North American diadromous fishes: Drivers of decline and potential for recovery in the Anthropocene

Passage efficiency through fishways of species of the family Cyprinidae and their management implications for fragmented rivers

The contemporary management of fragmented river systems is in a trade-off between the societal benefits of instream barriers (e.g. hydropower, flood risk management) and the ecological harms of their adverse impacts on fish populations. The consequent fragmentation can be mitigated through fishway construction, with mitigation performance measured using species-specific passage rates and efficiencies. There is, however, a bias in passage efficiency studies towards diadromous fishes and, although fish of the Cyprinidae family play a significant role in the fish assemblages of rivers worldwide, their passage efficiencies are poorly understood. Here, systematic review and meta-analyses assessed the passage efficiencies of cyprinid fishes through fishways that have been measured using telemetry methods. Passive integrated transponder (PIT) telemetry was the most common evaluation method of passage efficiency due to their high read rates and relatively low costs versus alternative telemetry methods. These methods revealed cyprinid passage efficiencies were highest through vertical slot fishways and lowest through nature-like constructions, with overall passage rates comparing favourably to anadromous salmonid fishes. Fish were most active during spring and summer, with passage and associated movements often related to spawning. Passage rates of non-native fishes were also higher than for native fishes. Despite the growing acknowledgment of how fishways influence potamodromous fish dispersal and distribution in rivers, passage data remain scarce, preventing managers and policy-makers from making informed decisions on optimal passage solutions for multiple fish species in highly fragmented rivers.

High spatial variability in a species-rich assemblage of diadromous fishes in Hong Kong, southern China

China has experienced substantial coastal reclamation and damming of rivers. These changes have the potential to impact migrations of diadromous fishes between the sea and fresh waters, but the composition of these fishes and the impacts of barriers to their movement in China have received little attention. We inventoried the species composition and distribution of diadromous fishes, and the impacts of barriers on them, in the Hong Kong Special Administrative Region (HKSAR), southern China. Fish assemblages were surveyed using hand-nets, supplemented by cast-netting and single-pass snorkel surveys, in 24 small coastal streams across three regions. Surveys were undertaken on multiple occasions during the wet and dry seasons to account for the monsoonal tropical climate. Twenty-eight diadromous fishes were collected, mostly gobies, amounting to over half (53%) of the total richness of primary freshwater fishes; four additional species are known from literature records. Diadromous richness was 48% greater during the wet season, when all species were encountered. Richness varied substantially among streams, from a maximum of 17 (2 streams that were diversity hot spots) to none (3 streams). The most widespread diadromous fish was Glossogobius giuris (71% frequency of occurrence), followed by Mugil cephalus (58% occurrence) and Eleotris oxycephala (50% occurrence). The remaining 25 diadromous fishes occurred in fewer than half of the streams; 12 species were confined to a single stream and may be locally threatened. There were conspicuous spatial differences in diadromous assemblages across HKSAR, despite its limited extent (1114 km2), the proximity of the surveyed streams, and the broad geographic distribution of most species. Regional species assemblages were influenced by localized habitat characteristics, with a noticeable distinction between areas with and without large, fast-flowing, and highly oxygenated streams. The presence of in-stream barriers (weirs: 0.3-8.7 m high) did not affect spatial patterns in species assemblages, although, on average, diadromous richness was lower in weir-obstructed streams (4.0 vs. 6.9 species in unobstructed streams). In total, 18 species were confined to unobstructed streams or sections below weirs, whereas the remaining 10 species were recorded both above and below weirs. Only the mottled eel (Anguilla marmorata) and a goby (Stiphodon multisquamus) were able to ascend weirs over 2 m. Although at least 400 m of the lower course of each stream was sampled, diadromous fishes were confined to the first 300 m in 12 of the 13 weir-obstructed streams. Remarkably, the tally of 32 diadromous species in HKSAR exceeds the 19 known from mainland China, highlighting the need for further research on composition and conservation status of diadromous fishes.

