Biology Of Species Research Articles

Generalist Pests Cause High Tree Infestation, but Specialist Pests Cause High Mortality

Whether specialist pests can cause more damage to their host plants than generalist pests is a critical issue in both basic biology and nonnative species management. To date, there is no consensus on how we define “specialist vs. generalist” pests and how we should assess forest damage or impacts (volume loss vs. mortality). Here, we comparatively investigate whether nonnative generalist pests may cause more damage to US forests than nonnative specialist pests using two frameworks: (1) the “binary or dichotomous approach” through a largely arbitrary classification of specialist and generalist pests, and (2) the “specialist-generalist continuum”. We measure damage or impact in two ways, one by the total host volume infested and the other by total host mortality. In the binary comparison, generalists infested more host tree volume per pest species than specialists, but the latter (mostly pathogens) caused higher mortality of host trees. The “specialist-generalist continuum” concept could reveal a different pattern regarding pest invasions and impacts when there is no clear separation between generalists and specialists in a community or region. Therefore, we suggest using the “continuum” approach to address related questions in future studies, thus offering new insights into pest invasions that have deeper implications for forest pest monitoring and management.

Exploring latitudinal gradients and environmental drivers of amphipod biodiversity patterns regarding depth and habitat variations

Amphipods are known as umbrella species in conservation biology that their protection indirectly protects other species. Recent hypotheses suggest a bimodal latitudinal global species richness pattern for amphipods, irrespective of species’ depth or habitat type. Phylogeographic hypotheses suggested two distinct procedures for amphipod diversification: ecological radiation and Pangea fragmentation. This study aimed to revisit the bimodal latitudinal pattern of species richness for amphipods, investigate similarities in species composition and main environmental amphipod distribution drivers regarding their depth and habitat variations. The comprehensive database was collected from open-access data and a personal sampling database from the Persian Gulf and the Gulf of Oman. After rigorous data quality controls, the final dataset comprised 1,142,416 distribution records of 6,424 accepted marine amphipod species distributed from 0 to 10,900 m depth. All the species were grouped into pelagic and benthic, shallow-water (> 200 m), and deep-sea (< 200 m). Alpha and gamma species richness and the expected number of species per 50 random samples (ES50) were calculated. Our findings showed that species richness patterns in amphipods are shaped not only by habitat types but also by depth, and they are not significantly bimodal in all groups. Also, the Beta diversity of benthic species revealed distinct diversification patterns between benthic and pelagic species. The species similarity clusters revealed a fragmentation between Gondwana and Laurasia for shallow benthic species. However, the similarity between pelagic amphipod communities is more compatible with ecological parameters. Generalized Additive Models (GAMs) highlighted that environmental variables play a significant role in species distributions, for example, temperature and chlorophyll levels were the main predictors of species richness in shallow waters. However, a complete effect of multiple environmental variables is responsible for deep-sea species gradients. These findings are crucial information to be considered when managing the species richness and establishing conservation priorities for their habitats.

Mass spectrometry-based proteomic landscape of rice reveals a post-transcriptional regulatory role of N6-methyladenosine.

Rice is one of the most important staple food and model species in plant biology, yet its quantitative proteomes are largely uncharacterized. Here we quantify the relative protein levels of over 15,000 genes across major rice tissues using a tandem mass tag strategy followed by intensive fractionation and mass spectrometry. We identify tissue-specific and tissue-enriched proteins that are linked to the functional specificity of individual tissues. Proteogenomic comparison of rice and Arabidopsis reveals conserved proteome expression, which differs from mammals in that there is a strong separation of species rather than tissues. Notably, profiling of N6-methyladenosine (m6A) across the rice major tissues shows that m6A at untranslated regions is negatively correlated with protein abundance and contributes to the discordance between RNA and protein levels. We also demonstrate that our data are valuable for identifying novel genes required for regulating m6A methylation. Taken together, this study provides a paradigm for further research into rice proteogenome.

