Identification of Genes Related to Cold Tolerance and Novel Genetic Markers for Molecular Breeding in Taiwan Tilapia (Oreochromis spp.) via Transcriptome Analysis

Taiwan tilapia is one of the primary species used in aquaculture practices in Taiwan. However, as a tropical fish, it is sensitive to cold temperatures that can lead to high mortality rates during winter months. Genetic and broodstock management strategies using marker-assisted selection and breeding are the best tools currently available to improve seed varieties for tilapia species. The purpose of this study was to develop molecular markers for cold stress-related genes using digital gene expression analysis of next-generation transcriptome sequencing in Taiwan tilapia (Oreochromis spp.). We constructed and sequenced cDNA libraries from the brain, gill, liver, and muscle tissues of cold-tolerance (CT) and cold-sensitivity (CS) strains. Approximately 35,214,833,100 nucleotides of raw sequencing reads were generated, and these were assembled into 128,147 unigenes possessing a total length of 185,382,926 bp and an average length of 1446 bp. A total of 25,844 unigenes were annotated using five protein databases and Venny analysis, and 38,377 simple sequence repeats (SSRs) and 65,527 single nucleotide polymorphisms (SNPs) were identified. Furthermore, from the 38-cold tolerance-related genes that were identified using differential gene expression analysis in the four tissues, 13 microsatellites and 37 single nucleotide polymorphism markers were identified. The results of the genotype analysis revealed that the selected markers could be used for population genetics. In addition to the diversity assessment, one of the SNP markers was determined to be significantly related to cold-tolerance traits and could be used as a molecular marker to assist in the selection and verification of cold-tolerant populations. The specific genetic markers explored in this study can be used for the identification of genetic polymorphisms and cold tolerance traits in Taiwan tilapia, and they can also be used to further explore the physiological and biochemical molecular regulation pathways of fish that are involved in their tolerance to environmental temperature stress.

Does anthropogenic introduction of guppy fish (Poecilia reticulata) impact faunal species diversity and abundance in natural aquatic habitats? A systematic review protocol

Background The guppy fish (Poecilia reticulata) is a tropical fish ancestrally linked to northern South America and the Caribbean. It is known to be very tolerant of and adaptable to new environments, and able to consume multiple food sources, including mosquito larvae. Consequently, guppies have been frequently introduced to non-native ecosystems to control mosquito populations, resulting in near-global distribution. Indeed, due to the increasing need for mosquito-borne disease control, guppy releases will likely continue, however there are concerns about potential adverse impacts on other species, biodiversity, and certain ecosystem functions. The most significant of these is local species extinction, and by extension, reduced biodiversity. Yet, the extent of these impacts has not been evaluated by scientific review. Accordingly, this study will examine and evaluate whether anthropogenic introduction of guppy fish (Poecilia reticulata) has impacts on faunal species diversity and abundance in natural aquatic habitats. The results of this review may have implications for environmental management and policy and inform ecosystem-based integrated vector management and public health policy. Methods Relevant scientific articles will be identified by searching electronic databases. Articles will be included if they report changes or differences, associated with guppy fish introduction, in at least one of these population parameters: (1) abundance of individuals in any species, (2) total abundance of individuals in all species present, (3) species richness, (4) species diversity, and (5) community evenness. Each article will be assessed by at least two independent reviewers against pre-defined inclusion/exclusion criteria. Snowballing reference lists of included articles will be conducted. At least two reviewers will critically appraise all included studies using the Collaboration for Environmental Evidence Critical Appraisal Tool (CEECAT) and any discrepancies will be resolved by discussion between the two or adjudication by a third author if agreement is not reached. Each study will also be subjected to data extraction against pre-defined qualitative and quantitative outcomes and results will be tabulated/presented in figures where appropriate. A meta-analysis will be carried out on outcome parameters with sufficient evidence.

Thermal performance curves for aerobic scope in a tropical fish (Lates calcarifer): flexible in amplitude but not breadth

Aerobic metabolic scope is a popular metric to estimate the capacity for temperature-dependent performance in aquatic animals. Despite this popularity, little is known of the role of temperature acclimation and variability in shaping the breadth and amplitude of the thermal performance curve for aerobic scope. If daily thermal experience can modify the characteristics of the thermal performance curve, interpretations of aerobic scope data from the literature may be misguided. Here, tropical barramundi (Lates calcarifer) were acclimated for ∼4 months to cold (23℃), optimal (29℃) or warm (35℃) conditions, or to a daily temperature cycle between 23 and 35℃ (with a mean of 29℃). Measurements of aerobic scope were conducted every 3-4 weeks at three temperatures (23℃, 29℃ and 35℃), and growth rates were monitored. Acclimation to constant temperatures caused some changes in aerobic scope at the three measurement temperatures via adjustments in standard and maximal metabolic rates, and growth rates were lower in the 23℃-acclimated group compared with all other groups. The metabolic parameters and growth rates of the thermally variable group remained similar to those of the 29℃-acclimated group. Thus, acclimation to a variable temperature regime did not broaden the thermal performance curve for aerobic scope. We propose that aerobic scope thermal performance curves are more plastic in amplitude rather than breadth, and that the metabolic phenotype of at least some fish may be more dependent on the mean daily temperature rather than on the daily temperature range.

