A new species of lungworm from the Atlantic Forest: Rhabdias megacephala n. sp. parasite of the endemic anuran Proceratophrys boiei.

Rhabdias are lung-dwelling parasites of anurans and some reptiles. Currently, 93 species are known to exist worldwide. The identification of Rhabdias species is based mainly on morphological traits of hermaphroditic females that generally have a very conserved morphology. However, different approaches, such as the combination of morphological, molecular, and ecological data, have provided advances in identifying and delimiting rhabdiasid species. Here, we describe a new species of Rhabdias from the south of Brazil, with morphological and molecular data. The new species is distinguished from its congeners by having an elongated body, evident cephalic dilation, larger buccal capsule, and large esophagus. In addition to morphological characteristics, we observed significant genetic divergence among the cytochrome oxidase subunit I (COI) sequence of the new species and the closest available sequence, Rhabdias fuelleborni (10.24%-10.87%). Furthermore, phylogenetic reconstructions based on the COI gene indicated that the new species represents a different lineage, constituting an outgroup of the species complexes Rhabdias cf. stenocephala and Rhabdias fuelleborni with Rhabdias sp. 4. Thus, Rhabdias megacephala is the 24th nominal species of the Neotropical region, the 14th Brazilian, and the fourth species described from south of Brazil.

Unroughing the cat's tongue mushrooms: Four new species of Pseudohydnum from Brazil based on morphological and molecular phylogenetic evidence.

Pseudohydnum, commonly known as cat's tongue mushrooms, is a monophyletic assemblage within Auriculariales, which encompasses species with gelatinous basidiomata, spathulate, flabellate, or shell-shaped pileus, hydnoid hymenophore, globose to ellipsoidal basidiospores, and longitudinally cruciate-septate basidia. According to the available literature, 16 species have been described in Pseudohydnum, mostly represented in temperate-boreal forests of the Northern Hemisphere. However, the limited morphological, molecular, and ecological information, especially from the Southern Hemisphere ecosystems, does not presently allow a reliable assessment of its taxonomic boundaries nor provide a complete picture of the species diversity in the genus. In an ongoing effort to examine specimens collected in dense and mixed ombrophilous forest fragments (Atlantic Rainforest domain) from Southeastern and Southern Brazil, additional taxa assigned to Pseudohydnum were identified. Four new species are recognized based mostly on characters of the pileus surface, stipe, hymenium, and basidiospores. Molecular phylogenetic analyses based on nuc rDNA internal transcribed spacer region ITS1-5.8S-ITS2 (ITS barcode), partial nuc rDNA 28S, and partial RNA polymerase II largest subunit (RPB1) sequences supported the description of these new taxa. Here, we propose Pseudohydnum brasiliense, P. brunneovelutinum, P. cupulisnymphae, and P. viridimontanum as new species. Morphological descriptions, line drawings, habitat photos, and comparisons with closely related taxa are provided. A dichotomous key for identification of currently known Southern Hemisphere Pseudohydnum species is presented.

An Annotated Checklist of Monogeneans (Platyhelminthes, Monogenea) from Aquatic Vertebrates in Peru: A Review of Diversity, Hosts and Geographical Distribution.

Monogeneans are flatworm parasites that infest fish gills primarily but can also infect various other vertebrates, including amphibians, aquatic reptiles, mammals like hippos, and occasionally invertebrates like copepods, isopods, and cephalopods. Despite their remarkable diversity, our knowledge of monogenean parasites in Peru remains significantly limited, resulting in substantial gaps in our comprehension of their taxonomic identities, host associations, and geographic distribution. To address these knowledge deficits, we present an extensively curated checklist of monogeneans associated with aquatic vertebrates in Peru. This comprehensive compilation is derived from meticulous literature surveys, the examination of specimens deposited in both international and national collections, and the inclusion of additional freshly collected specimens. The checklist offers a thorough repository of data encompassing the diversity, host associations, and geographical distribution of these parasites. Taxonomic discrepancies are addressed through a critical review of the existing literature, supplemented by the direct examination of specimens, including type or voucher specimens, deposited within scientific collections. Additionally, we provide data on the DNA sequences of individual taxa. The compiled list comprises records of 358 monogenean species, including 270 valid species and 88 taxa identified at the family or generic level, all reported across 145 host species in Peru. Predominantly, these parasitic species exhibit associations within fish, with 335 infecting teleosts and 20 affecting chondrichthyans. Three monogenean species have been documented as infecting amphibians, namely Mesopolystoma samiriensis, Polistoma sp. and Wetapolystoma almae. Among the monogeneans reported, 141 were found in marine environments and 214 in freshwater environments. The most diverse families were Dactylogyridae and Diplectanidae, comprising 217 and 24 species, respectively. The hosts that harbored the highest number of monogeneans were Pygocentrus nattereri (with 23 species), followed by Stellifer minor (13 spp.) and Triportheus angulatus (11 spp.). We detected many species that do not have any material deposited in a scientific collection due to the loss or deactivation of the collection. These findings represent only a fraction of the potential diversity, considering the wide variety of aquatic vertebrate hosts inhabiting the tropical and subtropical regions of Peru.

Green deserts, but not always: A global synthesis of native woody species regeneration under tropical tree monocultures.

