Northeastern Pacific Ocean Research Articles

Anadromous trout from opposite sides of the globe: biology, ocean ecology, and management of anadromous brown and cutthroat trout

Anadromous brown trout (Salmo trutta) in the northeastern Atlantic Ocean, and coastal cutthroat trout (Oncorhynchus clarkii clarkii) in the northeastern Pacific Ocean, are analogs in many ways. Both species display similar patterns of complex life histories and behavioral flexibility, are iteroparous and facultatively anadromous and occupy nearshore coastal marine habitats where numerous populations often mix. These characteristics create specific challenges for management and conservation that have been complicated by inadequate scientific attention in some areas. Both species are declining across their native range, and their ecology make them particularly vulnerable to habitat destruction, fishing, and climate change. Here, we review the available literature to compare the biology, ocean ecology, and management practices of these two species. We highlight ecological similarities and differences between the species and identify current knowledge gaps suggesting future research needs and management actions. Using a comparative approach, the review aims to promote and facilitate knowledge exchange between anadromous trout research communities from opposite sides of the globe to improve management and conservation of these species and stimulate the production of management plans specific to anadromous trout.

Polycyclic aromatic hydrocarbon (PAH) source identification and a maternal transfer case study in threatened killer whales (Orcinus orca) of British Columbia, Canada

The northeastern Pacific (NEP) Ocean spans the coast of British Columbia (Canada) and is impacted by anthropogenic activities including oil pipeline developments, maritime fossil fuel tanker traffic, industrial chemical effluents, agricultural and urban emissions in tandem with stormwater and wastewater discharges, and forest wildfires. Such events may expose surrounding marine environments to toxic polycyclic aromatic hydrocarbons (PAHs) and impact critical habitats of threatened killer whales (Orcinus orca). We analyzed skeletal muscle and liver samples from stranded Bigg’s killer whales and endangered Southern Resident killer whales (SRKWs) for PAH contamination using LRMS. C3-phenanthrenes/anthracenes (mean: 632 ng/g lw), C4-dibenzothiophenes (mean: 334 ng/g lw), and C4-phenanthrenes/anthracenes (mean: 248 ng/g lw) presented the highest concentrations across all tissue samples. Diagnostic ratios indicated petrogenic-sourced contamination for SRKWs and pyrogenic-sourced burdens for Bigg’s killer whales; differences between ecotypes may be attributed to habitat range, prey selection, and metabolism. A mother-fetus skeletal muscle pair provided evidence of PAH maternal transfer; low molecular weight compounds C3-fluorenes, dibenzothiophene, and naphthalene showed efficient and preferential exposure to the fetus. This indicates in-utero exposure of PAH-contamination to the fetus. Our results show that hydrocarbon-related anthropogenic activities are negatively impacting these top predators; preliminary data found here can be used to improve oil spill and other PAH pollution management and regulation efforts, and inform policy to conserve killer whale habitats in the NEP.

A global climatology of tropical easterly waves

Tropical easterly waves (TEWs) are westward-propagating off-equatorial waves that are typically convectively coupled. TEWs make significant contributions to the annual rainfall in many regions of the tropics, and often seed tropical cyclones. Climatologies of TEWs exist regionally and hemispherically, however, none exist at the global scale. The climatology in this study is the first attempt to study TEWs globally, applying a combination of the TRACK algorithm and objective criteria to all basins to identify TEW activity at both 850 and 700 hPa. In addition to areas of TEW activity in previously studied regions such as the North Atlantic and eastern North Pacific Ocean basins, this study has identified TEW activity in every other tropical ocean basin in both hemispheres. On average across the globe, the methods employed tracked 380 waves per year at 850 hPa and 638 waves per year at 700 hPa. There were no significant linear trends globally or hemispherically over the 41 years analyzed, but large interannual variability. Despite the variety of regions the TEWs occur in, the distribution of average speeds agrees with studies using other data and tracking methods, with averages between 7.5–8 m s−1 depending on the level and hemisphere. TEW activity shows a strong preference to the warm season, with approximately double the number of TEWs occurring in the warm season compared to the cold season, a pattern that is observed in both the northern and southern hemispheres. This database is publicly available to enable further work in understanding TEW behavior and predictability globally.