Comprehensive Spatial Distribution of Tropical Fish Assemblages from Multifrequency Acoustics and Video Fulfils the Island Mass Effect Framework

Tropical marine ecosystems are highly biodiverse and provide resources for small-scale fisheries and tourism. However, precise information on fish spatial distribution is lacking, which limits our ability to reconcile exploitation and conservation. We combined acoustics to video observations to provide a comprehensive description of fish distribution in a typical tropical environment, the Fernando de Noronha Archipelago (FNA) off Northeast Brazil. We identified and classified all acoustic echoes into ten fish assemblage and two triggerfish species. This opened up the possibility to relate the spatial different spatial patterns to a series of environmental factors and the level of protection. We provide the first biomass estimation of the black triggerfish Melichthys niger, a key tropical player. By comparing the effects of euphotic and mesophotic reefs we show that more than the depth, the most important feature is the topography with the shelf break as the most important hotspot. We also complete the portrait of the island mass effect revealing a clear asymmetry. While primary productivity is higher downstream, fish concentrate upstream. The comprehensive fish distribution provided by our approach is directly usable to implement scientific-grounded Marine Spatial Planning.

Climate-assisted persistence of tropical fish vagrants in temperate marine ecosystems

Rising temperatures and extreme climate events are propelling tropical species into temperate marine ecosystems, but not all species can persist. Here, we used the heatwave-driven expatriation of tropical Black Rabbitfish (Siganus fuscescens) to the temperate environments of Western Australia to assess the ecological and evolutionary mechanisms that may entail their persistence. Population genomic assays for this rabbitfish indicated little genetic differentiation between tropical residents and vagrants to temperate environments due to high migration rates, which were likely enhanced by the marine heatwave. DNA metabarcoding revealed a diverse diet for this species based on phytoplankton and algae, as well as an ability to feed on regional resources, including kelp. Irrespective of future climate scenarios, these macroalgae-consuming vagrants may self-recruit in temperate environments and further expand their geographic range by the year 2100. This expansion may compromise the health of the kelp forests that form Australia’s Great Southern Reef. Overall, our study demonstrates that projected favourable climate conditions, continued large-scale genetic connectivity between populations, and diet versatility are key for tropical range-shifting fish to establish in temperate ecosystems.

DNA-based taxonomy of a mangrove-associated community of fishes in Southeast Asia

The Merbok Estuary comprises one of the largest remaining mangrove forests in Peninsular Malaysia. Its value is significant as it provides important services to local and global communities. It also offers a unique opportunity to study the structure and functioning of mangrove ecosystems. However, its biodiversity is still partially inventoried, limiting its research value. A recent checklist based on morphological examination, reported 138 fish species residing, frequenting or subject to entering the Merbok Estuary. In this work, we reassessed the fish diversity of the Merbok Estuary by DNA barcoding 350 specimens assignable to 134 species initially identified based on morphology. Our results consistently revealed the presence of 139 Molecular Operational Taxonomic Units (MOTUs). 123 of them are congruent with morphology-based species delimitation (one species = one MOTU). In two cases, two morphological species share the same MOTU (two species = one MOTU), while we unveiled cryptic diversity (i.e. COI-based genetic variability > 2%) within seven other species (one species = two MOTUs), calling for further taxonomic investigations. This study provides a comprehensive core-list of fish taxa in Merbok Estuary, demonstrating the advantages of combining morphological and molecular evidence to describe diverse but still poorly studied tropical fish communities. It also delivers a large DNA reference collection for brackish fishes occurring in this region which will facilitate further biodiversity-oriented research studies and management activities.

Fatty acids profile and anticholinesterase activity of fish lipids from Brazilian Northeast

Acetylcholine deficiency is a neurochemical characteristic of patients with clinical diagnosis of Alzheimer´s disease. Substances that inhibit the enzyme acetylcholinesterase, increasing levels of acetylcholine in the brain, are a promising form of treatment. Studies relate the use of omega-3 fatty acids in the treatment and prevention of Alzheimer's disease. The Northeast Region of Brazil has an enormous biological diversity and a wide variety of fish species. In this work, the oils of eleven species of marine fish found on the coast of Ceará, Brazil, were analyzed in relation to the fatty acid profile and the inhibitory activity of the enzyme acetylcholinesterase. Total lipids were extracted from fish samples by Folch metodology. The lipid extracts of the fish and industrialized fish oil, used for comparison, were esterified and fatty acid profiles were analyzed. The acetylcholinesterase inhibitory activity was measured quantitatively. The oils presented a high percentage of saturated fatty acids, which is a general characteristic of tropical fish. Oleic acid was the highest monounsaturated fatty acid. Oils of Scomberomorus cavalla, Lutjanus synagris and Haemulon plumieri presented expressive percentages of polyunsaturated fatty acids and the most potent anticholinesterase activities. This research showed the oils of S. cavalla, L. synagris and H. plumieri may be promising functional food products of active fatty acids as new therapies to treatment or prevention of Alzheimer's disease. The expressive concentration of unsaturated and polyunsaturated fatty acids together with their relevant anticholinesterase activity are characteristics of the importance of these fish oils.