Fish biodiversity and conservation in South America

Electrosensory and metabolic responses of weakly electric fish to changing water conductivity

Weakly electric gymnotiform fishes use self-generated electric organ discharges (EODs) to navigate and communicate. The electrosensory range for these processes is a function of EOD amplitude, determined by the fish's electric organ (EO) output and the electrical conductivity of the surrounding water. Anthropogenic activity, such as deforestation, dams and industrial/agricultural runoff, are known to increase water conductivity in neotropical habitats, likely reducing the electrosensory range of these fish. We investigated whether fish modulate EO output as means of re-expanding electrosensory range after a rapid increase in water conductivity in the pulse-type Brachyhypopomus gauderio and the wave-type Eigenmannia virescens. Furthermore, because EOD production incurs significant metabolic costs, we assessed whether such compensation is associated with an increase in metabolic rate. Following the conductivity increase, B. gauderio increased EOD amplitude by 20.2±4.3% over 6 days but with no associated increase in metabolic rate, whereas the EOD amplitude of E. virescens remained constant, accompanied by an unexpected decrease in metabolic rate. Our results suggest that B. gauderio uses a compensation mechanism that requires no metabolic investment, such as impedance matching, or a physiological trade-off wherein energy is diverted from other physiological processes to increase EO output. These divergent responses between species could be the result of differences in reproductive life history or evolutionary adaptations to different aquatic habitats. Continued investigation of electrosensory responses to changing water conditions will be essential for understanding the effects of anthropogenic disturbances on gymnotiforms, and potential physiological mechanisms for adapting to a rapidly changing aquatic environment.

Integrative Taxonomy of Urocleidoides spp. (Monogenoidea, Dactylogyridae) Parasites of Pseudanos trimaculatus (Characiformes: Anostomidae) from Eastern Amazon, Brazil

Two new species of Urocleidoides are described from the gills of Pseudanos trimaculatus (Characiformes: Anostomidae) from the coastal drainages of the Eastern Amazon, Brazil. Urocleidoides itabocaensis n. sp. is characterized by having a sclerotized, tubular, sigmoid male copulatory organ (MCO), a circular sclerotized tandem brim associated with the base of the MCO; an accessory piece articulated with the MCO, a V-shaped, divided into two subunits, distal subunit spoon-shaped; and a vaginal pore dextroventral with opening marginal. Urocleidoides omphalocleithrum n. sp. is characterized by presenting a C-shaped or sigmoid MCO; an accessory piece articulated with the MCO, L-shaped, divided into two subunits, distal subunit gutter-shaped; a vaginal pore dextroventral with opening marginal; and a ventral bar broadly V-shaped, with anteromedial projection. Molecular phylogenetic analysis based on partial 28S rDNA and COI mtDNA genes indicate that U. itabocaensis n. sp. and U. omphalocleithrum n. sp. are closely related and appear as a sister group to other Urocleidoides species (U. paradoxus, U. digitabulum and U. sinus) parasitizing anostomid fishes. This study represents the first record of monogenoids from the gills of P. trimaculatus for the Eastern Amazon.

Genetic insights into Cyphocharax magdalenae (Characiformes: Curimatidae): Microsatellite loci development and population analysis in the Cauca River, Colombia

Cyphocharax magdalenae, a Colombian freshwater fish species, plays a vital role in nutrients distribution and serves as a significant food source for other fish species and local fishing communities. Considered a short-distance migratory species, C. magdalenae populations face substantial extinction risk due to human activities impacting their habitats. To address the lack of knowledge on genetic diversity and population structure, this study used next-generation sequencing technology to develop species-specific microsatellite loci and conducted a population genetics analysis of C. magdalenae in the middle and lower sections of the Cauca River, Colombia. Out of 30 pairs of microsatellite primers evaluated in 324 individuals, 14 loci were found to be polymorphic, at linkage equilibrium and, in at least one population, their genotypic frequencies were in Hardy-Weinberg equilibrium. Results showed high genetic diversity levels compared to other neotropical Characiformes, with inbreeding coefficients similar to those reported for phylogenetically related species. Moreover, C. magdalenae exhibits seasonal population structure (rainy-dry) consisting of two genetic stocks showing bottleneck signals and high effective population sizes. This information is essential for understanding the current species genetics and developing future management programs for this fishery resource.

Parasites (Monogenea) of tilapias Oreochromis niloticus and Coptodon rendalli (Cichlidae) in a river spring in Brazil

In the present study, we examined 30 individuals of introduced African cichlids, Oreochromis niloticus and Coptodon rendalli, collected in a river spring of the Pardo River, Paranapanema River basin, southeastern Brazil. Based on morphological and molecular analyses of the partial LSU rDNA gene, we identified four species of monogeneans, Cichlidogyrus tilapiae, C. thurstonae, C. mbirizei, and Scutogyrus longicornis on the gills of O. niloticus, whereas individuals of C. rendalli were infested only with C. papernastrema. This is the first record of C. mbirizei and C. papernastrema in tilapias from Brazil. The ecological consequences of the introduction of exotic species of tilapia such as O. niloticus and C. rendalli along with their monogenean parasites in a wild environment represented by a river spring are discussed. Our new molecular data on Cichlidogyrus and Scutogyrus contribute to the investigation of the phylogenetic interrelationships of these widely distributed genera of monogeneans since their species composition is still unsettled.

Improving the efficiency of adaptive management methods in multiple fishways using environmental DNA

Dams and weirs impede the continuity of rivers and transit of migratory fish. To overcome this obstacle, fishways are installed worldwide; however, management after installation is important. The Miyanaka Intake Dam has three fish ladders with different flow velocities and discharges and has been under adaptive management since 2012. Fish catch surveys, conducted as an adaptive management strategy, place a heavy burden on fish. Furthermore, a large number of investigators must be mobilized during the 30-day investigation period. Thus, a monitoring method using environmental DNA that exerts no burden on fish and requires only a few surveyors (to obtain water samples) and an in-house analyst was devised; however, its implementation in a fishway away from the point of analysis and with limited flow space and its effective water sampling frequency have not been reported. Therefore, in 2019, we started a trial aiming to evaluate the methods and application conditions of environmental DNA surveys for the continuous and long-term monitoring of various fish fauna upstream and downstream of the Miyanaka Intake Dam. To evaluate the fish fauna, the results of an environmental DNA survey (metabarcoding method) for 2019 to 2022 were compared to those of a catch survey in the fishway from 2012 to 2022. The results confirmed the use of environmental DNA surveys in evaluating the contribution of fishways to biodiversity under certain conditions and introduced a novel method for sample collection.

Characterizing functional morphology and trophic niches in a neotropical Characiforms (Actinopterygii: Teleostei) assemblage in middle Munim River basin, Maranhão, Brazil

Understanding how functionally similar species segregate resources to minimize competition is vital for predicting evolutionary factors and patterns of coexistence. We conducted a study in Mata de Itamacaoca, in the middle Munim River basin, Maranhão, northeastern Brazil, to characterize the functional morphology and trophic niches of five coexisting Characiform species in this area - including a recently described species, and to investigate whether their functional morphology is a key determinant of their trophic niches. Our analysis of functional morphology and diet, employing linear measurements to predict dietary specializations, showed that these species are predominantly generalist insectivores with a significant morphological overlap. This study underscores the influence of species' natural history on their ecological characteristics, contributing to more effective conservation strategies.