Food for all? Wildfire ash fuels growth of diverse eukaryotic plankton.

In December 2017, one of the largest wildfires in California history, the Thomas Fire, created a large smoke and ash plume that extended over the northeastern Pacific Ocean. Here, we explore the impact of Thomas Fire ash deposition on seawater chemistry and the growth and composition of natural microbial communities. Experiments conducted in coastal California waters during the Thomas Fire revealed that leaching of ash in seawater resulted in significant additions of dissolved nutrients including inorganic nitrogen (nitrate, nitrite and ammonium), silicic acid, metals (iron, nickel, cobalt and copper), organic nitrogen and organic carbon. After exposure to ash leachate at high (0.25 g ash l-1) and low (0.08 g ash l-1) concentrations for 4 days, natural microbial communities had 59-154% higher particulate organic carbon concentrations than communities without ash leachate additions. Additionally, a diverse assemblage of eukaryotic microbes (protists) responded to the ash leachate with taxa from 11 different taxonomic divisions increasing in relative abundance compared with control treatments. Our results suggest that large fire events can be important atmospheric sources of nutrients (particularly nitrogen) to coastal marine systems, where, through leaching of various nutrients, ash may act as a 'food for all' in protist communities.

Insights into vertebral band pair deposition rate in the juvenile common thresher shark (Alopias vulpinus) in the northeastern Pacific Ocean.

Validation of band pair deposition rates in elasmobranch vertebrae is essential for accurate age estimation using band pair counting techniques. We present a validation study of the vertebral band pair deposition rate for juvenile common thresher sharks Alopias vulpinus in the northeastern Pacific Ocean (NEPO) using tag and recapture with oxytetracycline (OTC) injection. A total of 14 juvenile A. vulpinus marked with OTC from 1998 through 2013 were recaptured with times at liberty ranging from 1.08 to 3.81 years with an average of 2.14 years (±0.97 years standard deviation, SD). Shark size ranged from 80 to 128 cm fork length (LF) at the time of OTC injection and from 112 to 168 cm LF for those measured at recapture. The slopes of the relationships between band pairs post OTC and years at liberty for each reader ranged from 0.84 to 0.95, slightly lower than the 1.0 slope expected from annual band pair formation. These findings preliminarily support previous age and growth assumptions based on a one band pair per year deposition rate. However, high variation in band pair deposition rates between samples, coupled with regression slopes falling just under one band pair per year, indicates that further investigation is needed to refine band pair deposition rate estimates.

Autonomous eDNA collection using an uncrewed surface vessel over a 4200‐km transect of the eastern Pacific Ocean

AbstractThe collection of environmental DNA (eDNA) samples is often laborious, costly, and logistically difficult to accomplish at high frequency in remote locations and over large geographic areas. Here, we addressed those challenges by combining two robotic technologies: an uncrewed surface vessel (USV) fitted with an automated eDNA sample collection device to survey surface waters in the eastern North Pacific Ocean from Alameda, CA to Honolulu, HI. USV Surveyor SD 1200 (Saildrone) carrying the Environmental Sample Processor (ESP) collected 2‐L water samples by filtration followed by RNAlater preservation at regular intervals over a 4200‐km, 29‐day transit. Sixty samples (52 field and 8 controls) were acquired and used to estimate the concentration of specific genes and assess eukaryotic diversity via targeted qPCR and metabarcoding of the cytochrome oxidase subunit I (COI) gene, respectively. Comparisons of control samples revealed important considerations for interpreting results. Samples stored at ambient temperatures onboard Surveyor over the length of the voyage had less total recoverable DNA and specific target gene concentrations compared to the same material immediately flash‐frozen after collection and stored in a laboratory. In contrast, the biodiversity of the COI genes in those samples was similar regardless of sample age and storage condition. COI genes affiliated with 40 eukaryotic phyla were found in native samples collected during the voyage. The distribution and dominance of those phyla varied across different regions, with some taxa spanning large continuous stretches >2000 km, while others were only detected in a single sample. This work highlights the utility and potential of using USVs fitted with autonomous eDNA sample collection devices to improve ocean exploration and support large, basin‐scale, systematic biodiversity surveys. Results of this study also inform future technical considerations for using automated eDNA samplers to acquire material and store it over prolonged periods under prevailing environmental conditions.