Tree monocultures constitute an increasing fraction of the global tree cover and are the dominant tree-growing strategy of forest landscape restoration commitments. Their advantages to produce timber are well known, but their value for biodiversity is highly controversial and context dependent. Therefore, understanding whether, and in which conditions, they can harbor native species regeneration is crucial. Here, we conducted meta-analyses based on a global survey of the literature and on a database created with local, unpublished studies throughout Brazil to evaluate the regeneration potential of native species under tree monocultures and the way management influences this regeneration. Native woody species regeneration under tree monocultures harbors a substantial fraction of the diversity (on average 40% and 68% in the global and Brazilian surveys, respectively) and abundance (on average 25% and 60% in the global and Brazilian surveys, respectively) of regeneration observed in natural forests. Plantations with longer rotation lengths, composed of native tree species, and located adjacent to forest remnants harbor more species. Pine plantations harbor more native individuals than eucalypt plantations, and the abundance of regenerating trees is higher in sites with higher mean temperatures. Species-area curves revealed that the number of woody species under pine and eucalypt plantations in Brazil is 606 and 598 species, respectively, over an aggregated sampled area of ca. 12 ha. We highlight that the understory of tree monocultures can harbor a considerable diversity of regenerating native species at the landscape and regional scales, but this diversity strongly depends on management. Long-rotation length and favorable location are key factors for woody regeneration success under tropical tree monocultures. Therefore, tree monocultures can play a role in forest landscape restoration and conservation, but only if they are planned and managed for achieving this purpose.

Incomplete recovery of tree community composition and rare species after 120 years of tropical forest succession in Panama.

Determining how fully tropical forests regenerating on abandoned land recover characteristics of old-growth forests is increasingly important for understanding their role in conserving rare species and maintaining ecosystem services. Despite this, our understanding of forest structure and community composition recovery throughout succession is incomplete, as many tropical chronosequences do not extend beyond the first 50 years of succession. Here, we examined trajectories of forest recovery across eight 1-hectare plots in middle and later stages of forest succession (40-120 years) and five 1-hectare old-growth plots, in the Barro Colorado Nature Monument (BCNM), Panama. We first verified that forest age had a greater effect than edaphic or topographic variation on forest structure, diversity and composition and then corroborated results from smaller plots censused 20 years previously. Tree species diversity (but not species richness) and forest structure had fully recovered to old-growth levels by 40 and 90 years, respectively. However, rare species were missing, and old-growth specialists were in low abundance, in the mid- and late secondary forest plots, leading to incomplete recovery of species composition even by 120 years into succession. We also found evidence that dominance early in succession by a long-lived pioneer led to altered forest structure and delayed recovery of species diversity and composition well past a century after land abandonment. Our results illustrate the critical importance of old-growth and old secondary forests for biodiversity conservation, given that recovery of community composition may take several centuries, particularly when a long-lived pioneer dominates in early succession. Abstract in Spanish is available with online material.

Determinar en que medida los bosques tropicales que se regeneran en tierras abandonadas recuperan las características de los bosques primarios es cada vez más importante para comprender su papel en la conservación de especies raras y el mantenimiento de los servicios ecosistémicos. A pesar de ello, nuestro entendimiento sobre la recuperación de la estructura del bosque y la composición de la comunidad a lo largo de la sucesión es incompleta, ya que muchas cronosecuencias tropicales no van más allá de los primeros 50 años de sucesión. En este estudio, investigamos las trayectorias de recuperación del bosque en ocho parcelas de 1 hectárea en estadíos medios y tardíos de la sucesión forestal (40­120 años) y cinco parcelas de 1 hectárea de bosque primario, en el Monumento Natural Barro Colorado (MNBC), Panamá. En primer lugar, verificamos que la edad del bosque tenía un mayor efecto que la variación edáfica o topográfica en la estructura, diversidad y composición del bosque y luego corroboramos los resultados de parcelas más pequeñas estudiadas 20 años antes. La diversidad de especies arbóreas, pero no la riqueza de especies, y la estructura forestal se habían recuperado completamente hasta alcanzar los niveles de bosque primario a los 40 y 90 años, respectivamente. Sin embargo, los bosques secundarios carecían de especies raras y presentaban una escasa abundancia de especies especialistas del bosque antiguo, lo que condujo a una recuperación incompleta de la composición de especies, incluso a 120 años de sucesión. También encontramos pruebas de que el predominio de un pionero longevo en las primeras etapas de la sucesión provocó una alteración de la estructura forestal y retrasó la recuperación de la diversidad y composición de especies más allá de un siglo después el abandono de las tierras. Nuestros resultados ilustran la importancia crítica de los bosques primarios y secundarios más antiguos para la conservación de la biodiversidad, dado que la recuperación de la composición de la comunidad puede llevar varios siglos, especialmente cuando un pionero longevo domina en la sucesión temprana.

A new characid species with remarkable sexual dimorphism (Characiformes: Characidae: Stevardiinae) from the upper Guayabero River, Orinoco basin, Colombia.

A new species of characid with remarkable sexual characteristics is described from the upper Guayabero River drainage from the Orinoco basin in Colombia. The new species is included in the genus Monotocheirodon by sharing most of the previously proposed diagnostic features of this genus. It differs from all Stevardiinae by the combination, in adult males, of an enlarged urogenital papilla in contact with the first anal-fin unbranched ray and a highly modified anal fin with enlarged and distally elongated first and second branched anal-fin rays, forming a gonopodium-like structure. In addition, it differs from congeners by the presence of an adipose fin, an incomplete lateral line, an ascending process of the premaxilla dorsally oriented, and a long snout. The new species was discovered from a poorly sampled region in Colombia and is an unexpected new record given its disjunct geographic distribution from other species of the genus. Monotocheirodon species were previously known from piedmont drainages in Bolivia and Peru. The conservation status of the new species is herein categorized following IUCN criteria.