Некоторые особенности биологии редкого эндемичного вида Arafoe aromatica Pimenov &amp; Lavrova на территории Рицинского реликтового национального парка (Республика Абхазия)

For the first time, the features of rare endemic species of Caucasus Arafoe aromatica biology in the Ritsa Strict Nature Reserve (Republic of Abkhazia) were studied. The age, vitality structure of coenopopulations (CP) and the variability of morphometric parameters were determined. The study was carried out using standard methods of population biology. The variability of morphometric parameters was studied on 25 middle-aged plants in each CP. The CP density is low (1–2.6 ind./m2). According to the delta-omega classification, one CP is transitional, and one is mature. Most of the morphological features are characterized by a normal degree of variation (14.7–37.0%). Vitality analysis showed that one CP is prosperous, the other is depressed. The state of the studied A. aromatica coenopopulations is satisfactory. Anthropogenic disturbances lead to a decrease in the number and seed productivity, worsening conditions for seed germination and renewal processes. To preserve the rare species, it is necessary to limit the anthropogenic load in the places of growth, prohibit the collection of plants by the population, monitor and control the CP state.

Spatiotemporal Characteristics Determining the Multifaceted Nature of Reactive Oxygen, Nitrogen, and Sulfur Species in Relation to Proton Homeostasis.

Significance: Reactive oxygen species (ROS), reactive nitrogen species (RNS), and reactive sulfur species (RSS) act as signaling molecules, regulating gene expression, enzyme activity, and physiological responses. However, excessive amounts of these molecular species can lead to deleterious effects, causing cellular damage and death. This dual nature of ROS, RNS, and RSS presents an intriguing conundrum that calls for a new paradigm. Recent Advances: Recent advancements in the study of photosynthesis have offered significant insights at the molecular level and with high temporal resolution into how the photosystem II oxygen-evolving complex manages to prevent harmful ROS production during the water-splitting process. These findings suggest that a dynamic spatiotemporal arrangement of redox reactions, coupled with strict regulation of proton transfer, is crucial for minimizing unnecessary ROS formation. Critical Issues: To better understand the multifaceted nature of these reactive molecular species in biology, it is worth considering a more holistic view that combines ecological and evolutionary perspectives on ROS, RNS, and RSS. By integrating spatiotemporal perspectives into global, cellular, and biochemical events, we discuss local pH or proton availability as a critical determinant associated with the generation and action of ROS, RNS, and RSS in biological systems. Future Directions: The concept of localized proton availability will not only help explain the multifaceted nature of these ubiquitous simple molecules in diverse systems but also provide a basis for new therapeutic strategies to manage and manipulate these reactive species in neural disorders, pathogenic diseases, and antiaging efforts.

Species

This article discusses the many usages and meanings of the term species in biology, as currently applied (1) to named taxa such as Homo sapiens and Panthera tigris, (2) to a rank (usually but not necessarily the lowest and/or the most fundamental one) of the biological classification, and (3) as a variegated set of notions, the most important among them being the morphospecies, the biospecies, the ecospecies, the evolutionary species, the agamospecies and the taxonomic species. The debatable relationship between the Aristotelian “definition by species and genus” and the historical roots of the usage of genus and species as basic ranks in biological classification are outlined, as are the historical roots of the scientific nomenclature applied to biological species.

Phenacylselenoesters allow facile selenium transfer and hydrogen selenide generation.

