Tinca tinca
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ABSTRACT:
PROVIDER: PRJNA264701 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:RNA-Sequencing of two tissues of Tinca tinca
| PRJEB17846 | ENA
Project description:Tinca tinca genome sequencing of pooled samples for SNP discovery
| PRJEB17844 | ENA
Project description:Tench (Tinca tinca L.) has great economic potential due to its high rate of fecundity and long-life span. Population genetic studies based on allozymes, microsatellites, PCR-RFLP and sequence analysis of genes and DNA fragments have revealed the presence of Eastern and Western phylogroups. However, the lack of genomic resources for this species has complicated the development of genetic markers. In this study, the tench transcriptome and genome were sequenced by high-throughput sequencing. A total of 60,414 putative SNPs were identified in the tench transcriptome using a computational pipeline. A set of 96 SNPs was selected for validation and a total of 92 SNPs was validated, resulting in the highest conversion and validation rate for a non-model species obtained to date (95.83%). The validated SNPs were used to genotype 140 individuals belonging to two tench breeds (Tabor and Hungarian), showing low (FST = 0.0450) but significant (<0.0001) genetic differentiation between the two tench breeds. This implies that set of validated SNPs array can be used to distinguish the tench breeds and that it might be useful for studying a range of associations between DNA sequence and traits of importance. These genomic resources created for the tench will provide insight into population genetics, conservation fish stock management, and aquaculture.
| S-EPMC6424483 | biostudies-literature
Project description:Tench (Tinca tinca L.) is one of the most valued species of the Cyprinidae. This species is commercially important and has been intensively domesticated in recent years. To avoid excessive production losses, the health of farm fish must be maintained. Characterization of the tench gut microbiome can help achieve this goal, as the gastrointestinal microbiome plays an important role in host health. As part of this characterization, investigating the influence of the environment and season will help to understand the interrelationship between host and gut microbiota. Therefore, our aim was to use high-throughput 16S rRNA gene amplicon sequencing to profile the gut microbiome of tench. We studied two populations in summer and autumn: wild tench living in a lake and tench living in a pond in a semi-intensive fish farm. We found that, in the gut microbiome of all fish, the most abundant phylum was Proteobacteria, followed by Firmicutes, Bacteroidetes and Actinobacteria. Together, these phyla constituted up to 90% of the microbial communities. The abundance of Candidatus Xiphinematobacter differed significantly between lake and pond fish in summer, but not in autumn. In pond tench, Methylobacterium abundance was significantly lower in summer than in autumn. Mean Shannon, Chao1 indices and observed OTU's indicated that microbial biodiversity was greater in the gut of lake fish than in that of pond fish. Beta-diversity analysis showed significant divergence between groups with both weighted and unweighted UniFrac distance matrices. Principal coordinates analysis revealed that more of the variance in microbial diversity was attributable to environment than to season. Although some of the diversity in lake tench gut microbiota could be attributable to feeding preferences of individual fish, our results suggest that environment is the main factor in determining gut microbiome diversity in tench.
| S-EPMC7064478 | biostudies-literature
Project description:The analysis of the tench growth hormone gene structure revealed a comparable organization of coding and non-coding regions than other from cyprinid species. Based on the performed mRNA and amino acid sequence alignments, gh tench is related to Asian than to European representatives of Cyprinidae family. Second aim of the work was to characterize and predict protein structure of the tench growth hormone. Tinca tinca GH share many common features with human GH molecule. The Tench GH protein binds to the growth hormone receptor (GHR) using two regions I and II that are situated at opposite sites of molecule. Binding site I is placed in the central part of T. tinca GH and H 189 amino acid in the middle region of the IV helix is crucial for GH-GHR interactions.
| S-EPMC3494871 | biostudies-literature
Project description:Skeletal deformities reduce fish viability, growth, wellbeing, and feed efficiency but also degrade the consumer's perception of aquaculture products. Herein, the skeletal development and the incidence of skeletal deformities in tench (Tinca tinca) reared in semi-extensive conditions has been described in detail for the first time. Larval skeletons were assessed through an acid-free double-staining procedure in 157 individuals, while 274 specimens at the juvenile stage were evaluated through X-ray analysis. The first skeletal structures to be formed were those related with breathing and feeding activities (e.g., Meckel's cartilage and opercula) and were visible in larvae of 4 mm of standard length (SL). The axial skeleton was fully ossified in larvae of 12-17 mm of SL, and the caudal fin complex in larvae with 17-26 mm of SL. At the larval stage, no upper-jaw or opercula deformities were observed, while a low incidence (1-9%) of other severe deformities in the heads of the fish (e.g., lower-jaw deformities) were reported. The incidence of vertebral deformities in tench reared in natural ponds was considerable in larvae (54%) and juveniles (52%). Vertebral deformities (fusion and compression) were the most common deformities found in tench larvae (approximately 30%) and vertebral shape deformity in juveniles (around 10%), being mainly located in the caudal region. Thus, a regular monitoring of the skeletal deformities in tench might help to identify better rearing protocols and improve product quality sold at markets. Characterizing the skeletal development not only in semi-extensive systems such as artificial and natural ponds but also under intensive rearing conditions, seems vital for a sustainable and profitable European tench aquaculture.
| S-EPMC7996733 | biostudies-literature
Project description:Jelena Luji?, Klaus Kohlmann, Petra Kersten, Zoran Marinovi?, Miroslav ?irkovi?, and Vladica Simi? (2017) The tench, Tinca tinca, is an endangered freshwater fish species in the Balkans. However, there are no management and conservation strategies developed for this species so far. In order to be able to develop such strategies, we first determined the phylogeographic identity of 70 tench individuals from four countries (Serbia, FYRO Macedonia, Hungary and Croatia) by PCR-RFLP analyses of two nuclear markers (Act and RpS7) and one mitochondrial marker (Cytb). All makers enabled the identification of two major geographic clades of tench (Western and Eastern), while nuclear markers additionally enabled the identification of hybrids between the two clades. Based on the mitochondrial marker Cytb, tench populations can be separated into two distinct areas: areas north of the Danube River with the dominant Western origin, and areas south of the Danube River with the dominant Eastern origin. Data obtained for the Act gene demonstrated Eastern origin for most individuals (88.23%) while data obtained for the RpS7 gene demonstrated mixed origin with a high percentage of hybrids. The presence of high numbers of individuals with Western alleles for the RpS7 gene in areas south of the Danube may indicate a natural invasion of this phylogroup. According to these results, areas north and south of the Danube are identified as two main management units. Additionally, we identified the rare western haplotype W2 based on the Cytb marker which clearly indicated human-aided dispersals of tench in the investigated region and since some individuals with W2 origin were cultured, attention must be given to the genetic structure and identity of the introduced individuals, whether during introduction or reintroduction since biological and ecological consequences of the hybridization between the two major clades are still unknown. Finally, we propose and discuss management and conservation strategies for tench of both management areas.
| S-EPMC6517724 | biostudies-literature