Parasitic helminths of Halichoeres bivittatus (Pisces: Labridae) from the southwestern Gulf of México / Helmintos parásitos de halichoeres bivittatus (pisces: labridae) del suroeste del golfo de méxico

RESUMEN Un total de 326 helmintos parásitos fueron recuperados de 94 especímenes de Halichoeres bivittatus (Pisces: Labridae) en dos sitios de la zona arrecifal en los límites del Parque Nacional Sistema Arrecifal Veracruzano, Veracruz, México, el suroeste del Golfo de México: Punta Gorda (n = 51) y Mata de Uva (n = 43). Los peces fueron capturados entre mayo y septiembre de 2001. Cada muestra se analizó a nivel de comunidad componente e infracomunidad. Tres especies de helmintos se localizaron en intestino: Nicolla halichoeri (Digenea) considerándose nuevo registro de localidad, Procamallanus (Spirocamallanus) garnotus (Nematoda) es nuevo registro de hospedero, y las larvas de Tetraphyllidea gen. sp. (Cestoda) fueron los parásitos con mayor prevalencia e intensidad promedio para cada sitio. La riqueza de especies para ambos sitios fue de S = 3 y el índice de diversidad de Shannon-Wiener (Punta Gorda, H'= 0,42; Mata de Uva, H'= 0,49) fueron inferiores a los registrados para las comunidades hospedero-parásito de lábridos y de hospederos de la localidad. No hubo correlación entre el número total de especies o el número total de helmintos con respecto a la longitud total o el peso del hospedero. El análisis de las curvas de especies acumuladas para la comunidad componente sugirió, que el inventario de especies de helmintos estaba casi completo para ambos sitios. La abundancia de larvas del céstodo ubica a H. bivittatus como hospedero intermediario del parásito.

ABSTRACT A total of 326 parasitic helminths were obtained from 94 specimens of Halichoeres bivittatus (Pisces: Labridae) at two sites in the reef zone at the limits of the Veracruz Reef System National Park, Veracruz, Mexico, southwestern Gulf of Mexico: Punta Gorda (n = 51) and Mata de Uva (n = 43). Fish were caught from May to September 2001. Each sample was examined at the levels of the component community and infracommunity. Three parasitic helminth species were found in intestines: Nicolla halichoeri (Digenea: Plagiorchiida: Opecoelidae) is a new geographic record, Procamallanus (Spirocamallanus) garnotus (Nematoda) is a new host record, and larvae of Tetraphyllidea gen. sp. (Cestoda) were the parasites with the highest prevalence and the average intensity at both sites. Species richness (S = 3) and the Shannon-Wiener diversity index (H'= 0,42; 0,49) were lower than those previously estimated for the labrid host-parasite community in the study area. No correlations between the total number of species or the total number of helminths and the total length or weight of the host were observed. An analysis of the accumulated curve for the component community suggested that the inventory of helminth species was almost complete for both sites. The abundance of cestode larvae infers H. bivittatus is an intermediate host of the parasite.

A new species of rheophilic armored catfish of Rineloricaria (Siluriformes: Loricariidae) from the Vaupés River, Amazonas basin, Colombia.

A new rheophilic species of the genus Rineloricaria is described for the Amazon basin in Colombia. Rineloricaria cachivera n. sp. differs from its congeners by having anterior to the first predorsal plate, an inconspicuous saddle-like mark; the presence of dark, diffuse blotches, present as unified dark colouration along most of the dorsal portion of the head, without bands or spots on the head; a long snout that occupies more than half the head length (HL), between 58.0% and 66.3% HL; a naked portion on the cleithral area from the border of lower lip reaching the origin of pectoral fin; and by having five series of lateral plates in longitudinal rows below the dorsal fin. The new species is morphologically similar to Rineloricaria daraha; however, it can be distinguished by the presence of six branched pectoral fin rays (vs. seven) and the lower lip surface with short thick papillae (vs. long finger papillae). An identification key to the Rineloricaria species of the Amazon River basin in Colombia is provided. The new species is herein categorized as Least Concern, following the IUCN criteria.

An updated list of the Mexican herpetofauna: with a summary of historical and contemporary studies.

The growth in our knowledge of the diversity of the herpetofauna of Mexico has occurred over the period of approximately 445 years from the work of Francisco Hernández to that of a broad multinational array of present-day herpetologists. The work of this huge group of people has established Mexico as one of the most significant centers of herpetofaunal biodiversity in the world. This status is the result of a complex orography, in addition to diverse habitats and environments and the biogeographic history of Mexico. The current herpetofauna consists of 1,421 native and introduced species, allocated to 220 genera, and 61 families. This figure is comprised of 1,405 native species and 16 non-native species (as of April 2023). The non-native species include two anurans, 13 squamates, and one turtle. The level of endemism is very high, presently lying at 63%, with this level expected to increase with time. Species richness varies among the 32 federal entities in the country, from a low of 50 in Tlaxcala to a high of 492 in Oaxaca. Amphibian species richness by state-level can be envisioned as comprising three levels of low, medium, and high, with the lowest levels occurring in the Peninsula of Baja California, a group of seven states in north-central and central Mexico, and a group of three states in the Yucatan Peninsula, with the highest levels occupying the southern states of Guerrero, Puebla, Veracruz, Oaxaca, and Chiapas, and the medium level in the remaining states of the country. Reptile species richness also can be allocated to three categories, with the lowest level occupying Baja California Sur, a group of central states, and the states of the Yucatan Peninsula, and the highest level found in a cluster of the states of Veracruz, Guerrero, Oaxaca, and Chiapas. Knowledge of the Mexican herpetofauna will continue to grow with additional studies on systematics, conservation, and the construction of checklists at various levels.

Diversity and composition of beetle assemblages attracted to dung in cloud forests under active and passive restoration practices.

