Diversity, Volume 13, Issue 9 (September 2021) – 57 articles

The Yunnan geothermal area has many neutral and alkalescent thermal springs. Members of the genus Thermus have been found in thermal environments. In this study, we attempted to cultivate numerically abundant Thermus species using a variety of different strategies. A total of 223 strains of Thermus-like bacteria were isolated from seventeen hot spring samples of four geothermal regions (Baoshan, Dali, Lincang and Dehong). These strains were classified into two genera, Thermus and Meiothermus, based on 16S rDNA. The optimal isolation temperature of the Thermus genus was 63–70 °C. The highest Thermus diversity was found at 63 °C. Thermus brockianus was a universal culturable bacterium in the four geothermal regions. The principal component analysis (PCA) showed that T. oshimai preferred to inhabit the hot springs of the Baoshan (Bs) geothermal region, and T. amyloliquefaciens dominated the Dali (Dl) geothermal region, whereas T. tengchongensis accumulated in the Lincang (Lc) and Dehong (Dh) geothermal regions. The results suggested that Thermus species had habitat-preferable characteristics among the four geothermal regions. The findings may help identify the niche from which Thermus strains can likely be isolated. Full article

The Biodiversity and Bioindicators research group (BiBIO), based at the Natural Sciences Museum of Granollers, has coordinated four long-term faunal monitoring programmes based on citizen science over more than two decades in Catalonia (NE Spain). We summarize the historical progress of these programmes, describing their main conservation outputs, the challenges overcome, and future directions. The Catalan Butterfly Monitoring Scheme (CBMS) consists of a network of nearly 200 recording sites where butterfly populations have been monitored through visual censuses along transects for nearly three decades. This programme provides accurate temporal and spatial changes in the abundance of butterflies and relates them to different environmental factors (e.g., habitat and weather conditions). The Bat Monitoring Programme has progressively evolved to include passive acoustic monitoring protocols, as well as bat box-, underground- and river-bat surveys, and community ecological indices have been developed to monitor bat responses at assemblage level to both landscape and climatic changes. The Monitoring of common small mammals in Spain (SEMICE), a common small mammal monitoring programme with almost 80 active live-trapping stations, provides information to estimate population trends and has underlined the relevance of small mammals as both prey (of several predators) and predators (of insect forest pests). The Dormouse Monitoring Programme represents the first monitoring programme in Europe using specific nest boxes for the edible dormouse, providing information about biological and demographic data of the species at the southern limit of its distribution range. The combination and complementarity of these monitoring programmes provide crucial data to land managers to improve the understanding of conservation needs and develop efficient protection laws. Full article

Soil properties affect plant growth and cause variation in leaf functional traits. Lycium ruthenicum Murray is one of the desert dominant shrubs and halophytes in the lower reaches of Heihe River, Northwest China. We analyzed the trade-off relationships of 14 leaf functional traits of eight L. ruthenicum populations growing at varying distances from the river and discussed the effects that soil properties have on leaf functional traits. The results showed that: Lower leaf nitrogen (N) content indicated that L.ruthenicum was located at the slow investment–return axis of the species resource utilization graph. Compared with non-saline and very slightly saline habitats, populations of slightly saline habitats showed a higher carbon to nitrogen ratio (C:N). Redundancy analysis (RDA) revealed a relatively strong relationship between leaf functional traits and soil properties, the first RDA axis accounted for 70.99 and 71.09% of the variation in 0–40 and 40–80 cm of soil properties. Relative importance analysis found that in the 0–40 cm soil layer, leaf traits variations were mainly influenced by soil moisture (SWC), HCO₃⁻ and CO₃²⁻ ions content, while leaf traits variations in the 40–80 cm soil layer were mainly influenced by HCO₃⁻ and SO₄²⁻. L.ruthenicum has a foliar resource acquisition method and a resource conservation trade-off with a flexible life history strategy in habitats with drought and salinity stress. In the shallow soil layers, water affects leaf traits variation greater than salt, and in both shallow and deep soil layers, HCO₃⁻ plays a dominant role on leaf traits. This study provides insights into the adversity adaptation strategies of desert plants and the conservation and restoration of arid-saline ecosystems. Full article

