Biology subjects

Panserat, S.

Publications and source records attributed to Panserat, S..

4 recordsLinked to original sources

bioRxiv2025

Characterization of interindividual DNA methylation variability in rainbow trout (Oncorhynchus mykiss)

Interindividual epigenetic variability, particularly in DNA methylation, is now recognized as a significant contributor to phenotypic diversity in humans and mammals. These epivariable regions, which make up a small fraction of the genome, are strongly influenced by genetic factors and environmental factors, especially during early development. In this context, epigenetic variability of DNA methylation has been proposed as an adaptive force involved in various environmental responses. In fish and other vertebrates, environmental factors are known to influence the health, performance and welfare, likely through the alteration of the epigenetic landscape. However, whether interindividual epigenetic variability may contribute to the phenotypic plasticity of fishes is unknown. Here we provide a first description of the rainbow trout methylome variability using a whole-genome bisulfite sequencing approach in an isogenic line to minimize genetic variation. Variable methylation regions were identified in both liver and hypothalamus tissues of 12 replicate fishes and were found enriched at gene regulatory elements, such as promoters and first introns. Gene Ontology analysis revealed functional clusters related to cellular development, neural communication, metabolic balance, and immune response. Interestingly, some variably methylated regions are found at the same genomic loci in both tissues and showed a strong intraindividual correlation in methylation levels, suggesting establishment during early embryogenesis. Overall, our work demonstrates the existence of interindividual epigenetic variability in rainbow trout and provides valuable insights into the regulatory function of DNA methylation variation that is likely involved in developmental and physiological processes.

genomics↗

bioRxiv2023

From the third to the seventh generation of selection for muscle fat content in rainbow trout: Consequences for flesh quality

Muscle lipid content was shown to affect many quality features in salmonids in both raw and processed fillets. The objective of the present work was to assess the consequences of 7 generations of divergent selection for muscle adiposity on some rainbow trout flesh quality and muscle parameters. Fish from Lean (L) and Fat (F) lines had a similar body weight but L fish were longer and had consequently lower condition factor values. Carcass yield was not affected by selective breeding, but L fish had lower hepato- and gonado-somatic indexes, a bigger head, and lower fillet yield than F fish. A difference of more than 15 points in mean fat-meter(R) values (genetic selection criteria) was measured between the two lines. Mean muscle lipid content was 5.0{+/-}1.0% for L line vs 13.5{+/-}2.2% for F line. An absolute difference of more than 6% was measured in fillet dry matter content between the two lines, for raw, cooked, and smoked fillets. Raw fillets from F fish were lighter (L*>) and more colorful (a* and b*>), but softer than those from the L line. Quality parameters of cooked fillets were very similar between the two lines, whereas smoked fillets exhibited, between the two lines, similar differences than raw fillets. A large difference in white muscle fiber size was observed, fish from F line having higher fiber mean diameter, a lower proportion of small fibers, and a higher proportion of large fibers. Sex effects were observed on these immature fish, on classically sex-related traits (GSI and head development), but also on muscle fiber size. Moreover, these effects were more marked in F line. Correlation analysis showed that raw fillet color was positively related to muscle adiposity whereas mechanical resistance was negatively related. Raw fillet mechanical resistance was also negatively correlated to white muscle fiber size. Moreover, smoked fillet quality parameters were correlated to raw fillet ones. The relationships between muscle adiposity, but also muscle cellularity, and fillet quality were discussed. HighlightsO_LI7 generations of adiposity divergent selection affect raw and smoked fillet quality. C_LIO_LISelective breeding led to a noteworthy response in white muscle cellularity. C_LIO_LISome differences between male and female was measured in immature pan-size trout. C_LI Graphical abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=195 SRC="FIGDIR/small/569019v1_ufig1.gif" ALT="Figure 1"> View larger version (37K): org.highwire.dtl.DTLVardef@10b25f6org.highwire.dtl.DTLVardef@e9402aorg.highwire.dtl.DTLVardef@173b1f9org.highwire.dtl.DTLVardef@a9898b_HPS_FORMAT_FIGEXP M_FIG C_FIG

physiology↗

bioRxiv2023

High carbohydrate to protein ratio promotes changes in intestinal microbiota and host metabolism in rainbow trout (Oncorhynchus mykiss) fed plant-based diet.

To ensure the sustainability of aquaculture, it is necessary to change the "menu" of carnivorous fish such as rainbow trout from a fish-based diet to one with plant-based ingredients. However, there is a major problem with the growth performance decrease of fish fed with a 100% plant-based diet due to the reduction in feed intake and feed efficiency. For the first time, we incorporated high levels of digestible carbohydrates (high-starch diet) in a 100% plant-based diet during a 12-week feeding trial in order to improve protein utilization for growth (protein sparing effect) and reduce nitrogen waste. We measured the changes in the intestinal microbiota, Short-Chain Fatty Acid (SCFA) levels and metabolic responses in liver. Dietary carbohydrates had a strong effect on alpha and beta diversity and abundance of 12 genera, including Ralstonia and Bacillus in digesta associated microbiota whereas mucosa associated microbiota was less affected. The change in microbial diversity might be linked to the change observed in SCFA production. High levels of Mycoplasma were observed in the intestinal mucosa. Overall, hepatic gene expression was significantly altered by the CHO/protein ratio. Up-regulation of genes involved in glucose metabolism (gcka, gckb, g6pcb2a), down-regulation of genes involved in lipid metabolism (hadh, acox3, srebp2a, and cyp51a) were associated with higher enzymatic activities (such as glucokinase or pyruvate kinase) and higher glycogen levels in the liver, suggesting adequate adaptation to diet. Interestingly, strong correlations were observed between abundances of certain bacterial OTUs and gene expression in the liver. The inclusion of digestible carbohydrates in combination with a 100% plant-based diet, could be a promising way to improve and reduce the use of plant proteins in rainbow trout. In addition, the relationship between intestinal microbiota and host metabolism needs further investigation to better understand fish nutrition.

molecular biology↗

bioRxiv2023

Rainbow trout neomales broodstocks are able to eat and use a high carbohydrate diet during a complete reproductive cycle

The main challenge of the aquaculture relies on the shift from fishmeal to more sustainable ingredients. Interest on carbohydrates has growing rapidly as they are considered as promising resources, providing energy and preserving proteins for growth. However, rainbow trout is considered as a poor user of carbohydrates displaying postprandial hyperglycaemia and impaired growth performances when fed with diets containing more than 20% of carbohydrates. Nonetheless, recent evidence points that broodstocks could be better user of high carbohydrate diet compared to juveniles. However, no study investigates how sex-reversed females - neomales - eat, grow and reproduce under a high carbohydrate diet. Our objective was thus to assess growth and reproductive performances of neomales fed with a high carbohydrate diet during an entire reproductive cycle. Our results demonstrate that neomales display specific metabolic and physiological changes when fed with a high carbohydrate diet compared to both females and males broodstocks as well as compared to juveniles. Altogether, our data demonstrate the critical relevance to formulate specific diets in accordance with specificities of each type of broodstocks (i.e. females, males and neomales).

molecular biology↗