Phylogenomics of the narrowly endemic Eurycheilichthys (Siluriformes: Loricariidae): Sympatric species with non-sister relationships suggest mainly allopatric speciation

Armored catfishes of the genus Eurycheilichthys are endemic to Southern Brazil and Misiones (Argentina) comprising nine species of small size, with a high degree of sympatry and species diversity distributed in two river basins. Here we use new genome-wide data to infer a species phylogeny and test species boundaries for this poorly known group. We estimate 1) the phylogenetic relationships of the species of Eurycheilichthys based on 29,350 loci in 65 individuals of nine species plus outgroups, and 2) the population structure and differentiation based on 43,712 loci and 62 individuals to estimate how geography may have acted on speciation and formation of the sympatric species groups. Analyses support the monophyly of the genus and suggest two species-inclusive clades (East and West) with high support and very recently diverged species. Western clade contains E. limulus (from upper Jacuí River basin) that is sister to Western species of the Taquari-Antas basin plus E. paucidens. The Eastern clade contains E. pantherinus (from Uruguay River basin) sister to the Eastern species of the Taquari-Antas basin E. coryphaenus, plus the central-distributed species E. planus and E. vacariensis, and the more widely-distributed species E. luisae. Eurycheilichthys luisae is not monophyletic and may contain one or more cryptic species or hybrid individuals. A stronger diversity on structure of lineages on the Taquari-Antas, when compared to upper Uruguay and Jacuí River basins, and the fact that most of the sympatrically distributed taxa have non-sister relationships suggest a scenario of mainly allopatric speciation and may indicate a more dynamic landscape with headwater capture events among these tributaries.

Traceability of primordial germ cells in three neotropical fish species aiming genetic conservation actions

Primordial germ cells (PGCs) are embryonic pluripotent cells that can differentiate into spermatogonia and oogonia, and therefore, PGCs are a genetic source for germplasm conservation through cryobanking and the generation of germline chimeras. The knowledge of PGC migration routes is essential for transplantation studies. In this work, the mRNA synthesized from the ddx4 3'UTR sequence of Pseudopimelodus mangurus, in fusion with gfp or dsred, was microinjected into zygotes of three neotropical species (P. mangurus, Astyanax altiparanae, and Prochilodus lineatus) for PGC labeling. Visualization of labeled PGCs was achieved by fluorescence microscopy during embryonic development. In addition, ddx4 and dnd1 expressions were evaluated during embryonic development, larvae, and adult tissues of P. mangurus, to validate their use as a PGC marker. As a result, the effective identification of presumptive PGCs was obtained. DsRed-positive PGC of P. mangurus was observed in the hatching stage, GFP-positive PGC of A. altiparanae in the gastrula stage, and GFP-positive PGCs from P. lineatus were identified at the segmentation stage, with representative labeling percentages of 29% and 16% in A. altiparanae and P. lineatus, respectively. The expression of ddx4 and dnd1 of P. mangurus confirmed the specificity of these genes in germ cells. These results point to the functionality of the P. mangurus ddx4 3'UTR sequence as a PGC marker, demonstrating that PGC labeling was more efficient in A. altiparanae and P. lineatus. The procedures used to identify PGCs in P. mangurus consolidate the first step for generating germinal chimeras as a conservation action of P. mangurus.

Dactylogyrids (Platyhelminthes, Monogenea) from the gill lamellae of doradids (Siluriformes) with description of five new species of Cosmetocleithrum and new geographical distribution for known species from the Neotropical Region, Brazil

Five new species of Cosmetocleithrum were described parasitizing the gill filaments of neotropical doradid fishes. Cosmetocleithrum undulatum n. sp., Cosmetocleithrum brachylecis n. sp. and Cosmetocleithrum ludovicense n. sp. are described from Platydoras brachylecis from a market-place of São Luís, State of Maranhão, Brazil. Cosmetocleithrum sacciforme n. sp. and Cosmetocleithrum basicomplexum n. sp. are described from Oxydoras niger from Juruá River, State of Acre, Brazil. Cosmetocleithrum undulatum and Cosmetocleithrum brachylecis resemble Cosmetocleithrum falsunilatum Feronato, Razzolini, Morey & Boeger, 2022 mainly by the unique male copulatory organ (MCO) morphology but differ from these and all congeneric species mainly by the morphology of the MCO, accessory piece and hooks pairs. Cosmetocleithrum ludovicense is closer to Cosmetocleithrum confusus Kritsky, Thatcher & Boeger, 1986 and to Cosmetocleithrum akuanduba Soares, Santos Neto & Domingues, 2018 but differs from those mainly by the morphology of the accessory piece. Cosmetocleithrum sacciforme differs from all congeneric species mainly by the morphology of the accessory piece formed by a single plate of saccular appearance. Cosmetocleithrum basicomplexum also shares morphological characters with Cosmetocleithrum gigas Morey, Cachique & Babilonia, 2019 considering the size of the body and shape of the anchors, but differs mainly in the morphology of the bars and hooks. Besides the new species, new data are presented for Cosmetocleithrum leandroi Soares, Neto & Domingues, 2018, C. akuanduba and C. confusus regarding morphological characteristics and biogeography.

Freshwater fish diversity in the western Amazon basin shaped by Andean uplift since the Late Cretaceous

South America is home to the highest freshwater fish biodiversity on Earth, and the hotspot of species richness is located in the western Amazon basin. The location of this hotspot is enigmatic, as it is inconsistent with the pattern observed in river systems across the world of increasing species richness towards a river's mouth. Here we investigate the role of river capture events caused by Andean mountain building and repeated episodes of flooding in western Amazonia in shaping the modern-day richness pattern of freshwater fishes in South America, and in Amazonia in particular. To this end, we combine a reconstruction of river networks since 80 Ma with a mechanistic model simulating dispersal, allopatric speciation and extinction over the dynamic landscape of rivers and lakes. We show that Andean mountain building and consequent numerous small river capture events in western Amazonia caused freshwater habitats to be highly dynamic, leading to high diversification rates and exceptional richness. The history of marine incursions and lakes, including the Miocene Pebas mega-wetland system in western Amazonia, played a secondary role.

Comparison of seven complete mitochondrial genomes from Lamprologus and Neolamprologus (Chordata, Teleostei, Perciformes) and the phylogenetic implications for Cichlidae

In this study, mitochondrial genomes (mitogenomes) of seven cichlid species (Lamprologuskungweensis, L.meleagris, L.ornatipinnis, Neolamprologusbrevis, N.caudopunctatus, N.leleupi, and N.similis) are characterized for the first time. The newly sequenced mitogenomes contained 37 typical genes [13 protein-coding genes (PCGs), two ribosomal RNA genes (rRNAs) and 22 transfer RNA genes (tRNAs)]. The mitogenomes were 16,562 ~ 16,587 bp in length with an A + T composition of 52.1~58.8%. The cichlid mitogenomes had a comparable nucleotide composition, A + T content was higher than the G + C content. The AT-skews of most mitogenomes were inconspicuously positive and the GC-skews were negative, indicating higher occurrences of C than G. Most PCGs started with the conventional start codon, ATN. There was no essential difference in the codon usage patterns of these seven species. Using Ka/Ks, we found the fastest-evolving gene were atp8. But the results of p-distance indicated that the fastest-evolving gene was nad6. Phylogenetic analysis revealed that L.meleagris did not cluster with Lamprologus species, but with species from the genus Neolamprologus. The novel information obtained about these mitogenomes will contribute to elucidating the complex relationships among cichlid species.

