was predicted. We compared diversity and compositional differences between forests and plantations (rubber and tea) for all MOTUs and for eight arthropod groups. We obtained ~100% detection rate after in silico sequencing six mock communities with known arthropod composition. Ordination showed that rubber, tea and forest communities formed distinct clusters. α-diversity declined significantly between forests and adjacent plantations for more arthropod groups in rubber than tea, and diversity of order Orthoptera increased significantly in tea. Turnover was higher in forests than plantations, but patterns differed among groups. Metabarcoding is useful for quantifying diversity patterns of arthropods under different land-uses and the MiSeq platform is effective for arthropod metabarcoding in the tropics.