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PLoS Genetics Dec 2023Clonal genome evolution is a key feature of asexually reproducing species and human cancer development. While many studies have described the landscapes of clonal genome...
Clonal genome evolution is a key feature of asexually reproducing species and human cancer development. While many studies have described the landscapes of clonal genome evolution in cancer, few determine the underlying evolutionary parameters from molecular data, and even fewer integrate theory with data. We derived theoretical results linking mutation rate, time, expansion dynamics, and biological/clinical parameters. Subsequently, we inferred time-resolved estimates of evolutionary parameters from mutation accumulation, mutational signatures and selection. We then applied this framework to predict the time of speciation of the marbled crayfish, an enigmatic, globally invasive parthenogenetic freshwater crayfish. The results predict that speciation occurred between 1986 and 1990, which is consistent with biological records. We also used our framework to analyze whole-genome sequencing datasets from primary and relapsed glioblastoma, an aggressive brain tumor. The results identified evolutionary subgroups and showed that tumor cell survival could be inferred from genomic data that was generated during the resection of the primary tumor. In conclusion, our framework allowed a time-resolved, integrated analysis of key parameters in clonally evolving genomes, and provided novel insights into the evolutionary age of marbled crayfish and the progression of glioblastoma.
Topics: Animals; Humans; Glioblastoma; Genome; Astacoidea; Genomics; Biological Evolution; Mutation
PubMed: 38096267
DOI: 10.1371/journal.pgen.1011085 -
Fish & Shellfish Immunology Oct 2023Though Procambarus clarkii (red swamp crayfish) is a lower invertebrate, it has nonetheless developed a complex innate immune system. The crayfish farming industry has... (Review)
Review
Though Procambarus clarkii (red swamp crayfish) is a lower invertebrate, it has nonetheless developed a complex innate immune system. The crayfish farming industry has suffered considerable economic losses in recent years as a consequence of bacterial and viral diseases. Hence, perhaps the most effective ways to prevent microbial infections in P. clarkii are to examine and elucidate its innate immunity. The first step in the immune response is to recognize pathogen-associated molecular patterns (PAMPs) through pattern recognition receptors (PRRs). PRRs are expressed mainly on immune cell surfaces and recognize at least one PAMP. Thence, downstream immune responses are activated and pathogens are phagocytosed. To date, the PRRs identified in P. clarkii include Toll-like receptors (TLRs), lectins, fibrinogen-related proteins (FREPs), and β-1,3-glucan-binding proteins (BGRPs). The present review addresses recent progress in research on PRRs and aims to provide guidance for improving immunity and preventing and treating infectious diseases in P. clarkii.
Topics: Animals; Astacoidea; Receptors, Pattern Recognition; Immunity, Innate; Toll-Like Receptors; Bacteria
PubMed: 37633345
DOI: 10.1016/j.fsi.2023.109028 -
Chemosphere Dec 2023This study investigated the toxicity of polyethylene microplastics (MPs; <0.02 mm) and CuSO4, alone and in combination, on the freshwater crayfish Pontastacus...
Single and combined effects of CuSO and polyethylene microplastics on biochemical endpoints and physiological impacts on the narrow-clawed crayfish Pontastacusleptodactylus.
This study investigated the toxicity of polyethylene microplastics (MPs; <0.02 mm) and CuSO4, alone and in combination, on the freshwater crayfish Pontastacus leptodactylus. In this study, the crayfish were exposed to PE-MPs (0.0, 0.5, and 1 mg L) and CuSO4·5H2O (0.0, 0.5, and 1 mg L) for a period of 28 days. Next, multi-biomarkers, including biochemical, immunological, and oxidative stress indicators were analyzed. Results showed that co-exposure to PE-MPs and CuSO4 resulted in increased aspartate aminotransferase (AST), alanine aminotransferase (ALT), lactate dehydrogenase (LDH), and decreased alkaline phosphatase (ALP), butyrylcholinesterase (BChE), and gamma-glutamyl-transferase (GGT). Triglycerides, cholesterol, glucose, and albumin content also increased. Although no significant change was observed in lysozyme and phenoloxidase activities in crayfish co-exposed to 0.5 mg L MPs and 0.5 mg L CuSO4, their activities were significantly decreased in other experimental groups. Oxidative stress parameters in hepatopancreas indicated increased superoxide dismutase (SOD), glutathione peroxidase (GPx), and in malondialdehyde (MDA) levels, but decreased catalase (CAT), glucose 6-phosphate dehydrogenase (G6PDH), and cellular total antioxidant (TAC). Results showed that the sub-chronic toxicity of CuSO4 was confirmed. The study confirmed the toxicity of CuSO4 and found that higher concentrations led to more severe effects. Co-exposure to PE-MPs and CuSO4 primarily compromised the endpoints, showing increased toxicity when both pollutants were present in higher concentrations. The activities of POX, LYZ, ALP, GGT, LDH, and CAT were suppressed by both CuSO4 and MPs. However, a synergistic increase was observed in other measured biomarkers in crayfish co-exposed to CuSO4 and MPs.
