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1.
PLoS One ; 19(8): e0307030, 2024.
Article in English | MEDLINE | ID: mdl-39093894

ABSTRACT

Current climate change models predict an increase in temperature variability and extreme events such as heatwaves, and organisms need to cope with consequent changes to environmental variation. Non-genetic inheritance mechanisms can enable parental generations to prime their offspring's abilities to acclimate to environmental change-but they may also be deleterious. When parents are exposed to predictable environments, intergenerational plasticity can lead to better offspring trait performance in matching environments. Alternatively, parents exposed to variable or unpredictable environments may use plastic bet-hedging strategies to adjust the phenotypic variance among offspring. Here, we used a model species, the threespine stickleback (Gasterosteus aculeatus), to test whether putatively adaptive intergenerational effects can occur in response to shifts in environmental variation as well as to shifts in environmental mean, and whether parents employ plastic bet-hedging strategies in response to increasing environmental variation. We used a full-factorial, split-clutch experiment with parents and offspring exposed to three temperature regimes: constant, natural variation, and increased variation. We show that within-generation exposure to increased temperature variation reduces growth of offspring, but having parents that were exposed to natural temperature variation during gametogenesis may offset some early-life negative growth effects. However, these mitigating intergenerational effects do not appear to persist later in life. We found no indication that stickleback mothers plastically altered offspring phenotypic variance (egg size or clutch size) in response to temperature variation. However, lower inter-individual variance of juvenile fish morphology in offspring of increased variation parents may imply the presence of conservative bet-hedging strategies in natural populations. Overall, in our experiment, parental exposure to temperature variation had limited effects on offspring fitness-related traits. Natural levels of environmental variation promoted a potentially adaptive intergenerational response in early life development, but under more challenging conditions associated with increased environmental variation, the effect was lost.


Subject(s)
Smegmamorpha , Temperature , Animals , Smegmamorpha/physiology , Smegmamorpha/growth & development , Female , Oceans and Seas , Male , Climate Change , Phenotype
2.
Syst Parasitol ; 101(5): 54, 2024 Aug 09.
Article in English | MEDLINE | ID: mdl-39120762

ABSTRACT

Ergasilus lizae Krøyer, 1863 is a parasitic copepod known to infect mullets (Mugilidae) in different parts of the world. It was originally reported from the east coast of North America, but the original description lacks enough detail, making identification with this information difficult. In this study, we provide a redescription of E. lizae found on Mugil curema Valenciennes and M. cephalus Linnaeus, caught in two coastal lagoons of northwestern Mexico during two climatic seasons: warm/rainy and cold/dry. The prevalence of this parasite was higher in the warm season than in the cold season. To facilitate the species identification, new sequences of the barcoding gene (COI mtDNA) of E. lizae were generated and compared against unpublished sequences of E. lizae available in the Barcode of Life Database (BOLD). Our results suggest that the sequences of BOLD possibly belong to a species misidentified as E. lizae.


Subject(s)
Copepoda , DNA Barcoding, Taxonomic , Seasons , Species Specificity , Animals , Copepoda/genetics , Copepoda/anatomy & histology , Copepoda/classification , Mexico , Smegmamorpha/parasitology , Phylogeny , Electron Transport Complex IV/genetics
3.
Sci Rep ; 14(1): 19020, 2024 Aug 16.
Article in English | MEDLINE | ID: mdl-39152306

ABSTRACT

Reproductive investment decision is an integral part of life-history theory. Differential allocation hypothesis predicts that females should increase investment when mated to high-quality males, conversely, reproductive compensation hypothesis predicts that females should increase investment when mated to low-quality males. Empirical research dominantly focuses on polygamous species and rarely on serially monogamous species. So, the question remains: which hypothesis does serially monogamous species fit? And if it fits reproductive compensation hypothesis, do females only compensate once or continuously for multiple times when mating to low-quality males? Here, we used a serially monogamous fish, the lined seahorse (Hippocampus erectus), to investigate the reproductive investment pattern of females in relation to male quality (measured by sexual attractiveness). We found that females allocated more resources into eggs when they mated to less-sexually-attractive males, indicating the investment pattern of lined seahorse falls in with the prediction of reproductive compensation hypothesis. This finding may imply that the sex role of seahorses is reversed, and female is the side imposed on a greater sexual selection pressure. On this basis, we compared the investment difference of females in two consecutive breeding events when mated to less-sexually-attractive males. We found that females allocated less resources into eggs in the second breeding than in the first one. Females reduced their reproductive compensation in the second breeding, which may be attributed to the improvement in the quality (e.g., paternal care ability) of their mates after the first breeding, thus eliminating the need for them to invest more in the second breeding.