Inventory reveals non-native species and variation in spatial-temporal dynamics of fish community in a Brazilian protected area

The increase in the number of Brazilian protected areas has been progressive and, although it is essential for the conservation of biodiversity, it is important to monitor and properly manage these areas, as they present several cases of biological invasions. The Lençóis Maranhenses constitute the peculiar delta of the Americas and are under the consequences of the bioinvasion of tilapias and peacock bass. Collections were carried out in the Lençóis Maranhenses National Park from March/2016 to November/2020, with the aid of gill nets and cast nets. The species were identified with the help of specialized literature and a historical comparison with previous works was carried out. Cytochrome oxidase subunit I was sequenced to confirm identification of non-native species. We recorded the expansion of the occurrence of Oreochromis niloticus, and the first record of the species Oreochromis mossambicus and Cichla monoculus. A total of 31 species belonging to eight orders, eighteen families and twenty-nine genera were identified, indicating a lag in the diversity of species found in relation to previous studies. After 20 years of the first record of invasive fish, there is an expansion of bioinvasion and new cases that indicate a lack of monitoring and containment measures for the species, indicating the fragility of conservation in the area.

Speciation in Coastal Basins Driven by Staggered Headwater Captures: Dispersal of a Species Complex, Leporinus bahiensis, as Revealed by Genome-wide SNP Data

Past sea level changes and geological instability along watershed boundaries have largely influenced fish distribution across coastal basins, either by dispersal via palaeodrainages now submerged or by headwater captures, respectively. Accordingly, the South American Atlantic coast encompasses several small and isolated drainages that share a similar species composition, representing a suitable model to infer historical processes. Leporinus bahiensis is a freshwater fish species widespread along adjacent coastal basins over narrow continental shelf with no evidence of palaeodrainage connections at low sea level periods. Therefore, this study aimed to reconstruct its evolutionary history to infer the role of headwater captures in the dispersal process. To accomplish this, we employed molecular-level phylogenetic and population structure analyses based on Sanger sequences (5 genes) and genome-wide SNP data. Phylogenetic trees based on Sanger data were inconclusive, but SNPs data did support the monophyletic status of L. bahiensis. Both COI and SNP data revealed structured populations according to each hydrographic basin. Species delimitation analyses revealed from 3 (COI) to 5 (multilocus approach) MOTUs, corresponding to the sampled basins. An intricate biogeographic scenario was inferred and supported by Approximate Bayesian Computation (ABC) analysis. Specifically, a staggered pattern was revealed and characterized by sequential headwater captures from basins adjacent to upland drainages into small coastal basins at different periods. These headwater captures resulted in dispersal throughout contiguous coastal basins, followed by deep genetic divergence among lineages. To decipher such recent divergences, as herein represented by L. bahiensis populations, we used genome-wide SNPs data. Indeed, the combined use of genome-wide SNPs data and ABC method allowed us to reconstruct the evolutionary history and speciation of L. bahiensis. This framework might be useful in disentangling the diversification process in other neotropical fishes subject to a reticulate geological history.

Fish diversity in the rivers that drain the Baixada Maranhense and the Mearim basin in northeastern Brazil

The Baixada Maranhense Environmental Protection Area of the Brazilian state of Maranhão encompasses a biologically rich region that includes the basins of four principal rivers, the Mearim, Pericumã, Pindaré, and Turiaçu, which form a complex of wetlands. The present study provides a comprehensive inventory of the fish fauna of the rivers that drain the Baixada Maranhense based on the identification of voucher specimens that were deposited in a scientific collection. Expeditions were conducted between 2014 and 2020. The inventory identified a total of 100 fish species representing 79 genera, 34 families, and 11 orders, which are found in both freshwater and estuarine environments. Six (Potamotrygon orbignyi, Leporinus piau, Moenkhausia loweae, Serrasalmus spilopleura, Pachypops fourcroi and Peckoltia greedoi) of the 100 taxa identified here are considered to be new records for one or more of the basins surveyed during this study, based on the existing data, while four - Colossoma macropomum, Megaleporinus macrocephalus, Cichla sp. and Cichla kelberi - are not native. The most speciose orders were the Siluriformes and Characiformes, while the most diverse families were the Loricariidae, Characidae, Auchenipteridae, Cichlidae, and Serrasalmidae. These data are consistent with the findings of most of the previous studies of freshwater ecosystems in the Neotropical region, in particular those of the rivers of Maranhão. The results of the present study represent an important advance in the understanding of the diversity of the fish fauna of the Mearim, Pericumã, Pindaré, and Turiaçu rivers, which are still poorly studied, and have likely had their diversity underestimated up to now.

Metazoan parasites of Hoplias aff. malabaricus, Trachelyopterus galeatus and Schizodon borellii (Osteichthyes) from the Protected Area and its main tributary, Brazil

A study of the parasite-host interactions was conducted in the protected area popularly known as the "Refúgio Biológico de Santa Helena" and its tributary, the São Francisco Falso River. For each of the three host species, Schizodon borellii, Hoplias aff. malabaricus, and Trachelyopterus galeatus, 30 fish were collected from 2018 to 2019. A total of 2172 parasites were identified among the three host species. Among these, the Monogenea class had the highest number of species, with 26 taxa, followed by Copepoda with eight taxa, Digenea with six taxa, and Cestoda and Nematoda with one taxon each. Eleven new records of infection/infestation were found among the host species such as Urocleidoides paradoxus, Urocleidoides ramentacuminatus, Rhinoxenus arietinus, Mymarothecioides sp. (Monogenea), Ergasilus cf. bryconis, Lernaea devastatrix, and Brasergasilus sp. (Copepoda) parasitizing S. borellii. Trinigyrus sp., Vancleaveus sp. (Monogenea), Gamispinus diabolicus (Copepoda) present in T. galeatus, and Gamidactylus jaraquensis (Copepoda) present in H. aff. malabaricus. This study contributes to the record of parasite species occurrence in the vicinity of a protected area and helps fill gaps in the knowledge of fish parasitic fauna in the Neotropical region.

High resolution in turbid waters: Ampullae of lorenzini in the daggernose shark Carcharhinus oxyrhynchus (Valenciennes, 1839) (Elasmobranchii: Carcharhinidae)

The present work aimed to analyze the distribution of the electrosensory pores of the Daggernose Shark Carcharhinus oxyrhynchus identifying the organ's importance in the natural history of the species. By examining photographs and digital microscope videos, we found that C. oxyrhynchus possesses the highest abundance of pores among Carcharhiniformes. This suggests a well-developed electroreceptor system, which may have maximized its evolutionary success in high turbidity environments. Furthermore, as a morphologically derived species, C. oxyrhynchus comprises a more complex and specialized electrosensory system. Notably, the species exhibits ontogenetic variation in pore abundance, highlighting the importance of a high-resolution system for adults. The higher density of pores in the ventral region indicates a preference for benthic prey, despite also feeding on pelagic items. Moreover, the species has a high-resolution electrosensory system and a high density of pores in the snout, which emphasizes the importance of the elongated snout that expands the electroreception search area coverage. Evolutionary convergence was observed in the development of the electrosensory system, as C. oxyrhynchus shares characteristics of pore distribution and abundance with phylogenetically unrelated species.

