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In 2008, Ecuador recognized the Constitutional Rights of Nature in a global first. This recognition implies a major shift in the human-nature relationship, from one between a subject with agency (humans) and an exploitable object (nature), to a more equilibrated relationship. However, the lack of a standard legal framework has left room for subjective interpretations and variable implementation. The recent widespread concessioning of pristine ecosystems to mining industries has set up an unprecedented conflict and test of these rights. Currently, a landmark case involving Los Cedros Protected Forest and mining companies has reached the Constitutional Court of Ecuador. If Ecuador's highest Court rules in favor of Los Cedros and the Rights of Nature, it would set a legal precedent with enormous impact on biological conservation. Such a policy shift offers a novel conservation strategy, through citizen oversight and action. A ruling against Los Cedros and the Rights of Nature, while a major setback for biodiversity conservation, would be taken in stride by the active social movement supporting these goals, with the case likely moving into international courts. Meanwhile, extractive activities would continue and expand, with known consequences for biodiversity. [ABSTRACT FROM AUTHOR]

We describe a new species of terrestrial-breeding frog of the genus Noblella from the northwestern slopes of the Andes of Ecuador, in the province of Pichincha, Ecuador, and report a new locality for the recently described N. worleyae. We include a detailed description of the osteology of both species and discuss their phylogenetic relationships. The new species is differentiated from other species of Noblella by having discs of fingers rounded, without papillae; distal phalanges only slightly T-shaped; toes slightly expanded and rounded distally, without papillae; dorsum uniform brown with irregular suprainguinal dark brown marks; venter yellowish cream, ventral surfaces of legs and thighs reddish to brownish cream; and dark brown throat. The new locality for N. worleyae is located in Los Cedros Reserve, an area highly threatened by mining. We highlight the importance of protecting endemic species of small vertebrates in northwestern Ecuador. [ABSTRACT FROM AUTHOR]

Parental care is costly, thus theory predicts that parents should avoid caring for unrelated offspring. However, alloparenting has been reported in many taxa because it may increase the caregiver mating success or offspring survival. We experimentally investigated the existence of allopaternal care in two glassfrog species, Hyalinobatrachium chirripoi and Centrolene peristicta, and discussed possible costs and benefits. Males mated with multiple females and cared for clutches, while continued to call. In the field, we randomly placed unrelated clutches in the territory of males already caring for their clutches and in the territory of non-attending males. Attending males adopted unrelated clutches, whereas non-attending males abandoned their territories. Once males adopted unrelated offspring, they cared for all clutches in a similar frequency and gained new clutches. Alloparenting was context-dependent, as only males already caring for their clutches adopted unrelated ones. We suggest that steroid hormonal levels might mediate the adoption of unrelated offspring by attending males. Additionally, our results suggest that males do not directly discriminate between related and unrelated offspring. Alloparenting has been widely investigated in different vertebrates, except for amphibians. Thus, our study sheds light on the roles of alloparenting for offspring survival and mating success in this group. [ABSTRACT FROM AUTHOR]

Although most male frogs call to attract females, vocalizations alone can be ineffective long-range signals in certain environments. To increase conspicuousness and counter the background noise generated by rushing water, a few frog species around the world have evolved visual communication modalities in addition to advertisement calls. These species belong to different families on different continents: a clear example of behavioural convergent evolution. Until now, long-distance visual signalling has not been recorded for any species in the glassfrog family (Centrolenidae). Sachatamia orejuela , an exceptionally camouflaged glassfrog species found within the spray zone of waterfalls, has remained poorly studied. Here, we document its advertisement call for the first time — the frequency of which is higher than perhaps any other glassfrog species, likely an evolutionary response to its disruptive acoustic space — as well as a sequence of non-antagonistic visual signals (foot-flagging, hand-waving, and head-bobbing) that we observed at night. Resumen: Aunque la mayoría de las ranas macho vocalizan para atraer hembras, las vocalizaciones por sí solas pueden ser señales ineficaces de largo alcance en ciertos entornos. Para llamar más la atención y contrarrestar el ruido de fondo generado por el torrente de agua, algunas especies de ranas han desarrollado modalidades de comunicación visual, como la señalización con las extremidades y/o la cabeza, complementándola con llamadas de anuncio. Las especies que presentan estos comportamientos pertenecen a diferentes familias en diferentes continentes: un claro ejemplo de evolución convergente. Hasta ahora, la señalización visual a larga distancia no se ha registrado para ninguna rana de cristal (familia Centrolenidae). En esta publicación documentamos comportamientos de señalización en la rana de cristal Sachatamia orejuela. Al ser una especie con tendencia a camuflarse, encontrándose en las paredes rocosas dentro de la zona de rocío de las cascadas, S. orejuela sigue siendo poco estudiada, especialmente su comportamiento reproductivo. Aquí, documentamos por primera vez el canto de anuncio—cuya frecuencia es más alta que quizás cualquier otra especie de rana de cristal, probablemente como respuesta evolutiva al espacio acústico disruptivo—así como una secuencia no antagonista de señales visuales (movimiento de las extremidades anteriores y posteriores, y movimiento de la cabeza) en esta especie por la noche. [ABSTRACT FROM AUTHOR]

The genus Pristimantis diversified in the tropical Andes mountains and is the most speciose genus of terrestrial vertebrates. Pristimantis are notable among frogs in that they thrive at high elevations (>2,000 m) and are direct developers without a tadpole stage. Despite their ecological significance, little is known about the genetic and physiological traits enabling their success. We conducted transcriptomic analysis on seven Pristimantis species sampled across elevations in the Ecuadorean Andes to explore three hypotheses for their success: (i) unique genes are under selection relative to all other frogs, (ii) common selection occurs across all direct developers, or (iii) common selection occurs across all high-elevation frog clades. Comparative analysis with 34 frog species revealed unique positive selection in Pristimantis genes related to aerobic respiration, hemostasis, signaling, cellular transportation of proteins and ions, and immunity. Additionally, we detected positive selection across all direct developers for genes associated with oxygenase activity and metal ion binding. While many genes under selection in Pristimantis were not positively selected in other high-elevation frog species, we identified some shared genes and pathways linked to lipid metabolism, innate immunity, and cellular redox processes. We observed more positive selection in duplicated- versus single-copy genes, while relaxed purifying selection was prevalent in single-copy genes. Notably, copy number of an innate immunity complement gene was positively correlated with Pristimantis species elevation. Our findings contribute novel insights into the genetic basis of adaptation in Pristimantis and provide a foundation for future studies on the evolutionary mechanisms leading to direct development and coping with high elevations. [ABSTRACT FROM AUTHOR]