Rare yet everywhere: phylogenetic position of the enigmatic deep-sea shrimp Physetocaris microphthalma Chace, 1940 (Decapoda, Caridea)

The mysterious deep-sea shrimp Physetocaris microphthalma Chace, 1940 remains a challenge for the understanding of caridean shrimp systematics. Upon first description in 1940, the unique morphology in combination with lack of material made the allocation of P. microphthalma to any family or superfamily difficult, therefore the monotypic superfamily Physetocaridoidea and family Physetocarididae were described. The rarity of the species, only documented a few times in scientific literature, in combination with a circumglobal distribution, makes the advancement of the systematics and biology of this shrimp challenging. Current literature places Physetocaridoidea as a superfamily with a sister relationship to Pandaloidea but this relationship has never been tested using molecular data. Recent expeditions to the northern Gulf of Mexico and north-eastern Pacific Ocean provided fresh material for inclusion in phylogenetic analyses. Here, we used a molecular systematics approach to investigate the phylogenetic placement of this species within the infraorder Caridea and test for cryptic diversity across oceanic basins. We sequenced five genes (12S rRNA, 16S rRNA, H3, NaK and PEPCK) and built phylogenetic trees including specimens across Pandaloidea and other carideans (n = 75) using maximum-likelihood and Bayesian approaches. Our results strongly support the inclusion of P. microphthalma within the family Pandalidae and superfamily Pandaloidea, indicating that the superfamily Physetocaridoidea and family Physetocaridae are not valid. In addition, the inclusion of specimens from the Atlantic and Pacific Oceans does not support evidence of cryptic diversity, suggesting the global distribution of P. microphthalma. This is the first study to provide genetic data for this species, resulting in an updated classification for the infraorder Caridea and highlighting that deep-pelagic species can be rare yet still widely distributed.

Whistle characterization of long-beaked common dolphin (Delphinus delphis bairdii) in La Paz Bay, Gulf of California.

Long-beaked common dolphin (Delphinus delphis bairdii) distribution is limited to the Eastern North Pacific Ocean. Its whistle repertoire is poorly investigated, with no studies in the Gulf of California. The aim of the present study is to characterize the whistles of this species and compare their parameters with different populations. Acoustic monitoring was conducted in La Paz Bay, Gulf of California. Recordings were inspected in spectrogram view in Raven Pro, selecting good quality whistles (n = 270). In the software Luscinia, contours were manually traced to obtain whistle frequencies and duration. Number of steps, inflection points and contour type were visually determined. We calculated the descriptive statistics of the selected whistle parameters and we compared the results with a dolphins population from the Eastern Pacific Ocean. Permutational multivariate analysis of variance (PERMANOVA) was performed to test the intraspecific variation of the whistle parameters among groups. In the present study the mean values (±SD) of the whistle parameters were: maximum frequency = 14.13 ±3.71 kHz, minimum frequency = 8.44 ±2.58 kHz and duration = 0.44 ±0.31 s. Whistles with the upsweep contour were the most common ones (34.44%). The coefficient of variation (CV) values for modulation parameters were high (>100%), in accordance with other studies on dolphins. Whistle parameters showed significant differences among groups. Finally, ending and maximum frequencies, duration and inflection points of the whistles recorded in the present study were lower compared with the parameters of the long-beaked common dolphins from the Eastern Pacific Ocean. This study provides the first whistle characterization of long-beaked common dolphin from the Gulf of California and it will help future passive acoustic monitoring applications in the study area.