Influence of abiotic factors on the composition of fish assemblages in the Aracá-Demeni sub-basin of the middle Negro River

We evaluated the influence of flooding and receding comparison and spatial variation on the composition and structure of fish assemblages in blackwater and clearwater rivers of the Aracá-Demeni sub-basin in the middle Negro River, Amazonas state, Brazil. The collections were carried out during the falling-water period (November 2018) and the rising-water period (April 2019) using gillnets with meshes ranging from 30 to 120mm stretched mesh size. Ecological estimates of richness, equitability, the Shannon-Wiener diversity index, and the Berger-Parker index showed no significant differences between the periods. The composition of the ichthyofauna showed variations between the falling-water and rising-water periods. Beta diversity in the Aracá-Demeni sub-basin is almost completely caused by species substitution, with spatial turnover accounting for most of the estimate. The identification of these patterns and of the responsible factors are fundamental for the definition of conservation strategies, especially in an ecosystem whose dynamics can be influenced by climate change through changes in the intensity of the flood pulse and connectivity.

Integrating Genomic and Chromosomal Data: A Cytogenetic Study of Transancistrus santarosensis (Loricariidae: Hypostominae) with Characterization of a ZZ/ZW Sex Chromosome System

The plecos (Loricariidae) fish represent a great model for cytogenetic investigations due to their variety of karyotypes, including diploid and polyploid genomes, and different types of sex chromosomes. In this study we investigate Transancistrus santarosensis a rare loricariid endemic to Ecuador, integrating cytogenetic methods with specimens' molecular identification by mtDNA, to describe the the species karyotype. We aim to verify whether sex chromosomes are cytologically identifiable and if they are associated with the accumulation of repetitive sequences present in other species of the family. The analysis of the karyotype (2n = 54 chromosomes) excludes recent centric fusion and pericentromeric inversion and suggests the presence of a ZZ/ZW sex chromosome system at an early stage of differentiation: the W chromosome is degenerated but is not characterized by the presence of differential sex-specific repetitive DNAs. Data indicate that although T. santarosensis has retained the ancestral diploid number of Loricariidae, it accumulated heterochromatin and shows non-syntenic ribosomal genes localization, chromosomal traits considered apomorphic in the family.

Phylogeography and population genetic structure of the cardinal tetra (Paracheirodon axelrodi) in the Orinoco basin and Negro River (Amazon basin): evaluating connectivity and historical patterns of diversification

The Neotropics contain one of the most diverse assemblages of freshwater fishes worldwide. Part of this diversity is shared between the Orinoco and Amazon basins. These basins have been separated for a long time due to the Vaupes Arch, rising between 10-11 Ma. Today, there is only one permanent connection between the Orinoco and Negro (Amazon) basins, known as the Casiquiare Canal. However, alternative corridors allowing fish dispersion between both basins have been proposed. The cardinal tetra (Paracheirodon axelrodi), the most important fish in the ornamental world market, is distributed in both basins. Here we investigated P. axelrodi phylogeography, population structure, and potential routes of migration and connectivity between the two basins. A total of 468 bp of the mitochondrial gene (COI), 555 bp of the nuclear gene fragment (MYH6), and eight microsatellite loci were analyzed. As a result, we found two major genetic clusters as the most likely scenario (K = 2), but they were not discreetly distributed between basins. A gradient of genetic admixture was observed in Cucui and São Gabriel da Cachoeira, between the upper Negro River and the upper Orinoco. Samples from the middle-lower Negro River were highly structured. Cucui (Negro basin) was more similar to the Orinoco than to the rest of the Negro basin populations. However, substructure was also observed by the discriminant analysis, fixation indices and other hierarchichal structure analyses (K = 3 - 6), showing three major geographic clusters: Orinoco, Cucui, and the remaining Negro basin. Unidirectional migration patterns were detected between basins: via Cucui toward Orinoco and via the remaining of the Negro basin toward Orinoco. Results from the Relaxed Random Walk analysis support a very recent origin of this species in the headwater Orinoco basin (Western Guiana Shield, at late Pleistocene) with a later rapid colonization of the remaining Orinoco basin and almost simultaneously the Negro River via Cucui, between 0.115 until about 0.001 Ma. Historical biogeography and population genetic patterns observed here for Cardinal tetra, seem to be better explained by river capture, physical, or ecological barriers than due to the geographic distance.

Bridging archaeology and marine conservation in the Neotropics

Anthropogenic impacts on tropical and subtropical coastal environments are increasing at an alarming rate, compromising ecosystem functions, structures and services. Understanding the scale of marine population decline and diversity loss requires a long-term perspective that incorporates information from a range of sources. The Southern Atlantic Ocean represents a major gap in our understanding of pre-industrial marine species composition. Here we begin to fill this gap by performing an extensive review of the published data on Middle and Late Holocene marine fish remains along the southern coast of Brazil. This region preserves archaeological sites that are unique archives of past socio-ecological systems and pre-European biological diversity. We assessed snapshots of species compositions and relative abundances spanning the last 9500 years, and modelled differences in species' functional traits between archaeological and modern fisheries. We found evidence for both generalist and specialist fishing practices in pre-European times, with large body size and body mass caught regularly over hundreds of years. Comparison with modern catches revealed a significant decline in these functional traits, possibly associated with overfishing and escalating human impacts in recent times.

Fish response to the presence of hydrokinetic turbines as a sustainable energy solution

Hydrokinetic turbines such as vertical axis turbines (VATs) may provide decentralised, clean, sustainable energy for remote communities that lack access to the main energy grid or renewable resources. As traditional hydropower adversely alters aquatic ecosystems, it is essential to evaluate the environmental consequences of deploying VATs in riverine ecosystems to meet current and future energy needs. This study explores the implications of VATs on fish movement by observing fish swimming behaviour under two discharges, turbine operation states, and cross-sections confinements using scaled laboratory experiments. Our findings reveal that for cross-sectional confined conditions neither discharge, turbine presence, nor device operation, prevented fish from passing around and through the turbine both in the up- and downstream directions. However, fish spent the least time near the turbine vicinity and within the turbine's turbulent, low-velocity wake, indicating avoidance behaviour. Swimming in a less confined test section further reduced the time spent within the turbine's vicinity and wake, increasing the distance fish kept away from the device. Our results contribute to an understanding of VATs as low-risk hazards for fish swimming behaviour, advancing the potential of deploying VATs in rivers, estuaries or sea as a renewable energy solution for remote communities.

Genetic population structure of Pseudoplatystoma corruscans (Siluriformes: Pimelodidae) and evidence of temporal variation in structure

Surubim (Pseudoplatystoma corruscans, Pimelodidae) are migratory catfish native to the rivers in the La Plata and São Francisco basins. They are piscivores that attain considerable body sizes and are a valuable economic resource. Surubim exhibits extensive migrations during its life cycle that may affect the population structure at vast geographic scales. The authors examined the genetic diversity and population genetic structure of P. corruscans using microsatellite markers from a comprehensive sampling of 260 individuals from the Upper and Lower Paraná River. They identified two well-differentiated genetic clusters corresponding to a natural geographic barrier historically separating Upper and Lower Paraná regions. They also demonstrated temporal variation in population genetic structure at a site in Lower Paraná close to the confluence with the Paraguay River, most likely explained by the influx of migrant fishes at certain times of the year.