DNA barcoding, based on mitochondrial markers, is widely applied in species identification and biodiversity studies. The aim of this study was to establish a barcoding reference database of fishes inhabiting the Cube River from Western Ecuador in the Chocó-Darien Global Ecoregion (CGE), a threatened ecoregion with high diversity and endemism, and evaluate the applicability of using barcoding for the identification of fish species. Barcode sequences were obtained from seven orders, 17 families, 23 genera and 26 species, which were validated through phylogenetic analysis, morphological measurements, and literature review. Our results showed that 43% of fish species in this region are endemic, confirmed the presence of known species in the area, and included the addition of three new records of native (Hoplias microlepis, Rhamdia guatemalensis and Sicydium salvini) and an introduced species (Xiphophorus maculatus) to Ecuador. In addition, eight species were barcoded for the first time. Species identification based on barcoding and morphology showed discrepancy with species lists from previous studies in the CGE, suggesting that the current baseline of western fishes of Ecuador is still incomplete. Because this study analyzed fishes from a relatively small basin (165 km2), more molecular-based studies focusing on fish are needed to achieve a robust sequence reference library of species inhabiting Western Ecuador. The new sequences of this study will be useful for future comparisons and biodiversity monitoring, supporting the application of barcoding tools for studying fish diversity in genetically unexplored regions and to develop well-informed conservation programs. [ABSTRACT FROM AUTHOR]

Hyalinobatrachium is a behaviorally and morphologically conserved genus of Neotropical anurans, with several pending taxonomic problems. Using morphology, vocalizations, and DNA, a new species from the Amazonian lowlands of Ecuador is described and illustrated. The new species, Hyalinobatrachium yaku sp. n., is differentiated from all other congenerics by having small, middorsal, dark green spots on the head and dorsum, a transparent pericardium, and a tonal call that lasts 0.27-0.4 s, with a dominant frequency of 5219.3-5329.6 Hz. Also, a mitochondrial phylogeny for the genus is presented that contains the new species, which is inferred as sister to H. pellucidum. Conservation threats to H. yaku sp. n. include habitat destruction and/or pollution mainly because of oil and mining activities. [ABSTRACT FROM AUTHOR]

Abstract: Assembly of ecological communities is important for the conservation of ecosystems, predicting perturbation impacts, and understanding the origin and loss of biodiversity. We tested how amphibian communities are assembled by neutral and niche‐based mechanisms, such as habitat filtering. Species richness, β‐diversities, and reproductive traits of amphibians were evaluated at local scale in seven habitats at different elevation and disturbance levels in Wisui Biological Station, Morona‐Santiago, Ecuador, on the foothills of the Cordillera del Kutukú; and at regional scale using 109 localities across evergreen forests of Amazonia and its Andean slopes (0–3,900 m a.s.l.). At local scale, species composition showed strong differences among habitats, explained mainly by turnover. Reproductive modes occurred differently across habitats (e.g., prevalence of direct developers at high elevation, where breeding in ground level water disappears). At regional scale, elevation was the most important factor explaining the changes in species richness, reproductive trait occurrences, and biotic dissimilarities. Species number in all groups decreased with elevation except for those with lotic tadpoles and terrestrial reproduction stages. Seasonality, annual precipitation, and relative humidity partially explained the occurrence of some reproductive traits. Biotic dissimilarities were also mostly caused by turnover rather than nestedness and were particularly high in montane and foothill sites. Within lowlands, geographic distance explained more variability than elevation. Habitat filtering was supported by the different occurrence of reproductive traits according to elevation, water availability, and breeding microhabitats at both scales, as well as other assembly mechanisms based in biotic interactions at local scale. Human‐generated land use changes in Amazonia and its Andean slopes reduce local amphibian biodiversity by alteration of primary forests and loss of their microhabitats and the interaction network that maintains their unique amphibian assemblages with different reproductive strategies. [ABSTRACT FROM AUTHOR]

Geographic barriers and elevational gradients have long been recognized as important in species diversification. Here, we illustrate an example where both mechanisms have shaped the genetic structure of the Neotropical rainfrog, Pristimantis ornatissimus, which has also resulted in speciation. This species was thought to be a single evolutionary lineage distributed throughout the Ecuadorian Chocó and the adjacent foothills of the Andes. Based on recent sampling of P. ornatissimus sensu lato, we provide molecular and morphological evidence that support the validity of a new species, which we name Pristimantis ecuadorensis sp. nov. The sister species are elevational replacements of each other; the distribution of Pristimantis ornatissimus sensu stricto is limited to the Ecuadorian Chocó ecoregion (< 1100 m), whereas the new species has only been found at Andean localities between 1450–1480 m. Given the results of the Multiple Matrix Regression with Randomization analysis, the genetic difference between P. ecuadorensis and P. ornatissimus is not explained by geographic distance nor environment, although environmental variables at a finer scale need to be tested. Therefore this speciation event might be the byproduct of stochastic historic extinction of connected populations or biogeographic events caused by barriers to dispersal such as rivers. Within P. ornatissimus sensu stricto, morphological patterns and genetic structure seem to be related to geographic isolation (e.g., rivers). Finally, we provide an updated phylogeny for the genus, including the new species, as well as other Ecuadorian Pristimantis. [ABSTRACT FROM AUTHOR]

The Napo Basin in Ecuador is an important drainage of the Amazon Basin, the most biodiverse ecosystem for freshwater species. At the same time, this basin has conspicuous information gaps on its biodiversity patterns and human threats. Here, we estimated the diversity distribution patterns of freshwater vertebrates and invertebrates in the Napo Basin, as a tool for present and future management and conservation efforts. Also, we assessed the spatial congruence of the diversity patterns observed between aquatic vertebrates and invertebrates. For this, we compiled occurrence records for 481 freshwater vertebrate species (amphibians, birds, mammals, reptiles, and fish), and 54 invertebrate families obtained across an altitudinal gradient of the basin (200–4500 m). Using these occurrence records and environmental variables, we modeled the distribution of each vertebrate species and invertebrate family. Then, we stacked these distributions to build species richness maps for vertebrates, and a family richness map for invertebrates. We found that the most diverse areas for vertebrate species are the lowlands (<600 m), whereas richness of invertebrate families peaks at higher elevations (lower montane forests). Congruence among species richness patterns of the five vertebrate groups was high (r = 0.66), with fish being the best predictor for vertebrates (r = 0.78). However, congruence decreased at higher elevations (r = 0.14), suggesting that specific species or habitat-based approaches should be used in the highlands. Also, we found a high correlation between species and family richness of freshwater invertebrates (r = 0.66), suggesting that family richness of invertebrates could be used as a surrogate of species richness in this basin. We highlight this correlation because, at the watershed scale, it allows working with family groups where species-level taxonomy is challenging. Our results provide the first comprehensive representation of freshwater biodiversity patterns at high resolution in an Andean-Amazon basin, and calls attention to the need for incorporating different taxonomic groups when assessing diversity patterns. Given these different diversity patterns, conservation programs for this basin should incorporate both vertebrate and invertebrate groups as biodiversity indicators. Finally, our study provides a practical methodological guidance in the estimation of freshwater diversity in regions of scarce information with high conservation priority, such as the Andean-Amazon basins. [ABSTRACT FROM PUBLISHER]

