Location-Dependent DNA Methylation Signatures in a Clonal Invasive Crayfish

DNA methylation is an important epigenetic modification that has been repeatedly implied in organismal adaptation. However, many previous studies that have linked DNA methylation patterns to environmental parameters have been limited by confounding factors, such as cell-type heterogeneity and genetic variation. In this study, we analyzed DNA methylation variation in marbled crayfish, a clonal and invasive freshwater crayfish that is characterized by a largely tissue-invariant methylome and negligible genetic variation. Using a capture-based subgenome bisulfite sequencing approach that covers a small, variably methylated portion of the marbled crayfish genome, we identified specific and highly localized DNA methylation signatures for specimens from geographically and ecologically distinct wild populations. These results were replicated both biologically and technically by re-sampling at different time points and by using independent methodology. Finally, we show specific methylation signatures for laboratory animals and for laboratory animals that were reared at a lower temperature. Our results thus demonstrate the existence of context-dependent DNA methylation signatures in a clonal animal.

Bioindicators of homeostasis’ constants of growing conditions of warm-water aquaculture objects in the context of obtaining marketable products

To create recommendations regarding the technological process of growing objects of warm-water aquaculture, the health of individuals in the created conditions of maintain is a necessary study. Taking into account the similarity of the necessary conditions for the organization of growing warm-water aquaculture objects, it is important to monitor the indicators that are bioindicators of homeostasis constants with a projection on the conditions of maintain, for subsequent adjustment of satisfactory conditions of maintain. First of all, these are hematological and biochemical bioindicators that determine the general characteristics of blood in the case of fish objects of sterlet and hemolymph in the case of crustacean objects of Australian freshwater crayfish and the concentration index of total serum protein that determines the “physiological norm”. When growing sterlet, a high level of total blood protein was established at 40.14±1.73 g/l and the hemolymph of the Australian freshwater crayfish was determined to have a protein concentration of 40.8±4.5 g/l. The presented analysis of bioindicators complements the missing information for monitoring the data of representatives of warm-water aquaculture, which will be valuable for specialists engaged in breeding these objects.

Evaluating and predicting impacts of Australian redclaw crayfish Cherax quadricarinatus and Louisiana red swamp crayfish Procambarus clarkii invasions

Freshwater crayfish have become one of the most widely introduced freshwater taxa globally. Crayfish introductions have not spared the African continent, which, apart from Madagascar, is naturally devoid of native freshwater crayfish. These introductions are of concern because invasive crayfish have generally been shown to cause strong impacts on recipient ecosystems outside Africa. This study therefore set out to compile up-to-date information regarding crayfish introductions in Africa, their pathways and distributions and to improve our understanding of the nature and magnitude of their environmental impacts. A systematic review revealed that nine crayfish species have been introduced into the continent with five of those, Astacus astacus, Cherax quadricarinatus, Faxonius limosus, Procambarus clarkii and Procambarus virginalis, having established naturalised populations in fourteen African countries (Chapter 2). The main driver of these crayfish introductions was to provide socio-economic benefits but there is limited evidence of success. The thesis further documents attempts made to address crayfish knowledge gaps in Africa, including standardisation of C. quadricarinatus sampling gear (Chapter 3), determination of the distribution of C. quadricarinatus in the recently invaded Upper Zambezi Basin (Chapter 4), and predicting ecological and socioeconomic impacts of two crayfish species that are spreading rapidly in Southern Africa, namely, C. quadricarinatus and P. clarkii (Chapters 5 – 8). To standardise C. quadricarinatus sampling methods in Africa, two methods used in Southern Africa were compared and the Promar® collapsible trap baited with dry pellets was recommended as the best approach for C. quadricarinatus abundance studies due to the high catch per unit effort (CPUE), probability of capture and the suitability of dry dog food as a standard bait. This standard approach was used for crayfish surveys in the Zambezi Basin to comprehensively determine the spread and establishment of C. quadricarinatus across the basin. The establishment of C. quadricarinatus in the Barotse Floodplain, Upper Zambezi Floodplains freshwater ecoregion was confirmed. Although the probability of capture and catch per unit effort (CPUE) of C. quadricarinatus in the Barotse floodplain were similar to that of older invasions in the basin (Lake Kariba and Kafue River), morphometric differences among C. quadricarinatus populations sampled from these invaded regions were detected. Although crayfish were not detected in other regions, for example, the Okavango Floodplains ecoregions, C. quadricarinatus have the potential to spread at a downstream and upstream rate of 49 and 12 km·year-1, impacting native biota therein. To evaluate the potential for ecological impacts, the consumer-resource dynamics of C. quadricarinatus and P. clarkii were described in comparison to a native trophic analogue, the freshwater crab of the Potamonautes genus, preying on various native taxa ubiquitous to African aquatic and terrestrial ecosystems. The use of functional response (FR) and consumption experiments in this study showed the potential impacts of the two crayfish species on native resources and on resources that support livelihoods in invaded ecosystems. This in most cases was a result of their high attack parameter, which also resulted in high functional responses ratios (FRRs) compared to native crabs. The crayfish FR, FRRs and consumption rates were mostly enhanced under the high temperature treatments. The FRs and consumption results were then combined with the field biomasses of crayfish and crabs to calculate the relative impact potential (RIP) to successfully predict the degree of impact caused by crayfish species relative to crabs. Crayfish species consistently displayed RIP scores > 1 relative to the native crab irrespective of region, which were higher for the summer than the winter season, suggesting greater impact of the invaders compared to the native species. This study further estimated the socioeconomic losses due to catch spoilage by C. quadricarinatus which are up to 1500 t per year in the invaded Kafue River Basin, which translates to an annual income loss of US$ 2 million. Information provided in this study is vital for conservation management and to compel policymakers to develop appropriate conservation management tools within regulatory frameworks, which could stop or minimise the spread of crayfish species and protect Africa from further losing aquatic biodiversity.

Unraveling the Hidden Diversity of the Native White Claw Crayfish in the Iberian Peninsula

Several European freshwater crayfish species are currently included in one of the IUCN Red list categories. In the Iberian Peninsula, the native Austropotamobius pallipes species complex (the white clawed crayfish, WCC) has experienced a drastic decline since 1973. Implementing conservation management strategies for this species requires a better understanding of the patterns and structure of its genetic diversity. In this study, we assessed the levels and patterns of genetic variation in 71 populations along the whole distributional range of the WCC in the Iberian Peninsula. The two mitochondrial markers analyzed (Cytochrome Oxidase subunit I and 16S rRNA genes) indicated high levels of genetic diversity, which are significantly geographically structured in three main genetic groups, two corresponding to Northern and one to Central-Eastern and the westernmost Iberian Peninsula. The diversity found included new private haplotypes, and revealed the potential effect of paleogeographic barriers and last glaciations in the population structure observed. Current conservation and management programs for the WCC in the Iberian Peninsula should consider these three phylogeographic groups as essential management units in order to preserve the remaining genetic diversity in the species.