Genome Sequence of a Fish-Associated Polyomavirus, Black Sea Bass (Centropristis striata) Polyomavirus 1.
Ontology highlight
ABSTRACT:
SUBMITTER: Peretti A
PROVIDER: S-EPMC4319505 | biostudies-literature | 2015 Jan
REPOSITORIES: biostudies-literature
Publications
Genome Sequence of a Fish-Associated Polyomavirus, Black Sea Bass (Centropristis striata) Polyomavirus 1.
Peretti Alberto A FitzGerald Peter C PC Bliskovsky Valery V Pastrana Diana V DV Buck Christopher B CB
Genome announcements 20150129 1
All known polyomaviruses are associated with mammals or birds. Using virion enrichment, random-primed rolling circle amplification, and deep sequencing, we identified a polyomavirus associated with black sea bass (Centropristis striata). The virus has a variety of novel genetic features, suggesting a long evolutionary separation from polyomaviruses of terrestrial animals. ...[more]
Similar Datasets
Project description:Overwintering conditions have long been known to affect fish survival and year-class strength as well as determine the poleward range limit of many temperate fishes. Despite this known importance, mechanisms controlling overwintering mortality are poorly understood and the tolerance of marine fishes to the combined effects of winter temperature, salinity, and size is rarely quantified. In recent years, higher abundances of the temperate Serranid, black sea bass Centropristis striata, have been observed at latitudes further north than their traditional range suggesting that warming water temperatures, particularly during winter, may be facilitating the establishment of a population at more northern latitudes. To examine overwintering survival of C. striata, the combined effects of temperature, salinity and body mass were quantified in laboratory experiments. We identified 6°C as the lower incipient lethal temperature for C. striata, below which fish cease feeding, lose weight rapidly and die within 32 days. A short cold exposure experiment indicated that temperatures below 5°C resulted in mortality events that continued even as the temperature increased slowly to 10°C, indicating that even short cold snaps can impact survival and recruitment in this species. Importantly, fish in lower salinity lived significantly longer than fish at higher salinity at both 3°C and 5°C, suggesting that osmoregulatory stress plays a role in overwintering mortality in this species. Size was not a critical factor in determining overwintering survival of young-of-the-year (YOY) C. striata. Overwintering survival of YOY C. striata can be effectively predicted as a function of temperature and salinity and their interaction with an accelerated failure model to project future range limits. Identifying temperature thresholds may be a tractable way to incorporate environmental factors into population models and stock assessment models in fishes.
| S-EPMC7444820 | biostudies-literature
Project description:Over the last decade, ocean temperature on the U.S. Northeast Continental Shelf (U.S. NES) has warmed faster than the global average and is associated with observed distribution changes of the northern stock of black sea bass (Centropristis striata). Mechanistic models based on physiological responses to environmental conditions can improve future habitat suitability projections. We measured maximum, standard metabolic rate, and hypoxia tolerance (Scrit) of the northern adult black sea bass stock to assess performance across the known temperature range of the species. Two methods, chase and swim-flume, were employed to obtain maximum metabolic rate to examine whether the methods varied, and if so, the impact on absolute aerobic scope. A subset of individuals was held at 30°C for one month (30chronic°C) prior to experiments to test acclimation potential. Absolute aerobic scope (maximum-standard metabolic rate) reached a maximum of 367.21 mgO2 kg-1 hr-1 at 24.4°C while Scrit continued to increase in proportion to standard metabolic rate up to 30°C. The 30chronic°C group exhibited a significantly lower maximum metabolic rate and absolute aerobic scope in relation to the short-term acclimated group, but standard metabolic rate or Scrit were not affected. This suggests a decline in performance of oxygen demand processes (e.g. muscle contraction) beyond 24°C despite maintenance of oxygen supply. The Metabolic Index, calculated from Scrit as an estimate of potential aerobic scope, closely matched the measured factorial aerobic scope (maximum / standard metabolic rate) and declined with increasing temperature to a minimum below 3. This may represent a critical threshold value for the species. With temperatures on the U.S. NES projected to increase above 24°C in the next 80-years in the southern portion of the northern stock's range, it is likely black sea bass range will continue to shift poleward as the ocean continues to warm.
| S-EPMC6564031 | biostudies-literature
Project description:Harvest restrictions (e.g. size, sex or species limitations) that are implemented to maintain sustainable fisheries often result in by-catch, e.g. unwanted non-target catch. By-catch is frequently discarded back into the ocean and assumed to survive. However, discarded fishes can succumb to delayed mortality resulting from accumulated stress from fishing activity, and such mortality can impede sustainability efforts. Quantifying reflex and behavioural impairments is a quick and cost-effective method to predict discard-related mortality in some species. We developed and evaluated the effectiveness of a release condition index, based on a reflex-action mortality prediction (RAMP) model, for predicting delayed mortality of black sea bass (Centropristis striata) caught and discarded by the commercial trap fishery in the Mid-Atlantic Bight. Accumulation of impairments, and therefore release condition index, was strongly correlated with delayed mortality of black sea bass discarded and held in sea cages. This is the first release condition index validation study to predict mortality in black sea bass and could be a useful approach for predicting delayed mortality in the commercial fishery.