Application of a deep learning image classifier for identification of Amazonian fishes

Given the sharp increase in agricultural and infrastructure development and the paucity of widespread data available to support conservation management decisions, a more rapid and accurate tool for identifying fish fauna in the world's largest freshwater ecosystem, the Amazon, is needed. Current strategies for identification of freshwater fishes require high levels of training and taxonomic expertise for morphological identification or genetic testing for species recognition at a molecular level. To overcome these challenges, we built an image masking model (U-Net) and a convolutional neural net (CNN) to classify Amazonian fish in photographs. Fish used to generate training data were collected and photographed in tributaries in seasonally flooded forests of the upper Morona River valley in Loreto, Peru in 2018 and 2019. Species identifications in the training images (n = 3068) were verified by expert ichthyologists. These images were supplemented with photographs taken of additional Amazonian fish specimens housed in the ichthyological collection of the Smithsonian's National Museum of Natural History. We generated a CNN model that identified 33 genera of fishes with a mean accuracy of 97.9%. Wider availability of accurate freshwater fish image recognition tools, such as the one described here, will enable fishermen, local communities, and citizen scientists to more effectively participate in collecting and sharing data from their territories to inform policy and management decisions that impact them directly.

Contrasts in riverscape patterns of intraspecific genetic variation in a diverse Neotropical fish community of high conservation value

Spatial patterns of genetic variation compared across species provide information about the predictability of genetic diversity in natural populations, and areas requiring conservation measures. Due to their remarkable fish diversity, rivers in Neotropical regions are ideal systems to confront theory with observations and would benefit greatly from such approaches given their increasing vulnerability to anthropogenic pressures. We used SNP data from 18 fish species with contrasting life-history traits, co-sampled across 12 sites in the Maroni- a major river system from the Guiana Shield -, to compare patterns of intraspecific genetic variation and identify their underlying drivers. Analyses of covariance revealed a decrease in genetic diversity as distance from the river outlet increased for 5 of the 18 species, illustrating a pattern commonly observed in riverscapes for species with low-to-medium dispersal abilities. However, the mean within-site genetic diversity was lowest in the two easternmost tributaries of the Upper Maroni and around an urbanized location downstream, indicating the need to address the potential influence of local pressures in these areas, such as gold mining or fishing. Finally, the relative influence of isolation by stream distance, isolation by discontinuous river flow, and isolation by spatial heterogeneity in effective size on pairwise genetic differentiation varied across species. Species with similar dispersal and reproductive guilds did not necessarily display shared patterns of population structure. Increasing the knowledge of specific life history traits and ecological requirements of fish species in these remote areas should help further understand factors that influence their current patterns of genetic variation.

Diversidad, abundancia y dominancia de las especies ícticas en el río Churute, Ecuador

En esta investigación se evaluó la diversidad de especies nativas e introducidas en el río Churute, el cual atraviesa la Reserva Ecológica Manglares Churute, en Ecuador, utilizando para ello un enfoque empírico-inductivo, con diseño no experimental de corte transversal-explicativo. Las capturas se realizaron con atarraya, arte de pesca tradicional en época de sequía, a lo largo del río Churute. Se muestrearon 25 sitios, considerando 33 lances como esfuerzo de pesca por cada sitio, y los peces capturados fueron clasificados taxonómicamente, contados y pesados para estimar los índices ecológicos de riqueza, abundancia, diversidad y dominancia en el área de estudio. Se identificaron 20 especies ícticas (19 nativas y 1 introducida) distribuidas en 18 géneros de 13 familias y 5 órdenes; las familias con mayor número de especies fue CICHLIDAE con cuatro especies, BRYCONIDAE, CHARACIDAE, ELEOTRIDAE y HEPTAPTERIDAE con dos especies cada una. De las especies identificadas, siete calificaron como importantes, sobresaliendo la tilapia, pez introducido con un Índice de Importancia Relativa (IRI) de 40.075,58, dominando en los sitios de muestreo en un 61,13 %. Se concluye que la tilapia es una especie dominante, con tasas de reproducción superiores al de las especies nativas presentes en el río Churute, por lo que su presencia constituye una seria amenaza a la biodiversidad de este ecosistema.

Microplastics in fishes in amazon riverine beaches: Influence of feeding mode and distance to urban settlements

Microplastic (MP) pollution is a global problem and has affected several biological levels even in protected areas. In the present study, MP contamination was investigated in fish associated with sandy beaches in a permanent environmental protection area in the Amazon. In order to achieve this goal, the shape, color, abundance, richness, and chemical composition of MPs in the digestive tract of 29 fish species in 24 beaches of the Machado River, western Brazilian Amazon, were evaluated. Linear mixed models (LMMs) were adjusted to test the effects of local human modification (HMc), distance from urban settlements, distance from the closest affluent, and trophic categories of fish species on microplastic abundance and richness in their digestive tracts. From the 1082 fish analyzed, 332 (30 %) presented MPs in their digestive tracts. A total of 617 MPs was found (1.8 ± 1.6 MPs; 4.5 ± 1.9 MPs/g fish). Omnivorous and insectivorous fish presented more MPs in sandy beaches located closer to urban settlements. However, carnivorous fish presented a higher abundance of MPs in their digestive tracts compared with the other trophic guilds. This is the first study to analyze plastic contamination in fish associated with sandy beaches in the Amazon (Brazil), and it revealed contamination of the ichthyofauna mainly related to the distance from urban settlements. Our results reinforce the need for better management of landscape surrounding protected areas to mitigate MP pollution.

Checklist of the fish fauna of the Munim River Basin, Maranhão, north-eastern Brazil

Background

The Maranhão State harbours great fish diversity, but some areas are still undersampled or little known, such as the Munim River Basin in the northeast of the State. This lack of knowledge is critical when considering anthropogenic impacts on riverine systems especially in the face of major habitat destruction. These pressing threats mean that a comprehensive understanding of diversity is critical and fish checklists extremely relevant. Therefore, the present study provides a checklist of the fish species found in the Munim River Basin, Maranhão State, north-eastern Brazil, based on collected specimens.

New information

A total of 123 species were recorded for the Munim River Basin, with only two non-native species, Oreochromisniloticus and Colossomamacropomum, showing that the fish assemblage has relatively high ecological integrity. In addition, 29 species could not be identified at the species level, indicating the presence of species that are probably new to science in the Basin. A predominance of species belonging to the fish orders Characiformes and Siluriformes, with Characidae being recovered as the most species-rich family (21 species) agrees with the general pattern for river basins in the Neotropical Region. The total fish diversity was estimated by extensive fieldwork, including several sampling gears, carried out in different seasons (dry and rainy) and exploring different environments with both daily and nocturnal sampling, from the Basin's source to its mouth. A total of 84 sites were sampled between 2010 and 2022, resulting in 12 years of fieldwork. Fish assemblages were distinct in the Estuary and Upper river basin sections and more similar in the Lower and Middle sections indicating environmental filtering processes. Species were weakly nested across basin sections, but unique species were found in each section (per Simpsons Index). High variability of species richness in the Middle river basin section is likely due to microhabitat heterogeneity supporting specialist fish communities.