Ecosystem loss and degradation has become a worldwide concern. The implementation of ecological restoration plans has been proposed to facilitate the recovery of ecosystems. It is imperative that once restoration strategies have been implemented, the effects of these actions in the medium and long term be evaluated, particularly the structure and functioning of the ecosystem. Diversity (α- and ß-diversity) of beetles attracted to dung was assessed and compared in 3 habitat conditions (conserved forest, passive restoration, and active restoration) at 2 different seasons during the year (dry vs. rainy season) in cloud forest in San Luis Potosí (central Mexico). We found that the dry season was slightly richer than the rainy season, but the latter was significantly more diverse. Species diversity and composition in active restoration were more similar to passive restoration, and both differed greatly from the conserved forest. In contrast, conserved and passive restoration conditions exhibited similar patterns in ß-diversity of insects likely because they maintain more species associated with the original vegetation of the cloud forest. Beetle assemblages could be of more habitat generalists, as they actively distribute across the restoration sites. Beetles attracted to dung provide an overview of the effect of restoration in early faunal recovery, even though we monitored this entomofauna for a short period (31 months after the restoration plots were established). These beetles can be a useful indicator for exploring the main forces driving species diversity for the management and conservation status of cloud forests, a threatened ecosystem.

Biodiversity and biomass relationships in a cerrado stricto sensu in Southeastern Brazil.

Deforestation accounts for the majority of greenhouse gas emissions in developing countries. In Brazil, deforestation represents ~ 70% of the nation's greenhouse gas emissions. Among the main deforested vegetation, Cerrado (Brazilian savanna) occupies a prominent position as it is the second biggest biome in Brazil. Despite its importance, there are still few estimates of above and belowground biomass of Cerrado vegetation encompassing its structural and spatial complexity. Also, Cerrado holds a specific biodiversity that is normally undervalued and which is being lost in the fires of agricultural fronts. In this context, this study aimed to verify the relationship of the existing flora biodiversity in a cerrado stricto sensu with its aboveground biomass and carbon stocks. The possibility of a relationship between fine root mass and soil organic carbon content was also verified. The study area presented a total of 67 species and 798 trees (average: 1596 trees ha-1). The mean total aboveground biomass and carbon stocks were 77.08 Mg ha-1 and 38.54 Mg ha-1 respectively. Soil organic carbon stock (0-30 cm) was 8.51 Mg ha-1 whereas fine roots were 1.637 Mg ha-1. Total aboveground biomass presented a highly significant asymptotic relationship with biodiversity demonstrating its importance in reaching high biomass accumulation. A significant relationship between soil organic carbon content and fine root biomass was found making easier belowground biomass estimates.

Monitoring recovery of tree diversity during tropical forest restoration: lessons from long-term trajectories of natural regeneration.

Given the importance of species diversity as a tool for assessing recovery during forest regeneration and active restoration, robust approaches for assessing changes in tree species diversity over time are urgently needed. We assessed changes in tree species diversity during natural regeneration over 12-20 years in eight 1-ha monitoring plots in NE Costa Rica, six second-growth forests and two old-growth reference forests. We used diversity profiles to show successional trajectories in measures of observed, asymptotic and standardized tree diversity and evenness as well as sample completeness. We randomly subsampled 1-ha plot data to evaluate how well smaller spatial subsamples would have captured temporal trajectories. Annual surveys in eight 1-ha plots were missing substantial numbers of rare or infrequent species. Older second-growth sites showed consistent declines in tree diversity, whereas younger sites showed fluctuating patterns or increases. Subsample areas of 0.5 ha or greater were sufficient to infer the diversity of abundant species, but smaller subsamples failed to capture temporal trajectories of species richness and yielded positively biased estimates of evenness. In tropical forest regions with high levels of diversity, species diversity from small sample plots should be assessed using methods that incorporate abundance information and that standardize for sample coverage. This article is part of the theme issue 'Understanding forest landscape restoration: reinforcing scientific foundations for the UN Decade on Ecosystem Restoration'.

Disentangling direct from indirect effects of habitat disturbance on multiple components of biodiversity.

Human habitat disturbance affects both species diversity and intraspecific genetic diversity, leading to correlations between these two components of biodiversity (termed species-genetic diversity correlation, SGDC). However, whether SGDC predictions extend to host-associated communities, such as the intestinal parasite and gut microbial diversity, remains largely unexplored. Additionally, the role of dominant generalist species is often neglected despite their importance in shaping the environment experienced by other members of the ecological community, and their role as source, reservoir and vector of zoonotic diseases. New analytical approaches (e.g. structural equation modelling, SEM) can be used to assess SGDC relationships and distinguish among direct and indirect effects of habitat characteristics and disturbance on the various components of biodiversity. With six concrete and biologically sound models in mind, we collected habitat characteristics of 22 study sites from four distinct landscapes located in central Panama. Each landscape differed in the degree of human disturbance and fragmentation measured by several quantitative variables, such as canopy cover, canopy height and understorey density. In terms of biodiversity, we estimated on the one hand, (a) small mammal species diversity, and, on the other hand, (b) genome-wide diversity, (c) intestinal parasite diversity and (d) gut microbial heterogeneity of the most dominant generalist species (Tome's spiny rat, Proechimys semispinosus). We used SEMs to assess the links between habitat characteristics and biological diversity measures. The best supported SEM suggested that habitat characteristics directly and positively affect the richness of small mammals, the genetic diversity of P. semispinosus and its gut microbial heterogeneity. Habitat characteristics did not, however, directly impact intestinal parasite diversity. We also detected indirect, positive effects of habitat characteristics on both host-associated assemblages via small mammal richness. For microbes, this is likely linked to cross species transmission, particularly in shared and/or anthropogenically altered habitats, whereas host diversity mitigates parasite infections. The SEM revealed an additional indirect but negative effect on intestinal parasite diversity via host genetic diversity. Our study showcases that habitat alterations not only affect species diversity and host genetic diversity in parallel, but also species diversity of host-associated assemblages. The impacts from human disturbance are therefore expected to ripple through entire ecosystems with far reaching effects felt even by generalist species.