| S-EPMC7439580 | biostudies-literature
Project description:Storm events are a significant source of disturbance in the Middle Atlantic Bight, in the Northwest Atlantic, that cause rapid destratification of the water column during the late summer and early fall. Storm-driven mixing can be considered as a seasonal disturbance regime to demersal communities, characterized by the recurrence of large changes in bottom water temperatures. Black sea bass are a model ubiquitous demersal species in the Middle Atlantic Bight, as their predominantly sedentary behavior makes them ideal for tagging studies while also regularly exposing them to summer storm disturbances and the physiological stresses associated with thermal destratification. To better understand the responsiveness of black sea bass to storm impacts, we coupled biotelemetry with a high-resolution Finite Volume Community Ocean Model (FVCOM). During the summers of 2016-2018, 8-15 black sea bass were released each year with acoustic transponders at three reef sites, which were surrounded by data-logging receivers. Data were analyzed for activity levels and reef departures of black sea bass, and fluctuations in temperature, current velocity, and turbulent kinetic energy. Movement rates were depressed with each consecutive passing storm, and late-season storms were associated with permanent evacuations by a subset of tagged fish. Serial increases in bottom temperature associated with repeated storm events were identified as the primary depressor of local movement. Storm-driven increases in turbulent kinetic energy and current velocity had comparatively smaller, albeit significant, effects. Black sea bass represents both an important fishery resource and an indicator species for the impact of offshore wind development in the United States. Their availability to fisheries surveys and sensitivity to wind turbine impacts will be biased during periods of high storm activity, which is likely to increase with regional climate change.
| S-EPMC7710083 | biostudies-literature
Project description:Many teleost fishes exhibit sequential hermaphroditism, where male or female gonads develop first and later undergo sex change. Model sex change species are characterized by social hierarchies and coloration changes, which enable experimental manipulations to better understand these processes. However, other species such as the protogynous black sea bass (Centropristis striata) do not exhibit these characteristics and instead receive research attention due to their importance in fisheries or aquaculture. Black sea bass social structure is unknown, which makes sex change sampling difficult, and few molecular resources are available. The purpose of the present study was to induce sex change using exemestane, an aromatase inhibitor, and assess gonadal gene expression using sex markers (amh, zpc2) and genes involved in steroidogenesis (cyp19a1a, cyp11b), estrogen signaling (esr1, esr2b), and apoptosis or atresia (aen, casp9, fabp11, parg, pdcd4, rif1). Overall, dietary exemestane treatment was effective, and most exposed females exhibited early histological signs of sex change and significantly higher rates of ovarian atresia relative to control females. Genes associated with atresia did not reflect this, however, as expression patterns in sex changing gonads were overall similar to those of ovaries, likely due to a whole ovary dilution effect of the RNA. Still, small but insignificant expression decreases during early sex change were detected for ovary-related genes (aen, casp9, fabp11, zpc2) and anti-apoptotic factors (parg, rif1). Exemestane treatment did not impact spermatogenesis or testicular gene expression, but testes were generally characterized by elevated steroidogenic enzyme and estrogen receptor mRNAs. Further research will be needed to understand these processes in black sea bass, using isolated ovarian follicles and multiple stages of sex change.
| S-EPMC6311140 | biostudies-literature
Project description:Fish reproduction is energetically costly, leading to a suite of energy allocation strategies for maximizing lifetime reproductive potential. Assessing energetic allocation for species that inhabit a wide distributional range can provide insight into different strategies found across individuals and populations. The Northern stock of black sea bass (Centropristis striata) inhabits the U.S. Northeast continental shelf from Cape Hatteras, NC, to the Gulf of Maine, and spawns inshore throughout this distribution from April to October. To assess energy allocation towards spawning, C. striata were collected in four regions across this distribution and throughout their spawning season. By assessing energetic allocation (lipid, energy density and total energy) in muscle, liver and gonad tissues, C. striata were identified as mixed breeders because while they mobilized somatic energy stores towards reproductive development, they also used energy acquired from their diet to sustain reproductive output throughout the spawning season. Unlike male fish, female fish both invested more energy into liver and gonad tissues and exhibited regional differences in energetic values. For both sexes, C. striata in the northern portion of the distribution had lower energetic values both in the somatic stores and towards gonadal development than the fish in the southern portion of the distribution, possibly because of longer migration distance. Overall, the authors found significant spatial variation in energetic constraints that may affect reproductive output and success (recruitment), a relevant result as C. striata are a popular recreational and commercial species throughout this distribution.
| S-EPMC9310597 | biostudies-literature
Project description:Centropristis striata Transcriptome or Gene expression
| PRJNA685629 | ENA
Project description:Mycobacterium hippocampi is an acid-fast opportunistic pathogen associated with infections in aquatic animals. Here, we report the draft genome sequence of M. hippocampi strain DL, an isolate from cultured European sea bass (Dicentrarchus labrax) associated with systemic symptomatology.
| S-EPMC7471386 | biostudies-literature
Project description:The European sea bass (Dicentrarchus labrax L.) is a marine fish of key economic and cultural importance in Europe. It is now more an aquaculture than a fisheries species (>96% of the production in 2016), although modern rearing techniques date back only from the late 1980s. It also has high interest for evolutionary studies, as it is composed of two semispecies (Atlantic and Mediterranean lineages) that have come into secondary contact following the last glaciation. Based on quantitative genetics studies of most traits of interest over the past 10-15 years, selective breeding programs are now applied to this species, which is at the beginning of its domestication process. The availability of a good quality reference genome has accelerated the development of new genomic resources, including SNP arrays that will enable genomic selection to improve genetic gain. There is a need to improve feed efficiency, both for economic and environmental reasons, but this will require novel phenotyping approaches. Further developments will likely focus on the understanding of genotype-by-environment interactions, which will be important both for efficient breeding of farmed stocks and for improving knowledge of the evolution of natural populations. At the interface between both, the domestication process must be better understood to improve production and also to fully evaluate the possible impact of aquaculture escapees on wild populations. The latter is an important question for all large-scale aquaculture productions.
| S-EPMC6593706 | biostudies-literature