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Indolenine-based heptamethine cyanine dye adsorbed on silica gel shows vapochromism to amines or chlorinated solvents, leading to a color change.

International audience; A large part of the soil protist diversity is missed in metabarcoding studies based on 0.25 g of soil environmental DNA (eDNA) and universal primers due to ca. 80% co-amplification of non-target plants, animals and fungi. To overcome this problem, enrichment of the substrate used for eDNA extraction is an easily implemented option but its effect has not yet been tested. In this study, we evaluated the effect of a 150 μm mesh size filtration and sedimentation method to improve the recovery of protist eDNA, while reducing the co-extraction of plant, animal and fungal eDNA, using a set of contrasted forest and alpine soils from La Réunion, Japan, Spain and Switzerland. Total eukaryotic diversity was estimated by V4 18S rRNA metabarcoding and classical amplicon sequence variant calling. A 2- to 3- fold enrichment in shelled protists (Euglyphida, Arcellinida and Chrysophyceae) was observed at the sample level with the proposed method, with, at the same time, a 2-fold depletion of Fungi and a 3- fold depletion of Embryophyceae. Protist alpha diversity was slightly lower in filtered samples due to reduced coverage in Variosea and Sarcomonadea, but significant differences were observed in only one region. Beta diversity varied mostly between regions and habitats, which explained the same proportion of variance in bulk soil and filtered samples. The increased resolution in soil protist diversity estimates provided by the filtration-sedimentation method is a strong argument in favour of including it in the standard protocol for soil protist eDNA metabarcoding studies

Incomplete sampling of species’ geographic distributions has challenged biogeographers for many years to precisely quantify global-scale biodiversity patterns. After correcting for the spatial inequality of sample completeness, we generated a global species diversity map for woody angiosperms (82,974 species, 13,959,780 occurrence records). The estimated diversity demonstrated non-linear latitudinal and longitudinal patterns that were potentially related to region-specific biogeographic factors including current climate, paleoclimate, and topographical factors, while energy availability was the most important predictor at a global level. We identified the areas with potentially high species richness and rarity, but poorly explored, unprotected, and threatened by deforestation: they are distributed mostly at low latitudes across central South America, central Africa, subtropical China, and Indomalayan islands. These priority areas for botanical exploration would help to efficiently fill spatial knowledge gaps for better describing the status of biodiversity and improve the effectiveness of the protected area network for global woody plant conservation.TeaserBias-corrected diversity map based on occurrence records sheds new light on global macroecology and conservation of woody angiosperms.

A large part of the soil protist diversity is missed in metabarcoding studies based on 0.25 g of soil environmental DNA (eDNA) and universal primers due to ca. 80 % co-amplification of non-target plants, animals and fungi. To overcome this problem, enrichment of the substrate used for eDNA extraction is an easyly implemented option but its effect has not yet been tested. In this study, we evaluated the effect of a 150 µm mesh size filtration and sedimentation method to improve the recovery of protist eDNA, while reducing the co-extraction of plant, animal and fungal eDNA, using a set of contrasted forest and alpine soils from La Réunion, Japan, Spain and Switzerland. Biodiversity of the whole eukaryotic community was estimated with V4 18S rRNA metabarcoding and classical amplicon sequence variant calling. A 2-3-fold enrichment in shelled protists (Euglyphida, Arcellinida and Chrysophyceae) was observed at the sample level with the proposed method, with, at the same time, a 2-fold depletion of Fungi and a 3-fold depletion of Embryophyceae. Protist alpha diversity was slightly lower in filtered samples due to reduced coverage in Variosea and Sarcomonadea, but significant differences were observed in only one region. Beta diversity was mostly impacted by region and habitat, and explained the same variance in bulk soil and filtered samples. The increase resolution in the soil protist diversity provided by the filtration-sedimentation method is a strong argument to include it in the standard preparation of any future soil for protist eDNA metabarcoding studies.