Identifying fish eggs and larvae: from classic methodologies to DNA metabarcoding

Studies involving fish eggs and larvae date back to the end of the nineteenth century. Since then, studies with ichthyoplankton have proved to be an essential tool, generating information for the knowledge of the ichthyofauna and the environmental inventory. Most of these studies reveal the difficulty of obtaining a precise taxonomic identification of the collected materials, making research with ichthyoplankton extremely challenging. With the advent of molecular biology, the use of markers such as COI enabled greater taxonomic precision, helping to understand events involving ichthyofauna. Now we can observe the evolution of the molecular identification tool for ichthyoplankton via DNA barcoding, which has been increasingly used over the last few decades. From 2000 to 2010, we found six publications; from 2011 to 2021, 75 papers were published, and in 2022 four studies. Our survey also showed the accuracy of molecular identification when compared to the taxonomic identification of these. In this review, we show the state of the art of studies that used barcode and DNA metabarcoding to identify fish eggs and larvae in different environments and discuss their importance as the best practice for working with these organisms.

Chromosomal rearrangements and the first indication of an ♀X1 X1 X2 X2 /♂X1 X2 Y sex chromosome system in Rineloricaria fishes (Teleostei: Siluriformes)

Rineloricaria is the most diverse genus within the freshwater fish subfamily Loricariinae, and it is widely distributed in the Neotropical region. Despite limited cytogenetic data, records from southern and south-eastern Brazil suggest a high rate of chromosomal rearrangements in this genus, mirrored in remarkable inter- and intraspecific karyotype variability. In the present work, we investigated the karyotype features of Rineloricaria teffeana, an endemic representative from northern Brazil, using both conventional and molecular cytogenetic techniques. We revealed different diploid chromosome numbers (2n) between sexes (33♂/34♀), which suggests the presence of an ♀X₁ X₁ X₂ X₂ /♂X₁ X₂ Y multiple sex chromosome system. The male-limited Y chromosome was the largest and the only biarmed element in the karyotype, implying Y-autosome fusion as the most probable mechanism behind its origination. C-banding revealed low amounts of constitutive heterochromatin, mostly confined to the (peri)centromeric regions of most chromosomes (including the X₂ and the Y) but also occupying the distal regions of a few chromosomal pairs. The chromosomal localization of the 18S ribosomal DNA (rDNA) clusters revealed a single site on chromosome pair 4, which was adjacent to the 5S rDNA cluster. Additional 5S rDNA loci were present on the autosome pair 8, X₁ chromosome, and in the presumed fusion point on the Y chromosome. The probe for telomeric repeat motif (TTAGGG)_n revealed signals of variable intensities at the ends of all chromosomes except for the Y chromosome, where no detectable signals were evidenced. Male-to-female comparative genomic hybridization revealed no sex-specific or sex-biased repetitive DNA accumulations, suggesting a presumably low level of neo-Y chromosome differentiation. We provide evidence that rDNA sites might have played a role in the formation of this putative multiple sex chromosome system and that chromosome fusions originate through different mechanisms among different Rineloricaria species.

Global trends, biases and gaps in the scientific literature about freshwater fish eggs and larvae

Syntheses of knowledge are important to reveal trends, biases and gaps in the scientific literature, indicating main data shortfalls and research needs. In this regard, the authors conducted a broad systematic review on the literature about freshwater fish eggs and larvae to investigate (a) temporal trends in the global scientific production, (b) the scope and habitat types, (c) the spatial distribution of studies, (d) the fish species contemplated and their respective conservation status and (e) the factors associated with the spatial distribution of studies. They analysed 654 studies published between 1950 and 2020. The number of studies has increased over time, but with a weak trend. Most studies investigated basic questions about biology and ecology and were carried out chiefly in rivers and lakes. These studies covered 95 freshwater ecoregions (22.3% of all ecoregions) and recorded 871 fish species (4.8% of all freshwater fish currently described). Most species were assessed by the IUCN and classified into six threat categories, but approximately 35% were not evaluated. The main drivers affecting the spatial distribution of studies were ecoregion area, road density, river volume and the number of hydroelectric plants. Results point to significant biases and gaps in the global scientific literature on fish eggs and larvae, especially associated with habitat type, spatial distribution and target species, emphasizing the need to address specific topics. Such biases and gaps indicate the existence of important data shortfalls, which compromise management and conservation planning, as information on fish eggs and larvae is basic and critical for the assessment of fish recruitment and population dynamics.

The freshwater fishes from the Costa Verde Fluminense region of southeastern Brazil

Abstract The region between the Brazilian Shield and the Atlantic Ocean is characterized by the presence of numerous hydrographic basins isolated by mountainous terrain that flow directly into the ocean without forming wide coastal plains. However, knowledge about the diversity and distribution of freshwater fish in several coastal areas is still incipient. One of these areas is the Costa Verde Fluminense region, situated between the municipalities of Mangaratiba and Paraty in the Brazilian State of Rio de Janeiro. In order to eliminate the gap of knowledge about the freshwater fish fauna of this region, we prepared a list of the species, and dichotomous identification keys and illustrations of all species. We examined material from expeditions carried out between 1942 and 2019, deposited in the Ichthyological Collection of the Museu Nacional, Universidade Federal do Rio de Janeiro, Brazil. The material comes from 29 continental coastal rivers and four drainages on Ilha Grande island. We recognized 54 fish species belonging to 16 families and 9 orders. The order Siluriformes was the most diverse with 18 species, followed by Characiformes with 14 species, Cyprinodontiformes with 10 species, Cichliformes with four species, Gobiiformes with three species, Syngnathiformes with two species, and Gymnotiformes, Salmoniformes and Synbranchiformes with one species each. These records include two putative undescribed species and four introduced species. Phalloceros anisophallos was the most widely distributed species, recorded in 24 drainages. More than a half (52 %) of the native species occur exclusively in coastal streams, demonstrating the importance of the area for biogeographic and conservation studies.

Impacts of river fragmentation on limiting individual dietary specialization of Amazonian predatory fish

Individual dietary specialization is one of the factors that promotes variation in resource use at the individual level. Here we used stable isotope analysis of multiple tissues with different turnover rates to examine the degree of individual specialization in two sub-populations of the predator Cichla temensis inhabiting both fragmented and undammed rivers within the Uatumã River basin of the Amazon. Our results showed that the undammed river provides better conditions to promote individual dietary specialization than the fragmented river. This study contributes to the understanding of how specific life history characteristics of populations of generalist predators are impacted by fragmentation within megadiverse environments such as the Amazon basin.