Hydrogen selenide (H2Se) is a precursor to several selenium-containing biomolecules and is emerging as an important redox-active species in biology, with yet to be completely characterized roles. Tools that reliably generate H2Se are key to achieving a better understanding of selenium biology. Here, we report the design, synthesis and evaluation of phenacylselenoesters as sources of H2Se. These compounds are prepared in two steps from commercial compounds, some are crystalline solids, and all are stable during storage. In the presence of esterase and a thiol in pH 7.4 buffer, these compounds produce H2Se, with half-lives of 5-20 min. We developed a colorimetric assay for the detection of gaseous H2Se by trapping it as zinc selenide (ZnSe), which is then converted to lead selenide (PbSe), which serves as a convenient visual indicator for this gas. The major organic products that are formed in nearly quantitative yields are relatively benign ketones and carboxylic acids. We provide evidence for these donors producing a thioselenide, a key intermediate in biological selenium metabolism. Finally, we compared sulfur and selenium transfer, both critical processes in cells. Phenacylthiol is relatively stable to cleavage by a thiol, and requires a sulfurtransferase enzyme to produce a persulfide and H2S. By contrast, the selenium analogue reacted with a thiol in the absence of this enzyme to produce H2Se. This result underscores the greater lability of the C-Se bond as compared with a C-S bond, and may have implications in biological selenium transfer. Together, phenacylselenoesters are easy to prepare, stable and generate H2Se under mild and biocompatible conditions. We anticipate that these will be valuable additions to the growing selenium redox toolbox.

Persulfidation of plant and bacteroid proteins is involved in legume nodule development and senescence.

Legumes establish symbiosis with rhizobia, forming nitrogen-fixing nodules. The central role of reactive oxygen species (ROS) and reactive nitrogen species (RNS) in nodule biology has been clearly established. Recently, hydrogen sulfide (H2S) and other reactive sulfur species (RSS) have emerged as novel signaling molecules in animals and plants. A major mechanism by which ROS, RNS, and RSS fulfil their signaling role is the post-translational modification of proteins. To identify possible functions of H2S in nodule development and senescence, we used the tag-switch method to quantify changes in the persulfidation profile of common bean (Phaseolus vulgaris) nodules at different developmental stages. Proteomic analyses indicate that persulfidation plays a regulatory role in plant and bacteroid metabolism and senescence. The effect of a H2S donor on nodule functioning and on several proteins involved in ROS and RNS homeostasis was also investigated. Our results using recombinant proteins and nodulated plants support a crosstalk among H2S, ROS, and RNS, a protective function of persulfidation on redox-sensitive enzymes, and a beneficial effect of H2S on symbiotic nitrogen fixation. We conclude that the general decrease of persulfidation levels observed in plant proteins of aging nodules is one of the mechanisms that disrupt redox homeostasis leading to senescence.

The cutaneous stress response system in three-spined stickleback and European flounder exposed to oxidative stress: Different mode of action

In fish, the skin is directly exposed to multiple environmental stressors and provides the first line of defense against harmful external factors. It turned out that cortisol and melatonin (Mel) are involved in fish cutaneous stress response system (CSRS) similar to mammalian. This study investigates the mode of action of CSRS in two teleost species of different biology and skin characteristics, the three-spined stickleback and the European flounder, after exposure to oxidative stress induced by a potassium dichromate solution. The cutaneous stress response system presents different ways of action in two studied species: Mel concentration increases in the skin of both species, but cortisol concentration increases in the skin only in sticklebacks. Data suggest that stickleback skin cells can produce cortisol. However, cortisol is not involved in the response to oxidative stress in flounders. In stickleback skin, two genes encoding AANAT and ASMT/HIOMT (enzymes involved in Mel synthesis), aanat1a and asmt2, are expressed, but in flounder skin, only one, asmtl. Because gene expression does not change in stickleback skin after exposure to stress, the source of increased Mel is probably outside the skin. A lack of expression of the gene encoding AANAT in flounder skin strongly suggests that Mel is transported to the skin by the bloodstream from other sites of synthesis. Pigment dispersion in the skin after exposure to oxidative stress is found only in sticklebacks.