Subject(s)
Reproduction , Sexual Behavior, Animal , Smegmamorpha , Animals , Male , Female , Reproduction/physiology , Sexual Behavior, Animal/physiology , Smegmamorpha/physiology , Mating Preference, Animal/physiology , Fishes/physiology
4.
Sci Data ; 11(1): 813, 2024 Jul 23.
Article in English | MEDLINE | ID: mdl-39043651

ABSTRACT

This paper presents a dataset of 3D sagittal left otolith meshes from 339 individual red mullet (Mullus barbatus). These immature specimens were collected from 17 geographical areas covering the entire Mediterranean Sea. Measured biological parameters were: fish total length (TL ± 1 mm, range from 125 to 238 mm), total weight (W ± 0.1 g, range from 14.9 to 168.0 g), sex (S), sexual maturity staging (Mat). The 3D otolith dataset comprises high-resolution meshes of otoliths obtained using microtomography (29.2 µm voxel size). The data offer valuable insights into the morphological variability and population structure of red mullet populations in the Mediterranean Sea. Potential applications of the dataset include age determination, stock identification, and population connectivity analysis. These applications aim to enhance the understanding of red mullet populations and contribute to the sustainable management of marine resources in the Mediterranean Sea.


Subject(s)
Otolithic Membrane , Mediterranean Sea , Animals , Otolithic Membrane/anatomy & histology , Smegmamorpha/anatomy & histology , Male , Female
5.
BMC Genomics ; 25(1): 685, 2024 Jul 11.
Article in English | MEDLINE | ID: mdl-38992624

ABSTRACT

BACKGROUND: Cis-regulatory mutations often underlie phenotypic evolution. However, because identifying the locations of promoters and enhancers in non-coding regions is challenging, we have fewer examples of identified causative cis-regulatory mutations that underlie naturally occurring phenotypic variations than of causative amino acid-altering mutations. Because cis-regulatory elements have epigenetic marks of specific histone modifications, we can detect cis-regulatory elements by mapping and analyzing them. Here, we investigated histone modifications and chromatin accessibility with cleavage under targets and tagmentation (CUT&Tag) and assay for transposase-accessible chromatin-sequencing (ATAC-seq). RESULTS: Using the threespine stickleback (Gasterosteus aculeatus) as a model, we confirmed that the genes for which nearby regions showed active marks, such as H3K4me1, H3K4me3, and high chromatin accessibility, were highly expressed. In contrast, the expression levels of genes for which nearby regions showed repressive marks, such as H3K27me3, were reduced, suggesting that our chromatin analysis protocols overall worked well. Genomic regions with peaks of histone modifications showed higher nucleotide diversity within and between populations. By comparing gene expression in the gills of the marine and stream ecotypes, we identified several insertions and deletions (indels) with transposable element fragments in the candidate cis-regulatory regions. CONCLUSIONS: Thus, mapping and analyzing histone modifications can help identify cis-regulatory elements and accelerate the identification of causative mutations in the non-coding regions underlying naturally occurring phenotypic variations.


Subject(s)
Histone Code , Smegmamorpha , Animals , Smegmamorpha/genetics , Smegmamorpha/metabolism , Histones/metabolism , Histones/genetics , Regulatory Sequences, Nucleic Acid , Chromatin/genetics , Chromatin/metabolism , Genomics/methods , Genome
6.
Proc Biol Sci ; 291(2027): 20240121, 2024 Jul.
Article in English | MEDLINE | ID: mdl-39079663

ABSTRACT

Mate choice plays a fundamental role in speciation, yet we know little about the molecular mechanisms that underpin this crucial decision-making process. Stickleback fish differentially adapted to limnetic and benthic habitats are reproductively isolated and females of each species use different male traits to evaluate prospective partners and reject heterospecific males. Here, we integrate behavioural data from a mate choice experiment with gene expression profiles from the brains of females actively deciding whether to mate. We find substantial gene expression variation between limnetic and benthic females, regardless of behavioural context, suggesting general divergence in constitutive gene expression patterns, corresponding to their genetic differentiation. Intriguingly, female gene co-expression modules covary with male display traits but in opposing directions for sympatric populations of the two species, suggesting male displays elicit a dynamic neurogenomic response that reflects known differences in female preferences. Furthermore, we confirm the role of numerous candidate genes previously implicated in female mate choice in other species, suggesting evolutionary tinkering with these conserved molecular processes to generate divergent mate preferences. Taken together, our study adds important new insights to our understanding of the molecular processes underlying female decision-making critical for generating sexual isolation and speciation.