Systematic, practicable, and global solutions are required for insect monitoring to address species decline and pest management concerns. Compact frequency-modulated continuous-wave (FMCW) radar can facilitate these processes. In this work, we evaluate a 60 GHz low-range FMCW radar device for its applicability to insect monitoring. Initial tests showed that radar parameters should be carefully selected. We defined optimal radar configuration during the first experiment and developed a methodology for individual target observation. In the second experiment, we tried various individual-insect targets, including small ones. The third experiment was devoted to mass-insect-target detection. All experiments were intentionally conducted in very uncertain conditions to make them closer to a real field situation. A novel parameter, the Sum of Sequential Absolute Magnitude Differences (SSAMD), has been proposed for uncertainty reduction and noisy data processing. SSAMD enables insect target presence detection and biomass estimation. We have defined ranges of SSAMD for distinguishing noise, insects, and other larger targets (e.g., bats, birds, or other larger objects). We have provided evidence of the high correlation between insect numbers and the average of SSAMD values proving the biomass estimation possibility. This work confirms that such radar devices can be used for insect monitoring. We plan to use the evaluated system assembled with a light trap for real fieldwork in the future. Full article

This is a study on the leaf beetle subgenus Cryptocephalus Geoffroy, 1762 from China, with the particular emphasis upon the species-group classification of the subgenus and the taxonomy of the Cryptocephalus heraldicus species group. A new key is compiled to all the species groups found in China. Four new species are described from China: Cryptocephalus (Cryptocephalus) biordopunctatus sp. nov. from Yunnan, C. hani sp. nov. from Shanxi, Hubei, Shaanxi and Gansu, C. incisodentatus sp. nov. from Sichuan and Yunnan, and C. nigroflavusiventerus sp. nov. from Yunnan. Three species are found for the first time in China: C. lacosus Pic, 1922, C. nigriceps Allard, 1891 and C. rajah Jacoby, 1908. The species C. nigrolimbatus Jacoby, 1890 is transferred from the subgenus Burlinius Lopatin to this subgenus and assigned to the Cryptocephalus heraldicus group. The species number of this group is now 30 in total according to our result of taxonomic review. A key to all the mainland China species of this species group is provided as well as high quality color images and line drawings of adult habitus, aedeagus, and other important structures. All the types of the new species are deposited in the collection of Institute of Zoology, Chinese Academy of Sciences (IZ-CAS). Full article

The symbiotic relationship between the crab Trapezia spp. and pocilloporid corals has been characterized as obligate. Although this relationship is considered common and has been widely registered within the distribution areas of these corals, the initiation of this symbiotic relation and its potential persistence throughout the life cycle of the crustacean is still poorly described. To understand the Trapezia–Pocillopora symbiosis, determining the time and conditions when Trapezia recruits a coral colony and the factors influencing this process are key. Thus, in the present study, healthy, small and unrecruited coral fragments were attached to the substrates (using cable ties) of nearby adult Pocillopora colonies. All fragments were monitored for two years to measure their growth and size at the first evidence of Trapezia crab recruitment, as well as the abundance and permanence of the crabs on the coral fragments. Results showed a relation between the space available (coral volume) and crab recruitment as an increase in substrate complexity is required to provide protection for the crabs and hence maintain the symbiosis, while abiotic conditions such as sea temperature and the distance of the fragments from the adult coral colonies seemingly did not affect the recruitment process. In addition, crabs are able to move between colonies, thus discarding the theory that once recruited, crabs are obligate residents on this specific colony. Full article

The Bronze Age in Europe is characterized by major socio-economic changes, including certain aspects of animal husbandry. In the Alpine region archaeozoological data, though not very abundant, reveal that cattle were the most important domestic animals in this time period. They were probably used differently in the lowlands than at higher altitude, traction became more important and people increasingly exploited them for dairy products rather than for meat. Thus, a crucial question in this context is whether these major events are accompanied by changes in genetic diversity of cattle. Here we report partial mtDNA d-loop data (320 bp) obtained by PCR from 40 alpine cattle excavated at different sites in South Tyrol, Italy, and Grisons, Switzerland. Most cattle belong to the main European taurine T3 haplogroup, but a few members of T2 and Q haplogroups were identified. Moreover, genetic diversity measures and population genetic statistics indicate different cattle histories at different sites, including bottlenecks and potential admixture. However, Bronze Age Alpine cattle appear to be linked to modern rural cattle mainly from Italy. Full article

