Annotation of Gyrodactylus salaris transcriptome

Relationship between organisms within an ecosystem is one of the main focuses in the study of ecology and evolution. For instance, host-parasite interactions have long been under close interest of ecology, evolutionary biology and conservation science, due to great variety of strategies and interaction outcomes. The monogenean ecto-parasites consist of a significant portion of flatworms. Gyrodactylus salaris is a monogenean freshwater ecto-parasite of Atlantic salmon (Salmo salar) whose damage can make fish to be prone to further bacterial and fungal infections. G. salaris is the only one parasite whose genome has been studied so far. The RNA-seq data analyzed in this thesis has already been annotated by using LAST. The RNA-seq data was obtained from Illumina sequencing i.e. yielded reads were assembled into 15777 transcripts. Last resulted in annotation of 46% transcripts and remaining were left unknown. This thesis work was started with whole data and annotation process was continued by the use of PANNZER, CDD and InterProScan. This annotation resulted in 56% successfully annotated sequences having parasite specific proteins identified. This thesis represents the first of Monogenean transcriptomic information which gives an important source for further research on this specie. Additionally, comparison of annotation methods interestingly revealed that description and domain based methods perform better than simple similarity search methods. Therefore it is more likely to suggest the use of these tools and databases for functional annotation. These results also emphasize the need for use of multiple methods and databases. It also highlights the need of more genomic information related to G. salaris.

Status and management of spring-run chinook salmon

Runs have dwindled in many parts of California and additional protection or management actions are needed to protect the fish from further declines. The following is a report requested by the Fish and Game Commission on the status and current management of spring-run chinook salmon stocks. Fish counts presented in this report were developed by a variety of methods. Some of them are estimates of total run-size or spawning escapement, while others are indices of abundance derived from counts of maturing fish in their holding areas. It is important to note the stock assessment method used. Index area counts will always underestimate the true run size, often by a very large margin.

Echiurophilus fizei n. g. n. sp. Copépode parasite d'un echiuride d'Indochine

This paper deals with the description of Echiurophilus fizei. The worm has been recorded from the digestive tract of Thalassema inansense Ikeda in Vietnam in 1955.

Genetic diversity analysis of isolates belonging to the Photobacterium phosphoreum species group collected from salmon products using AFLP fingerprinting

An accurate amplified fragment length polymorphism (AFLP) method, including three primer sets for the selective amplification step, was developed to display the phylogenetic position of Photobacterium isolates collected from salmon products. This method was efficient for discriminating the three species Photobacterium phosphoreum, Photobacterium iliopiscarium and Photobacterium kishitanii, until now indistinctly gathered in the Photobacterium phosphoreum species group known to be strongly responsible for seafood spoilage. The AFLP fingerprints enabled the isolates to be separated into two main clusters that, according to the type strains, were assigned to the two species P. phosphoreum and P. iliopiscarium. P. kishitanii was not found in the collection. The accuracy of the method was validated by using gyrB-gene sequencing and luxA-gene PCR amplification, which confirmed the species delineation. Most of the isolates of each species were clonally distinct and even those that were isolated from the same source showed some diversity. Moreover, this AFLP method may be an excellent tool for genotyping isolates in bacterial communities and for clarifying our knowledge of the role of the different members of the Photobacterium species group in seafood spoilage.

Understanding the adsorption of salmon calcitonin, antimicrobial peptide AP114 and polymyxin B onto lipid nanocapsules

International audience

Current status of malaria parasite among blood donors in Port Harcourt, Rivers State, Nigeria

This study was carried out to determine the prevalence of malaria parasite among blood donors at the Police Clinic Port Harcourt, Rivers State, Nigeria. The standard parasitological techniques using both thick and thin blood films from the donors for the detection of malaria parasite was followed. Venous blood was collected from 200 blood donors and films were made on clean greese-free glass slide and stained with 10%Giemsa stains and viewed under the microscope using the oil immersion objective. Of the 200 samples examined, 56 (28.00%) were positive with Plasmodium falciparium . The highest prevalence among the males 53(26.50%) and between the ages 21-30years and only 3 (1.50%) of females were positive. Donors having the blood group O were more infected (60.70%) than the other blood groups and the lowest was blood group AB (5.40%). This result shows that there is a relatively high prevalence of malaria parasite among the blood donors in Port Harcourt, Nigeria. It is, therefore, recommended that malaria parasite screening test be included among other blood screening tests before any transfusion to avert the deleterious effects of malaria on recipients.

Gastrointestinal parasite screening in pet reptiles in the area of Perth, Western Australia

Dissertação de Mestrado Integrado em Medicina Veterinária

mRNA-Seq and microarray development for the Grooved carpet shell clam, Ruditapes decussatus: a functional approach to unravel host -parasite interaction