Subject(s)
Brain , Mating Preference, Animal , Smegmamorpha , Animals , Female , Brain/metabolism , Brain/physiology , Male , Smegmamorpha/genetics , Smegmamorpha/physiology , Gene Expression , Species Specificity
7.
Physiol Genomics ; 56(8): 590-595, 2024 Aug 01.
Article in English | MEDLINE | ID: mdl-38975795

ABSTRACT

Gaining insight into the diversity, structure, and metabolic functions of microbial communities is essential for understanding their roles in host health and ecosystem dynamics. However, research on the seahorse-associated microbiome remains limited, despite these threatened fish facing increasing human pressures worldwide. Here, we explored the microbial diversity and metabolic functions of the skin and gut of the tiger tail seahorse (Hippocampus comes) and its surrounding environment using shotgun metagenomics and bioinformatics. Members of the Pseudomonadota phylum were dominant in the skin microbiome, whereas Bacteroidota was dominant in the gut. Bacillota, Actinomycetota, and Planctomycetota were also detected in the seahorse-associated microbiome. Statistical analysis revealed significant differences (P < 0.01) in species diversity between skin and gut microbiomes, with members belonging to the Moraxellaceae family being dominant on the skin and the Bacteroidaceae family in the gut. Moreover, the surrounding environment (water or sediment) did not have a direct effect on the seahorse microbiome composition. The skin microbiome exhibited a higher abundance of functional genes related to energy, lipid, and amino acid metabolism as well as terpenoids and polyketides metabolism, xenobiotics biodegradation, and metabolism compared with the gut. Despite differences among classes, the total abundance of bacteriocins was similar in both gut and skin microbiomes, which is significant in shaping microbial communities due to their antimicrobial properties. A better knowledge of seahorse microbiomes benefits conservation and sustainable aquaculture efforts, offering insights into habitat protection, disease management, and optimizing aquaculture environments, thereby promoting seahorse health and welfare while minimizing environmental impact and enhancing aquaculture sustainability.NEW & NOTEWORTHY To the best of our knowledge, this study represents the first comprehensive examination of the taxonomic and functional patterns of the skin and gut microbiome in the tiger tail seahorse. These findings have the potential to significantly enhance our understanding of the seahorse-associated microbiome, thereby contributing to the prediction and control of bacterial infections in seahorses, which are a leading cause of high mass mortality rates in seahorse aquaculture and other fish species.


Subject(s)
Gastrointestinal Microbiome , Microbiota , Skin , Smegmamorpha , Animals , Smegmamorpha/microbiology , Smegmamorpha/genetics , Skin/microbiology , Microbiota/genetics , Gastrointestinal Microbiome/genetics , Bacteria/genetics , Bacteria/classification , Metagenomics/methods
8.
PLoS One ; 19(7): e0295485, 2024.
Article in English | MEDLINE | ID: mdl-39024313

ABSTRACT

The three-spined stickleback (Gasterosteus aculeatus) is a teleost fish and a model organism in evolutionary ecology, useful for both laboratory and natural experiments. It is especially valued for the substantial intraspecific variation in morphology, behaviour and genetics. Classic work of Swarup (1958) has described the development in the laboratory of embryos from a single freshwater population, but this was carried out at higher temperature than many stickleback would encounter in the wild and variation between populations was not addressed. Here we describe the development of embryos from two sympatric, saltwater ecotypes of stickleback from North Uist, Scotland raised at 14°C, the approximate temperature of North Uist lochs in the breeding season. The two ecotypes were (a) a large, migratory form in which the adults are completely plated with bony armour and (b) a smaller, low-plated form that is resident year-round in saltwater lagoons. By monitoring embryos every 24-hours post fertilisation, important characteristics of development were observed and photographed to provide a reference for North Uist ecotypes at this temperature. Hatching success was greater than 85% and did not differ between resident and migratory stickleback, but migratory eggs hatched significantly earlier than the resident ecotype. Our work provides a framework that can now be used to compare stickleback populations that may also grow in distinct environmental conditions, to help understand the breadth of normal developmental features and to characterise abnormal development.