Las perturbaciones antropogénicas sobre los hábitats naturales pueden afectar tanto a la diversidad de las especies como a la diversidad genética intraespecífica, dando lugar a correlaciones entre estos dos elementos de la biodiversidad (denominados correlación de la diversidad genética de las especies, SGDC por sus siglas en inglés). Sin embargo, todavía queda sin explorar si las predicciones de la SGDC afectan a las comunidades de parásitos y microorganismos intestinales asociadas al hospedador. Adicionalmente, el rol que juegan las especies generalistas, especialmente aquéllas dominantes, suele ser descuidado, a pesar de la importancia de control que ejercen sobre la estructura de la comunidad, y su rol como fuente, reservorio y vector de enfermedades zoonóticas. Para poder evaluar las relaciones de SGDC y distinguir entre los efectos directos e indirectos que tienen las características del hábitat y las perturbaciones sobre los distintos componentes de la biodiversidad, se pueden utilizar nuevos enfoques analíticos como por ejemplo los modelos de ecuaciones estructurales (SEM, por sus siglas en inglés). Considerando seis modelos específicos y biológicamente sólidos, recopilamos las características del hábitat de 22 sitios ubicados en cuatro paisajes distintos situados en el centro de Panamá. Cada paisaje difería en el grado de perturbación antropogénica y fragmentación, medido por diferentes variables cuantitativas, como la cobertura del dosel, la altura del dosel y la densidad del sotobosque. En términos de biodiversidad, por un lado estimamos (1) la diversidad de especies de pequeños mamíferos y, por otro lado (2) la diversidad del genoma completo, (3) la diversidad de parásitos intestinales, y (4) la heterogeneidad de las comunidades microbianas del intestino de la especie generalista más dominante, la rata espinosa de Tomes Proechimys semispinosus. Para evaluar los vínculos entre las características del hábitat y las medidas de diversidad biológica se utilizó el modelado SEM. El SEM mejor apoyado sugirió que las características del hábitat afectan directa y positivamente a la abundancia de pequeños mamíferos, a la diversidad genética de P. semispinosus y a la heterogeneidad microbiana intestinal. Sin embargo, se observó que las características del hábitat no tienen un efecto directo en la diversidad de parásitos intestinales. Aparte de estos efectos directos, detectamos efectos indirectos y positivos de las características del hábitat en ambos conjuntos asociados al hospedador (diversidad de parásitos y microorganismos intestinales) a través de la abundancia de pequeños mamíferos. En el caso de las comunidades microbianas, esto está probablemente relacionado con la transmisión interespecífica, especialmente en hábitats compartidos y/o antropogénicamente alterados; mientras que la diversidad de hospedadores mitiga las infecciones de parásitos. El SEM reveló un efecto indirecto adicional pero negativo sobre la diversidad de parásitos intestinales a través de la diversidad genética de los hospedadores. Nuestro estudio muestra que los patrones de SGDC se filtran a través de las varias capas de diversidad biológica, añadiendo los ensamblajes asociados al hospedador como componentes biológicos afectados por las alteraciones del hábitat.

Intra-species diversity of Clostridium perfringens: A diverse genetic repertoire reveals its pathogenic potential.

Clostridium perfringens is the causative agent of many enterotoxic diseases in humans and animals, and it is present in diverse environments (soil, food, sewage, and water). Multilocus Sequence Typing (MLST) and Whole Genome Sequencing (WGS) have provided a general approach about genetic diversity of C. perfringens; however, those studies are limited to specific locations and often include a reduced number of genomes. In this study, 372 C. perfringens genomes from multiple locations and sources were used to assess the genetic diversity and phylogenetic relatedness of this pathogen. In silico MLST was used for typing the isolates, and the resulting sequence types (ST) were assigned to clonal complexes (CC) based on allelic profiles that differ from its founder by up to double-locus variants. A pangenome analysis was conducted, and a core genome-based phylogenetic tree was created to define phylogenetic groups. Additionally, key virulence factors, toxinotypes, and antibiotic resistance genes were identified using ABRicate against Virulence Factor Database (VFDB), TOXiper, and Resfinder, respectively. The majority of the C. perfringens genomes found in publicly available databases were derived from food (n = 85) and bird (n = 85) isolates. A total of 195 STs, some of them shared between sources such as food and human, horses and dogs, and environment and birds, were grouped in 25 CC and distributed along five phylogenetic groups. Fifty-three percent of the genomes were allocated to toxinotype A, followed by F (32%) and G (7%). The most frequently found virulence factors based on > 70% coverage and 99.95% identity were plc (100%), nanH (99%), ccp (99%), and colA (98%), which encode an alpha-toxin, a sialidase, an alpha-clostripain, and a collagenase, respectively, while tetA (39.5%) and tetB (36.2%), which mediate tetracycline resistance determinants, were the most common antibiotic resistance genes detected. The analyses conducted here showed a better view of the presence of this pathogen across several host species. They also confirm that the genetic diversity of C. perfringens is based on a large number of virulence factors that vary among phylogroups, and antibiotic resistance markers, especially to tetracyclines, aminoglycosides, and macrolides. Those characteristics highlight the importance of C. perfringens as a one of the most common causes of foodborne illness.

Short-Term Temporal Patterns in Herbivore Beetle Assemblages in Polyculture Neotropical Forest Plantations.