Topics: Animals; Microplastics; Polyethylene; Plastics; Astacoidea; Butyrylcholinesterase; Antioxidants; Oxidative Stress; Glucose; Biomarkers
PubMed: 37865200
DOI: 10.1016/j.chemosphere.2023.140478 -
The Journal of Animal Ecology Nov 2023The realised ecological niches of species may change in response to dynamic abiotic and biotic environments, particularly under fast global change. To fully understand...
The realised ecological niches of species may change in response to dynamic abiotic and biotic environments, particularly under fast global change. To fully understand the dynamics of niche features and their drivers, it is essential to have a long-term view of species distributions and the factors that may have influenced them. Here, we analysed the distribution and niche dynamics of the Italian crayfish (Austropotamobius fulcisianus) in the Iberian Peninsula over the past 200 years. The Italian crayfish was introduced to Spain in the 16th century, and spread due to multiple stocking events until the 1970s, when two North American crayfish (red swamp crayfish Procambarus clarkii, and signal crayfish Pacifastacus leniusculus) were introduced. Both North American species are carriers of a pathogen (Aphanomyces astaci, the causal agent of crayfish plague) lethal to the Italian crayfish. We hypothesised that the realised niche of the Italian crayfish, both in breadth and in position, has changed over time following changes in its range. The distribution of the Italian crayfish expanded from the mid-19th century until the mid-20th century, in association with an enlargement of its realised niched, mostly towards less abrupt and more coastal-influenced areas. After the introduction of the North American crayfishes, the collapse of the Italian crayfish involved a niche shift towards rough terrains in mountain areas. North American crayfish have eventually occupied most of the Italian crayfish's niche space, with the few no-coexistence areas being relegated to the most abrupt and high-elevation territories. Our historical approach allowed us to document and understand the highly dynamic distribution and niche of the Italian crayfish in the presence of invader counterparts, and to explore the environmental conditions under which their coexistence is minimised.
Topics: Animals; Astacoidea; Europe; Spain; Aphanomyces; Ecosystem
PubMed: 37731343
DOI: 10.1111/1365-2656.14007 -
Genes Dec 2023is the most widely distributed freshwater shrimp in China, with important economic value and great potential for development. The forkheadboxL2 () gene has been found...
is the most widely distributed freshwater shrimp in China, with important economic value and great potential for development. The forkheadboxL2 () gene has been found to be involved in the reproductive development of many crustaceans. To understand the role of the gene in the gonad development of , we designed CDS-specific primers for the () gene and cloned its CDS sequence using RT-PCR. The nucleotide and protein sequence information was then analyzed through bioinformatics analysis. The expression and subcellular localization of in various tissues were detected using qRT-PCR and in situ hybridization. The effects of knockdown on gonad development were investigated using RNA interference. The results showed that the CDS length of the gene was 1614 bp and encoded 537 amino acids. Protein sequence comparison and phylogenetic analysis showed that was the closest relative to Crayfish. qRT-PCR analysis indicated that the expression level of in the testis was significantly higher (>40 fold) than that in the ovary ( < 0.01). The in situ hybridization results showed that was expressed in both the cytoplasm and the nucleus of egg cells, and that the expression was strongest in egg cells at the early stage of yolk synthesis, while weak in the secondary oocytes. The positive signal was strongest in the spermatocyte nucleolus, while only a trace signal was observed in the cytoplasm. After interfering with the gene using dsRNA, the expression of in the RNA interference group was significantly lower than that in the control group, and this interference effect lasted for one week. Moreover, the gonad index of the experimental group was significantly lower than that of the control group ( < 0.05) after 10 days of cultivation following knockdown. The expression levels of the and genes, which are related to gonad development, decreased significantly after gene interference. The results suggest that the gene is involved in the growth and development of gonads, particularly in the development of testis, and is related to the early development of oocytes. This study provides a theoretical basis for the artificial breeding of .
Topics: Male; Animals; Female; Astacoidea; Phylogeny; Amino Acid Sequence; Polymerase Chain Reaction; Cloning, Molecular
PubMed: 38137012
DOI: 10.3390/genes14122190 -
Applied Microbiology and Biotechnology Dec 2024The intestinal microbiota interacts with the host and plays an important role in the immune response, digestive physiology, and regulation of body functions. In...