Subject(s)
Animal Migration , Smegmamorpha , Animals , Smegmamorpha/physiology , Smegmamorpha/growth & development , Animal Migration/physiology , Temperature , Scotland , Embryo, Nonmammalian , Ecotype , Female
9.
Am Nat ; 204(1): 15-29, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38857340

ABSTRACT

AbstractAdaptation to replicated environmental conditions can be remarkably predictable, suggesting that parallel evolution may be a common feature of adaptive radiation. An open question, however, is how phenotypic variation itself evolves during repeated adaptation. Here, we use a dataset of morphological measurements from 35 populations of threespine stickleback, consisting of 16 parapatric lake-stream pairs and three marine populations, to understand how phenotypic variation has evolved during transitions from marine to freshwater environments and during subsequent diversification across the lake-stream boundary. We find statistical support for divergent phenotypic covariance (P) across populations, with most diversification of P occurring among freshwater populations. Despite a close correspondence between within-population phenotypic variation and among-population divergence, we find that variation in P is unrelated to total variation in population means across the set of populations. For lake-stream pairs, we find that theoretical predictions for microevolutionary change can explain more than 30% of divergence in P matrices across the habitat boundary. Together, our results indicate that divergence in variance structure occurs primarily in dimensions of trait space with low phenotypic integration, correlated with disparate lake and stream environments. Our findings illustrate how conserved and divergent features of multivariate variation can underlie adaptive radiation.


Subject(s)
Biological Evolution , Lakes , Smegmamorpha , Animals , Smegmamorpha/genetics , Smegmamorpha/physiology , Smegmamorpha/anatomy & histology , Ecosystem , Phenotype , Adaptation, Physiological , Rivers , Adaptation, Biological
10.
Anim Cogn ; 27(1): 42, 2024 Jun 04.
Article in English | MEDLINE | ID: mdl-38833197

ABSTRACT

Cognitive bias is defined as the influence of emotions on cognitive processes. The concept of the cognitive judgement bias has its origins in human psychology but has been applied to animals over the past 2 decades. In this study we were interested in determining if laterality and personality traits, which are known to influence learning style, might also be correlated with a cognitive bias in the three-spined sticklebacks (Gasterosteus aculeatus). We used the judgement bias test with the go/no-go procedure where fish were first trained to discriminate between a black and white card and, after reaching a minimum learning criterion, tested their response to an ambiguous card (grey). Optimistic subjects were expected to have a high expectation of reward associated with an ambiguous stimulus, whereas pessimistic subjects a high expectation of non-reward. We used an emergence and a mirror test to quantify boldness and laterality, respectively. We hypothesised that male, bolder and more strongly lateralized fish would be more optimistic than female, shy and less strongly lateralised fish. We found that males and more strongly lateralized fish were more optimistic than females and less strongly lateralized fish. In addition, bold males were more optimistic than shy males as we predicted, but females showed the opposite pattern. Finally, fish trained on the black colour card learned the training task faster than those trained on a white card. Our results indicate that both laterality and personality traits are linked to animals' internal states (pessimistic or optimistic outlooks) which likely has broad implications for understanding animal behaviour particularly in a welfare context.


Subject(s)
Functional Laterality , Smegmamorpha , Animals , Male , Female , Smegmamorpha/physiology , Personality , Pessimism , Judgment , Optimism , Reward , Cognition
11.
J Environ Radioact ; 277: 107459, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38833882

ABSTRACT

The objective of this study was to investigate the effects of gamma irradiation on the aquatic environment. We used three wild fish species to compare phenotypic responses with a fish model such as Danio rerio. We focused on embryonic development, a sensitive life stage to stressors like ionizing radiation, to evaluate the effects of exposure to 0.5 and 5 mGy h-1 on Arctic char, trout and stickleback embryos from fertilization to free-swimming larvae. Irradiation did not cause mortality but induced an acceleration of hatching in the three species. These new data on wild species, obtained under comparable irradiation conditions, did not go against the threshold values for the protection of freshwater aquatic ecosystems. Moreover, irradiation caused inter-specific sublethal effects, such as an increase in non-eyed egg proportion in Arctic char, an increase in the incubation period in trout and an acceleration of larval mortality in stickleback. The consequences of these early effects on the adult stage remain to be studied.