Although insect herbivorous communities in tropical forests are known to exhibit strong seasonality, few studies have systematically assessed temporal patterns of variation in community structure and plant-herbivore interactions in early successional arboreal communities. We assessed seasonal and interannual variation of the diversity and composition of herbivorous beetles and the tree-herbivore network in a recently established polyculture forest plantation, during the dry and the rainy seasons of 2012 and of 2013. Species richness was similar between years, while the ecological diversity was higher in 2012. Comparing seasons, no differences were found in 2012, whereas in 2013, the species richness and ecological diversity were higher during the dry season. The species composition differed radically across years and seasons. Moreover, a quantitative nested pattern was consistently found across both temporal scales, more influenced by species densities. We found temporal changes in the species strength, whereas connectance and interaction evenness remained stable. Rapid temporal changes in the structural complexity of recently established polyculture plantations and the availability and quality of the trophic resources they offer may act as drivers of beetle diversity patterns, promoting rapid variation in herbivore composition and some interacting attributes. Nonetheless, network structure, connectance, and interaction evenness remained similar, suggesting that reorganizations in the distribution of species may determine the maintenance of the patterns of interaction. Further work assessing long-term temporal dynamics of herbivore beetle assemblages are needed to more robustly relate diversity and interaction patterns to biotic and abiotic factors and their implications in management programs.

A global meta-analysis of the impacts of exotic plant species invasion on plant diversity and soil properties.

Plant diversity and biogeochemical cycles are rapidly changing in response to exotic plant species invasion. However, there are conflicting conclusions regarding the quantification of such changes in the soil properties and plant diversity. Moreover, the relationships between soil properties and plant diversity are unclear. Here, a global meta-analysis was conducted on the impact of exotic species invasion on soil physicochemistry, microbial activity, and plant diversity using data from 123 published reports and 332 samples. Exotic species invasion significantly enhanced the soil pH, soil microbial activity, and soil nutrient content. The impact was more substantial for grass than for shrub and tree. Exotic species invasion did not significantly affect soil texture, but significantly reduced the plant diversity, richness, and evenness by 36.97%, 64.72%, and 47.21%, respectively. Soil pH, soil organic carbon, and total nitrogen were significantly correlated with plant diversity reduction. The response ratio of plant richness and evenness gradually increased with precipitation. However, the response ratio of phosphatase, microbial biomass nitrogen, microbial biomass phosphorus, total nitrogen, and soil moisture gradually decreased with precipitation. Overall, exotic species invasion significantly increased the soil nutrient content and soil microbial activity, but significantly decreased plant diversity. These effects were influenced by exotic species types and precipitation.

The contribution of the BIOTA/FAPESP Program to the knowledge on pollination and plant reproduction / Contribuição do Programa BIOTA/FAPESP para o conhecimento sobre polinização e reprodução em plantas

Abstract Interactions between plant and pollinators are associated with the origin and maintenance of species diversity, as well as ecosystem functioning. The potential of pollination as an ecosystem service is evidenced by its association with food production. Understanding pollination at the landscape scale is essential for characterizing the pollination service for several crops that depend on pollinators for fruit and seed set that make up the human diet. Our aim was to carry out a literature review of studies and projects funded by BIOTA/FAPESP to illustrate the main research approaches developed in the field of Pollination Biology, especially related to plant-pollinator interactions. Plant-pollinator interactions in the Atlantic forest were leveraged as a result of this long-term research program, during which several papers were published in international journals. Pollination by bees (melittophily) was the most representative pollination system studied. In addition to melittophily, other interactions were studied such as pollination by hawkmoths (sphingophily), by hummingbirds (ornithophily) and by bats (chiropterophily). The specific mutualistic relationships between fig trees and fig wasps were also subject of studies within the Program. At the beginning of the BIOTA/FAPESP Program, there were many gaps in basic information about pollination and breeding systems of Brazilian native plant species. Thus, the Program was fundamental to fuel research on the natural history of plants and pollinators from the Atlantic forest. Overall, the Program funded studies that investigated themes such as functional pollination ecology, pollinator effectiveness, plant population genetics, structure and dynamics of plant-pollinator interaction networks, as well as geographic distribution and macroevolution of pollination systems, as well as genetic and molecular studies of native plant populations focusing on pollen flow and genetic structure of populations. Additionally, studies on pollination in the context of landscape ecology had the aim of assessing the effects of forest fragmentation on the functioning of plant populations and their interactions with pollinators and the relationships between landscape structure and ecological processes, biodiversity, and ecosystem service. Therefore, the Program had a prominent role in producing basic data with great implications for understanding the ecology and promoting the conservation of plant-pollinator interactions.

Resumo A interação planta-polinizador está associada à origem e manutenção da diversidade de espécies de plantas e ao funcionamento dos ecossistemas. O potencial da polinização como serviço ecossistêmico é destacado quando associado à produção de alimentos. Compreender esta interação na escala da paisagem é essencial para caracterizar o serviço de polinização para muitos cultivos que dependem dos polinizadores para a formação de frutos e sementes que integram a dieta humana. O objetivo deste trabalho foi realizar uma revisão bibliográfica de estudos e projetos financiados pelo BIOTA/FAPESP para ilustrar as principais abordagens de pesquisa desenvolvidas no campo da Biologia da Polinização, especialmente relacionadas à interação planta-polinizador. As interações planta-polinizador na Mata Atlântica foram alavancadas como resultado desse programa de pesquisa de longo prazo, durante o qual vários artigos foram publicados em revistas internacionais. A polinização por abelhas (melitofilia) foi o sistema de polinização mais representativo estudado. Além da melitofilia, outras interações foram estudadas, como a polinização por mariposas (esfingofilia), por beija-flores (ornitofilia) e por morcegos (quiropterofilia). As relações mutualísticas específicas entre figueiras e vespas do figo também foram objeto de estudos no âmbito do Programa. No início do Programa BIOTA/FAPESP, havia muitas lacunas sobre informações básicas sobre polinização e sistemas de reprodução de espécies vegetais nativas brasileiras. Assim, o Programa foi fundamental para desenvolver pesquisas sobre a história natural de plantas e polinizadores da Mata Atlântica. No geral, o Programa financiou estudos que investigaram temas como ecologia funcional da polinização, eficácia de polinizadores, genética de populações de plantas, estrutura e dinâmica de redes de interação planta-polinizador, bem como distribuição geográfica e macroevolução dos sistemas de polinização, além de estudos genéticos e moleculares de populações de plantas nativas com foco no fluxo de pólen. Adicionalmente, estudos sobre polinização no contexto da ecologia da paisagem tiveram como objetivo avaliar os efeitos da fragmentação florestal no funcionamento das populações de plantas e suas interações com os polinizadores e as relações entre a estrutura da paisagem e os processos ecológicos, biodiversidade e serviços ecossistêmicos. Portanto, o Programa teve um papel de destaque na produção de dados básicos com grandes implicações para o entendimento da ecologia e promoção da conservação das interações planta-polinizador.