Within Dipsadinae, some recent authors have recognized a tribe Nothopsini containing the genera Diaphorolepis, Emmochliophis, Nothopsis, Synophis, and Xenopholis, on the basis of a number of putative morphological synapomorphies. However, molecular results suggest that Nothopsis, Synophis, and Xenopholis do not form a monophyletic group, while the remaining taxa are unsampled in recent molecular phylogenies. Here, DNA-sequence data for some Diaphorolepis and Synophis species are provided for the first time, as well as additional new sequences for Nothopsis and some Synophis species. Including these and other existing data for nothopsine species, previous studies showing that Nothopsini is not a natural group are corroborated. Nothopsini Cope, 1871 is restricted to Nothopsis. Diaphorolepidini Jenner, 1981 is resurrected and re-delimited to include only Diaphorolepis, Emmochliophis, and Synophis. Finally, Xenopholis remains Dipsadinae incertae sedis. Known material of Diaphorolepidini is reviewed to generate revised and expanded descriptions and diagnoses at the tribe, genus, and species level. Numerous cryptic species are likely present in S. bicolor and S. lasallei. Finally, a new population from the low-elevation cloud forests of SW Ecuador is reported upon, which is genetically and morphologically distinct from all other species, that is here named Synophis zaheri sp. n. [ABSTRACT FROM AUTHOR]

We describe a new frog, Pristimantis mutabilis sp. nov., from the Andes of Ecuador. Individuals of the new species are remarkable for their ability to change skin texture from tuberculate to almost smooth in a few minutes, being the first documented amphibian species to show such dramatic phenotypic plasticity. The new taxon is assigned to the P. myersi group. It differs from other members of its group by body size (adult males 17.2-17.4 mm; adult females 20.9-23.2 mm), arboreal habitat, and red flash coloration in females. We document three call types for the new species, which differ through their number of notes and amplitude peaks. The three types are pulsed calls that share a dominant frequency of 3186.9-3445.3 Hz. Surprisingly, we also document similar skin texture plasticity in species ( P. sobetes) from a different species group, suggesting that this ability might be more common than previously thought. The discovery of these variable species poses challenges to amphibian taxonomists and field biologists, who have traditionally used skin texture and presence/absence of tubercles as important discrete traits in diagnosing and identifying species. Reciprocal monophyly and genetic distances also support the validity of the new species, as it has distances of 15.1-16.3% (12 S) and 16.4-18.6% (16 S) from the most similar species, Pristimantis verecundus. Additionally, each of the two known populations of Pristimantis mutabilis are reciprocally monophyletic and exhibit a high genetic distance between them (5.0-6.5%). This pattern is best explained by the presence of a dry valley ( Guayllabamba River) that seems to be acting as a dispersal barrier. © 2015 The Linnean Society of London [ABSTRACT FROM AUTHOR]

Pristimantis myersi is a small Andean frog that inhabits paramos, sub-paramos and upper Andean forests at elevations between 2,900-3,275 m. It is known from about a dozen localities in the southern end of the Cordillera Central of the Colombian Andes. Herein, we report for the first time the presence of this species in Ecuador, based on ten specimens from three localities in the provinces of Imbabura and Sucumbíos. The species' range is extended and a distribution map with the Ecuadorian records is provided. [ABSTRACT FROM AUTHOR]

Aim We used frogs of the clade Allocentroleniae (Centrolenidae + Allophrynidae; c. 170 species endemic to Neotropical rain forests) as a model system to address the historical biogeography and diversification of Neotropical rain forest biotas. Location Neotropical rain forests. Methods We used an extensive taxon (109 species) and gene (seven nuclear and three mitochondrial genes) sampling to estimate phylogenetic relationships, divergence times, ancestral area distributions, dispersal-vicariance events, and the temporal pattern of diversification rate. Results The Allocentroleniae started to diversify in the Eocene in South America and by the early Miocene were present in all major Neotropical rain forests except in Central America, which was colonized through 11 late range expansions. The initial uplifts of the Andes during the Oligocene and early Miocene, as well as marine incursions in the lowlands, are coincidental with our estimates of the divergence times of most clades of Allocentroleniae. Clades with broad elevational distributions occupy more biogeographical areas. Most dispersals involve the Andes as a source area but the majority were between the Central and the Northern Andes, suggesting that the Andes did not play a major role as a species pump for the lowlands. The diversification of glassfrogs does not follow a south-to-north pattern of speciation for Andean clades, and the establishment of a transcontinental Amazon drainage system is coincidental in time with the isolation of the Atlantic Forest glassfrogs. Diversification analyses indicated that a model of constantly increasing diversity best fits the data, compatible with the 'evolutionary museum' hypothesis or 'ancient cradle' hypothesis. Main conclusions Our work illustrates how the different geological and climatic historical events of the Neotropics shaped, at different levels of the phylogeny, the diversity of a species-rich clade, highlighting the importance of studying large evolutionary radiations at a continental scale. [ABSTRACT FROM AUTHOR]

The Tropical Andes are an important global biodiversity hotspot, harbouring extraordinarily high richness and endemism. Although elevational richness and speciation have been studied independently in some Andean groups, the evolutionary and ecological processes that explain elevational richness patterns in the Andes have not been analysed together. Herein, we elucidate the processes underlying Andean richness patterns using glassfrogs (Centrolenidae) as a model system. Glassfrogs show the widespread mid-elevation diversity peak for both local and regional richness. Remarkably, these patterns are explained by greater time (montane museum) rather than faster speciation at mid-elevations (montane species pump), despite the recency of the major Andean uplift. We also show for the first time that rates of climatic-niche evolution and elevational change are related, supporting the hypothesis that climatic-niche conservatism decelerates species' shifts in elevational distributions and underlies the mid-elevation richness peak. These results may be relevant to other Andean clades and montane systems globally. [ABSTRACT FROM AUTHOR]

To understand the origin of Pantepui montane biotas, we studied the biogeography of toucanets in the genus Aulacorhynchus. These birds are ideal for analyzing historical relationships among Neotropical montane regions, given their geographic distribution from Mexico south to Bolivia, including northern Venezuela (Cordillera de la Costa), and the Pantepui. Analyses were based on molecular phylogenies using mitochondrial and nuclear DNA sequences. Topology tests were applied to compare alternative hypotheses that may explain the current distribution of Aulacorhynchus toucanets, in the context of previous hypotheses of the origin of Pantepui montane biotas. Biogeographic reconstructions in RASP and Lagrange were used to estimate the ancestral area of the genus, and an analysis in BEAST was used to estimate a time framework for its diversification. A sister relationship between the Pantepui and Andes+Cordillera de la Costa was significantly more likely than topologies indicating other hypothesis for the origin of Pantepui populations. The Andes was inferred as the ancestral area for Aulacorhynchus, and the group has diversified since the late Miocene. The biogeographic patterns found herein, in which the Andes are the source for biotas of other regions, are consistent with those found for flowerpiercers and tanagers, and do not support the hypothesis of the geologically old Pantepui as a source of Neotropical montain diversity. Based on the high potential for cryptic speciation and isolation of Pantepui populations, we consider that phylogenetic studies of additional taxa are important from a conservation perspective. [ABSTRACT FROM AUTHOR]