Subject(s)
Gamma Rays , Animals , Smegmamorpha , Fishes , Water Pollutants, Radioactive/toxicity , Trout , Larva/radiation effects
12.
Parasitol Int ; 102: 102918, 2024 Oct.
Article in English | MEDLINE | ID: mdl-38945391

ABSTRACT

The coastal waters of Vietnam are home to a wide diversity of fishes, but the parasite diversity of these potential hosts is much less well characterized. To begin addressing this knowledge gap, we carried out surveys of myxozoan parasites in fishes collected from Nha Trang Bay in Vietnam's East Sea in 2018-2019. Mugilid fishes were collected in March-April 2018, January-February 2019, and November-December 2019, and examined for myxozoans. Myxospores consistent with those of the genus Ellipsomyxa were found in the gall bladder of four mullet species, and we thoroughly characterized those from Planiliza melinoptera. Myxospores were elliptoid and devoid of striation, with a distinct sinuous suture line. Polar capsules were pyriform and oriented toward the poles of the spore. Morphological features were compared to nominal species and this species from Vietnam was distinct. Phylogenetic analysis based on partial small subunit rDNA sequence revealed that broadly, Ellipsomyxa species split into three phylogenetic lineages, and although in some branches there are groupings by host family, habitat or locality, there are no clear phylogenetic patterns. The new species we encountered in P. melinoptera had a close sister relationship with Ellipsomyxa adlardi, with both species part of a larger subclade within the Ellipsomyxa lineage. Despite this phylogenetic similarity, these species were morphologically distinct, and partial large subunit DNA sequences were only 93% similar to each other. A combination of the morphological characteristics and molecular data suggest that this is an undescribed species and we propose the name Ellipsomyxa gordeyi n. sp.


Subject(s)
Fish Diseases , Gallbladder , Myxozoa , Phylogeny , Smegmamorpha , Animals , Vietnam , Fish Diseases/parasitology , Gallbladder/parasitology , Smegmamorpha/parasitology , Myxozoa/classification , Myxozoa/genetics , Myxozoa/anatomy & histology , Myxozoa/isolation & purification , Parasitic Diseases, Animal/parasitology , Parasitic Diseases, Animal/epidemiology , Bays
13.
Mar Biotechnol (NY) ; 26(4): 835-841, 2024 Aug.
Article in English | MEDLINE | ID: mdl-38864950

ABSTRACT

This study aimed to investigate the taxonomic and functional patterns of the microbiome associated with Barbour's seahorse (Hippocampus barbouri) using a combination of shotgun metagenomics and bioinformatics. The analyses revealed that Pseudomonadota and Bacillota were the dominant phyla in the seahorse skin microbiome, whereas Pseudomonadota and, to a lesser extent, Bacillota and Bacteroidota were the dominant phyla in the seahorse gut microbiome. Several metabolic pathway categories were found to be enriched in the skin microbiome, including amino acid metabolism, carbohydrate metabolism, cofactor and vitamin metabolism, energy metabolism, nucleotide metabolism, as well as membrane transport, signal transduction, and cellular community-prokaryotes. In contrast, the gut microbiome exhibited enrichment in metabolic pathways associated with the metabolism of terpenoids and polyketides, biosynthesis of other secondary metabolites, xenobiotics biodegradation and metabolism, and quorum sensing. Additionally, although the relative abundance of bacteriocins in the skin and gut was slightly similar, notable differences were observed at the class level. Specifically, class I bacteriocins were found to be more abundant in the skin microbiome, whereas class III bacteriocins were more abundant in the gut microbiome. To the best of our knowledge, this study represents the first comprehensive examination of the taxonomic and functional patterns of the skin and gut microbiome in Barbour's seahorse. These findings can greatly contribute to a deeper understanding of the seahorse-associated microbiome, which can play a pivotal role in predicting and controlling bacterial infections, thereby contributing to the success of aquaculture and health-promoting initiatives.


Subject(s)
Bacteria , Gastrointestinal Microbiome , Metagenomics , Microbiota , Skin , Smegmamorpha , Animals , Smegmamorpha/microbiology , Skin/microbiology , Skin/metabolism , Gastrointestinal Microbiome/genetics , Bacteria/classification , Bacteria/genetics , Bacteria/metabolism , Microbiota/genetics
14.
Fish Shellfish Immunol ; 151: 109713, 2024 Aug.
Article in English | MEDLINE | ID: mdl-38914180