Assessment of the impact of chemical pollution on endangered migratory fish in two major rivers of France, including spawning grounds

Water pollution is a one of the most contributors to aquatic biodiversity decline. Consequently, ecological risk assessment methods have been developed to investigate the effects of existing stresses on the environment, including the toxic effects of chemicals. One of the existing approaches to quantify toxic risks is called "Potentially Affected Fraction of species" (PAF), which estimates the potential loss of species within a group of species studied. In this study, the PAF method was applied to the Garonne catchment (southwest France) due to the limited information available on the involvement of water pollution in the decline of diadromous fish populations. This approach was used to quantify the potential toxic risk associated with chemical contamination of water for fish species. The objectives were to quantify this risk (1) in the Garonne and Dordogne rivers and (2) in the spawning grounds of two endangered anadromous fish species: the allis shad and the European sturgeon during the development period of their early life stages. Environmental pollution data was provided for 21 sites within the Garonne catchment between 2007 and 2022, and toxicity data was obtained specifically from freshwater toxicity tests on fish species. Then, for each site and each year, the potential toxic risk for a single substance (ssPAF) and for a mixture of substances (msPAF) was calculated and classified as high (>5 %), moderate (>1 % and < 5 %) or low (<1 %). Potential toxic risks were mostly moderate and mainly associated with: metals > other industrial pollutants and hygiene and care products > agrochemicals. In summary, this study highlights the probable involvement of water contamination on the decline, fate and restoration of diadromous fish populations in the Garonne catchment, focusing notably on the toxic effects on early life stages, a previously understudied topic.

Understanding the impact of barriers to onward migration; a novel approach using translocated fish

River catchments worldwide are heavily fragmented by anthropogenic barriers, reducing their longitudinal connectivity and contributing to the decline of migratory fish populations. Direct impacts of individual barriers on migratory fish are well-established, but barrier impacts on onward migration are poorly understood, despite their relevance to evidence-based, catchment-scale, management of threatened species. This study investigated the upstream spawning migration of 352 acoustic tagged river lamprey (Lampetra fluviatilis), translocated upstream of two key barriers (R2: n = 60 & 59; R3: n = 59 & 52) compared to a control group (R1: n = 61 & 59), across two contrasting (dry and wet, n = 180 and 172) years in the River Yorkshire Ouse, England, to reveal the impact of barriers on the onward migration of upstream migrating fish. Release further upstream increased the degree of catchment penetration, with median distance upstream of R1 56.1% and 68.6% greater for lamprey released at R2 and R3 respectively. Median delays at the two downstream-most main river barriers by the control group were 23.8 and 5.4 days (2018/19) and 9.3 and 11.4 days (2019/20). However, impacts of delay were only observed on the time to reach spawning habitat, time to reach final assumed spawning location and speed of movement in one upper catchment tributary during 2019/20 whilst they were only observed on time to reach spawning habitat during 2018/19 and on assumed spawning location distance during 2019/20 in the other. Ultimately, limited impacts of delay at barriers on onward fish migration post-passage were observed but median catchment penetration was increased with consecutive release upstream. This study demonstrated the importance of a true understanding of barrier impacts to inform catchment-wide planning, evidence vital for management worldwide. Although the findings of this study do support the use of trap and transport as a measure to remediate barrier impacts on migration, fish passage engineering improvements or barrier removal, at structures shown to be the most inhibiting to fish migration should be considered the best and most sustainable option to improve barrier passage.

Recreational anglers' preferences about harvest regulations to protect a threatened freshwater fish in France

A number of freshwater fish particularly migratory species are currently under threat. As the pressure of recreational fishing has intensified, this activity needs to be more regulated to halt the decline of threatened fish stocks. This paper presents results of an economic valuation study of anglers' preferences for a change in the rules applying to Twaite shad fisheries in south-western France. Twaite shad has become a "near-threatened" species, with the same IUCN status as the Atlantic salmon. As shad recreational angling continues to be open access, new regulations are required to limit recreational harvest in support of a management strategy to prevent stock reduction even to foster stock recovery. We combined a deliberative choice experiment with open group discussion to obtain an in-depth understanding of anglers' preferences between two types of traditional regulatory instrument - a license fee or a bag limit. The closure of the fishery served as the reference scenario. The results indicate that the majority of anglers were aware of the decline of Twaite shad stocks. The recreational value of the species remains high, especially for those who already target migratory species. Although econometric estimations show that there are heterogeneous preferences across anglers, there were support for a change toward a bag limit, and an aversion for a high-priced licence fee. The findings also provided two key insights to improve recreational fishing management and preservation policy for threatened species. The communication of observation data on fish stock could not be considered as a sufficient ecological information to ensure threatened species monitoring leads to an effective co-management with anglers' community. Anglers' aversion to loss can be seen as a behaviour mechanism towards the preservation of the species rather than to its use.