Abstract: As Darwin observed, the differentiation among varieties, subspecies, and species seems, often times, arbitrary. Nowadays, however, novel tools provide the possibility of testing hypotheses of species. Using the Andean toad genus Osornophryne, we address the following questions: (1) How many species are within the genus? (2) Are morphological and molecular traits congruent when delimiting species? (3) Which morphological traits are the most divergent among species? We use recently developed methods for testing species boundaries and relationships using a multilocus data set consisting of two mitochondrial genes (12S, 16S; 1647bp aligned matrix), one exon (RAG-1; 923 aligned matrix), and one intron (RPL3Int5; 1410bp aligned matrix). As another line of evidence for species delimitation, we integrated analyses of 12 morphometric variables and 10 discrete traits commonly used in amphibian systematics. The molecular and morphological approaches support the validity of most of the described species in Osornophryne. We find, however, contradictory lines of evidence regarding the status of O. angel. Within O. guacamayo, we found a genetically divergent population that, we argue, represents a new species. We consider that O. bufoniformis represents a species complex that deserves further study. We highlight the importance of incorporating morphological data when delimiting species, especially for lineages that have a recent origin and have not achieved reciprocal monophyly in molecular phylogenies. Finally, the most divergent morphological traits among Osornophryne species are associated with locomotion (finger, toes and limbs) and feeding (head), suggesting an association between morphology and the ecological habits of the species. [Copyright &y& Elsevier]

Bonaccorso, E., Guayasamin, J. M., Peterson, A. T. & Navarro-Sigüenza, A. G. (2011). Molecular phylogeny and systematics of Neotropical toucanets in the genus Aulacorhynchus (Aves, Ramphastidae). - Zoologica Scripta, 40, 336-349. We studied the phylogenetic relationships in the genus Aulacorhynchus, an assemblage of Neotropical toucanets distributed from Mexico south to Bolivia. Based on mitochondrial and nuclear DNA characters, we obtained a robust hypothesis of relationships for all recognized species, including good representation of distinct geographic populations. Our results support the monophyly of the genus Aulacorhynchus, but contradict previous taxonomic arrangements. The genus is made up of three major clades: the Aulacorhynchus prasinus complex, Aulacorhynchus huallagae + Aulacorhynchus coeruleicinctis, and Aulacorhynchus haematopygus + Aulacorhynchus sulcatus + Aulacorhynchus derbianus. Andean populations of A. derbianus are more closely related to A. sulcatus than to Pantepuian populations of A. derbianus, rendering A. derbianus paraphyletic. Based on the molecular phylogeny, and information on geographic distributions and morphological and behavioural characters, we review the specific status of these taxa and propose a new taxonomic arrangement within Aulacorhynchus. [ABSTRACT FROM AUTHOR]

Combining a molecular phylogeny and morphological data, we discovered a new species of Osornophryne from the Amazonian slope of the Ecuadorian Andes. Morphologically, the new taxon is distinguished from all others species in Osornophryne by having the Toes IV and V longer than Toes I-III, a short and rounded snout with a small rostral papilla, and conical pustules on flanks. The new species previously was confused with O. guacamayo. A taxonomic key is provided for all known species of Osornophryne. [ABSTRACT FROM AUTHOR]

The article presents a study on a new specimen of hyalinobatrachium iaspipdiense, a glassfrog, that was found in Ecuador to provide description of the habitat where the specimen was discovered. It says that the specimen is a female and was found by Eleanor Clapp and Susan North on September 2, 2008 in Napo, Ecuador. It relates that the specimen was preserved in 95% ethanol and polymerase chain reaction (PCR)-based test was performed by Elisa Bonaccorso for chytridiomycosis, which showed negative result for the presence of Bactrachochytrium dendrobatidis. It relates that the specimen's habitat was in a stream with tall grassy shrubs and forest adjacent to the area. It concludes that further complete analysis is needed to understand the disparity within the identified species.

Abstract: Glassfrogs (family Centrolenidae) represent an exceptionally diverse group among Neotropical anurans, but their evolutionary relationships never have been assessed from a molecular perspective. Mitochondrial and nuclear markers were used to develop a novel hypothesis of centrolenid phylogeny. Ingroup sampling included 100 terminals, with 78 (53%) of the named species in the family, representing most of the phenotypic diversity described for the group. Thirty-five species representing taxa traditionally associated with glassfrogs were used as outgroups. Gene sampling consisted of complete or partial sequences of three mitochondrial (12S, 16S, ND1) and three nuclear markers (c-myc exon 2, RAG1, POMC) for a total of ∼4362bp. Phylogenies were estimated using maximum parsimony, maximum likelihood, and Bayesian analyses for individual genes and combined datasets. The separate analysis of mitochondrial and nuclear datasets allowed us to clarify the relationships within glassfrogs; also, we corroborate the sister-group relationship between Allophryne ruthveni and glassfrogs. The new phylogeny differs significantly from all previous morphology-based hypotheses of relationships, and shows that hypotheses based on few traits are likely to misrepresent evolutionary history. Traits previously hypothesized as unambiguous synapomorphies are shown to be homoplastic, and all genera in the current taxonomy (Centrolene, Cochranella, Hyalinobatrachium, Nymphargus) are found to be poly- or paraphyletic. The new topology implies a South American origin of glassfrogs and reveals allopatric speciation as the most important speciation mechanism. The phylogeny profoundly affects the traditional interpretations of glassfrog taxonomy, character evolution, and biogeography—topics that now require more extensive evaluation in future studies. [Copyright &y& Elsevier]

We describe Centrolene bacatum, C. buckleyi, Cochranella posadae, and a new species of Cochranella from Yanayacu Biological Station on the Amazonian slopes of the Ecuadorian Andes. The new species differs from other species in Centrolenidae by a combination of characters, including reduced webbing between Fingers III and IV, and kidneys covered with white peritoneum. We summarize the current generic and infrageneric classification in Centrolenidae and discuss some of its problems. A phylogenetic analysis of morphological and behavioural data shows that the genera Centrolene and Cochranella might not be monophyletic; the genus Hyalinobatrachium and, in particular, the group H. fleischmanni seem to be monophyletic. However, an analysis with many more characters is needed to resolve the relationships of glass frogs. © 2006 The Linnean Society of London, Zoological Journal of the Linnean Society, 2006, 147, 489–513. [ABSTRACT FROM AUTHOR]

We describe a new species of Eleutherodactylus from the lowlands of the western Amazon Basin. The new species is referred to the Eleutherodactylus unistrigatus group, lacrimosus assemblage. It differs from other members of the group by having a dorsal olive-green coloration with an interorbital creamy yellow stripe that extends posterolaterally and reaches the level of the sacrum, and low ulnar and tarsal tubercles. The new species inhabits western Amazon tropical rainforests and has been found in arboreal bromeliads by day and on vegetation by night. We discuss the effect of lack of sampling in the forest canopy in our understanding of tropical amphibian communities. Based on work conducted at two localities in Ecuadorian Amazonia, we find that even limited sampling effort in the canopy can greatly improve efficiency of biological inventories. [ABSTRACT FROM AUTHOR]