Perfluoroalkyl Substances in Seabird Eggs from Canada's Pacific Coast: Temporal Trends (1973-2019) and Interspecific Patterns.

Whether perfluoroalkyl sulfonates (PFSAs) and perfluoroalkyl carboxylates (PFCAs) are responding to legislative restrictions and showing decreasing trends in top marine predators that range across the eastern North Pacific Ocean is unclear. Here, we examined longer-term temporal trends (1973-2019) of 4 PFSAs and 13 PFCAs, as well stable isotopes of δ13C and δ15N, in the eggs of 4 seabird species sampled along a nearshore-offshore gradient; double-crested cormorants (Nannopterum auritum), pelagic cormorants (Urile pelagicus), rhinoceros auklets (Cerorhinca monocerata), and Leach's storm-petrels (Hydrobates leucorhous) from the Pacific coast of British Columbia, Canada. PFOS was the most abundant PFSA (79-94%) detected in all eggs regardless of colony and year, with the highest concentrations, on average, measured in auklet eggs (mean = 58 ng g-1, range = 11-286 ng g-1 ww). Perfluoroundecanoic acid (PFUdA) and perfluorotridecanoic acid (PFTriDA) were the dominant long-chain PFCAs (≥30% combined). The majority of PFSAs (including PFOS) are statistically declining (p < 0.001) in the eggs of all 4 species with PFOS half-lives ranging from 2.6 to 7.8 years. Concentrations of long-chain PFCAs exhibited a trajectory comprised of linear increases and second-order declines, suggesting that the rate of uptake of PFCAs is slowing or leveling off. These trends are consistent with the voluntarily ceased production of PFSAs by 3M circa 2000-2003 and are among the first from the northeast Pacific to indicate a positive response to several regulations and restrictions on PFCAs from facility emissions and product content.

On dynamical downscaling of ENSO-induced oceanic anomalies off Baja California Peninsula, Mexico: role of the air-sea heat flux

The El Niño Southern Oscillation (ENSO) phenomenon is responsible for important physical and biogeochemical anomalies in the Northeastern Pacific Ocean. The event of 1997-98 has been one of the most intense in the last decades and it had large implications for the waters off Baja California (BC) Peninsula with a pronounced warm sea surface temperature (SST) anomaly adjacent to the coast. Downscaling of reanalysis products was carried out using a mesoscale-resolving numerical ocean model to reproduce the regional SST anomalies. The nested model has a 9 km horizontal resolution that extend from Cabo Corrientes to Point Conception. A downscaling experiment that computes surface fluxes online with bulk formulae achieves a better representation of the event than a version with prescribed surface fluxes. The nested system improves the representation of the large scale warming and the localized SST anomaly adjacent to BC Peninsula compared to the reanalysis product. A sensitivity analysis shows that air temperature and to a lesser extent wind stress anomalies are the primary drivers of the formation of BC temperature anomaly. The warm air-temperature anomalies advect from the near-equatorial regions and the central north Pacific and is associated with sea-level pressure anomalies in the synoptic-scale atmospheric circulation. This regional warm pool has a pronounced signature on sea level anomaly in agreement with observations, which may have implications for biogeochemistry.