Comparative phylogeography has become a powerful approach in exploring hidden or cryptic diversity within widespread species and understanding how historical and biogeographical factors shape the modern patterns of their distribution. Most comparative phylogeographic studies so far focus on terrestrial and vertebrate taxa, while aquatic invertebrates (and especially freshwater invertebrates) remain unstudied. In this article, we explore and compare the patterns of molecular diversity and phylogeographic structure of four widespread freshwater copepod crustaceans in European water bodies: the harpacticoids Attheyella crassa, Canthocamptus staphylinus and Nitokra hibernica, and the cyclopoid Eucyclops serrulatus, using sequence data from mtDNA COI and nuclear ITS/18S rRNA genes. The three taxa A. crassa, C. staphylinus and E. serrulatus each consist of deeply diverged clusters and are deemed to represent complexes of species with largely (but not completely) non-overlapping distributions, while in N. hibernica only little differentiation was found, which may however reflect the geographically more restricted sampling. However, the geographical patterns of subdivision differ. The divisions in A. crassa and E. serrulatus follow an east–west pattern in Northern Europe whereas that in C. staphylinus has more of a north–south pattern, with a distinct Fennoscandian clade. The deep mitochondrial splits among populations of A. crassa, C. staphylinus and E. serrulatus (model-corrected distances 26–36%) suggest that divergence of the lineages predate the Pleistocene glaciations. This study provides an insight into cryptic diversity and biogeographic distribution of freshwater copepods. Full article

Mediterranean central Chile is globally recognized as a hotspot for terrestrial biodiversity due to its high endemism and massive habitat loss. However, within the rural landscape of central Chile, significant extents of natural areas remain, especially on less productive, steep slopes, and vegetation strips extending from the surrounding hills to agricultural areas. Accordingly, vegetation strips or corridors, within lowland farms, constitute key elements to support the conservation of biodiversity in rural landscapes. To assess the ecological performance of corridors in 22 commercials vineyards in central Chile, we characterized them in terms of width-, length-, area-, and perimeter-to-area ratios, as well as the number of connections with natural areas. Based on a set of previously defined ecological indicators (species, functional groups, and structural components), we compared their occurrence in corridors within vineyards and in the surrounding natural areas. We evaluated the effects of corridor attributes on the occurrence of the selected ecological indicators, using a generalized linear mixed model with each vineyard as a random factor. The area, width, and length of vegetation corridors varied widely (1.2–86.3 ha, 10.5–95 m, and 380–5000 m, respectively). We found significant differences in the occurrence of indicators between corridors and natural areas. All sampled ecological indicators in corridors showed a negative relationship with the distance to the nearest natural area. Vegetation strips within vineyards represent important opportunities for biodiversity conservation that significantly enhance habitat quality in the agricultural landscape for biodiversity and habitat connectivity. Full article

Ecotypes are the result of ecological differentiation at the early stages of speciation. Adaptation to soil conditions offers arguably the best examples of local adaptation in plants. Two sympatric ecotypes, with either a red or green abaxial leaf surface, were found without clear geographical isolation in Phalaenopsis pulcherrima, a Southeast Asia endemic and endangered orchid. The soil of the red leaf ecotype has a higher water content and nutrient content than the green ecotype. What is the genetic structure of the two ecotypes? Is there complete or partial reproductive isolation between the two ecotypes? In this work, leaf reflection of the two ecotypes in P. pulcherrima were compared, to illustrate their difference in leaf color. The genetic differentiation between two ecotypes was examined, using ISSR and SRAP markers to determine the genetic structure of the populations. Our results showed that the green ecotype had reflectance spectrum peaks at 530 nm and 620 nm, while in the red ecotype, the peak at 530 nm was absent. A total of 165 ISSR and SRAP loci showed a high level of genetic diversity within the green ecotype, and analyses of the population structure revealed two genetic clusters that corresponded to the red and green ecotypes. The percentage of variation between the two ecotypes (24.55%) was greater than the percentage of variation among the populations (16.54%)—indicating partial reproductive isolation, high genetic differentiation, and that ecological differentiation has been more important than geographical barriers among populations within ecotypes. Most pairwise F_ST values between the populations within either ecotype on Hainan Island were less than 0.15; however, the F_ST between both the Thai and Malaysian populations and the Hainan Island population was greater than 0.25, due to South China sea isolation. Ecotypic differentiation is an important part of speciation; therefore, we must take into account the axes along which lineages sort, when formulating protection strategies. Full article