We describe a new species of Cochranella from the Cordillera de Carpish, Departmnento Huänuco, Peru. The new species is placed in the Cochranella ocellata group and can be distinguished from all other species of Cochranella by having: (1) small white and dark purple spots on the dorsum; (2) a snout slightly protruding to truncate in lateral aspect; (3) and basal webbing between Fingers III and IV. [ABSTRACT FROM AUTHOR]

The acoustic adaptation hypothesis (AAH) and ecological character displacement (ECD) are two potential mechanisms shaping call evolution that can predict opposite trends for the differentiation of signals. Under AAH, signals evolve to minimize environmental degradation and maximize detection against background noise, predicting call homogenization in similar habitats due to environmental constraints on signals. In contrast, ECD predicts greater differences in call traits of closely related taxa in sympatry because of selection against acoustic interference. We used comparative phylogenetic analyses to test the strength of these two selective mechanisms on the evolution of advertisement calls in glassfrogs, a highly diverse family of neotropical anurans. We found that, overall, acoustic adaptation to the environment may outweigh effects of species interactions. As expected under the AAH, temporal call parameters are correlated with vegetation density, but spectral call parameters had an unexpected inverse correlation with vegetation density, as well as an unexpected correlation with temperature. We detected call convergence among co-occurring species and also across multiple populations from the same species in different glassfrogs communities. Our results indicate that call convergence is common in glassfrogs, likely due to habitat filtering, while character displacement is relatively rare, suggesting that costs of signal similarity among related species may not drive divergent selection in all systems. [ABSTRACT FROM AUTHOR]

Background: Large-scale species monitoring remains a significant conservation challenge. Given the ongoing biodiversity crisis, the need for reliable and efficient methods has never been greater. Drone-based techniques have much to offer in this regard: they allow access to otherwise unreachable areas and enable the rapid collection of non-invasive field data. Herein, we describe the development of a drone-based method for the estimation of population size in Galápagos marine iguanas, Amblyrhynchus cristatus. As a large-bodied lizard that occurs in open coastal terrain, this endemic species is an ideal candidate for drone surveys. Almost all Amblyrhynchus subspecies are Endangered or Critically Endangered according to the IUCN yet since several colonies are inaccessible by foot, ground- based methods are unable to address the critical need for better census data. In order to establish a drone-based approach to estimate population size of marine iguanas, we surveyed in January 2021 four colonies on three focal islands (San Cristobal, Santa Fe and Espanola) using three techniques: simple counts (the standard method currently used by conservation managers), capture mark-resight (CMR), and drone-based counts. The surveys were performed within a 4-day window under similar ambient conditions. We then compared the approaches in terms of feasibility, outcome and effort. Results: The highest population-size estimates were obtained using CMR, and drone-based counts were on average 14% closer to CMR estimates—and 17–35% higher—than those obtained by simple counts. In terms of field-time, drone-surveys can be faster than simple counts, but image analyses were highly time consuming. Conclusion: Though CMR likely produces superior estimates, it cannot be performed in most cases due to lack of access and knowledge regarding colonies. Drone-based surveys outperformed ground-based simple counts in terms of outcome and this approach is therefore suitable for use across the range of the species. Moreover, the aerial approach is currently the only credible solution for accessing and surveying marine iguanas at highly remote colonies. The application of citizen science and other aids such as machine learning will alleviate the issue regarding time needed to analyze the images. [ABSTRACT FROM AUTHOR]

Glassfrogs (family: Centrolenidae) represent a fantastic radiation (~150 described species) of Neotropical anurans that originated in South America and dispersed into Central America. In this study, we review the systematics of Ecuadorian glassfrogs, providing species accounts of all 60 species, including three new species described herein. For all Ecuadorian species, we provide new information on the evolution, morphology, biology, conservation, and distribution. We present a new molecular phylogeny for Centrolenidae and address cryptic diversity within the family. We employ a candidate species system and designate 24 putative new species that require further study to determine their species status. We find that, in some cases, currently recognized species lack justification; specifically, we place Centrolene gemmata and Centrolene scirtetes under the synonymy of Centrolene lynchi; C. guanacarum and C. bacata under the synonymy of Centrolene sanchezi; Cochranella phryxa under the synonymy of Cochranella resplendens; and Hyalinobatrachium ruedai under the synonymy of Hyalinobatrachium munozorum. We also find that diversification patterns are mostly congruent with allopatric speciation, facilitated by barriers to gene flow (e.g., valleys, mountains, linearity of the Andes), and that niche conservatism is a dominant feature in the family. Conservation threats are diverse, but habitat destruction and climate change are of particular concern. The most imperiled glassfrogs in Ecuador are Centrolene buckleyi, C. charapita, C. geckoidea, C. medemi, C. pipilata, Cochranella mache, Nymphargus balionotus, N. manduriacu, N. megacheirus, and N. sucre, all of which are considered Critically Endangered. Lastly, we identify priority areas for glassfrog conservation in Ecuador. [ABSTRACT FROM AUTHOR]

In males, large testes size signifies high sperm production and is commonly linked to heightened sperm competition levels. It may also evolve as a response to an elevated risk of sperm depletion due to multiple mating or large clutch sizes. Conversely, weapons, mate or clutch guarding may allow individuals to monopolize mating events and preclude sperm competition, thereby reducing the selection of large testes. Herein, we examined how paternal care, sexual size dimorphism (SSD), weaponry and female fecundity are linked to testes size in glassfrogs. We found that paternal care was associated with a reduction in relative testes size, suggesting an evolutionary trade-off between testes size and parenting. Although females were slightly larger than males and species with paternal care tended to have larger clutches, there was no significant relationship between SSD, clutch size and relative testes size. These findings suggest that the evolution of testes size in glassfrogs is influenced by sperm competition risk, rather than sperm depletion risk. We infer that clutch guarding precludes the risk of fertilization by other males and consequently diminishes selective pressure for larger testes. Our study highlights the prominent role of paternal care in the evolution of testes size in species with external fertilization. [ABSTRACT FROM AUTHOR]

Molecular tools are increasingly applied for assessing and monitoring biodiversity and informing conservation action. While recent developments in genetic and genomic methods provide greater sensitivity in analysis and the capacity to address new questions, they are not equally available to all practitioners: There is considerable bias across institutions and countries in access to technologies, funding, and training. Consequently, in many cases, more accessible traditional genetic data (e.g., microsatellites) are still utilized for making conservation decisions. Conservation approaches need to be pragmatic by tackling clearly defined management questions and using the most appropriate methods available, while maximizing the use of limited resources. Here we present some key questions to consider when applying the molecular toolbox for accessible and actionable conservation management. Finally, we highlight a number of important steps to be addressed in a collaborative way, which can facilitate the broad integration of molecular data into conservation. [ABSTRACT FROM AUTHOR]