Fishes of the Mitú Region: middle basin of the río Vaupés, Colombian Amazon / Peces de la región de Mitú: cuenca media del río Vaupés, Amazonia colombiana

Abstract: The Amazon River basin hosts the most diverse freshwater ichthyofauna in the world, and yet huge areas of the basin remain unexplored. This is the case for the upper tributaries of the rio Negro, especially those draining the Colombian territory. Here we present a list of 224 species derived from the examination of specimens collected in the Mitú region (Vaupés Department, Colombia), the middle basin of the río Vaupés. Of the species identified in our study, 10 species are recorded from Colombia for the first time, and 26 species are newly recorded from the Colombian Amazon. The number of species we present here comprise almost one-third of the known species diversity of the Colombian Amazon and nearly a tenth of the total number of those known across the entirety of the Amazon basin. The most diverse orders were Characiformes (120 species) and Siluriformes (65 species), and the remaining six orders comprised less than 20% of total species. The study area comprised blackwater systems, which are considered to be nutrient-poor environments. We discuss some ecological aspects that might explain how this highly diverse ichthyofauna originates and is maintain in less productive systems. The list presented here adds an important number of new records and complements the information derived from previous studies, carried out thus far with regards to the fish fauna of the Colombian Amazon.

Resumo: La cuenca del río Amazonas alberga la ictiofauna dulceacuícola más diversa del mundo, sin embargo, grandes áreas de la cuenca permanecen inexploradas. Este es el caso de los afluentes de la parte alta del río Negro, especialmente los sistemas que drenan el territorio colombiano. A continuación, presentamos un listado de 224 especies derivadas del análisis de especímenes recolectados en la región de Mitú, cuenca media del río Vaupés (Departamento de Vaupés, Colombia). De las especies identificadas, 10 especies se registran en Colombia por primera vez y 26 especies para la Amazonía colombiana. El número de especies que presentamos aquí comprende casi un tercio de las especies conocidas para la Amazonía colombiana y casi una décima parte del total de las conocidas para la gran cuenca del Amazonas. Los órdenes más diversos fueron Characiformes (120 especies) y Siluriformes (65 especies), y los seis órdenes restantes comprendieron menos del 20% del total de especies. El área de estudio comprende sistemas de aguas negras que se consideran ambientes poco productivos por sus bajos contenidos de nutrientes. Discutimos aquí algunos aspectos ecológicos que podrían explicar cómo esta ictiofauna tan diversa tiene su origen y es mantenida en estos sistemas poco productivos. La información derivada del presente estudio adiciona nuevos registros de especies de peces para Colombia, y complementa la información derivada de los estudios realizados a la fecha en la Amazonía colombiana.

Novelties from the herbaceous stratum in a key region for the conservation of the Southern Amazon / Novidades do estrato herbáceo em uma região chave para a conservação da Amazônia Meridional

Abstract The contribution of the herbaceous stratum to tropical plant diversity is considerable, however this component remains undersampled. We investigated floristic, structural, ecological and conservation issues concerning the herbaceous component of a seasonal deciduous forest associated with granitic rock outcrops in the Cristalino Region, a key area for biodiversity conservation in the Brazilian Amazon. We installed a permanent plot of 1 ha, allocating 10 transect-lines of 20 m each. We identified the sampled individuals, measured height and projection, and verified cover and frequency per species, genera and family. We recorded 86 species, 62 genera and 25 families, with Orchidaceae being the family with the highest species richness. Among the 26 new species added to Cristalino Flora, we included Philodendron deflexum Poepp. ex Schott and Griffinia nocturna Ravenna, the latter 'Critically Endangered'. Furthermore, the occurrence of G. nocturna in an Amazonian forest matrix is a novelty in this study. The estimate of species diversity according to Shannon-Wiener (H') was 2.43 nats.ind.-1 (equivalent to 11.37 ± 0.90 IC95% equally common species), and according to Simpson (1/D), 6.82 (± 0.648 IC95%). The rarefaction and extrapolation curves for the diversity estimates tended to stabilize. Although the vegetation on rock outcrops usually presents a high number of endemic species, this pattern was not found in our study area, which can be explained by its continuous occurrence in the forest matrix. The understory of our study area consists in a mixture of floras, being composed mainly of species from the Amazon and/or Cerrado biomes. In view of the current anthropic pressure faced by the southern Amazon, we reinforce the importance of carrying out inventories of its herbaceous communities, since the risk of species loss is even more alarming when considering present undersampling of this component.