ABSTRACT

As an environmentally friendly alternative to antibiotics, bee venom holds promise for aquaculture due to its diverse health advantages, including immune-amplifying and anti-inflammatory features. This study investigated the effects of dietary bee venom (BV) on the growth and physiological performance of Thinlip mullet (Liza ramada) with an initial body weight of 40.04 ± 0.11 g for 60 days. Fish were distributed to five dietary treatments (0, 2, 4, 6, and 8 mg BV/kg diet) with three replicates. Growth traits, gut enzyme ability (lipase, protease, amylase), intestinal and liver histology, blood biochemistry, immune responses [lysozyme activity (LYZ), bactericidal activity (BA), nitroblue tetrazolium (NBT%)], and antioxidant status [superoxide dismutase (SOD), catalase (CAT), glutathione peroxidase (GPx), malondialdehyde (MDA)] were evaluated. BV supplementation significantly improved growth performance, digestive enzyme activity, histological integrity of organs, immune responses (LYZ, BA), and antioxidant status (SOD, CAT, GPx), while declining MDA levels. Optimal BV levels were identified between 4.2 and 5.8 mg/kg diet for different parameters. Overall, the findings suggest that BV supplementation can enhance growth and physiological performance in Thinlip mullet, highlighting its potential as a beneficial dietary supplement for fish health and aquaculture management.


Subject(s)
Animal Feed , Aquaculture , Bee Venoms , Diet , Dietary Supplements , Smegmamorpha , Animals , Bee Venoms/pharmacology , Bee Venoms/administration & dosage , Animal Feed/analysis , Diet/veterinary , Dietary Supplements/analysis , Smegmamorpha/immunology , Immunity, Innate/drug effects , Dose-Response Relationship, Drug , Random Allocation
15.
Nat Ecol Evol ; 8(7): 1337-1352, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38839849

ABSTRACT

Despite deep evolutionary conservation, recombination rates vary greatly across the genome and among individuals, sexes and populations. Yet the impact of this variation on adaptively diverging populations is not well understood. Here we characterized fine-scale recombination landscapes in an adaptively divergent pair of marine and freshwater populations of threespine stickleback from River Tyne, Scotland. Through whole-genome sequencing of large nuclear families, we identified the genomic locations of almost 50,000 crossovers and built recombination maps for marine, freshwater and hybrid individuals at a resolution of 3.8 kb. We used these maps to quantify the factors driving variation in recombination rates. We found strong heterochiasmy between sexes but also differences in recombination rates among ecotypes. Hybrids showed evidence of significant recombination suppression in overall map length and in individual loci. Recombination rates were lower not only within individual marine-freshwater-adaptive loci, but also between loci on the same chromosome, suggesting selection on linked gene 'cassettes'. Through temporal sampling along a natural hybrid zone, we found that recombinants showed traits associated with reduced fitness. Our results support predictions that divergence in cis-acting recombination modifiers, whose functions are disrupted in hybrids, may play an important role in maintaining differences among adaptively diverging populations.


Subject(s)
Recombination, Genetic , Smegmamorpha , Animals , Smegmamorpha/genetics , Scotland , Male , Female , Genetic Fitness , Genetic Variation
16.
G3 (Bethesda) ; 14(8)2024 Aug 07.
Article in English | MEDLINE | ID: mdl-38861393

ABSTRACT

The nine-spined stickleback (Pungitius pungitius) has been increasingly used as a model system in studies of local adaptation and sex chromosome evolution but its current reference genome assembly is far from perfect, lacking distinct sex chromosomes. We generated an improved assembly of the nine-spined stickleback reference genome (98.3% BUSCO completeness) with the aid of linked-read mapping. While the new assembly (v8) was of similar size as the earlier version (v7), we were able to assign 4.4 times more contigs to the linkage groups and improve the contiguity of the genome. Moreover, the new assembly contains a ∼22.8 Mb Y-linked scaffold (LG22) consisting mainly of previously assigned X-contigs, putative Y-contigs, putative centromere contigs, and highly repetitive elements. The male individual showed an even mapping depth on LG12 (pseudo X chromosome) and LG22 (Y-linked scaffold) in the segregating sites, suggesting near-pure X and Y representation in the v8 assembly. A total of 26,803 genes were annotated, and about 33% of the assembly was found to consist of repetitive elements. The high proportion of repetitive elements in LG22 (53.10%) suggests it can be difficult to assemble the complete sequence of the species' Y chromosome. Nevertheless, the new assembly is a significant improvement over the previous version and should provide a valuable resource for genomic studies of stickleback fishes.