Fish tapeworms (Cestoda) in the molecular era: achievements, gaps and prospects

The tapeworms of fishes (Chondrichthyes and Actinopterygii) account one-third (1670 from around 5000) of the total tapeworm (Platyhelminthes: Cestoda) species diversity. In total 1186 species from 9 orders occur as adults in elasmobranchs (sharks, rays and chimaeras), and 484 species from 8 orders mature in ray-finned fishes (referred to here as teleosts). Teleost tapeworms are dominated by freshwater species (78%), but only 3% of elasmobranch tapeworms are known from freshwater rays of South America and Asia (Borneo). In the last 2 decades, vast progress has been made in understanding species diversity, host associations and interrelationships among fish tapeworms. In total, 172 new species have been described since 2017 (149 from elasmobranchs and 23 from teleosts; invalidly described taxa are not included, especially those from the Oriental region). Molecular data, however, largely limited to a few molecular markers (mainly 28S rDNA, but also 18S and cox1), are available for about 40% of fish tapeworm species. They allowed us to significantly improve our understanding of their interrelationships, including proposals of a new, more natural classification at the higher-taxonomy level (orders and families) as well as at the lower-taxonomy level (genera). In this review, we summarize the main advances and provide perspectives for future research.

A review of the knowledge of reef fish in the Southwest Atlantic

Reef environments are rapidly transforming worldwide, and these changes are causing major impacts to the reef ecosystem. Scientific knowledge is strategic for marine conservation and management in these scenarios. Aiming to contribute to this subject, a systematic review from 1967 to 2020 was conducted, in order to identify gaps in studies regarding reef fish species, ecosystem components and processes. Multidisciplinary sciences concerning reef fish have been rising, mainly in the fields of basic biology and ecology. Besides that, phase shifts and ecosystem services were absent terms in the analyzes of co-occurrence. Research in the ethnosciences needs to be increased, and will improve access to local ecological knowledge, which can be used as a tool to address issues in reef environments. Socio-ecological systems are components of this landscape that has had few publications. The participation in the elaboration of public policies can be a new avenue to foster the biodiversity of reef environments.

Lista de especies de peces de la cuenca del Río Ucayali, Perú

En este trabajo se presenta una lista actualizada de los registros de especies de peces de la cuenca del río Ucayali, Perú, provenientes de datos publicados y no publicados. Los resultados muestran que la cuenca del Ucayali presenta una ictiofauna rica y diversificada con el registro de 734 especies distribuidas en 15 órdenes, 49 familias y 292 géneros. La Ictiofauna está compuesta por peces miniatura (4%), peces pequeños (39%), medianos (41%), grandes (13%) y gigantes (3%). Los grupos dominantes son los Characiformes (312 especies, 43.0 %), Siluriformes (270 especies, 36.8%), Gymnotiformes (51 especies, 6.9%), y Cichliformes (50 especies, 6.8%). Parte de la ictiofauna es compartida con cuencas adyacentes como Marañón, y Amazonas peruano, principalmente en la región de confluencia, lo que contribuye a la notable diversidad de peces en la cuenca. Se observó una alta riqueza de especies con distribución restricta de los géneros Orestias, Astroblepus, Trichomycterus, Hemibrycon, entre otras especies, que ocurren en la región de cabeceras. Estimativos de riqueza de especies considerando su distribución por cada 100 m de altitud, indican que la cuenca del Ucayali esta subestimada, esperándose encontrar hasta 1125 especies. Los resultados aquí presentados son antecedentes que coadyuvaran a la toma de decisiones con fines de conservación y desarrollo sustentable en la región amazónica.

Digenean trematodes infecting the frigate tuna Auxis thazard (Scombriformes, Scombridae) off the Rio de Janeiro coast, Brazil, including molecular data

Although some parasitological efforts have focused on the frigate tuna Auxis thazard (Lacepède) (Scombriformes, Scombridae) in Brazil, its digenean fauna remains poorly known. Combining morphological and molecular methods, we investigated the diversity of digenean trematodes of A. thazard collected from the coastal waters off the state of Rio de Janeiro, Brazil in 2021. Six species belonging to four families were recorded: the bucephalid Rhipidocotyle cf. angusticolle Chandler, 1941, the didymozoid Didymocystis sp. 6 sensu Louvard et al. (2022), the fellodistomid Tergestia sp., and three hemiurids, Dinurus euthynni Yamaguti, 1934, Lecithochirium floridense (Manter, 1934), and L. synodi Manter, 1931. The current study brings the total number of digenean trematode species parasitising A. thazard in Brazil up to eight, with hemiuroid trematodes being most diverse. Auxis thazard is a new host record for L. floridense, L. synodi and potentially for R. angusticolle. The geographic distribution of several species found in our study appeared to be wider than previously known. Our study is the first to apply a DNA-based approach to digenean diversity in marine fishes in Brazil and we believe that both morphological descriptions and molecular sequence data provided in our study will aid future research assessing the diversity of digenean trematodes of A. thazard and other marine fishes in Brazil.

New records of rare deep-sea fishes (Teleostei) collected from off north-eastern Brazil, including seamounts and islands of the Fernando de Noronha Ridge

Here we report on new data on the occurrence and distribution of rare deep-sea fishes (Teleostei) collected from off north-eastern Brazil, including seamounts and oceanic islands of the Fernando de Noronha Ridge (Rocas Atoll and Fernando de Noronha Archipelago). Collections were made by the French RV Antea during the ABRACOS (Acoustics along the BRAzilian COaSt) expeditions between 29 September and 21 October 2015, and 9 April and 10 May 2017. Occurrences of Photostylus pycnopterus (Alepocephalidae), Gigantura chuni (Giganturidae), Ahliesaurus berryi (Notosudidae), Benthalbella infans, Rosenblattichthys hubbsi, Scopelarchoides danae (Scopelarchidae), Scopelengys tristis (Neoscopelidae), Zu cristatus (Trachipteridae), Stylephorus chordatus (Stylephoridae) and Pseudoscopelus cordilluminatus (Chiasmodontidae) are reported for the first time or confirmed in the Brazilian Exclusive Economic Zone. Photostylus pycnopterus and G. chuni are also recorded for the first time in the western South Atlantic, whereas records of P. cordilluminatus are the first in the western Atlantic. Other records of rare species of those families are also reported and discussed.

Fishes from Chira River basin, Piura, Peru

Chira River is located on the north coast of Peru. The lack of knowledge of the ichthyofauna from coastal drainages from Peru is noteworthy. The aim of this study is to characterize the ichthyofauna along the Chira River basin in terms of diversity and altitudinal range distribution. The material examined belongs to the Ichthyological collection of the Natural History Museum (MUSM). The diversity of fishes is composed of 27 species belonging to 19 families and ten orders. Siluriformes and Characiformes were the most diverse, consisting of 22% (six species) for each one. Five species are new records for the Chira River (three natives and two non-natives). Six marine species and seven exotic species were recorded as well. The altitudinal distribution patterns for all species were registered. This study increases the known diversity of freshwater fishes from Pacific Drainage Rivers in Peru, and it could be used for management and conservation plans.