Research on island species–area relationships (ISAR) has expanded to incorporate functional (IFDAR) and phylogenetic (IPDAR) diversity. However, relative to the ISAR, we know little about IFDARs and IPDARs, and lack synthetic global analyses of variation in form of these three categories of island diversity–area relationship (IDAR). Here, we undertake the first comparative evaluation of IDARs at the global scale using 51 avian archipelagic data sets representing true and habitat islands. Using null models, we explore how richness-corrected functional and phylogenetic diversity scale with island area. We also provide the largest global assessment of the impacts of species introductions and extinctions on the IDAR. Results show that increasing richness with area is the primary driver of the (non-richness corrected) IPDAR and IFDAR for many data sets. However, for several archipelagos, richness-corrected functional and phylogenetic diversity changes linearly with island area, suggesting that the dominant community assembly processes shift along the island area gradient. We also find that archipelagos with the steepest ISARs exhibit the biggest differences in slope between IDARs, indicating increased functional and phylogenetic redundancy on larger islands in these archipelagos. In several cases introduced species seem to have ‘re-calibrated’ the IDARs such that they resemble the historic period prior to recent extinctions. info:eu-repo/semantics/publishedVersion

Despite being regioisomers, unsymmetrical 1,4-dihydropyrrolo[3,2-b]pyrroles 5 and 6 showed significantly different absorption and fluorescence properties due to the difference of the resonance structure between 5 and 6.

The synthesis of luminescent molecular crystalline materials requires a good understanding of the luminescence properties of crystals in which many molecules are densely packed. Previously, we studied the near-infrared (NIR) luminescence of a trivalent ytterbium (Yb(iii)) complex with a Schiff base ligand, tris[2-(5-methylsalicylideneimino)ethyl]amine (H

Herein, introducing multiple fluorine atoms into aromatic rings of trimethine cyanine dyes is proposed as a powerful method for dramatically increasing sensitivity to amines. The highly sensitive ratiometric fluorescence properties previously available only by intramolecular addition can be exploited in reactions with intermolecular amines or other nucleophiles.

A one-step route to a series of perfluoronaphthalene-based donor (D)-acceptor (A)-D fluorescent dyes with various electron-donating groups was developed. The perfluoronaphthalene moiety in the D-A-D dyes served as a good electron-accepting aromatic ring with excellent intramolecular charge transfer properties, as determined by density functional theory calculations and measurements of the fluorescence properties in solution, in poly(methyl methacrylate) (PMMA) films, and in crystal form. Notably, replacing the naphthalene ring with perfluoronaphthalene in the D-A-D dyes carrying the phenothiazine moiety not only stabilized the highest occupied molecular orbital and lowest unoccupied molecular orbital energy levels but also reduced the energy band gap to change the emission color from blue to yellow. Among the four synthesized perfluoronaphthalene D-A-D dyes, those bearing diphenylamino groups afforded the best fluorescence quantum yields in Et

Understanding the mechanisms of biological invasion is fundamental for biodiversity conservation in the Anthropocene. This study focused on a large-scale colonization pattern of exotic seed plants, which include 1094 species characterized by different geographical origins, into the insular flora of Japan. We investigated a nation-wide pattern of species richness and phylogenetic structure (clustering/over-dispersion) of exotic and its recipient native species (4664 species). We tested the invasion hypotheses associated with environmental filtering, biological resistance of recipient assemblages, human disturbance and biogeographical origins of exotics. The exotics originated from the same (Palearctic and Indo-Malay) and adjacent (Nearctic and Oceanic) biogeographical regions were widely distributed across the country under temperate climate condition, whereas tropical exotic plants from remote regions (Afrotropic, Australasian, and Neotropical) colonized mainly the south-western parts of Japan. Exotic species richness and phylogenetic structure, especially those from the same/adjacent regions, were well explained by climatic, edaphic, and topographic factors, supporting the environmental filtering hypothesis. For all the biogeographical origins, exotic richness was positively associated with native richness, opposing the biological resistance hypothesis. Human disturbance was positively associated with exotic richness, while its relationships with the exotics’ phylogenetic structure varied according to their biogeographical origins. These findings indicate that site’s invasibility was determined by the combination of exotic’s biogeographical origins and abiotic/biotic conditions of its recipient native flora. Our results suggest that global warming may accelerate the northward expansion of tropical exotic plants while future land-use changes can promote biological invasion regardless of exotics’ origins.

