Conservation of A-to-I RNA editing in bowhead whale and pig

RNA editing is a post-transcriptional process in which nucleotide changes are introduced into an RNA sequence, many of which can contribute to proteomic sequence variation. The most common type of RNA editing, contributing to nearly 99% of all editing events in RNA, is A-to-I (adenosine-to-inosine) editing mediated by double-stranded RNA-specific adenosine deaminase (ADAR) enzymes. A-to-I editing at ‘recoding’ sites results in non-synonymous substitutions in protein-coding sequences. Here, we present studies of the conservation of A-to-I editing in selected mRNAs between pigs, bowhead whales, humans and two shark species. All examined mRNAs–NEIL1, COG3, GRIA2, FLNA, FLNB, IGFBP7, AZIN1, BLCAP, GLI1, SON, HTR2C and ADAR2 –showed conservation of A-to-I editing of recoding sites. In addition, novel editing sites were identified in NEIL1 and GLI1 in bowhead whales. The A-to-I editing site of human NEIL1 in position 242 was conserved in the bowhead and porcine homologues. A novel editing site was discovered in Tyr244. Differential editing was detected at the two adenosines in the NEIL1 242 codon in both pig and bowhead NEIL1 mRNAs in various tissues and organs. No conservation of editing of KCNB1 and EEF1A mRNAs was seen in bowhead whales. In silico analyses revealed conservation of five adenosines in ADAR2, some of which are subject to A-to-I editing in bowheads and pigs, and conservation of a regulatory sequence in GRIA2 mRNA that is responsible for recognition of the ADAR editing enzyme.

Temporal Baseline of Essesntial and Non-essential Elements Recorded in Baleen of Western Arctic Bowhead Whale (Balaena mysticetus)

This study established the first baseline of changing elemental concentrations in bowhead whale baleen over time (1958–1999). From previously published stable isotope data, year, season (summer or winter), and location (Beaufort or Bering/Chukchi seas) were attributed to each sample. Thirteen elements (Al, Cd, Co, Cr, Cu, Fe, Hg, Mn, Ni, Pb, Se, V, Zn) in baleen from nine subsistence-harvested bowhead whales (n = 138) were detected. Al, Cu, and Fe were the highest concentrations while Cd and V were among the lowest. Our data supports absorption as the main route of exposure to environmental elements rather than biomagnification due to bowhead whales’ low trophic position. A linear mixed-effects model confirmed most elements’ concentrations increased with time, while location and sex were insignificant explanatory factors. These temporal fluctuations were most likely a product of environmental changes due to a warming climate and human activities.

Bering-Chukchi-Beaufort Seas bowhead whale (Balaena mysticetus) abundance estimate from the 2019 ice-based survey

An ice-based visual survey of the Bering-Chukchi-Beaufort Seas stock of bowhead whales (Balaena mysticetus) was conducted in spring 2019 near Utqiaġvik (formerly Barrow), Alaska. A Horvitz-Thompson-type estimator is used to estimate population abundance from the resulting data, correcting for detection probabilities, whale availability within visual range, and whale passage during periods of missed effort. Analytical methods mirror those used by Givens et al. (2016) for the 2011 survey as much as possible; however, unlike 2011, no simultaneous acoustic monitoring was conducted in 2019, so the availability correction factor had to be estimated from past years. The estimated abundance was 12,505 with 95% confidence interval of (7,994, 19,560) and a CV of 0.228. This estimated abundance is markedly lower than the 2011 estimate of 16,820, but the 2019 confidence interval wholly encompasses the 2011 interval. We do not interpret this finding as evidence of a decline for many reasons including: highly unusual ice conditions, an unusual migration route that was sometimes too distant from observers to detect whales, failure to conduct watch because of closed leads during the early weeks of the migration when numerous whales likely passed, an unusually short perch, and hunters’ heavy use of powered skiffs near the observation perch which likely disturbed the whales during the survey. Furthermore, bowhead health assessment information for 2019 suggests that harvested bowheads did not exhibit obvious reductions in health condition, and aerial surveys in summer 2019 indicated high calf production (Stimmelmayr et al. 2020). Despite the challenges of the 2019 survey, the estimate is adequate for use with the International Whaling Commission’s management procedure and complies with the survey requirements of the Aboriginal Whaling Scheme.