A homology guide for Pacific salmon genus Oncorhynchus resolves patterns of ohnolog retention, resolution and local adaptation following the salmonid-specific whole-genome duplication event

Salmonid fishes have emerged as a tractable model to study whole-genome duplications (WGDs) as this group has undergone four rounds of WGDs. While most of the salmonid genome has returned to a diploid state, a significant proportion of genes are maintained as duplicates and are referred to as ohnologs. The fact that much of the modern salmonid gene repertoire is comprised of ohnologs, while other genes have returned to their singleton state creates complications for genetic studies by obscuring homology relationships. The difficulty this creates is particularly prominent in Pacific salmonids belonging to genus Oncorhynchus who are the focus of intense genetics-based conservation and management efforts owing to the important ecological and cultural roles these fish play. To address this gap, we generated a homology guide for six species of Oncorhynchus with available genomes and used this guide to describe patterns of ohnolog retention and resolution. Overall, we find that ohnologs comprise approximately half of each species modern gene repertoires, which are functionally enriched for genes involved in DNA binding, while the less numerous singleton genes are heavily enriched in dosage-sensitive processes such as mitochondrial metabolism. Additionally, by reanalyzing published expression data from locally adapted strains of O. mykiss, we show that numerous ohnologs exhibit adaptive expression profiles; however, ohnologs are not more likely to display adaptive signatures than either paralogs or singletons. Finally, we demonstrate the utility of our homology guide by investigating the evolutionary relationship among genes highlighted as playing a role in salmonid life-history traits or gene editing targets.

The diadromous watersheds-ocean continuum: Managing diadromous fish as a community for ecosystem resilience

Diadromous fishes play important ecological roles by delivering ecosystem services and making crucial connections along the watersheds-ocean continuum. However, it is difficult to fully understand the community-level impacts and cumulative benefits of diadromous fish migrations, as these species are most often considered individually or in small groups. Their interactions at a community level (e.g., interdependencies such as predation, co-migration, and habitat conditioning) and the connections between their ecosystem roles and functions (e.g., cumulative marine-derived nutrient contributions, impacts on stream geomorphology) are yet to be fully understood. Similarly, freshwater, estuarine, and marine ecosystems are often considered as independent parts, limiting understanding of the importance of connections across systems. We argue that not considering the ecosystem interdependence and importance of diadromous fish as a community currently hinders the implementation of the large-scale management required to increase ecosystem resilience and fish productivity across the full range of these species. We developed a conceptual model, the Diadromous Watersheds-Ocean Continuum (DWOC), that uses ecosystem services to promote a more holistic approach to the management of the diadromous community and encourages an integrated understanding of the ecosystem connections made by these species. DWOC provides a framework for discussions that can help identify research and management needs, discuss the trade-offs of different management options, and analyze what pressing questions impede the implementation of large-scale management solutions toward a more ecosystem-based management approach.

Supporting proactive planning for climate change adaptation and conservation using an attributed road-river structure dataset

Freshwater species and their habitats, and transportation networks are at heightened risk from changing climate and are priorities for adaptation, with the sheer abundance and individuality of road-river structures complicating mitigation efforts. We present a new spatial dataset of road-river structures attributed as culverts, bridges, or fords, and use this along with data on gradient and stream order to estimate structure sensitivity and exposure in and out of special areas of conservation (SAC) and built-up areas to determine vulnerability to damage across river catchments in Wales, UK. We then assess hazard of flooding likelihood at the most vulnerable structures to determine those posing high risk of impact on roads and river-obligate species (fishes and mussels) whose persistence depends on aquatic habitat connectivity. Over 5% (624/11,680) of structures are high vulnerability and located where flooding hazard is highest, posing high risk of impact to roads and river-obligate species. We assess reliability of our approach through an on-ground survey in a river catchment supporting an SAC and more than 40% (n = 255) of high-risk structures, and show that of the subset surveyed >50% had obvious physical degradation, streambank erosion, and scouring. Our findings help us to better understand which structures pose high-risk of impact to river-obligate species and humans with increased flooding likelihood.