Thus far, only a few methods for the asymmetric synthesis of erythritols bearing a trifluoromethyl group have been developed, and these methods present serious disadvantages such as the requirement of multiple steps for the preparation of their starting materials, low stereoselectivity, and the use of highly toxic reagents. Herein, we have developed a highly diastereo- and enantioselective organocatalytic method to synthesise erythritols bearing a trifluoromethyl group using (1) a commercially available organocatalyst to produce unstable trifluoroacetaldehyde in situ from its corresponding hemiacetal, followed by the simultaneous asymmetric carbon–carbon bond-forming reaction of the organocatalyst with an in situ-generated chiral enamine derived from 2,2-dimethyl-1,3-dioxane-5-one to obtain the corresponding aldol product in good yield (65–80%) with high diastereoselectivity (up to 94% de) and excellent enantioselectivity (up to >98% ee), (2) the highly diastereoselective reduction of the ketone moiety in the aldol product (up to 98% de), and (3) the deprotection of the acetal moiety.

We prepared Ln(III) (Ln=Eu, Gd, and Yb) complexes with a tripodal Schiff base, tris[2‐(5‐methylsalicylideneimino)ethyl]amine (H3L) and studied their photophysical properties. Upon ligand excitation, YbL showed Yb(III)‐centered luminescence in the near‐infrared region. While the overall quantum yield (0.60(1)%) of YbL in acetonitrile was moderate among the reported values for Yb(III) complexes, its radiative lifetime (0.33(2) ms) was significantly shorter than those reported previously. We propose that the ligand‐to‐metal charge‐transfer (LMCT) state mediated the sensitization in YbL. The emission and excitation spectra of EuL indicated the participation of the LMCT state in the sensitization. The radiative lifetime (0.84(7) ms) for EuL in the solid state was rather short compared to those of reported Eu(III) complexes. Our results show that the Yb(III) complex with the Schiff base ligand has two features: the short radiative lifetime and the non‐triplet sensitization path., A seven‐coordinated Yb(III) complex with a tripodal Schiff base exhibited efficient luminescence in the near‐infrared region with an extremely short radiative lifetime. The sensitization process for the Yb(III) complex was explained by the ligand‐to‐metal charge‐transfer state mediated mechanism.

The study of island community assembly has been fertile ground for developing and testing theoretical ideas in ecology and evolution. The ecoevolutionary trajectory of lineages after colonization has been a particular interest, as this is a key component of understanding community assembly. In this system, existing ideas, such as the taxon cycle, posit that lineages pass through a regular sequence of ecoevolutionary changes after colonization, with lineages shifting toward reduced dispersal ability, increased ecological specialization, and declines in abundance. However, these predictions have historically been difficult to test. Here, we integrate phylogenomics, population genomics, and X‐ray microtomography/3D morphometrics, to test hypotheses for whether the ecomorphological diversity of trap‐jaw ants (Strumigenys) in the Fijian archipelago is assembled primarily through colonization or postcolonization radiation, and whether species show ecological shifts toward niche specialization, toward upland habitats, and decline in abundance after colonization. We infer that most Fijian endemic Strumigenys evolved in situ from a single colonization and have diversified to fill a large fraction of global morphospace occupied by the genus. Within this adaptive radiation, lineages trend to different degrees toward high elevation, reduced dispersal ability, and demographic decline, and we find no evidence of repeated colonization that displaces the initial radiation. Overall these results are only partially consistent with taxon cycle and associated ideas, while highlighting the potential role of priority effects in assembling island communities.