Managing Water Level for Large Migratory Fish at the Poyang Lake Outlet: Implications Based on Habitat Suitability and Connectivity

River–lake interaction is important for maintaining biodiversity, yet it is vulnerable to hydrological alteration. The connectivity of the channel connecting Poyang Lake and the Yangtze River not only ensures the regular migration of fish but also makes Poyang Lake a feeding and fattening ground for them. Unfortunately, human activities have dramatically changed the hydrodynamic conditions of Poyang Lake, which is experiencing severe drought due to the obvious decline in the water level in autumn and winter, especially since 2003. However, the possible impacts of the changes in the water level on the habitats of migratory fish remain unclear due to the limitation of traditional techniques in spatiotemporal analysis. Here, we combined a hydrodynamic model and habitat suitability model to simulate variations in the suitable habitat area and their connectivity under different water-level conditions. The conditions for the migration pathway of the target fish were obtained by a hydroacoustic survey using the Simrad EY60 echosounder. The results showed that the change in water level will significantly affect the spatiotemporal change in the suitable habitats and their connectivity. In particular, we found the existence of two thresholds that play a dominant role in illuminating the connectivity of effective suitable habitats (HC). Firstly, the maximum value of the weighted usable area (WUA) and HC can be achieved when the water level is more than 16 m. Secondly, when the water level is between 10 and 16 m, the changes in the HC are sensitive and rapid, and the area flooded at this stage is called the sensitive area. HC is a crucial element in fish migration and habitat conditions. Under the condition of continuous drought in the middle reaches of the Yangtze River, our research contributes to clarifying the influence of water level on key habitats for fish and optimizes the practice of river–lake ecological management.

Gill monogeneans of neotropical cichlid fish: diversity, phylogenetic relationships, and host-parasite cophylogenetic associations

Host-parasite coevolution is one of the main topics of the evolutionary biology of host-parasite associations. The majority of monogeneans parasitizing fish exhibit a high degree of host specificity. As a result, their evolutionary history might be intertwined with that of their fish hosts. The Cichlidae represent a diverse group of secondary freshwater fish with disjunctive distribution. Host-specific dactylogyrid monogeneans commonly parasitize cichlid fish. Their high diversity is associated with the main areas of cichlid distribution, i.e., Neotropical America and Africa. Nevertheless, the parasite fauna of cichlids from Neotropical America is still underexplored. A total of 31 cichlid species were examined for the presence of monogeneans, with 20 of them being parasitized. On these cichlids, 30 monogeneans belonging to the genera Gussevia, Trinidactylus, and Scadicleithrum were identified, 17 of them potentially representing new species for science. Phylogenetic analyses revealed three monophyletic groups of Neotropic cichlid monogeneans. Genus Gussevia was monophyletic, while Sciadicleithrum resulted polyphyletic. Sciedicleithrum from South America and Sciadicleithrum from Mexico represented two divergent lineages. The plesiomorphic Neotropical cichlid host group for dactylogyrid monogeneans was Cichlini, from which the representatives of other Neotropical cichlid tribes were colonized. Cophylogenetic analyses revealed a statistically significant cophylogenetic signal in the investigated host-parasite system, with host switch and duplication representing the main coevolutionary events for monogeneans parasitizing Neotropical cichlids. This scenario is in accordance with previous studies focussed on dactylogyridean monogeneans parasitizing freshwater fish in Europe and Africa.

Gene flow, genomic homogenization and the timeline to speciation in Amazonian manakins

Phylogeographic studies of the most species rich region of the planet - the Amazon basin - repeatedly uncover genetically distinctive, allopatric lineages within currently named species, but understanding whether such lineages are reproductively isolated species is challenging. Here we harness the power of genome-wide datasets together with detailed phylogeographic sampling to both characterize the number of unique lineages and infer levels of reproductive isolation for three parapatric manakin species that make up the genus Pipra. The mitochondrial and nuclear genomes both support six distinctive lineages. The youngest lineages are now highly admixed with each other across major portions of their geographic ranges with one lineage now extinct in a genomically unadmixed state. In contrast, the oldest sets of lineages - dated to 1.4 million years - exhibit narrow hybrid zones. By fitting demographic models to parapatric lineage pairs we found that levels of gene flow and genomic homogenization decline with increasing evolutionary age. Only lineages descending from the 1.4 Ma basal node in the genus experience negligible gene flow, possess genomes resistant to homogenization and are separated by narrow hybrid zones. We conclude that a million years or more were required for Pipra manakins to become reproductively isolated. We suggest the six lineages be reclassified as two or three reproductively isolated species. Our unique approach to quantifying reproductive isolation in parapatric lineages could be applied broadly to other phylogeographic studies and would help determine species classification of the plethora of newly identified lineages in the Amazon basin and other regions.

Composition and structure of the parasitic fauna of Hypostomus spp. (Loricariidae: Hypostominae) from a Neotropical river in Brazil

Hypostomus are abundant in Brazilian rivers and streams. In the Ivaí River, the loricariids represent 20.3% of the total species of the basin. Of these 13 species belong to Hypostomus. However, to date, there are no studies on these fish parasitic fauna. Thus, this research aimed to analyze the distribution of the parasitic infracommunity of six species of Hypostomus from the Ivaí River and investigate how the infracommunity is structured in these hosts. One hundred and twenty-eight fish were analyzed, belonging to six sympatric species of Hypostomus (Hypostomus hermanni, H. cochliodon, H. albopunctatus, H. regani, Hypostomus sp.1, and Hypostomus sp.2); of these, 92.9% were parasitized with at least one taxon, totaling 1478 specimens of parasites. The parasitic fauna was composed of the ectoparasites Trinigyrus anthus, T. carvalhoi, Unilatus unilatus (monogeneans), and Placobdella spp. (hirudinea), and the endoparasites Austrodiplostomum compactum (digenean) and Procamallanus annipetterae (nematode). The parasites exhibited similar patterns of infection in all hosts, including a low number of species, low diversity, and numerical dominance of a group of parasites. However, permutational multivariate analysis of variance (PERMANOVA) showed different parasite species compositions among the hosts. Hypostomus cochliodon and H. regani had the highest parasite richness, while Hypostomus sp.1 and Hypostomus sp.2 showed low abundance and intensity of parasitic infections. However, Hypostomus sp.1 showed the highest values of evenness, although the parasite composition in both species did not differ. The results presented herein contribute to increasing the knowledge about the parasitic fauna of Hypostomus spp. from the Ivaí River by presenting new hosts and locality records.

Ecological and Phenotypic Diversification after A Continental Invasion in Neotropical Freshwater Stingrays

Habitat transitions are key potential explanations for why some lineages have diversified and others have not - from Anolis lizards to Darwin's finches. The ecological ramifications of marine-to-freshwater transitions for fishes suggest evolutionary contingency: some lineages maintain their ancestral niches in novel habitats (niche conservatism), whereas others alter their ecological role. However, few studies have considered phenotypic, ecological, and lineage diversification concurrently to explore this issue. Here, we investigated the macroevolutionary history of the taxonomically and ecologically diverse Neotropical freshwater river rays (subfamily Potamotrygoninae), which invaded and diversified in the Amazon and other South American rivers during the late Oligocene to early Miocene. We generated a time-calibrated, multi-gene phylogeny for Potamotrygoninae and reconstructed evolutionary patterns of diet specialization. We measured functional morphological traits relevant for feeding and used comparative phylogenetic methods to examine how feeding morphology diversified over time. Potamotrygonine trophic and phenotypic diversity are evenly partitioned (non-overlapping) among internal clades for most of their history, until 20-16 mya, when more recent diversification suggests increasing overlap among phenotypes. Specialized piscivores (Heliotrygon and Paratrygon) evolved early in the history of freshwater stingrays, while later trophic specialization (molluscivory, insectivory, and crustacivory) evolved in the genus Potamotrygon. Potamotrygonins demonstrate ecological niche lability in diets and feeding apparatus; however, diversification has mostly been a gradual process through time. We suggest that competition is unlikely to have limited the potamotrygonine invasion and diversification in South America.