The major component of the animal egg yolk is the lipoglycoprotein vitellin, derived from its precursor vitellogenin (VTG), which is produced species-specifically in decapod crustaceans in the hepatopancreas and/or in the ovary of reproductive females. Previous studies on Procambarus clarkii vitellogenesis report the existence of two single VTGs. Here, from a multiple tissue transcriptome including ovaries and hepatopancreas of P. clarkii, we characterized four different VTG and two VTG-like transcriptomes encoding for the discoidal lipoprotein-high density lipoprotein/β-glucan binding protein (dLp/HDL-BGBP). The relative expression of the various genes was evaluated by quantitative Real-Time PCR in both the ovary and hepatopancreas of females at different reproductive stages (from immature until fully mature oocytes). These studies revealed tissue-specificity and a reproductive stage related expression for the VTGs and a constitutive expression in the hepatopancreas of dLp/HDL-BGBP independent from the reproductive stage. This study may lead to more detailed study of the vitellogenins, their transcription regulation, and to the determination of broader patterns of expression present in the female hepatopancreas and ovary during the vitellogenesis. These findings provide a starting point useful for two different practical aims. The first is related to studies on P. clarkii reproduction, since this species is highly appreciated on the market worldwide. The second is related to the study of new potential interference in P. clarkii reproduction to delay or inhibit the worldwide spread of this aggressively invasive species. Full article

Global change is manifesting new and potent pressures that may determine the relative influence of top-down and bottom-up forces on the productivity of plants that undergird coastal ecosystems. Here, I present a meta-analysis conducted to assess how herbivory, nitrogen enrichment, and elevated salinity influence plant productivity according to the salinity regimes of coastal ecosystems. An examination of 99 studies representing 288 effect sizes across 76 different plant species revealed that elevated salinity negatively affected productivity across all environments, but particularly in freshwater ecosystems. Nitrogen enrichment, on the other hand, positively affected productivity. In agreement with the plant stress hypothesis, herbivory had the greatest negative impact in saline habitats. This trend, however, appears to reverse with nitrogen enrichment, with maximum losses to herbivory occurring in brackish habitats. These findings demonstrate that multiple stressors can yield complex, and sometimes opposite outcomes to those arising from individual stressors. This study also suggests that trophic interactions will likely shift as coastal ecosystems continue to experience nutrient enrichment and sea level rise. Full article

Islands have been disproportionately affected by the current biodiversity crisis. In island biotas, one of the most recurrent anthropic alterations is species introduction. Invasion of exotic species may represent a major threat for island biotas, because invasive species may change species composition and simplify community dynamics. We investigated diversity patterns of native and introduced species in native and exotic forests of Terceira Island (Azores, Portugal) by using diversity profiles based on Hill numbers. Use of diversity profiles allows for a complete characterization of the community diversity because they combine information on species richness, rarity, and dominance. We found that native forest remnants are crucial for the maintenance of endemic Azorean arthropod diversity. However, we also found that some lowland patches of exotic forests can sustain populations of rare endemic species. Our findings reinforce the importance of the few and small remnants of native forests, which are a pillar to the conservation of Azorean endemic arthropods. However, areas occupied by exotic forests, whether they are large and contiguous or small and isolated, close to native forests, or embedded in a matrix of agriculture activities, can also play a role in the conservation of native species, including endemics. Full article

Fragmented and degraded DNA is pervasive among museum specimens, hindering molecular phylogenetics and species identification. Mini-barcodes, 200–300-base-pair (bp) fragments of barcoding genes, have proven effective for species-level identification of specimens from which complete barcodes cannot be obtained in many groups, but have yet to be tested in arachnids. The present study investigated the efficacy of mini-barcodes combined with longer sequences of the Cytochrome c Oxidase Subunit I (COI) gene in the systematics of the arboreal Neotropical ‘thorellii’ clade of Centruroides Marx, 1890 bark scorpions (Buthidae, C.L. Koch 1837), the species of which have proven to be difficult to identify and delimit due to their similar morphology. The phylogeny of 53 terminals, representing all nine species of the clade and representative species belonging to related clades of Centruroides, rooted on Heteroctenus junceus (Herbst, 1800) and based on up to 1078 base pairs of COI and 112 morphological characters, is presented to test the monophyly of the clade and the limits of its component species. The results support the recognition of nine species of the ‘thorellii’ clade, in accordance with a recent taxonomic revision, and highlight the efficacy of mini-barcodes for identifying morphologically similar cryptic species using specimens of variable age and preservation. Full article