Lightning-Based Tropical Cyclone Rapid Intensification Guidance

Abstract With several seasons of Geostationary Lightning Mapper (GLM) data, this work revisits incorporating lightning observations into operational tropical cyclone rapid intensification guidance. GLM provides freely available, real-time lightning data over the central and eastern North Pacific and North Atlantic Oceans. A long-term lightning dataset is needed to use GLM in a statistical–dynamical operational application to capture the relationship between lightning and the rare occurrence of rapid intensification. This work uses the World Wide Lightning Location Network (WWLLN) dataset from 2005 to 2017 to develop lightning-based predictors for rapid intensification guidance models. The models mimic the operational Statistical Hurricane Intensity Prediction Scheme Rapid Intensification Index and Rapid Intensification Prediction Aid frameworks. The frameworks are averaged to form a consensus as a means to isolate the impact of the lightning predictors. Two configurations for lightning predictors are assessed: a spatial configuration with 0–100-km inner core and 200–300-km rainband area for the preceding 6-h predictors and a temporal configuration with an inner core only for the preceding 0–1, 0–6, and 6–12 h. When tested on the 2018–21 seasons, the temporal configuration adds skill primarily to the 12–48-h forecasts when compared to the no-lightning version and rapid intensification operational consensus. When WWLLN is replaced with GLM, minor changes to the prediction are observed suggesting that this approach is suitable for operational applications and provides a new baseline for tropical cyclone lightning-based rapid intensification aids. Significance Statement The forecasting of rare, yet critical, tropical cyclone rapid intensification events continues to be challenging. The current operational tools to anticipate rapid intensity changes use a combination of numerical weather prediction–derived environmental conditions and satellite-based cloud top temperature variations of deep convection. Here, we use freely available Geostationary Lightning Mapper data, which provide independent information about convection, in similar intensity guidance frameworks using temporal and spatial aspects of lightning variability. Our results show an improvement in short-term (12–48 h) rapid intensification forecasts by using temporal lightning information, and our investigation highlights that users of Geostationary Lightning Mapper lightning information should be cognizant of the influence and impact of land on these observations.

Phylogenomics shows that novel tapeworm-like traits of haplozoan parasites evolved from within the Peridiniales (Dinoflagellata)

Haplozoans are intestinal parasites of marine annelids with bizarre traits, including a differentiated and dynamic trophozoite stage that resembles the scolex and strobila of tapeworms. Described originally as “Mesozoa”, comparative ultrastructural data and molecular phylogenetic analyses have shown that haplozoans are aberrant dinoflagellates; however, these data failed to resolve the phylogenetic position of haplozoans within this diverse group of protists. Several hypotheses for the phylogenetic position of haplozoans have been proposed: (1) within the Gymnodiniales based on tabulation patterns on the trophozoites, (2) within the Blastodiniales based on the parasitic life cycle, and (3) part of a new lineage of dinoflagellates that reflects the highly modified morphology. Here, we demonstrate the phylogenetic position of haplozoans by using three single-trophozoite transcriptomes representing two species: Haplozoon axiothellae and two isolates of H. pugnus collected from the Northwestern and Northeastern Pacific Ocean. Unexpectedly, our phylogenomic analysis of 241 genes showed that these parasites are unambiguously nested within the Peridiniales, a clade of single-celled flagellates that is well represented in marine phytoplankton communities around the world. Although the intestinal trophozoites of Haplozoon species do not show any peridinioid characteristics, we suspect that uncharacterized life cycle stages may reflect their evolutionary history within the Peridiniales.

Testing of hook sizes and appendages to reduce yelloweye rockfish bycatch in a Pacific halibut longline fishery