The study of current distribution patterns of amphibian species in South America is of particular interest in areas such as evolutionary ecology and conservation biology. These patterns could be playing an important role in biological interactions, population size, and connectivity, and potential extinction risk in amphibians. Here, we tested the effects of spatial and environmental factors on the variation, turnover, and phylogenetic diversity of anuran amphibian species in tropical forests of western Ecuador. Data for presence/absence of 101 species of 34 genera and 10 families registered in 12 sites (nested in four biogeographic units) were obtained through fieldwork, museum collections, and literature records. We examined the influence of geographical, altitudinal, temperature, and precipitation distances on differences in anuran composition between sites. We found significant positive correlations among all of these variables with anuran distribution. The greatest alpha diversity (species richness) was found in the Equatorial Chocó biogeographic unit. Equatorial Pacific biogeographic unit could act as a transition zone between the Equatorial Chocó and Equatorial Tumbes. The western Andes (Western Cordillera biogeographic unit) was the most dissimilar and exhibited a higher species turnover rate than the other biogeographic units. Our results suggest that precipitation and elevation play a key role in maintaining the diversity of amphibian species in western Ecuador. [ABSTRACT FROM AUTHOR]

Representation of women in science drops substantially at each career stage, from early student to senior investigator. Disparities in opportunities for women to contribute to research metrics, such as distinguished speaker events and authorship, have been reported in many fields in the U.S.A. and Europe. However, whether female representation in scientific contributions differs in other regions, such as Latin America, is not well understood. In this study, in order to determine whether female authorship is influenced by gender or institutional location of the last (senior) author or by subfield within ecology, we gathered author information from 6849 articles in ten ecological and zoological journals that publish research articles either in or out of Latin America. We found that female authorship has risen marginally since 2002 (27 to 31%), and varies among Latin American countries, but not between Latin America and other regions. Last author gender predicted female co-authorship across all journals and regions, as research groups led by women published with over 60% female co-authors whereas those led by men published with less than 20% female co-authors. Our findings suggest that implicit biases and stereotype threats that women face in male-led laboratories could be sources of female withdrawal and leaky pipelines in ecology and zoology. Accordingly, we encourage every PI to self-evaluate their lifetime percentage of female co-authors. Female role models and cultural shifts–especially by male senior authors–are crucial for female retention and unbiased participation in science. [ABSTRACT FROM AUTHOR]

The explosive diversity of rainfrogs (Pristimantis spp) reaches its highest levels in the mountains of the Tropical Andes, with remarkable cryptic species mainly in unexplored areas of Ecuador. Based on phylogenetics, morphometric traits, skull osteology and bioacoustics, we describe two new species of Pristimantis, previously confused with Pristimantis gladiator, that belong to the subgenus Trachyphrynus traditionally known as the Pristimantis myersi species group. The two new taxa are closely related, but have allopatric distributions. We discuss the importance of the Quijos and Pastaza River valleys in the diversification along Amazonian slopes of the Ecuadorian Andes. [ABSTRACT FROM AUTHOR]

Oceanic islands have long inspired biogeographers, ecologists, and evolutionary biologists. A common feature of these islands is the occurrence of adaptive radiations, where a lineage quickly diversifies to occupy different ecological niches. Adaptive radiations offer a natural experiment to understand how ecology drives phenotypic and genomic evolution. Recently, the 'genomics revolution' has made a major contribution to the field of evolutionary biology by uncovering patterns, processes, and mechanisms of genomic evolution. Although progress is being made, we find that the application of genomic tools to understand the evolution of oceanic island organisms is still in its infancy. In response to this, we discuss fundamental questions that will help to integrate evolutionary genomics and island biology. A recurring feature of oceanic archipelagos is the presence of adaptive radiations that generate endemic, species-rich clades that can offer outstanding insight into the links between ecology and evolution. Recent developments in evolutionary genomics have contributed towards solving long-standing questions at this interface. Using a comprehensive literature search, we identify studies spanning 19 oceanic archipelagos and 110 putative adaptive radiations, but find that most of these radiations have not yet been investigated from an evolutionary genomics perspective. Our review reveals different gaps in knowledge related to the lack of implementation of genomic approaches, as well as undersampled taxonomic and geographic areas. Filling those gaps with the required data will help to deepen our understanding of adaptation, speciation, and other evolutionary processes. [ABSTRACT FROM AUTHOR]

Widespread introduced species can be leveraged to investigate the genetic, ecological and adaptive processes underlying rapid evolution and range expansion, particularly the contributions of genetic diversity to adaptation. Rhinella marina, the cane toad, has been a focus of invasion biology for decades in Australia. However, their introduction history in North America is less clear. Here, we investigated the roles of introduction history and genetic diversity in establishment success of cane toads across their introduced range. We used reduced representation sequencing (ddRAD) to obtain 34,000 SNPs from 247 toads in native (French Guiana, Guyana, Ecuador, Panama, Texas) and introduced (Bermuda, southern Florida, northern Florida, Hawaiʻi, Puerto Rico) populations. Unlike all other cane toad introductions, we found that Florida populations were more closely related to native Central American lineages (R. horribilis), than to native Southern American lineages (R. marina). Furthermore, we found high levels of diversity and population structure in the native range, corroborating suggestions that R. marina is a species complex. We also found that introduced populations exhibit only slightly lower genetic diversity than native populations. Together with demographic analyses, this indicates founding populations of toads in Florida were larger than previously reported. Lastly, within R. marina, only one of 245 putatively adaptive SNPs showed fixed differences between native and introduced ranges, suggesting that putative selection in these introduced populations is based upon existing genetic variation. Our findings highlight the importance of genetic sequencing in understanding biological introductions and hint at the role of standing genetic variation in range expansion. [ABSTRACT FROM AUTHOR]

The genus Atractus includes 146 species of cryptozoic snakes occurring from Panama to northeastern Argentina. Here, a molecular phylogeny of this genus is presented, which encompasses 29% (= 42; six are included here for the first time) of the species currently recognized. Morphological and phylogenetic support is found for three new species of ground snakes, which are described here based on their unique combination of molecular, meristic, and color pattern characteristics. The name A. arangoi Prado, 1939 is revalidated for a Colombian snake species previously subsumed under A. major Boulenger, 1894 based on new material collected in Ecuador. Reidentifications are provided for Atractus voucher specimens and sequences deposited in GenBank. With these changes, the number of Atractus reported in Ecuador increases from 27 to 31 species. Finally, attention is given to the importance of using a biogeographical framework that includes molecular data and a comprehensive geographic sampling when proposing species limits in complex taxonomic groups. [ABSTRACT FROM AUTHOR]

Shark fishing, driven by the fin trade, is the primary cause of global shark population declines. Here, we present a case study that exemplifies how industrial fisheries are likely depleting shark populations in the Eastern Tropical Pacific Ocean. In August 2017, the vessel Fu Yuan Yu Leng 999, of Chinese flag, was detained while crossing through the Galápagos Marine Reserve without authorization. This vessel contained 7639 sharks, representing one of the largest seizures recorded to date. Based on a sample of 929 individuals (12%), we found 12 shark species: 9 considered as Vulnerable or higher risk by the IUCN and 8 listed in CITES. Four species showed a higher proportion of immature than mature individuals, whereas size-distribution hints that at least some of the fishing ships associated with the operation may have been using purse-seine gear fishing equipment, which, for some species, goes against international conventions. Our data expose the magnitude of the threat that fishing industries and illegal trade represent to sharks in the Eastern Tropical Pacific Ocean. [ABSTRACT FROM AUTHOR]