Subject(s)
Genome , Smegmamorpha , Animals , Smegmamorpha/genetics , Male , Female , Genomics/methods , Contig Mapping/methods , Sex Chromosomes/genetics , Chromosome Mapping , Molecular Sequence Annotation , Genetic Linkage , Repetitive Sequences, Nucleic Acid
17.
Front Immunol ; 15: 1411544, 2024.
Article in English | MEDLINE | ID: mdl-38915412

ABSTRACT

Fish intestinal health under intensive aquaculture mode plays an important role in growth, development, and immune function. The present study was aimed to systematically investigate the differences of intestinal health between wild and cultured Monopterus albus by biochemical parameters, histomorphology, and molecular biology. A total of 15 healthy M. albus per group, with an average body weight of 45 g, were sampled to analyze intestinal health parameters. Compared with wild fish, the cultured M. albus in the foregut had lower trypsin, lipase, SOD, CAT, T-AOC, and GSH-Px activities (P < 0.05) and higher amylase activity and MDA content (P < 0.05). The villus circumference and goblet cells in the cultured group were significantly lower than those in the wild group (P < 0.05). In addition, the cultured fish showed lower relative expression levels of occludin, zo-1, zo-2, claudin-12, claudin-15, mucin5, mucin15, lysozyme, complement 3, il-10, tgf-ß1, tgf-ß2, and tgf-ß3 (P < 0.05) and higher il-1ß, il-6, il-8, tnf-a, and ifnγ mRNA expressions than those of wild fish (P < 0.05). In terms of gut microbiota, the cultured group at the phylum level displayed higher percentages of Chlamydiae and Spirochaetes and lower percentages of Firmicutes, Bacteroidetes, Actinobacteria, Cyanobacteria, and Verrucomicrobia compared to the wild group (P < 0.05). At the genus level, higher abundances of Pseudomonadaceae_Pseudomonas and Spironema and lower abundances of Lactococcus and Cetobacterium were observed in the cultured group than in the wild group (P < 0.05). To our knowledge, this is the first investigation of the intestinal health status between wild and cultured M. albus in terms of biochemistry, histology, and molecular biology levels. Overall, the present study showed significant differences in intestinal health between wild and cultured M. albus and the main manifestations that wild M. albus had higher intestinal digestion, antioxidant capacity, and intestinal barrier functions than cultured M. albus. These results would provide theoretical basis for the subsequent upgrading of healthy aquaculture technology and nutrient regulation of intestinal health of cultured M. albus.


Subject(s)
Aquaculture , Gastrointestinal Microbiome , Intestines , Smegmamorpha , Animals , Intestines/immunology , Intestinal Mucosa/metabolism , Intestinal Mucosa/immunology , Cytokines/metabolism , Animals, Wild
18.
BMC Genomics ; 25(1): 500, 2024 May 21.
Article in English | MEDLINE | ID: mdl-38773374

ABSTRACT

BACKGROUND: The ricefield eel Monopterus albus undergoes a natural sex change from female to male during its life cycle, and previous studies have shown the potential mechanisms of this transition at the transcriptional and protein levels. However, the changes in protein levels have not been fully explored, especially in the intersexual stage. RESULTS: In the present study, the protein expression patterns in the gonadal tissues from five different periods, the ovary (OV), early intersexual stage gonad (IE), middle intersexual stage gonad (IM), late intersexual stage gonad (IL), and testis (TE), were determined by untargeted proteomics sequencing. A total of 5125 proteins and 394 differentially expressed proteins (DEPs) were detected in the gonadal tissues. Of the 394 DEPs, there were 136 between the OV and IE groups, 20 between the IM and IE groups, 179 between the IL and IM groups, and 59 between the TE and IL groups. Three candidate proteins, insulin-like growth factor 2 mRNA-binding protein 3 isoform X1 (Igf2bp3), triosephosphate isomerase (Tpi), and Cu-Zn superoxide dismutase isoform X1 [(Cu-Zn) Sod1], were validated by western blotting to verify the reliability of the data. Furthermore, metal metabolite-related proteins were enriched in the IL vs. IM groups and TE vs. IL groups, which had close relationships with sex change, including Cu2+-, Ca2+-, Zn2+- and Fe2+/Fe3+-related proteins. Analysis of the combined transcriptome data revealed consistent protein/mRNA expression trends for two metal metabolite-related proteins/genes [LOC109953912 and calcium Binding Protein 39 Like (cab39l)]. Notably, we detected significantly higher levels of Cu2+ during the sex change process, suggesting that Cu2+ is a male-related metal metabolite that may have an important function in male reproductive development. CONCLUSIONS: In summary, we analyzed the protein profiles of ricefield eel gonadal tissues in five sexual stages (OV, IE, IM, IL, and TE) and verified the plausibility of the data. After preforming the functional enrichment of metal metabolite-related DEPs, we detected the contents of the metal metabolites Zn2+, Cu2+, Ca2+, and Fe2+/Fe3+ at these five stages and screened for (Cu-Zn) Sod1 and Mmp-9 as possible key proteins in the sex reversal process.