Resumo A contribuição do estrato herbáceo para a diversidade de plantas tropicais é considerável, mas esse componente permanece subamostrado. Investigamos questões florísticas, estruturais, ecológicas e de conservação relacionadas ao componente herbáceo de uma floresta estacional decidual associada a afloramentos rochosos graníticos na região do Cristalino, que é uma área chave para a conservação da biodiversidade na Amazônia brasileira. Instalamos um plot permanente de 1 ha, alocando 10 linhas de 20 m cada. Identificamos os indivíduos amostrados, medimos altura e projeção e verificamos cobertura e frequência por espécie, gênero e família. Registramos 86 espécies, 62 gêneros e 25 famílias, sendo Orchidaceae a família com maior riqueza de espécies. Entre as 26 novas espécies adicionadas à Flora do Cristalino, incluímos Philodendron deflexum Poepp ex Schott e Griffinia nocturna Ravenna, esta última 'Criticamente Ameaçada'. Além disso, a ocorrência de G. nocturna em uma matriz florestal amazônica é uma novidade neste estudo. A estimativa da diversidade de espécies de acordo com Shannon-Wiener (H ') foi 2,43 nats / ind.-1 (equivalente a 11,37 ± 0,90 IC95% espécies igualmente comuns), e de acordo com Simpson (1/D), 6,82 (± 0,648 IC95%). As curvas de rarefação e extrapolação para as estimativas de diversidade tenderam à estabilização. Embora a vegetação associada a afloramentos rochosos em geral apresente um elevado número de espécies endêmicas, esse padrão não foi encontrado para a nossa área de estudo, o que pode ser explicado pela sua ocorrência contínua à matriz florestal. O sub-bosque da nossa área de estudo apresenta mistura de floras, sendo composto principalmente por espécies dos biomas Amazônia e/ou Cerrado. Diante das pressões antrópicas existentes no sul da Amazônia, reforçamos a importância da realização de inventários das comunidades herbáceas desse bioma, já que o risco de perda de espécies é ainda mais alarmante quando consideramos a subamostragem desse componente.

Linking fish and crustacean taxonomic composition with seasonal contrasts in the soft-bottom intertidal zone / Ligação da composição taxonômica de peixes e crustáceos com contrastes sazonais na zona intertidal de fundo macio

The primary objective of this study was to investigate the seasonal fish and crustacean variations concerning taxonomic composition, species richness, and diversity in sandy beach habitat. For this purpose, we investigated the Sonmiani Hor lagoon area during four distinct seasons, i.e., northeast (NE) monsoon, pre-monsoon, south-west (SW) monsoon, and post-monsoon for one year. During each haul, the net was pulled about 100m along the beach in 0.5m depth. The results showed a strong linear correlation between the diversity index and equitability in fishes (r = 0.978). The diversity index was strong negatively correlated with the abundance and biomass (r = -0.978, -0.972, respectively). The physical attributes like sea surface water temperature and salinity showed a strong negative effect on species assemblages (r = -0.981 and -0.943, respectively). The mean air and water temperature illustrated approximately 3°C difference during NE and pre-monsoon seasons. However, salinity, pH, and electrical conductivity did not show any significant seasonal variabilities. Under the ecological indices, the fish species displayed higher diversity (H = 3.19) during SW monsoon, whereas the lowest diversity was observed during pre-monsoon (H = 1.58). The equitability and species richness, however, remained more noticeable during SW monsoon (J = 0.81). The total number of individuals of fish and crustaceans reached 4799 with 3813 fish individuals and 986 individuals of crustaceans. A total of 27 families of fish while five crustacean families comprising of 30 genera and 38 fish species while ten genera and 17 species of crustaceans were recorded. Liza subviridis displayed the highest abundance among the sampled fish species. In conclusion, fish species constituted a significant part of the coastal fauna in the study area. The seasonal variations displayed distinct variations in fish species composition and diversity.(AU)

O objetivo principal deste estudo foi investigar as variações sazonais de peixes e crustáceos em relação à composição taxonômica, riqueza de espécies e diversidade no habitat de praias arenosas. Para esse fim, investigamos a área da lagoa Sonmiani Hor durante quatro estações distintas, ou seja, monção nordeste (NE), pré-monção, monção sudoeste (SW) e pós-monção, por um ano. Durante cada transporte, a rede foi puxada cerca de 100 m ao longo da praia, a 0,5 m de profundidade. Os resultados mostraram uma forte correlação linear entre o índice de diversidade e a equitabilidade de peixes (r = 0,978). O índice de diversidade apresentou forte correlação negativa com a abundância e a biomassa (r = -0,978 e -0,972, respectivamente). Os atributos físicos, como temperatura da água da superfície do mar e salinidade, apresentaram forte efeito negativo sobre o conjunto de espécies (r = -0,981 e -0,943, respectivamente). A temperatura média do ar e da água teve uma diferença de aproximadamente 3 °C durante a monção NE e a pré-monção. No entanto, salinidade, pH e condutividade elétrica não apresentaram variabilidade sazonal significativa. A respeito dos índices ecológicos, as espécies de peixes apresentaram maior diversidade (H = 3,19) durante a monção SW, enquanto a menor diversidade observada foi na pré-monção (H = 1,58). A equitabilidade e a riqueza de espécies, no entanto, permaneceram mais perceptíveis durante a monção SW (J = 0,81). O número total de peixes e crustáceos foi de 4.799, com 3.813 peixes e 986 crustáceos. Foram registradas 27 famílias de peixes e 5 famílias de crustáceos, com 30 gêneros e 38 espécies de peixes, além de 10 gêneros e 17 espécies de crustáceos. Liza subviridis apresentou a maior abundância entre as espécies de peixes amostradas. Em conclusão, as espécies de peixes constituíram uma parte significativa da fauna costeira na área de estudo. As variações sazonais apresentaram variações distintas na composição e diversidade das espécies de peixes.(AU)