In Pacific halibut (Hippoglossus stenolepis) longline fisheries in the eastern North Pacific Ocean bycatch of yelloweye rockfish (Sebastes ruberrimus) is a concern as their stock status along the U.S. West Coast is “rebuilding” from being “overfished”, the southeast Alaska stock has shown a ∼60% decline since at least 1994 and through 2015 where it stabilized, and the Canadian stock has been recently declared “threatened”. In this study, we evaluated how size 16/0 and 18/0 circle hooks affect the catch efficiency of Pacific halibut and yelloweye rockfish. Further, we examined the catch efficiency of these hooks modified with a 3.1 mm stainless-steel wire appendage extending 7.6 cm from their shank at either a 45° or 90° angle. We estimated hooking location probabilities for Pacific halibut and yelloweye rockfish for the hooks tested, and tested for a difference in the time of capture between Pacific halibut and yelloweye rockfish. Results showed that hook size did not significantly affect the catch efficiency of Pacific halibut or yelloweye rockfish. However, hooks with a 45° appendage angle caught significantly fewer yelloweye rockfish than hooks without an appendage, irrespective of hook size. Appendage angle did not affect the catch efficiency of Pacific halibut. For both Pacific halibut and yelloweye rockfish, the most frequent hooking location was hook through cheek, both with and without an appendage. Time of capture of Pacific halibut and yelloweye rockfish did not differ over the duration of a set; however, the majority (75%) of individuals were caught within 2.5 h of gear deployment. Results from our study suggest that hook appendages could have potential use in reducing catch rates on yelloweye rockfish in Pacific halibut longline fisheries, which could lead to increased fishing opportunities, more efficient Pacific halibut fisheries and less effect of fluctuations in the more productive Pacific halibut stock on fisheries that may be constrained by yelloweye rockfish.

Review and guide to the isopods (Crustacea, Isopoda) of littoral and sublittoral marine habitats in the Southern California Bight.

The isopod crustaceans reported from or expected to occur in littoral and sublittoral marine habitats of the Southern California Bight (SCB) in the northeastern Pacific Ocean are reviewed. A total of 190 species, representing 105 genera in 42 families and six suborders are covered. Approximately 84% of these isopods represent described species with the remaining 16% comprising well-documented "provisional" but undescribed species. Cymothoida and Asellota are the most diverse of the six suborders, accounting for ca. 36% and 29% of the species, respectively. Valvifera and Sphaeromatidea are the next most speciose suborders with between 13-15% of the species each, while the suborder Limnorioidea represents fewer than 2% of the SCB isopod fauna. Finally, the mostly terrestrial suborder Oniscidea accounts for ca. 5% of the species treated herein, each which occurs at or above the high tide mark in intertidal habitats. A key to the suborders and superfamilies is presented followed by nine keys to the SCB species within each of the resultant groups. Figures are provided for most species. Bathymetric range, geographic distribution, type locality, habitat, body size, and a comprehensive list of references are included for most species.

Mixtophyes toothlessi sp. n., a new Kinorhyncha species (Anomoirhaga: Neocentrophyidae) from the Clarion-Clipperton Zone, with a revision of terminology and taxonomic features of the family.

A new species of Mixtophyes Sánchez et al. 2014 is described from the Clarion-Clipperton Fracture Zone (north-eastern Pacific Ocean). The new species is characterised by the presence of spinose processes on segments 1-11 in middorsal position and on segments 1-10 in midlateral position, paired paradorsal setae on segments 2, 4-6 and 8-9, and unpaired ones on segments 3 and 7, paired setae in paralateral and ventrolateral positions on segments 2-9. In addition, some morphological characteristics of the family Neocentrophyidae and the genus Mixtophyes are discussed, and the diagnoses of both taxa are updated. Lastly, the taxonomic nomenclature of Neocentrophyidae and the sexual characters of the genus are accordingly emended.

Marine N2O cycling from high spatial resolution concentration, stable isotopic and isotopomer measurements along a meridional transect in the eastern Pacific Ocean