Subject(s)
Metals , Animals , Male , Female , Metals/metabolism , Eels/metabolism , Eels/genetics , Proteomics , Fish Proteins/metabolism , Fish Proteins/genetics , Smegmamorpha/metabolism , Smegmamorpha/genetics , Hermaphroditic Organisms/metabolism , Hermaphroditic Organisms/genetics , Gene Expression Profiling , Testis/metabolism
19.
Sci Total Environ ; 933: 173088, 2024 Jul 10.
Article in English | MEDLINE | ID: mdl-38735333

ABSTRACT

Sexual dimorphism in immune responses is an essential factor in environmental adaptation. However, the mechanisms involved remain obscure owing to the scarcity of data from sex-role-reversed species in stressed conditions. Benzo[a]pyrene (BaP) is one of the most pervasive and carcinogenic organic pollutants in coastal environments. In this study, we evaluated the potential effects on renal immunotoxicity of the sex-role-reversed lined seahorse (Hippocampus erectus) toward environmental concentrations BaP exposure. Our results discovered the presence of different energy-immunity trade-off strategies adopted by female and male seahorses during BaP exposure. BaP induced more severe renal damage in female seahorses in a concentration-dependent manner. BaP biotransformation and detoxification in seahorses resemble those in mammals. Benzo[a]pyrene-7,8-dihydrodiol-9,10-oxide (BPDE) and 9-hydroxybenzo[a]pyrene (9-OH-BaP) formed DNA adducts and disrupted Ca2+ homeostasis may together attribute the renal immunotoxicity. Sexual dimorphisms in detoxification of both BPDE and 9-OH-BaP, and in regulation of Ca2+, autophagy and inflammation, mainly determined the extent of renal damage. Moreover, the mechanism of sex hormones regulated sexual dimorphism in immune responses needs to be further elucidated. Collectively, these findings contribute to the understanding of sexual dimorphism in the immunotoxicity induced by BaP exposure in seahorses, which may attribute to the dramatic decline in the biodiversity of the genus.


Subject(s)
Benzo(a)pyrene , Sex Characteristics , Smegmamorpha , Water Pollutants, Chemical , Animals , Benzo(a)pyrene/toxicity , Male , Female , Water Pollutants, Chemical/toxicity , Smegmamorpha/physiology , Inactivation, Metabolic , Kidney/drug effects
20.
Environ Monit Assess ; 196(6): 496, 2024 May 02.
Article in English | MEDLINE | ID: mdl-38693437

ABSTRACT

This study examined the presence of two heavy metals (Cd and Pb) in the sediments and Asian swamp eels (Monopterus albus) in the downstream area of Cisadane River. The average concentrations of Cd and Pb in the sediments from all sampling locations were 0.594 ± 0.230 mg/kg and 34.677 ± 24.406 mg/kg, respectively. These concentrations were above the natural background concentration and the recommended value of interim sediment quality guidelines (ISQG), suggesting an enrichment process and potential ecological risk of studied metals to the ecosystem of Cisadane River. The increase in contamination within this region may be attributed to point sources such as landfill areas, as well as the industrial and agricultural land activities in surrounding area, and experienced an increasing level leading towards the estuary of Cisadane River. Meanwhile, the average concentrations of Cd and Pb in the eels from all sampling locations were 0.775 ± 0.528 µg/g and 28.940 ± 12.921 µg/g, respectively. This study also discovered that gill tissues contained higher levels of Cd and Pb than the digestive organ and flesh of Asian swamp eels. These concentrations were higher than Indonesian and international standards, suggesting a potential human health risk and therefore the needs of limitations in the consumption of the eels. Based on the human health risk assessment, the eels from the downstream of Cisadane River are still considered safe to be consumed as long as they comply with the specified maximum consumption limits.


Subject(s)
Cadmium , Environmental Monitoring , Geologic Sediments , Lead , Rivers , Smegmamorpha , Water Pollutants, Chemical , Animals , Geologic Sediments/chemistry , Water Pollutants, Chemical/analysis , Water Pollutants, Chemical/metabolism , Rivers/chemistry , Indonesia , Cadmium/analysis , Lead/analysis , Lead/metabolism , Smegmamorpha/metabolism
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