Ecuador is one of the most biodiverse countries in the world, but faces severe pressures and threats to its natural ecosystems. Numerous species have declined and require to be objectively evaluated and quantified, as a step towards the development of conservation strategies. Herein, we present an updated National Red List Assessment for amphibian species of Ecuador, with one of the most detailed and complete coverages for any Ecuadorian taxonomic group to date. Based on standardized methodologies that integrate taxonomic work, spatial analyses, and ecological niche modeling, we assessed the extinction risk and identified the main threats for all Ecuadorian native amphibians (635 species), using the IUCN Red List Categories and Criteria. Our evaluation reveals that 57% (363 species) are categorized as Threatened, 12% (78 species) as Near Threatened, 4% (26 species) as Data Deficient, and 27% (168 species) as Least Concern. Our assessment almost doubles the number of threatened species in comparison with previous evaluations. In addition to habitat loss, the expansion of the agricultural/cattle raising frontier and other anthropogenic threats (roads, human settlements, and mining/oil activities) amplify the incidence of other pressures as relevant predictors of ecological integrity. Potential synergic effects with climate change and emergent diseases (apparently responsible for the sudden declines), had particular importance amongst the threats sustained by Ecuadorian amphibians. Most threatened species are distributed in montane forests and paramo habitats of the Andes, with nearly 10% of them occurring outside the National System of Protected Areas of the Ecuadorian government. Based on our results, we recommend the following actions: (i) An increase of the National System of Protected Areas to include threatened species. (ii) Supporting the ex/in-situ conservation programs to protect species considered like Critically Endangered and Endangered. (iii) Focalizing research efforts towards the description of new species, as well as species currently categorized as Data Deficient (DD) that may turn out to be threatened. The implementation of the described actions is challenging, but urgent, given the current conservation crisis faced by amphibians. [ABSTRACT FROM AUTHOR]

A fundamental gap in climate change vulnerability research is an understanding of the relative thermal sensitivity of ectotherms. Aquatic insects are vital to stream ecosystem function and biodiversity but insufficiently studied with respect to their thermal physiology. With global temperatures rising at an unprecedented rate, it is imperative that we know how aquatic insects respond to increasing temperature and whether these responses vary among taxa, latitudes, and elevations. We evaluated the thermal sensitivity of standard metabolic rate in stream-dwelling baetid mayflies and perlid stoneflies across a ~2,000 m elevation gradient in the temperate Rocky Mountains in Colorado, USA, and the tropical Andes in Napo, Ecuador. We used temperature-controlled water baths and microrespirometry to estimate changes in oxygen consumption. Tropical mayflies generally exhibited greater thermal sensitivity in metabolism compared to temperate mayflies; tropical mayfly metabolic rates increased more rapidly with temperature and the insects more frequently exhibited behavioral signs of thermal stress. By contrast, temperate and tropical stoneflies did not clearly differ. Varied responses to temperature among baetid mayflies and perlid stoneflies may reflect differences in evolutionary history or ecological roles as herbivores and predators, respectively. Our results show that there is physiological variation across elevations and species and that low-elevation tropical mayflies may be especially imperiled by climate warming. Given such variation among species, broad generalizations about the vulnerability of tropical ectotherms should be made more cautiously. [ABSTRACT FROM AUTHOR]

We describe a new glandular terrestrial frog of the Pristimantis (Anura: Craugastoridae) genus. The new species inhabits the high montane forests of the Cañar province in southern Ecuador. It differs from other terrestrial frogs by having a striking dark gray and red dorsal coloration, dorsal skin with a corrugated texture, a small tubercle on the eyelid and heel, absence of vomerine odontophores, and large glandular patches on the supratympanic area, arms and limbs. Our molecular analyses show that the new species is in a clade with P. orcesi and P. erythros. Based on our results, we redefine the orcesi group and suggest that it contains only three species (P. orcesi, P. erythros, and the new species); the group is diagnosed mainly by exhibiting conspicuous dermal macroglands on the head, body and legs. [ABSTRACT FROM AUTHOR]

With the third most biodiverse amphibian fauna in the world, Ecuador has bolstered this claim with a particularly high rate of species descriptions in recent years. Many of the species being described are already facing anthropogenic threats despite being discovered within privately protected reserves in areas previously not sampled. Herein we describe a new species of terrestrial frog in the genus Noblella from the recently established Río Manduriacu Reserve, Imbabura, Ecuador. Noblella worleyae sp. nov. differs from its congeners by having a dorsum finely shagreen; tips of Fingers I and IV slightly acuminate, Fingers II and III acuminate, without papillae; distal phalanges of the hand slightly T-shaped; absence of distinctive suprainguinal marks; venter yellowish-cream with minute speckling and throat with irregular brown marks to homogeneously brown. We provide a detailed description of the advertisement call of the new species and present an updated phylogeny of the genus Noblella. In addition, we emphasize the importance of the Río Manduriacu Reserve as a conservation area to threatened fauna. Ecuador es el tercer país más diverso en anfibios, y la descripción de especies en los últimos años ha aumentado considerablemente, evidenciando la presencia de nuevas especies en áreas privadas protegidas, muchas de las cuales enfrentan amenazas antropogénicas. Aquí describimos una nueva especie de rana terrestre del género Noblella de la vertiente pacífica de los Andes ecuatorianos en la Reserva Río Manduriacu, provincia de Imbabura. Noblella worleyae sp. nov. se diferencia de sus congéneres por la presencia de un dorso finamente granular, puntas de los dedos I y IV ligeramente acuminados, dedos II y III acuminados, sin papila; falanges distales de la mano ligeramente en forma de T; ausencia de marcas distintivas suprainguinales; vientre crema amarillento moteado con diminutos puntos ,garganta con marcas cafés irregulares a homogéneamente café. Proporcionamos una descripción detallada del canto de la nueva especie y presentamos una filogenia actualizada del género Noblella. Además, enfatizamos la importancia de la Reserva Río Manduriacu como un área de conservación para fauna amenazada. [ABSTRACT FROM AUTHOR]