The intestinal microbiota interacts with the host and plays an important role in the immune response, digestive physiology, and regulation of body functions. In addition, it is also well documented that the intestinal microbiota of aquatic animals are closely related to their growth rate. However, whether it resulted in different sizes of crayfish in the rice-crayfish coculture model remained vague. Here, we analyzed the intestinal microbiota characteristics of crayfish of three sizes in the same typical rice-crayfish coculture field by high-throughput sequencing technology combined with quantitative real-time polymerase chain reaction (qRT-PCR) and enzyme activity, investigating the relationship between intestinal microbiota in crayfish and water and sediments. The results showed that the dominant intestinal microbiota of crayfish was significantly different between the large size group (BS), normal size group (NS), and small size group (SS), where Bacteroides and Candidatus_Bacilloplasma contributed to the growth of crayfish by facilitating food digestion through cellulolysis, which might be one of the potential factors affecting the difference in sizes. Follow-up experiments confirmed that the activity of lipase (LPS) and protease was higher in BS, and the relative expression of development-related genes, including alpha-amylase (α-AMY), myocyte-specific enhancer factor 2a (MEF2a), glutathione reductase (GR), chitinase (CHI), and ecdysone receptor (EcR), in BS was significantly higher than that in SS. These findings revealed the intestinal microbiota characteristics of crayfish of different sizes and their potential impact on growth, which is valuable for managing and manipulating the intestinal microbiota in crayfish to achieve high productivity in practice. KEY POINTS: • Significant differences in the dominant microflora of BS, NS, and SS in crayfish. • Cellulolysis might be a potential factor affecting different sizes in crayfish. • Adding Bacteroides and Candidatus_Bacilloplasma helped the growth of crayfish.
Topics: Animals; Gastrointestinal Microbiome; Astacoidea; Microbiota; Seafood; Bacteroides; Oryza
PubMed: 38204126
DOI: 10.1007/s00253-023-12914-5 -
Proceedings of the National Academy of... Feb 2024GABA receptor (GBR) activation inhibits neurotransmitter release in axon terminals in the brain, except in medial habenula (MHb) terminals, which show robust...
GABA receptor (GBR) activation inhibits neurotransmitter release in axon terminals in the brain, except in medial habenula (MHb) terminals, which show robust potentiation. However, mechanisms underlying this enigmatic potentiation remain elusive. Here, we report that GBR activation on MHb terminals induces an activity-dependent transition from a facilitating, tonic to a depressing, phasic neurotransmitter release mode. This transition is accompanied by a 4.1-fold increase in readily releasable vesicle pool (RRP) size and a 3.5-fold increase of docked synaptic vesicles (SVs) at the presynaptic active zone (AZ). Strikingly, the depressing phasic release exhibits looser coupling distance than the tonic release. Furthermore, the tonic and phasic release are selectively affected by deletion of synaptoporin (SPO) and Ca-dependent activator protein for secretion 2 (CAPS2), respectively. SPO modulates augmentation, the short-term plasticity associated with tonic release, and CAPS2 retains the increased RRP for initial responses in phasic response trains. The cytosolic protein CAPS2 showed a SV-associated distribution similar to the vesicular transmembrane protein SPO, and they were colocalized in the same terminals. We developed the "Flash and Freeze-fracture" method, and revealed the release of SPO-associated vesicles in both tonic and phasic modes and activity-dependent recruitment of CAPS2 to the AZ during phasic release, which lasted several minutes. Overall, these results indicate that GBR activation translocates CAPS2 to the AZ along with the fusion of CAPS2-associated SVs, contributing to persistency of the RRP increase. Thus, we identified structural and molecular mechanisms underlying tonic and phasic neurotransmitter release and their transition by GBR activation in MHb terminals.
Topics: Animals; Receptors, GABA-B; Habenula; Astacoidea; Presynaptic Terminals; Caffeine; Neurotransmitter Agents; gamma-Aminobutyric Acid
PubMed: 38346189
DOI: 10.1073/pnas.2301449121 -
Journal of Invertebrate Pathology Nov 2023Host-associated microbial communities are an important determinant of individual fitness and have recently been highlighted as one of the factors influencing the success...