As anuran biodiversity quickly declines, it is important to understand local patterns of anuran occurrence. However, the limitations of traditional sampling methods make anuran biodiversity surveys inadequate. Tropical environments are rich in anuran species, which makes biodiversity measurements more difficult. Therefore, it is important to develop a rapid, inexpensive and nondestructive method to measure anuran biodiversity in tropical environments. We used eDNA metabarcoding to measure anuran diversity at 288 sites in 18 regions of Hainan Island. We also used traditional methods and compared the results with those obtained through the eDNA metabarcoding methods. We detected 9 anuran species by traditional sampling methods. We produced 626 million reads by eDNA metabarcoding and assigned them to 15 anuran species. Therefore, eDNA metabarcoding can be used for rapid and large-scale anuran biodiversity surveys. Full article

Despite the ubiquity of disease seasonality, mechanisms behind the fluctuations in seasonal diseases are still poorly understood. Avian hemosporidiosis is increasingly used as a model for ecological and evolutionary studies on disease dynamics, but the results are complex, depending on the focus (hosts, parasites, vectors) and scale (individuals, community, populations) of the study. Here, we examine the local diversity of haemosporidian parasites and the seasonal patterns of infections, parasite richness, and diversity in a natural woodland bird community in Slovakia. In 35 avian species, we detected 111, including 19 novel, haemosporidian cytochrome b lineages. The highest numbers of lineages were detected during spring and autumn, corresponding with higher avian species richness and infection prevalence in the avian community during these periods of time. Nevertheless, the haemosporidian community in the local breeders in summer was relatively stable, Haemoproteus lineages dominated in the local avian haemosporidian community, and only few parasite lineages were abundant within each genus. While prevailing Leucocytozoon infections in spring suggest that the majority of sampled birds wintered in the Mediterranean region, Plasmodium infections in spring can be due to relapses in reproductively active short-distance migrants. Multiple haemosporidian infections, both intra- and inter-generic ones, were common in the local avian community. Infection intensity peaked during summer and tended to be higher in older birds, pointing to the role of supressed immunity in reproductively active birds. Full article

The evolutionary trajectories of insects and angiosperms appear to be intimately interconnected. Increases in the diversity of phytophagous beetles and angiosperms co-occur in the Mesozoic fossil record, and there is fossil evidence of pollinivory and pollination by insects, both in flowering plants and in gymnosperms. The oldest records of angiosperm pollination indicate flies as pollen vectors. A basal group of angiosperms, the order Magnoliales, has retained plesiomorphic characters such as dozens of pistils and stamens spiraling around the receptacle. In a family of this order, Annonaceae, over 90% of species are pollinated by beetles. In many Annonaceae species, flowers display wide spaces, referred to as floral chambers, where beetles can find shelter from weather conditions and predators, food in the form of pollen and tissues, and a mating site. Two basic types of floral chambers can be distinguished: small chambers visited by small beetles (Nitidulidae, Staphylinidae, Chrysomelidae, and Curculionidae) with diurnal and/or nocturnal activity and large and thermogenic floral chambers visited by beetles of the tribe Cyclocephalini (Scarabaeoidea, Melolonthidae). In the latter case, the heat that the flowers produce may serve as a resource for the beetles that visit them, resulting in smaller endothermy costs for the scarabs. This study reviewed the literature including PhD and MSc theses on cantharophilous Annonaceae in the Cerrado. In this biome, both types of associations are found, although cantharophilous Annonaceae represent a small portion of the plant species (<5%). Cantharophilous Annonaceae in the Cerrado share attributes according to the beetles that pollinate them: species pollinated by small beetles, for instance, may flower throughout the year, whereas Annonaceae pollinated by Cyclocephalini normally flower in the beginning of the rainy season (October/November), in synchrony with the phenological patterns of their pollinators. Cantharophilous Annonaceae flowers, regardless of their size, tend to have light colors and sweet and fruity odors. In addition to the lack of studies on the attraction of beetles by these floral characters, the taxonomic composition of the beetles that pollinate Annonaceae in the Cerrado is poorly known. This review attempts to discuss, in light of what has already been published, potential fields of investigation concerning pollinating beetles’ behavior and evolution. Full article