한국 근현대 과학자에 대한 대학생의 인식

This study explores university students' understanding of two Korean modern scientists, Jeong Yak-jun and Seok Ju-myeong, in relation to the concept of species in biology. Participants wrote chronicles about three scientists, including Darwin, based on various possible materials including online websites. While the chronicles on Darwin showed details of research and colleagues interacted, those on Jeong Yak-jun and Seok Ju-myeong focused more on the ‘pain of the times’ and their personal lives. The study suggests that engaging in chronicle writing about Korean modern scientists can stimulate students' curiosity about other scientific enterprise of the same time period, as well as understanding of the nature of science. However, participants' alternative worldview performed as an obstacle in understanding and interpreting their scientific works.

Assessing the aesthetic attractivity of European butterflies: A web-based survey protocol.

Aesthetic attractivity stands as an underestimated yet fundamental feature of species in conservation biology, significantly driving disproportionate protection efforts towards charismatic species. Despite the evidence, few attempts sought to precisely quantify the impact of aesthetic attractivity in defining priority of species for conservation actions (e.g. inclusion in International Union for Conservation of Nature red lists and protection lists). This study protocol describes the setting of an online test (available from April 2022 to April 2023 at www.unveiling.eu) designed to i) quantify the aesthetic attractivity to humans of the 496 European butterfly species and ii) identify which features (both in the perceived animal and in the perceiver) influence the aesthetic attractivity of a given butterfly species. The test is divided in 5 sections (personal data, ranking, single morphological features, emotional engagement, dispositional variables) aimed at profiling the relation each participant has with the species examined. In the long-term, evaluating butterflies' aesthetic attractivity could facilitate the critical assessment of current conservation strategies, such as the process of selection of flag and umbrella species by research institutions, environmental associations and Non Governative Organizations. This is expected to provide the much-needed evidence to set up unbiased biodiversity conservation strategies and counteract the selective anthropogenic pressure which favours the extinction of unattractive species, being no or less protected compared to charismatic species.

Triple electroantennography captures the range and spatial arrangement of olfactory sensory neuron response on an insect antenna

BackgroundElectroantennography (EAG) is a basic neuroscientific tool that is widely used to measure olfactory responses in insects. It is particularly adapted to probing the olfactory systems of non-model insect species in chemical ecology and evolutionary biology. As currently practiced, EAG measures have varying degrees of correlation with olfactory responses, especially for insects whose olfactory sensory neurons (OSNs) are arranged in zones on the antennae. This limitation was shown to be partly due to the fact that only a single antennal position was recorded. New methodsWe describe a setup using triple electroantennography (EAG3), whereby three antennal positions are recorded simultaneously. The spatial arrangement of the electrodes ensures the mechanical stability of the assembly. The EAG3 detector was coupled to a gas chromatograph (GC-EAD3), customized using a Dean’s switch to improve the EAG signals by chopper modulation. EAG3 signals were analysed through a current point model to estimate olfactory responses across the antenna. ResultsRecordings were performed on Tephritidae and Drosophila species, which have antennae of different shapes and sizes. We confirmed that the spatio-temporal pattern of antennal activation was stimulus dependent and allowed us to quantify the antennal olfactory response. Comparisons with existing methodCompared to typical single-probe EAG, we show that EAG3 improves response quantification and increases the range of compounds for which a sensory response is detected. ConclusionsOur EAG3 setup is an original low-cost and easy-to-use method. It offers a useful bridge between comprehensive neurophysiological investigations and the broader themes explored in chemical ecology.

A class of bijective Lotka–Volterra operators and its application

It is well known that any classical Lotka–Volterra (LV) operator (associated with quadratic stochastic operator) defined on the simplex is a homeomorphism. On the other hand, more general LV systems have important applications in the time evolution of conflicting species in biology. It is natural to study the bijectivity of such kind of LV operators. There is an example of a LV operator which is not injective. In this paper, we introduce a class of LV operators that are bijective. As an application of our result, the existence and uniqueness of solution of a class of Hammerstein integral equations is proved.