Trait-based functional ecology plays a key role for valuing biodiversity, based on the mechanistic link between species assembly and ecosystem-services. To evaluate the vulnerability of valuable biodiversity to human impacts, this study focused on assemblages of tree species with timber provisioning services and investigated the functional response of their utilitarian traits to forest exploitation. We first merged traditional knowledge of timber use, successional niche, and functional traits of tree species across forest biomes in Japan. Using leaf and wood traits of 514 tree species, we quantified macro-scale patterns of functional identity, richness, and divergence for the timber species and entire tree assemblages in Japan. At the 10-km grid cell level, we conducted a species loss simulation that assumed forest exploitation, in which later successional species were step-wisely removed from the potential tree assemblages. The simulation showed that species loss led to shifting functional identity and changes in functional richness and divergence. Such responses of functional structure were geographically associated with region-specific redundancy or complementarity in tree species assemblages. Specifically, the shift of functional identities was prominent in high latitudes with low species loss and low latitude with higher species loss. The utilitarian value of tree species in higher latitude forests was more closely associated with their ecological niche and functional uniqueness, which indicates vulnerability of trait space to species loss. The changes in trait space, which were associated with non-random species loss, were context-dependently influenced by climate conditions and species pool size. Our findings indicate that the insurance effect of biodiversity was a region-specific feature of forest biomes. We conclude that ethnobotany-informed trait ecology can elucidate the valuable biodiversity for human culture and its vulnerability to species loss; this information is essential for sustainable use of biodiversity resources in human society.

Background Intraoperative neurophysiological monitoring is essential in neurosurgical procedures. In this study, we built and evaluated the performance of a deep neural network in differentiating between the presence and absence of a lateral spread response, which provides critical information during microvascular decompression surgery for the treatment of hemifacial spasm using intraoperatively acquired electromyography images. Methods and findings A total of 3,674 image screenshots of monitoring devices from 50 patients were prepared, preprocessed, and then adopted into training and validation sets. A deep neural network was constructed using current-standard, off-the-shelf tools. The neural network correctly differentiated 50 test images (accuracy, 100%; area under the curve, 0.96) collected from 25 patients whose data were never exposed to the neural network during training or validation. The accuracy of the network was equivalent to that of the neuromonitoring technologists (p = 0.3013) and higher than that of neurosurgeons experienced in hemifacial spasm (p < 0.0001). Heatmaps obtained to highlight the key region of interest achieved a level similar to that of trained human professionals. Provisional clinical application showed that the neural network was preferable as an auxiliary tool. Conclusions A deep neural network trained on a dataset of intraoperatively collected electromyography data could classify the presence and absence of the lateral spread response with equivalent performance to human professionals. Well-designated applications based upon the neural network may provide useful auxiliary tools for surgical teams during operations.

To reframe the imperfect review processes of nation-scale actions on area-based conservation through protected area (PA) networks, we first created novel infrastructure to visualize nation-level biodiversity information in Japan. We then assessed the performance of the existing PA network relative to land exploitation pressure and evaluated conservation effectiveness of PA expansion for the post-2020 Global Biodiversity Framework. The Zonation algorithm was used to spatially prioritize conservation areas to minimize biodiversity loss and the extinction risk for 8,500 Japanese vascular plant and vertebrate species under constraints of the existing PA network and land use. The spatial pattern of the identified priority areas, which were considered candidate areas for expansion of the current PA network, was influenced by land-use types according to the mask layers of non-PAs, and low-, middle-, and high-ranked PAs. The current PA network reduced the aggregate extinction risk of multiple species by 36.6%. Indeed, the percentage of built-up areas in the existing PAs was in general smaller than that in the areas surrounding PAs. Notably, high-ranked PAs fully restrained built-up pressure (0.037% per 10 years), whereas low-ranked PAs in the national park and wild-life protection areas did not (1.845% per 10 years). Conservation effects were predicted to substantially improve by expansion of high-ranked (legally strict) PAs into remote non-PAs without population/socio-economic activities, or expansion of medium-ranked PAs into agriculture forestry satoyama and urban areas. A 30% land conservation target was predicted to decrease extinction risk by 74.1% when PA expansion was implemented across remote areas, satoyama, and urban areas; moreover, PA connectivity almost doubled compared with the existing PA network. In contrast, a conventional scenario showed that placing national parks in state-owned and non-populated areas would reduce extinction risk by only 4.0%. The conservation prioritization analyses demonstrated an effectiveness of using a comprehensive conservation approach that reconciles land-sparing protection and land-sharing conservation in other effective area-based conservation measures (OECM) in satoyama and urban green spaces. Our results revealed that complementary inclusion of various PAs interventions related to their governance and land-use planning plays a critical role in effectively preventing biodiversity loss and makes it more feasible to achieve ambitious conservation targets.