Although DNA metabarcoding of pollen mixtures has been increasingly used in the field of pollination biology, methodological and interpretation issues arise due to its high sensitivity. Filtering or maintaining false positives, contaminants, and rare taxa or molecular features could lead to different ecological results. Here, we reviewed how this choice has been addressed in 43 studies featuring pollen DNA metabarcoding, which highlighted a very high heterogeneity of filtering methods. We assessed how these strategies shaped pollen assemblage composition, species richness, and interaction networks. To do so, we compared four processing methods: unfiltering, filtering with a proportional 1% of sample reads, a fixed threshold of 100 reads, and the ROC approach (Receiver Operator Characteristic). The results indicated that filtering impacted species composition and reduced species richness, with ROC emerging as a conservative approach. Moreover, in contrast to unfiltered networks, filtering decreased network Connectance and Entropy, and it increased Modularity and Connectivity, indicating that using cut-off thresholds better describes interactions. Overall, unfiltering might compromise reliable ecological interpretations, unless a study targets rare species. We discuss the suitability of each filtering type, plead for justifying filtering strategies on biological or methodological bases and for developing shared approaches to make future studies more comparable. Full article

Distribution and abundance of common parasitic nematodes in marine fishes is not well documented in many geographic regions. Understanding the influence of large-scale environmental changes on infection rates of fish by nematodes requires quantitative assessments of parasite abundance for multiple host species. We collected samples of two species of cod and eight species of rockfish (total of 232 specimens) from waters near Kodiak Island, Alaska, USA during Spring and Summer of 2015, and dissected and recorded all internal nematode parasites. We quantified the prevalence and intensity of nematode parasites in the ten host species, and tested for differences in prevalence among host species. We found three species of nematode: Anisakis simplex, sensu lato (Van Thiel), Pseudoterranova decipiens, sensu lato (Krabbe), and Hysterothylacium sp. (Ward and Magath). Eighty-two percent of the examined fish were infected with at least one parasitic nematode. The overall prevalence of P. decipiens, A. simplex, and Hysterothylacium sp. was 56%, 62%, and 2%, respectively. Anisakis simplex and P. decipiens were abundant and present in all ten species of host fish examined, whereas Hysterothylacium sp. was rare and found in only five of the host fish species. Prevalence and mean intensity of P. decipiens and A. simplex varied across the ten host species, and the number of parasites varied substantially among individual hosts within host species. The mean intensity of P. terranova and A. simplex in our study was substantially higher than the mean intensity for these same species from multiple other locations in a recent meta-analysis. This study provides a baseline of nematode parasite abundance in long-lived fish in waters near Kodiak Island, AK, and fills an important gap in our quantitative understanding of patterns of occurrence and abundance of these common and widespread parasites of marine fish. Full article

Jawed vertebrates (gnathostomes) have been the dominant lineage of deuterostomes for nearly three hundred fifty million years. Only a few lineages of jawless vertebrates remain in comparison. Composed of lampreys and hagfishes (cyclostomes), these jawless survivors are important systems for understanding the evolution of vertebrates. One focus of cyclostome research has been head skeleton development, as its evolution has been a driver of vertebrate morphological diversification. Recent work has identified hyaline-like cartilage in the oral cirri of the invertebrate chordate amphioxus, making cyclostomes critical for understanding the stepwise acquisition of vertebrate chondroid tissues. Our knowledge of cyclostome skeletogenesis, however, has lagged behind gnathostomes due to the difficulty of manipulating lamprey and hagfish embryos. In this review, we discuss and compare the regulation and histogenesis of cyclostome and gnathostome skeletal tissues. We also survey differences in skeletal morphology that we see amongst cyclostomes, as few elements can be confidently homologized between them. A recurring theme is the heterogeneity of skeletal morphology amongst living vertebrates, despite conserved genetic regulation. Based on these comparisons, we suggest a model through which these mesenchymal connective tissues acquired distinct histologies and that histological flexibility in cartilage existed in the last common ancestor of modern vertebrates. Full article

Southern Africa is remarkably rich in avian species diversity; however, the evolutionary and biogeographic mechanisms responsible for that diversity are, in general, poorly understood, and this is particularly true with respect to the many species that are endemic or near-endemic to the region. Here, we used mtDNA to assess genetic structure in three southern African bird species to determine whether each was genetically panmictic, or whether there was standing genetic variation upon which abiotic factors (e.g., climate, biome boundaries, geographic features) could have acted to drive lineage diversification. Haplotype diversity was partitioned into two (two species) or three (one species) distinct haplotype clusters that did not reflect biogeographic or biome partitioning; instead, haplotype clusters overlapped in central South Africa. Population and demographic analyses, along with ecological niche modeling and Bayesian Skyline Plots, indicated that each of the three species were likely isolated in refugia during Pleistocene climatic perturbations, with subsequent expansions from refugia resulting in present-day overlapping distributions. Collectively, our analyses suggest that an ephemeral speciation model is operating in southern Africa, driven by the dynamic climatic oscillations that characterize the region. At least some of the regional endemic bird species (e.g., White-eyes, Zosterops spp.) may be the result of sufficiently long periods in refugia as opposed to the distinct but ephemeral clusters recovered within our three focal species. Full article