Evaluation of floral volatile patterns in the genus Narcissus using gas chromatography-coupled ion mobility spectrometry.

Daffodils (Narcissus, Amaryllidaceae) are iconic ornamentals with a complex floral biology and many fragrant species; however, little is known about floral plant volatile organic compounds (pVOCs) across the genus and additional sampling is desirable. The present study investigates whether the floral scent of 20 species of Narcissus can be characterized using gas chromatography-coupled ion mobility spectrometry (GC-IMS), with the aim of building a comparative pVOC data set for ecological and evolutionary studies. We used a commercial GC-IMS equipped with an integrated in-line enrichment system for a fast, sensitive, and automated pVOC analysis. This facilitates qualitative and (semi)-quantitative measurements without sample preparation. The GC-IMS provided detailed data on floral pVOCs in Narcissus with very short sampling times and without floral enclosure. A wide range of compounds was recorded and partially identified. The retrieved pVOC patterns showed a good agreement with published data, and five "chemotypes" were characterized as characteristic combinations of floral volatiles. The GC-IMS setup can be applied to rapidly generate large amounts of pVOC data with high sensitivity and selectivity. The preliminary data on Narcissus obtained here indicate both considerable pVOC variability and a good correspondence of the pVOC patterns with infrageneric classification, supporting the hypothesis that floral scent could represent a considerable phylogenetic signal.

Drivers of change in Arctic fjord socio-ecological systems: Examples from the European Arctic

AbstractFjord systems are transition zones between land and sea, resulting in complex and dynamic environments. They are of particular interest in the Arctic as they harbour ecosystems inhabited by a rich range of species and provide many societal benefits. The key drivers of change in the European Arctic (i.e., Greenland, Svalbard, and Northern Norway) fjord socio-ecological systems are reviewed here, structured into five categories: cryosphere (sea ice, glacier mass balance, and glacial and riverine discharge), physics (seawater temperature, salinity, and light), chemistry (carbonate system, nutrients), biology (primary production, biomass, and species richness), and social (governance, tourism, and fisheries). The data available for the past and present state of these drivers, as well as future model projections, are analysed in a companion paper. Changes to the two drivers at the base of most interactions within fjords, seawater temperature and glacier mass balance, will have the most significant and profound consequences on the future of European Arctic fjords. This is because even though governance may be effective at mitigating/adapting to local disruptions caused by the changing climate, there is possibly nothing that can be done to halt the melting of glaciers, the warming of fjord waters, and all of the downstream consequences that these two changes will have. This review provides the first transdisciplinary synthesis of the interactions between the drivers of change within Arctic fjord socio-ecological systems. Knowledge of what these drivers of change are, and how they interact with one another, should provide more expedient focus for future research on the needs of adapting to the changing Arctic.

Quantification of underwater calling and foraging activities in the African clawed frog Xenopus laevis

Abstract Aquatic anuran species are difficult to detect and observe and this is a major limit to the study of their behaviour and ecology. This habit limits the direct monitoring of sexual and foraging activity, and the investigation of how environmental factors influence their expression as well as how individuals allocate time between competing activities. We investigated this issue in Xenopus laevis, a mostly aquatic frog that forages and emits calls underwater. This model species in biology has been extensively studied in the lab but its behaviour in nature remains poorly described. We carried out a study in a pond during the breeding season in the French invasive range. We recorded underwater vocal activity as a proxy for sexual activity using a hydrophone, set food-baited traps to quantify foraging activity, and recorded environmental conditions (moonlight intensity, temperature and rainfall) over two lunar cycles. We found that individuals engage in these two activities during the breeding season. At the peak of the breeding period, vocal activity was expressed during the day. The investment in reproduction (calling activity) may reduce the time allocated to foraging on a circadian scale. The two activities seem to be partitioned depending on moonlight intensity, with a stronger effect on males. Foraging activity decreased and vocal activity increased when moonlight intensity increased. We also observed a negative effect of temperature and a positive effect of rainfall on vocal activity only. Our method is promising to monitor the activity of other aquatic anurans.