Aim: This work explores whether the commonly observed positive range size–niche breadth relationship exists for Fagus, one of the most dominant and widespread broad-leaved deciduous tree genera in temperate forests of the Northern Hemisphere. Additionally, we ask whether the 10 extant Fagus species’ niche breadths and climatic tolerances are under phylogenetic control. Location: Northern Hemisphere temperate forests. Taxon: Fagus L. Methods: Combining the global vegetation database sPlot with Chinese vegetation data, we extracted 107,758 relevés containing Fagus species. We estimated biotic and climatic niche breadths per species using plot-based co-occurrence data and a resource-based approach, respectively. We examined the relationships of these estimates with range size and tested for their phylogenetic signal, prior to which a Random Forest (RF) analysis was applied to test which climatic properties are most conserved across the Fagus species. Results: Neither biotic niche breadth nor climatic niche breadth was correlated with range size, and the two niche breadths were incongruent as well. Notably, the widespread North American F. grandifolia had a distinctly smaller biotic niche breadth than the Chinese Fagus species (F. engleriana, F. hayatae, F. longipetiolata and F. lucida) with restricted distributions in isolated mountains. The RF analysis revealed that cold tolerance did not differ among the 10 species, and thus may represent an ancestral, fixed trait. In addition, neither biotic nor climatic niche breadths are under phylogenetic control. Main Conclusions: We interpret the lack of a general positive range size–niche breadth relationship within the genus Fagus as a result of the widespread distribution, high among-region variation in available niche space, landscape heterogeneity and Quaternary history. The results hold when estimating niche sizes either by fine-scale co-occurrence data or coarse-scale climate data, suggesting a mechanistic link between factors operating across spatial scales. Besides, there was no evidence for diverging ecological specialization within the genus Fagus.

AIM: Understanding the causes and consequences of biological invasions remains a challenge for several disciplines, including biogeography. One major issue in overcoming this challenge is disentangling the confounding mechanisms of species invasiveness and community invasibility. Here, we tackle this issue by applying a novel approach based on the phylogenetic affinities between exotic species and natives in the recipient community to elucidate naturalization and pre‐adaptation processes. LOCATION: Japan. TAXON: Seed plants. METHODS: Geographical co‐occurrence data for 1,094 exotics and 4,869 native species (including 1,676 endemics) were created at the 10‐km grid‐cell and vegetation‐plot levels. For individual exotic species, standardized effect size of phylogenetic species variability (PSVSES) of the recipient native assemblage (i.e. phylogenetic fields) was calculated and its clustering/over‐dispersion was tested, representing exotic invasiveness in relation to invasibility of native recipients. To identify drivers of species invasiveness, the correlation of PSVSES with species attributes, involving phylogenetic distance between each exotic and native species, was explored. RESULTS: Phylogenetic fields (PSVSES) showed significant over‐dispersion (~16% exotics) or clustering (~14% exotics). Interspecific variation of PSVSES among exotics was substantially explained by species ecological attributes. Geographical extent and climatic niche widths were negatively correlated with PSVSES. Preference for human influence was positively correlated with PSVSES at the 10‐km grid‐cell level, but negatively at the vegetation‐plot level. Exotics colonized from the Palearctic and Indo‐Malay regions, which belong to the same biogeographical region as East Asia, tended to have clustered phylogenetic fields. MAIN CONCLUSIONS: Environmental filtering and biotic sorting both played a key role in exotic plant colonization, supporting both of Darwin's contradictory hypotheses of naturalization versus pre‐adaptation. Clustered phylogenetic fields indicated that an exotic colonizes its recipient assemblage through abiotic filtering (i.e. pre‐adaptation); at the same time, phylogenetic over‐dispersion was indicative of naturalization for exotics that occupied a biotic niche space among native recipients (i.e. naturalization). Phylogenetic field patterns depended on species’ ecological attributes, including phylogenetic relatedness between exotics and recipient natives, especially reflecting invasibility at the local‐community level.