• We study the species diversity, phylogenetics, and biogeography of Amazonian salamanders. • The species diversity of Amazonian salamanders is vastly underestimated. • The dispersal of Bolitoglossa to South America was 14.7–9.4 MYA. • Most Amazonian salamanders derived from a dispersal event at least 6.8 MYA. We present data showing that the number of salamander species in Amazonia is vastly underestimated. We used DNA sequences of up to five genes (3 mitochondrial and 2 nuclear) of 366 specimens, 189 corresponding to 89 non-Amazonian nominal species and 177 Amazonian specimens, including types or topotypes, of eight of the nine recognized species in the region. By including representatives of all known species of Amazonian Bolitoglossa , except for one, and 73% of the currently 132 recognized species of the genus, our dataset represents the broadest sample of Bolitoglossa species, specimens, and geographic localities studied to date. We performed phylogenetic analyses using parsimony with tree-alignment and maximum likelihood (ML) with similarity alignment, with indels as binary characters. Our optimal topologies were used to delimit lineages that we assigned to nominal species and candidate new species following criteria that maximize the consilience of the current species taxonomy, monophyly, gaps in branch lengths, genetic distances, and geographic distribution. We contrasted the results of our species-delimitation protocol with those of Automated Barcode Gap Discovery (ABGD) and multi-rate Poisson Tree Processes (mPTP). Finally, we inferred the historical biogeography of South American salamanders by dating the trees and using dispersal-vicariance analysis (DIVA). Our results revealed a clade including almost all Amazonian salamanders, with a topology incompatible with just the currently recognized nine species. Following our species-delimitation criteria, we identified 44 putative species in Amazonia. Both ABGD and mPTP inferred more species than currently recognized, but their numbers (23–49) and limits vary. Our biogeographic analysis suggested a stepping-stone colonization of the Amazonian lowlands from Central America through the Chocó and the Andes, with several late dispersals from Amazonia back into the Andes. These biogeographic events are temporally concordant with an early land bridge between Central and South America (~10–15 MYA) and major landscape changes in Amazonia during the late Miocene and Pliocene, such as the drainage of the Pebas system, the establishment of the Amazon River, and the major orogeny of the northern Andes. [ABSTRACT FROM AUTHOR]

Laboratories that perform PCR on a routine basis need to count on reliable DNA isolation methods. In locations where supply of DNA extraction kits depends on importation, having an in-house protocol is desirable. This is also important for laboratories limited by budget constraints. We present a low-cost DNA isolation protocol that incorporates well-known techniques, but that we have adapted to various animal tissues. We tested this protocol on animal blood and muscle, and on cell suspension from skin swabs. The results were comparable, in terms of amount and quality of DNA, to those obtained with two other commercially available methods. DNA retrieved with this protocol has been successfully employed for Sanger sequencing of gene PCR products from animal tissues and blood, as well as for PCR-based diagnosis of chytrid fungus in amphibians and blood parasites in birds. [ABSTRACT FROM AUTHOR]

Major threats to freshwater ecosystems in the Andean-Amazon region include agriculture, point and nonpoint source pollution, hydroelectric dams, oil extraction, mining and road building, yet little is known about the baseline values and current state of rivers and streams, or how expanding urban, industrial and agricultural activities could affect and change these freshwater ecosystems and their diversity. Therefore, there is a need to understand physicochemical parameters at the basin scale in many large river systems in the Andean-Amazon such as the Napo River, a world biodiversity hotspot. Establishing baselines for these parameters under less developed conditions will be impossible after development in the watersheds increases and hydroelectric projects reach completion. In addition to collecting data to fill in information gaps in geology, vegetation, disturbance, and other parameters that influence water quality, it is important to use existing data in the Napo to predict chemical parameters throughout the watershed to set a baseline from which deviations from development and climate change can be assessed and to guide data collection efforts. In this study, we provide the first basin-wide estimates of physicochemical parameters (pH, conductivity, dissolved oxygen and temperature) for the entire Napo River Basin using a recently developed geostatistical technique called top kriging. Basin-wide predictions aligned well with observed values and a model validation test showed a strong goodness-of-fit for parameter estimates. Furthermore, our predictions aligned well with observed values from independent datasets from the Napo Basin. These predictions could be useful in developing water quality reference baselines for the basin and for monitoring relative changes to parameters, assist in the identification of priority areas within the basin for management and conservation efforts, direct future research, and be applied in other data-scarce basins in remote regions worldwide. [ABSTRACT FROM AUTHOR]

• Rarity and composition metrics better measure land use impacts in tropical systems. • Land use intensification reduces biodiversity irrespective of the metric applied. • Agroforestry systems resemble forest diversity patterns across taxa. Land-use change is a primary driver of biodiversity loss. Tropical ecosystems face rapid conversion rates due to the encroachment of agricultural lands and supply needs for goods and services from an increasing population and changing market demands. Measuring the effect of land conversion on species diversity is challenging due to incomplete and uneven knowledge of different taxonomical groups. Here, we contrast different metrics for measuring biodiversity loss across three land-use typologies: secondary forest, agroforestry, and monoculture for five taxonomic groups: birds, frogs, fish, dung beetles, and macroinvertebrates in the Andean piedmont forests of the western equatorial Andes. Albeit our limited and uneven sample in space and time, we found that rarity, Non-Metric Multidimensional Scaling, and Multinomial Classification Model (i.e., classifications of habitat specialists and generalists) constitute a more sensitive set of indicators to assess land-use change impacts on tropical mountain biodiversity compared to classical metrics. Likewise, our results showed that land-use intensification influenced community assemblages in the five taxonomic groups. These non-classical biodiversity metrics can provide better insight into the effect of land conversion on these highly biodiverse ecosystems composed of many rare species. [ABSTRACT FROM AUTHOR]

Anthropogenic trade and development have broken down dispersal barriers, facilitating the spread of diseases that threaten Earth’s biodiversity. We present a global, quantitative assessment of the amphibian chytridiomycosis panzootic, one of the most impactful examples of disease spread, and demonstrate its role in the decline of at least 501 amphibian species over the past half-century, including 90 presumed extinctions. The effects of chytridiomycosis have been greatest in large-bodied, range-restricted anurans in wet climates in the Americas and Australia. Declines peaked in the 1980s, and only 12% of declined species show signs of recovery, whereas 39% are experiencing ongoing decline. There is risk of further chytridiomycosis outbreaks in new areas. The chytridiomycosis panzootic represents the greatest recorded loss of biodiversity attributable to a disease. [ABSTRACT FROM AUTHOR]

Species richness is greatest in the tropics, and much of this diversity is concentrated in mountains. Janzen proposed that reduced seasonal temperature variation selects for narrower thermal tolerances and limited dispersal along tropical elevation gradients [Janzen DH (1967) Am Nat 101:233-249]. These locally adapted traits should, in turn, promote reproductive isolation and higher speciation rates in tropical mountains compared with temperate ones. Here, we show that tropical and temperate montane stream insects have diverged in thermal tolerance and dispersal capacity, two key traits that are drivers of isolation in montane populations. Tropical species in each of three insect clades have markedly narrower thermal tolerances and lower dispersal than temperate species, resulting in significantly greater population divergence, higher cryptic diversity, higher tropical speciation rates, and greater accumulation of species over time. Our study also indicates that tropical montane species, with narrower thermal tolerance and reduced dispersal ability, will be especially vulnerable to rapid climate change. [ABSTRACT FROM AUTHOR]

The article focuses on a preliminary assessment of the skin-associated microbiome and the presence of Batrachochytrium dendrobatidis (Bd) in the caecilian Caecilia buckleyi. It examines the bacterial communities on the skin of this amphibian species to understand their potential role in pathogen resistance, particularly against Bd, a fungus linked to amphibian declines.

Lambert et al. question our retrospective and holistic epidemiological assessment of the role of chytridiomycosis in amphibian declines. Their alternative assessment is narrow and provides an incomplete evaluation of evidence. Adopting this approach limits understanding of infectious disease impacts and hampers conservation efforts. We reaffirm that our study provides unambiguous evidence that chytridiomycosis has affected at least 501 amphibian species. [ABSTRACT FROM AUTHOR]