Corrigendum: Synthetic Biology and Endangered Species: Should Scientists Genetically Rewire Nature to Save Species and Habitats?

Corrigendum: Synthetic Biology and Endangered Species: Should Scientists Genetically Rewire Nature to Save Species and Habitats?

Thermal stress and mutation accumulation increase heat shock protein expression in Daphnia

Understanding the short- and long-term consequences of climate change is a major challenge in biology. For aquatic organisms, temperature changes and drought can lead to thermal stress and habitat loss, both of which can ultimately lead to higher mutation rates. Here, we examine the effect of high temperature and mutation accumulation on gene expression at two loci from the heat shock protein (HSP) gene family, HSP60 and HSP90. HSPs have been posited to serve as ‘mutational capacitors’ given their role as molecular chaperones involved in protein folding and degradation, thus buffering against a wide range of cellular stress and destabilization. We assayed changes in HSP expression across 5 genotypes of Daphnia magna, a sentinel species in ecology and environmental biology, with and without acute exposure to thermal stress and accumulated mutations. Across genotypes, HSP expression increased ~ 6× in response to heat and ~ 4× with mutation accumulation, individually. Both factors simultaneously (lineages with high mutation loads exposed to high heat) increased gene expression ~ 23×—much more than that predicted by an additive model. Our results corroborate suggestions that HSPs can buffer against not only the effects of heat, but also mutations—a combination of factors both likely to increase in a warming world.

A mitochondria-targeted fluorescent probe with large Stokes shift for rapid detection of hypochlorite and its application in living cells

Hypochlorite (ClO−), which is an important reactive oxygen species (ROS) in biology, has attracted scientific attention. Intracellular ClO− are mainly produced in mitochondria. While many studies have shown that ClO− can be detected in mitochondria, low background signal interference fluorescent probes for detecting endogenous ClO− in mitochondria are still lacking. It is crucial to design a fluorescent probe with a large Stocks shift for rapid detection of ClO− in mitochondria in this regard. In this work, we have synthesized the probe PCH that can detect ClO− in the mitochondria. The probe PCH can target mitochondria and has fast response speed, high selectivity, large Stocks shift and low detection limitation. Utilizing this probe, we have been able to detect mitochondrial ClO− endogenously and exogenously. According to our study results, probe PCH can be used as a satisfactory imaging tool for detecting ClO− and can be used as a tool for exploring the complex physiological functions of ClO−.

Retrospective Detection and Complete Genomic Sequencing of Canine morbillivirus in Eurasian Otter (Lutra lutra) Using Nanopore Technology.

The Eurasian otter (Lutra lutra) is a piscivorous apex predator in aquatic habitats, and a flagship species of conservation biology throughout Europe. Despite the wide distribution and ecological relevance of the species, there is a considerable lack of knowledge regarding its virological and veterinary health context, especially in Central Europe. Canine morbillivirus (Canine distemper virus (CDV)) is a highly contagious viral agent of the family Paramyxoviridae with high epizootic potential and veterinary health impact. CDV is present worldwide among a wide range of animals; wild carnivores are at particular risk. As part of a retrospective study, lung-tissue samples (n = 339) from Eurasian otters were collected between 2000 and 2021 throughout Hungary. The samples were screened for CDV using a real-time RT-PCR method. Two specimens proved positive for CDV RNA. In one sample, the complete viral genome was sequenced using a novel, pan-genotype CDV-specific amplicon-based sequencing method with Oxford Nanopore sequencing technology. Both viral sequences were grouped to a European lineage based on the hemagglutinin-gene phylogenetic classification. In this article, we present the feasibility of road-killed animal samples for understanding the long-term dynamics of CDV among wildlife and provide novel virological sequence data to better understand CDV circulation and evolution.