Heterolobose amoebae are important members of marine, freshwater, and soil microbial communities, but their diversity remains under-explored. We studied the diversity of Vahlkampfiidae to improve our understanding of heterolobosean relationships and their representation in aquatic benthos. Using light and electron microscopy, and molecular phylogenies based on the SSU rRNA and ITS loci, we describe the fine morphology and evolutionary relationships of a new heterolobosean Parafumarolamoeba stagnalis n. sp. from a small pond in European Russia. Cells of P. stagnalis possess a clearly distinguishable anterior hyaline pseudopodium, eruptive movement, several thin and sometimes branched uroidal filaments, spherical cysts without pores and plugs, and mitochondria that have discoid cristae and are surrounded by cisternae of the endoplasmic reticulum. The genus Parafumarolamoeba has so far included a single species, Parafumarolamoeba alta from high-altitude soil in Tibet, which is morphologically distinct from P. stagnalis. Taxonomic description for a new Parafumarolamoeba species is therefore provided. Full article

This paper presents a study of freshwater zooplankton biodiversity, deemed as a reliable indicator of water quality. The Guatemalan Lake Amatitlán, currently used as a water source, has shown signs of progressive eutrophication, with perceptible variations of the local zooplankton diversity. Biotic and abiotic parameters were determined at four sites of Lake Amatitlán (Este Centro, Oeste Centro, Bahía Playa de Oro, and Michatoya) in 2016 and 2017. The local composition, the species richness and abundance of zooplankton, and the system environmental parameters were analyzed during both years surveyed. Biological data suggesting eutrophication of this tropical system were obtained, including a high rotifer abundance (11 species: the rotifers Brachionushavanaensis (109 ind L⁻¹) and Keratellaamericana (304 ind L⁻¹) were the most abundant species in this lake). The presumably endemic diaptomid copepod species, Mastigodiaptomusamatitlanensis, was absent in our samples, but we report the unprecedented occurrence of two Asian cyclopoid copepods (i.e., Thermocyclopscrassus and Mesocyclops thermocyclopoides) for Lake Amatitlán and Guatemala. The presence of larger zooplankters like adults and immature copepods (i.e., Arctodiaptomusdorsalis) and cladocerans (Ceriodaphnia sp.) at site “Este Centro” indicates a relatively healthy zooplankton community and represents a focal point for managing the conservation of this lake. Full article

The mating system of plants widely distributed can change in native range but also in non-native habitats. Oenothera drummondii, native to the coastal dunes of the Gulf of Mexico, has been introduced to Europe, Africa, Asia and Oceania. Hand self- and cross-pollination were performed to determine compatibility and to compare fruit set, fruit weight, seed set and germination characteristics from natives and non-natives populations and a comprehensive integral reproductive success index (IRSI) was built. Oenothera drummondii exhibited high self-compatibility and mixed reproductive systems in all populations. Characteristics of fruits and seeds from self- and cross-pollination varied within and between native and non-native populations and some had a positive clinal variation in the native range. The IRSI was sensitive to changes of fruit set, seed set and final germination of both self- and cross-pollination, showing differences between native populations. Differences in characteristics of fruits and seeds in the native and non-native ranges suggest the occurrence of distinct selection factors. The mixed reproductive system of O. drummondii suggests it can take advantage of local visitors in the native range, but also can provide advantages for the establishment at non-native sites giving the opportunity to interact with local flower visitors. Full article

South Texas is a highly variable region encompassing multiple habitat types and harboring a wide diversity of organisms. However, the parasite fauna in this region is poorly known, especially for avian ectoparasites such as lice. To better understand avian louse diversity and host associations in South Texas, we examined a total of 507 birds for chewing lice. Lice were morphologically identified to genus and phylogenetic analysis was performed using one mitochondrial (COI) and two nuclear (18S rRNA and EF-1α) genes. Of the birds examined, 69 (13.5%) were parasitized by lice resulting in a total of 63 host associations across 45 bird species, 29 of which were previously unrecorded. The predominant taxa encountered during this study included two of the most diverse louse genera, Myrsidea and Brueelia. Molecular analyses revealed 21 distinct genetic lineages, 17 of which are associated with novel host associations and may represent new species. This study represents the first extensive examination of avian louse host associations and relationships in Texas and reveals that there is still much to be learned about ectoparasite diversity in the New World. Full article