Nitrous oxide (N2O) is a potent greenhouse gas and ozone depleting substance, with the ocean accounting for about one third of global emissions. In marine environments, a significant amount of N2O is produced by biological processes in Oxygen Deficient Zones (ODZs). While recent technological advances are making surface N2O concentration more available, high temporal and spatial resolution water-column N2O concentration data are relatively scarce, limiting global N2O ocean models’ predictive capability. We present a N2O concentration, stable isotopic composition and isotopomer dataset of unprecedently large spatial coverage and depth resolution in the broader Pacific, crossing both the eastern tropical South and North Pacific Ocean ODZs collected as part of the GO-SHIP P18 repeat hydrography program in 2016/2017. We complement these data with dissolved gases (nitrogen, oxygen, argon) and nitrate isotope data to investigate the pathways controlling N2O production in relation to apparent oxygen utilization and fixed nitrogen loss. N2O yield significantly increased under low oxygen conditions near the ODZs. Keeling plot analysis revealed different N2O sources above the ODZs under different oxygen regimes. Our stable isotopic data and relationships between the N2O added by microbial processes (ΔN2O) and dissolved inorganic nitrogen (DIN) deficit confirm increased N2O production by denitrification under low oxygen conditions near the oxycline where the largest N2O accumulations were observed. The slope for δ18O-N2O versus site preference (SP, the difference between the central (α) and outer (β) N atoms in the linear N2O molecule) in the eastern tropical North Pacific ODZ was lower than expected for pure N2O reduction, likely because of the observed decrease in δ15Nβ. This trend is consistent with prior ODZ studies and attributed to concurrent production of N2O from nitrite with a low δ15N or denitrification with a SP &amp;gt;0‰. We estimated apparent isotope effects for N2O consumption in the ETNP ODZ of 3.6‰ for 15Nbulk, 9.4‰ for 15Nα, -2.3‰ for 15Nβ, 12.0‰ for 18O, and 11.7‰ for SP. These values were generally within ranges previously reported for previous laboratory and field experiments.

Small-scale population structure of eastern North Pacific harbour porpoises (Phocoena phocoena) indicated by molecular genetic analyses

Concern about the conservation and management of harbour porpoise (Phocoena phocoena) populations, which have experienced relatively large incidental fishery kills in localised areas throughout their range, has prompted research to better understand their population structure. Both mitochondrial and nuclear (microsatellites) DNA were used to examine the intra-specific structure of harbour porpoise inhabiting the eastern North Pacific Ocean. Null hypotheses of panmixia were tested after mitochondrial DNA (mtDNA) control region sequence data (402 base pairs; n = 249) and allele frequency data (9 polymorphic loci; n = 194) were sub-divided into geographic strata defined a priori. Strata were based on sampling discontinuities and not discontinuities in population distribution. The mtDNA and nuclear gene data revealed statistically significant genetic differentiation between most strata (a = 0.05) suggesting demographic independence of fairly small sub-units within the population. Since harbour porpoises are essentially continuously distributed in the eastern North Pacific, this degree of genetic differentiation was unexpected and needs to be considered in developing a sound management plan to protect them.

Nutritional status affects Igf1 regulation of skeletal muscle myogenesis, myostatin, and myofibrillar protein degradation pathways in gopher rockfish (Sebastes carnatus)

Insulin-like growth factor-1 (Igf1) regulates skeletal muscle growth in fishes by increasing protein synthesis and promoting muscle hypertrophy. When fish experience periods of insufficient food intake, they undergo slower muscle growth or even muscle wasting, and those changes emerge in part from nutritional modulation of Igf1 signaling. Here, we examined how food deprivation (fasting) affects Igf1 regulation of liver and skeletal muscle gene expression in gopher rockfish (Sebastes carnatus), a nearshore rockfish of importance for commercial and recreational fisheries in the northeastern Pacific Ocean, to understand how food limitation impacts Igf regulation of muscle growth pathways. Rockfish were either fed or fasted for 14 d, after which a subset of fish from each group was treated with recombinant Igf1 from sea bream (Sparus aurata). Fish that were fasted lost body mass and had lower body condition, reduced hepatosomatic index, and lower plasma Igf1 concentrations, as well as a decreased abundance of igf1 gene transcripts in the liver, increased hepatic mRNAs for Igf binding proteins igfbp1a, igfbp1b, and igfbp3a, and decreased mRNA abundances for igfbp2b and a putative Igf acid labile subunit (igfals) gene. In skeletal muscle, fasted fish showed a reduced abundance of intramuscular igf1 mRNAs but elevated gene transcripts encoding Igf1 receptors A (igf1ra) and B (igf1rb), which also showed downregulation by Igf1. Fasting increased skeletal muscle mRNAs for myogenin and myostatin1, as well as ubiquitin ligase F-box only protein 32 (fbxo32) and muscle RING-finger protein-1 (murf1) genes involved in muscle atrophy, while concurrently downregulating mRNAs for myoblast determination protein 2 (myod2), myostatin2, and myogenic factors 5 (myf5) and 6 (myf6 encoding Mrf4). Treatment with Igf1 downregulated muscle myostatin1 and fbxo32 under both feeding conditions, but showed feeding-dependent effects on murf1, myf5, and myf6/Mrf4 gene expression indicating that Igf1 effects on muscle growth and atrophy pathways is contingent on recent food consumption experience.