Host-associated microbial communities are an important determinant of individual fitness and have recently been highlighted as one of the factors influencing the success of invasive species. Invasive hosts introduce their microbes into the new environment, and then both the host and its associated microbes enter into a series of interactions with the native macroscopic and microscopic biota. As these processes are largely unexplored, we aimed to compare the exoskeletal microbial communities of co-occurring and phylogenetically related crayfish: the native narrow-clawed crayfish Pontastacus leptodactylus and the invasive signal crayfish Pacifastacus leniusculus from the recently invaded Korana River, Croatia. The results of high-throughput 16S rRNA sequencing showed that the exoskeletal microbiome of both species is very diverse, significantly influenced by the local environment and dominated by low abundance bacterial families from the phylum Proteobacteria. Furthermore, the exoskeletal microbiomes of the crayfish species differed significantly in the composition and abundance of Amplicon Sequence Variants (ASVs), suggesting that they are to some extent shaped by species-specific intrinsic factors, despite sharing a common habitat. However, over 95% of the bacterial genera associated with the exoskeleton were detected in the exoskeleton samples of both native and invasive crayfish. We paid particular attention to two known crayfish pathogens, Aphanomyces astaci and Saprolegnia parasitica, and find that both species carry low amounts of both pathogens. On the side, we find that a non-standard ddPCR protocol outperforms standard qPCR test for A. astaci under low concentration conditions. Taken together, our results indicate the possibility of bidirectional mixing and homogenisation of exoskeleton microbiome. As such, they can serve as a baseline in future detangling of the processes that act together to shape the microbiomes of co-occuring native and invasive congeners during biological invasions.
Topics: Humans; Animals; Astacoidea; Introduced Species; Exoskeleton Device; RNA, Ribosomal, 16S; Aphanomyces; Microbiota
PubMed: 37783231
DOI: 10.1016/j.jip.2023.107996 -
Toxins Jul 2023Bacterial lipopolysaccharide (LPS) in the aquatic environment has been reported to cause diseases in red swamp crayfish (). In addition, deoxynivalenol (DON) is one of...
Bacterial lipopolysaccharide (LPS) in the aquatic environment has been reported to cause diseases in red swamp crayfish (). In addition, deoxynivalenol (DON) is one of the primary mycotoxins found in aquaculture. However, the potential synergistic toxic effects of LPS and DON on crayfish are yet to be fully elucidated. In this study, crayfish were exposed to LPS (1 mg kg), DON (3 mg kg), and their combination (1 mg kg LPS + 3 mg kg DON, L+D) for a duration of six days. Co-exposure to LPS and DON exhibited the lowest survival rate compared to the control or individual treatments with LPS or DON alone. In the initial stage of the experiment, the combined treatment of LPS and DON showed a more pronounced up-regulation of antioxidant and immune-related enzymes in the sera compared to the other treatment groups, with a fold change ranging from 1.3 to 15. In addition, the (L+D) treatment group showed a down-regulation of immune-related genes, as well as Toll pathway-related genes in the hepatopancreas compared to LPS or DON. Moreover, the (L+D) treatment group demonstrated a 100% incidence of histopathological changes in the hepatopancreas, which were significantly more severe compared to the other three groups. In conclusion, our study provides physiological and histopathological evidence that the co-exposure to LPS and DON exerted synergistic toxic effects on crayfish. The observed effects could potentially hinder the development of the crayfish aquaculture industry in China.
Topics: Animals; Antioxidants; Astacoidea; Lipopolysaccharides; Immunity
PubMed: 37624236
DOI: 10.3390/toxins15080479 -
PloS One 2024Burrowing is a common trait among crayfish thought to help species deal with adverse environmental challenges. However, little is known about the microhabitat ecology of...
Burrowing is a common trait among crayfish thought to help species deal with adverse environmental challenges. However, little is known about the microhabitat ecology of crayfish taxa in relation to their burrows. To fill this knowledge gap, we assessed the availability of oxygen inside the crayfish shelter by series of in-vivo and in-silico modelling experiments. Under modeled condition, we found that, except for the entrance region of the 200 mm, a flooded burrow microenvironment became anoxic within 8 h, on average. Multiple 12-hour day-night cycles, with burrows occupied by crayfish for 12 h and empty for 12 h, were not sufficient for refreshing the burrow microenvironment. We then examined the degree to which crayfish species with different propensities for burrowing are tolerant of self-created anoxia. From these experiments, primary and secondary burrowers showed best and most consistent tolerance-exhibiting ≥ 64% survival to anoxia and 25-91% survival of ≥ 9 h at anoxia, respectively. Tertiary burrowers exhibited little to no tolerance of anoxia with 0-50% survival to anoxia and only one species exhibiting survival (2%) of ≥ 9 h at anoxia. Results suggest that moderate to strongly burrowing crayfish can quickly draw down the dissolved oxygen in burrow water but appear to have conserved a legacy of strong tolerance of anoxia from their monophyletic ancestors-the lobsters-whereas tertiary burrowers have lost (or never evolved) this ability.
Topics: Animals; Astacoidea; Decapoda; Water; Hypoxia; Ecology; Oxygen
PubMed: 38165988
DOI: 10.1371/journal.pone.0287888