Sistema Huautla is the deepest cave system in the Americas at 1560 m and the fifth longest in Mexico at 89,000 m, and it is a mostly vertical network of interconnected passages. The surface landscape is rugged, ranging from 3500 to 2500 masl, intersected by streams and deep gorges. There are numerous dolinas, from hundreds to tens of meters in width and depth. The weather is basically temperate subhumid with summer rains. The average yearly rainfall is approximately 2500 mm, with a monthly average of 35 mm for the driest times of the year and up to 500 mm for the wettest month. All these conditions play an important role for achieving the highest terrestrial troglobite diversity in Mexico, containing a total of 35 species, of which 27 are possible troglobites (16 described), including numerous arachnids, millipedes, springtails, silverfish, and a single described species of beetles. With those numbers, Sistema Huautla is one of the richest cave systems in the world. Full article

Phytoplankton are known as important harbingers of climate change in aquatic ecosystems. This study investigated phytoplankton community structure in the western Pacific Ocean (WPO) in 2017 and revealed the spatial variability of phytoplankton in community composition and abundance, as well as their relationship to physical processes and environmental factors. The phytoplankton community was mainly composed of Dinophyta (221), followed by Bacillariophyta (105), Cyanophyta (4), and Chrysophyta (2). The cyanobacteria Trichodesmium were the dominants throughout the study period. Correlation analysis showed that dinoflagellates were mainly affected by temperature, while diatoms were significantly correlated with nutrients (silicate, phosphate, nitrite, nitrate). Phytoplankton was divided into five groups by cluster analysis, and the distribution of different groups was related to circulation and hydrological characteristics. In contrast, the highest abundance of diatoms and dinoflagellates was found in the New Guinea Coastal Current (NGCC) region, while the highest abundance of cyanobacteria was found in the Northern Equatorial Counter Current (NECC) region. Overall, we found that not only temperature and salinity, but also ocean currents and nutrients, influence the distribution of phytoplankton communities in the WPO. Full article

The overall impact that plant invasions have on greenhouse gas emissions (GHG) by plant-mediated effects and how these interact with environmental and management factors is largely unknown. To address this, we report on the effects of leaf removal and waterlogging, either singularly or in combination, on the fluxes of CO₂ and N₂O associated with the invasive species Gunnera tinctoria. Both the removal of leaves with and without flooding resulted in higher CO₂ emissions due to reductions in photosynthesis. Whilst waterlogging alone was also associated with a reduction in photosynthesis, this was slower than the effect of leaf removal. Significant N₂O emissions were associated with intact plants, which increased immediately after leaf removal, or seven days after waterlogging with or without leaf removal. We found positive correlations between CO₂ and N₂O emissions and petiole and rhizome areas, indicating a size-dependent effect. Our results demonstrate that intact plants of G. tinctoria are a source of N₂O emissions, which is enhanced, albeit transiently, by the removal of leaves. Consequently, management interventions on invasive plant populations that involve the removal of above-ground material, or waterlogging, would not only reduce CO₂ uptake, but would further compromise the ecosystem GHG balance through enhanced N₂O emissions. Full article

Viral production (VP) and bacterial mortality by viral lysis critically influence the production and mortality of aquatic bacteria. Although bacterial production, mortality by viral lysis, and viral density have been found to exhibit diel variations, the diel change in viral production has rarely been investigated. In this study, we conducted two diel dilution incubation experiments in a semi-enclosed, nutrient-rich coastal region in northeastern Taiwan to estimate the diel viral production and the mortality by viral lysis. We also compared two methods (linear regression between viral density and time versus arithmetic mean of VP during incubation) of estimating viral production. We found that viral production estimated by linear regression and bacterial mortality by viral lysis were higher during the daytime than during the nighttime. A possible explanation for the high viral production at daytime is that the bacterial community was composed of cell types with higher burst sizes at daytime. We further argued that the classical linear regression method can be used only when viral density significantly linearly increases with time, which does not always occur in dilution incubations. This study offered observations of diel variation in viral dynamics and discussed the methods estimating viral production in a marine environment. Full article