Background The Grooved Carpet shell clam Ruditapes decussatus is the autochthonous European clam and the most appreciated from a gastronomic and economic point of view. The production is in decline due to several factors such as Perkinsiosis and habitat invasion and competition by the introduced exotic species, the manila clam Ruditapes philippinarum. After we sequenced R. decussatus transcriptome we have designed an oligo microarray capable of contributing to provide some clues on molecular response of the clam to Perkinsiosis. Results A database consisting of 41,119 unique transcripts was constructed, of which 12,479 (30.3%) were annotated by similarity. An oligo-DNA microarray platform was then designed and applied to profile gene expression in R. decussatus heavily infected by Perkinsus olseni. Functional annotation of differentially expressed genes between those two conditionswas performed by gene set enrichment analysis. As expected, microarrays unveil genes related with stress/infectious agents such as hydrolases, proteases and others. The extensive role of innate immune system was also analyzed and effect of parasitosis upon expression of important molecules such as lectins reviewed. Conclusions This study represents a first attempt to characterize Ruditapes decussatus transcriptome, an important marine resource for the European aquaculture. The trancriptome sequencing and consequent annotation will increase the available tools and resources for this specie, introducing the possibility of high throughput experiments such as microarrays analysis. In this specific case microarray approach was used to unveil some important aspects of host-parasite interaction between the Carpet shell clam and Perkinsus, two non-model species, highlighting some genes associated with this interaction. Ample information was obtained to identify biological processes significantly enriched among differentially expressed genes in Perkinsus infected versus non-infected gills. An overview on the genes related with the immune system on R. decussatus transcriptome is also reported.

First record in Brazil of Epistylis sp. (Ciliophora) Adhered to Argulus sp. (Argulidae), a Parasite of Hoplias aimara (Eritrhinidae).

This paper records the first occurrence of Epistylis sp. on the body surface of Argulus sp. parasitizing Hoplias aimara from the upper Araguari River, in the eastern Amazon region, in the north of Brazil. Of the 16 specimens of H. aimara examined, 93.7% had their pelvic, caudal and pectoral fins and tegument infested by Argulus sp. (n = 73), which in turn were infested by Epistylis sp. The specimens of Epistylis sp. from the body surface of Argulus sp. were analyzed using Scanning Electron Microscopy (SEM). The present study also identified a widening of the geographic distribution of these two species of ectoparasites to the eastern Amazon region of Brazil.

Communities of parasite metazoans in Piaractus brachypomus (Pisces, Serrasalmidae) in the lower Amazon River (Brazil).

The aim of this study was to investigate the component community of parasite metazoans of Piaractus brachypomus in the lower Amazon River, northern Brazil. From 34 necropsied fish, 27,384 metazoan parasites were collected, such as Anacanthorus spathulatus, Mymarothecium viatorum and Notozothecium janauachensis (Monogenoidea); Spectatus spectatus and Contracaecum sp (Nematoda); Clinostomum marginatum and Dadaytrema oxycephala (Digenea); and Argulus carteri and Ergasilus sp. (Crustacea). The dominant species was S. spectatus followed by monogenoidean species, and there was aggregated dispersion of parasites, except for D. oxycephala and Contracaecum sp., which presented random dispersion. Positive correlation among the abundance of the three monogenoideans species were found, thus indicating that there was no competition between the species of these parasites on the gills of hosts. The abundances of some parasite species showed positive correlations with the size of the hosts, but the condition factor of the fish was not affected by the parasitism levels. It showed that this host had a metazoan community characterized by high species richness of metazoans, low evenness and high diversity of parasites, with prevalence of endoparasites, including larval stages. This was the first record of C. marginatum, A. carteri, Ergasilus sp. and Contracaecum sp. for P. brachypomus.

Parasite communities of the predatory fish, Acestrorhynchus falcatus and Acestrorhynchus falcirostris, living in sympatry in Brazilian Amazon.

This study investigated the parasite communities of wild Acestrorhynchus falcatus and Acestrorhynchus falcirostris populations living in sympatry in Brazilian Amazon. In these two hosts, a total of 12 parasite species e 1-9 parasite species were found per fish, and 10 of these species are metazoans. Eight species of parasites were common to both host species and four of them exhibited differences in abundance and/or prevalence. Parasite communities of the hosts were taxonomically similar (83%) and composed of both ectoparasites and endoparasites, and characterized by high prevalence and high abundance of endoparasites and an aggregated dispersion pattern. For A. falcirostris, the dominant parasite was Ichthyophthirius multifiliis, and for A. falcatus, it was Piscinoodinium pillulare. Shannon diversity and Berger-Parker dominance were similar for both hosts, while the parasites species richness and evenness showed differences influenced by the ectoparasites species. These two populations of hosts that inhabited the same geographical area had different sizes, but were exposed to the same infective stages, and acquired qualitatively and quantitatively similar endoparasites community, thus indicating that the amounts and types of prey congeneric that they were eating were similar. Therefore, the overlap in the same occurrence area play an important role in the parasite communities to these phylogenetically related hosts.

Trichodina heterodentata (Ciliophora: Trichodinidae): a new parasite for Piaractus mesopotamicus (Pisces: Characidae)

Trichodinids are mobile peritrichous ciliated protozoa, and widely known as ectocommensals and/or parasites of fish and other aquatic organisms. Little is known about the trichodinid fauna in Brazilian fish. This study reports Trichodina heterodentata Duncan, 1977 as a new parasite for freshwater fish Piaractus mesopotamicus Holmberg, 1887. This is the first record of this trichodinid in southeastern Brazil. Fifty specimens impregnated with 2% silver nitrate and another fifty stained with Giemsa were used for morphometry on the taxonomic characteristics. T. heterodentata in this study is medium size, with a disc-shaped body measuring 49.0 to 61.0 mu m, parasitizing the skin, fins and gills of pacu. Measurement comparisons between the present material and other records from different countries are presented.