Sablefish (Anoplopoma fimbria) chromosome-level genome assembly.

Sablefish (Anoplopoma fimbria) are in the suborder Cottioidei, which also includes stickleback and lumpfish. This species inhabits coastal regions of the northeastern and northwestern Pacific Ocean from California to Japan. A commercial fishery for sablefish began to flourish in the 1960s, though a downward trend in stock biomass and landings has been observed since 2010. Aquaculture protocols have been developed for sablefish; eggs and sperm from wild-caught and hatchery-reared captive broodstock are used to generate offspring that reach market size in about two years. Parentage analyses show that survival in aquaculture varies among families. Growth rate and disease resistance also vary among individuals and cohorts, but the extent to which genetics and the environment contribute to this variation is unclear. The sablefish genome assembly reported here will form the foundation for SNP-based surveys designed to detect genetic markers associated with survival, growth rate, and pathogen resistance. Beyond its contribution to sablefish domestication, the sablefish genome can be a resource for the management of the wild sablefish fishery. The assembly generated in this study had a length of 653 Mbp, a scaffold N50 of 26.74 Mbp, a contig N50 of 2.57 Mbp, and contained more than 98% of the 3640 Actinopterygii core genes. We placed 620.9 Mbp (95% of the total) onto 24 chromosomes using a genetic map derived from six full-sib families and Hi-C contact data.

Vertebral Chemistry Distinguishes Nursery Habitats of Juvenile Shortfin Mako in the Eastern North Pacific Ocean

AbstractShortfin Mako Isurus oxyrinchus are ecologically and economically important apex predators throughout the global oceans. The eastern North Pacific Ocean contains several coastal nurseries for this species, where juveniles can forage and grow until venturing into offshore pelagic habitats, where seasonal migration and reproduction occurs. Opportunistically sampled vertebrae from both male and female juvenile Shortfin Mako (65.5–134.4 cm total length, neonate to age 2) were sourced from two distinct nurseries in the eastern North Pacific: the Southern California Bight (n = 12), USA, and Bahía Sebastián Vizcaíno (n = 11), Mexico. Mineralized vertebral cartilage was analyzed to determine concentrations of selected elements (Li, Mg, Mn, Zn, Sr, Ba, standardized to Ca) using laser ablation inductively coupled plasma mass spectrometry, targeting growth bands at specific life stages, including postparturition at the birth band and the recent life history of the individual at the vertebral edge. The elemental variation exhibited by these individuals over ~1 month of life before capture was explored by comparing recent vertebral concentrations, with Zn:Ca, Sr:Ca, and Ba:Ca concentrations significantly different between nurseries (Southern California Bight versus Bahía Sebastián Vizcaíno). Element variability through ontogeny was detected, as Li:Ca, Mg:Ca, and Zn:Ca concentrations were significantly different between individual past and recent vertebral bands. These findings suggest that vertebral chemistry approaches may enhance understanding of nursery habitat sources of migratory sharks.