Lingering Chukchi Sea sea ice and Chukchi Sea mean winds influence population age structure of euphausiids (krill) found in the bowhead whale feeding hotspot near Pt. Barrow, Alaska

Interannual variability in euphausiid (krill) abundance and population structure and associations of those measures with environmental drivers were investigated in an 11-year study conducted in late August–early September 2005–2015 in offshelf waters (bottom depth > 40 m) in Barrow Canyon and the Beaufort Sea just downstream of Distributed Biological Observatory site 5 (DBO5) near Pt. Barrow, Alaska. Statistically-significant positive correlations were observed among krill population structure (proportion of juveniles and adults), the volume of Late Season Melt Water (LMW), and late-spring Chukchi Sea sea ice extent. High proportions of juvenile and adult krill were seen in years with larger volumes of LMW and greater spring sea ice extents (2006, 2009, 2012–2014) while the converse, high proportions of furcilia, were seen in years with smaller volumes of LMW and lower spring sea ice extent (2005, 2007, 2010, 2011, 2015). These different life stage, sea ice and water mass regimes represent integrated advective responses to mean fall and/or spring Chukchi Sea winds, driven by prevailing atmospheric pressure distributions in the two sets of years. In years with high proportions of juveniles and adults, late-spring and preceding-fall winds were weak and variable while in years with high proportions of furcilia, late-spring and preceding-fall winds were strong, easterly and consistent. The interaction of krill life history with yearly differences in the northward transports of krill and water masses along with sea ice retreat determines the population structure of late-summer krill populations in the DBO5 region near Pt. Barrow. Years with higher proportions of mature krill may provide larger prey to the Pt. Barrow area bowhead whale prey hotspot. The characteristics of prey near Pt. Barrow is dependent on krill abundance and size, large-scale environmental forcing, and interannual variability in recruitment success of krill in the Bering Sea.

A comparison of three methods for estimating call densities of migrating bowhead whales using passive acoustic monitoring

Various methods for estimating animal density from visual data, including distance sampling (DS) and spatially explicit capture-recapture (SECR), have recently been adapted for estimating call density using passive acoustic monitoring (PAM) data, e.g., recordings of animal calls. Here we summarize three methods available for passive acoustic density estimation: plot sampling, DS, and SECR. The first two require distances from the sensors to calling animals (which are obtained by triangulating calls matched among sensors), but SECR only requires matching (not localizing) calls among sensors. We compare via simulation what biases can arise when assumptions underlying these methods are violated. We use insights gleaned from the simulation to compare the performance of the methods when applied to a case study: bowhead whale call data collected from arrays of directional acoustic sensors at five sites in the Beaufort Sea during the fall migration 2007–2014. Call detections were manually extracted from the recordings by human observers simultaneously scanning spectrograms of recordings from a given site. The large discrepancies between estimates derived using SECR and the other two methods were likely caused primarily by the manual detection procedure leading to non-independent detections among sensors, while errors in estimated distances between detected calls and sensors also contributed to the observed patterns. Our study is among the first to provide a direct comparison of the three methods applied to PAM data and highlights the importance that all assumptions of an analysis method need to be met for correct inference.

Reconciling Behavioural, Bioenergetic, and Oceanographic Views of Bowhead Whale Predation on Overwintering Copepods at an Arctic Hotspot (Disko Bay, Greenland)

Bowhead whales (Balaena mysticetus) visit Disko Bay, West Greenland in winter and early spring to feed on Calanus spp., at a time of year when the copepods are still mostly in diapause and concentrated in near-bottom patches. Combining past observations of copepod abundance and distribution with detailed observations of bowhead whale foraging behaviour from telemetry suggests that if the whales target the highest-density patches, they likely consume 26–75% of the Calanus standing stock annually. A parallel bioenergetic calculation further suggests that the whales' patch selection must be close to optimally efficient at finding hotspots of high density copepods near the sea floor in order for foraging in Disko Bay to be a net energetic gain. Annual Calanus consumption by bowhead whales is similar to median estimates of consumption by each of three zooplankton taxa (jellies, chaetognaths, and predatory copepods), and much greater than the median estimate of consumption by fish larvae, as derived from seasonal abundance and specific ingestion rates from the literature. The copepods' self-concentration during diapause, far from providing a refuge from predation, is the behaviour that makes this strong trophic link possible. Because the grazing impact of the whales comes 6–10 months later than the annual peak in primary production, and because Disko Bay sits at the end of rapid advective pathways (here delineated by a simple numerical particle-tracking experiment), it is likely that these Calanus populations act in part as a long-distance energetic bridge between the whales and primary production hundreds or thousands of km away.