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.
Celotno besedilo
Dostopno za:
DOBA, IZUM, KILJ, NUK, PILJ, PNG, SAZU, SIK, UILJ, UKNU, UL, UM, UPUK
Limited polar geographical range, narrowly defined migratory routes, and deep‐diving behaviours make narwhals exceptionally vulnerable to anthropogenic disturbances including oceanic noise. Although ...behavioural studies indicate marked responses of cetaceans to disturbance, the link between fear reactions and possible injury from noise exposure is limited for most species.
To address this, we deployed custom‐made heart rate‐accelerometer‐depth recorders on 13 adult narwhals in Scoresby Sound, East Greenland across a five‐year period (2014–2018). Physiological responses of the cetaceans were monitored in the absence (n = 13 animals) or presence (n = 2 animals across 3 acoustic events) of experimentally directed, seismic airgun pulses and associated vessels (full volume source level = 241 dB re 1 μPa‐m).
We found that anthropogenic noise resulted in marked cardiovascular, respiratory and locomotor reactions by two narwhals exposed to seismic pulses across three acoustic events. The general behavioural response to seismic and vessel noise included an 80% reduction in the duration of gliding during dive descents by seismic‐exposed narwhals compared to controls, and the prolongation of high intensity activity (ODBA > 0.20 g) with elevated stroke frequencies exceeding 40 strokes per minute. Noise exposure also resulted in intense (<10 bpm) bradycardia that was decoupled from stroking frequency. This decoupling instigated increased variability in heart rate, with the heart switching rapidly between bradycardia and exercise tachycardia during noise exposure. The maximum respiratory frequency following seismic exposure, 12 breaths/min, was 1.5 times control levels.
Overall, the effect of seismic/ship noise exposure on Arctic narwhals was a 2.0–2.2‐fold increase in the energetic cost of diving, which paradoxically occurred during suppression of the cardiac exercise response. This unusual relationship between diving heart rate and exercise intensity represents a new metric for characterizing the level of fear reactions of wild marine mammals exposed to different environmental stressors. Together, the multi‐level reactions to anthropogenic noise by this deep‐diving cetacean demonstrated how a cascade of effects along the entire oxygen pathway could challenge physiological homeostasis especially if disturbance is prolonged.
Read the free Plain Language Summary for this article on the Journal blog.
Read the free Plain Language Summary for this article on the Journal blog.
The vaquita is the most critically endangered marine mammal, with fewer than 19 remaining in the wild. First described in 1958, the vaquita has been in rapid decline for more than 20 years resulting ...from inadvertent deaths due to the increasing use of large‐mesh gillnets. To understand the evolutionary and demographic history of the vaquita, we used combined long‐read sequencing and long‐range scaffolding methods with long‐ and short‐read RNA sequencing to generate a near error‐free annotated reference genome assembly from cell lines derived from a female individual. The genome assembly consists of 99.92% of the assembled sequence contained in 21 nearly gapless chromosome‐length autosome scaffolds and the X‐chromosome scaffold, with a scaffold N50 of 115 Mb. Genome‐wide heterozygosity is the lowest (0.01%) of any mammalian species analysed to date, but heterozygosity is evenly distributed across the chromosomes, consistent with long‐term small population size at genetic equilibrium, rather than low diversity resulting from a recent population bottleneck or inbreeding. Historical demography of the vaquita indicates long‐term population stability at less than 5,000 (Ne) for over 200,000 years. Together, these analyses indicate that the vaquita genome has had ample opportunity to purge highly deleterious alleles and potentially maintain diversity necessary for population health.
see also the Perspective by Annabel Whibley
Global warming is affecting the population dynamics and trophic interactions across a wide range of ecosystems and habitats. Translating these real‐time effects into their long‐term consequences ...remains a challenge. The rapid and extreme warming period that occurred after the Last Glacial Maximum (LGM) during the Pleistocene–Holocene transition (7–12 thousand years ago) provides an opportunity to gain insights into the long‐term responses of natural populations to periods with global warming. The effects of this post‐LGM warming period have been assessed in many terrestrial taxa, whereas insights into the impacts of rapid global warming on marine taxa remain limited, especially for megafauna. In order to understand how large‐scale climate fluctuations during the post‐LGM affected baleen whales and their prey, we conducted an extensive, large‐scale analysis of the long‐term effects of the post‐LGM warming on abundance and inter‐ocean connectivity in eight baleen whale and seven prey (fish and invertebrates) species across the Southern and the North Atlantic Ocean; two ocean basins that differ in key oceanographic features. The analysis was based upon 7032 mitochondrial DNA sequences as well as genome‐wide DNA sequence variation in 100 individuals. The estimated temporal changes in genetic diversity during the last 30,000 years indicated that most baleen whale populations underwent post‐LGM expansions in both ocean basins. The increase in baleen whale abundance during the Holocene was associated with simultaneous changes in their prey and climate. Highly correlated, synchronized and exponential increases in abundance in both baleen whales and their prey in the Southern Ocean were indicative of a dramatic increase in ocean productivity. In contrast, the demographic fluctuations observed in baleen whales and their prey in the North Atlantic Ocean were subtle, varying across taxa and time. Perhaps most important was the observation that the ocean‐wide expansions and decreases in abundance that were initiated by the post‐LGM global warming, continued for millennia after global temperatures stabilized, reflecting persistent, long‐lasting impacts of global warming on marine fauna.
Genetic analyses revealed that past global warming had strong, ocean‐wide impacts on baleen whales and their prey in the North Atlantic and Southern Oceans. The Holocene was characterized by a global increase in baleen whale abundance associated with changes in prey and climate. The changes initiated by the rapid global warming 7–12 thousand years ago continued to affect abundance long after the global temperatures stabilized. These findings warn of the potential of dramatic long‐term effects from current climate change on the marine ecosystem.
Detecting structures within the continuous diving behavior of marine animals is challenging, and no universal framework is available. We captured such diverse structures using chaos theory. By ...applying time-delay embedding to exceptionally long dive records (83 d) from the narwhal, we reconstructed the state-space portrait. Using measures of chaos, we detected a diurnal pattern and its seasonal modulation, classified data, and found how sea-ice appearance shifts time budgets. There is more near-surface rest but deeper dives at solar noon, and more intense diving during twilight and at night but to shallower depths (likely following squid); sea-ice appearance reduces rest. The introduced geometrical approach is simple to implement and potentially helpful for mapping and labeling long-term behavioral data, identifying differences between individual animals and species, and detecting perturbations.
Celotno besedilo
Dostopno za:
DOBA, IZUM, KILJ, NUK, PILJ, PNG, SAZU, SIK, UILJ, UKNU, UL, UM, UPUK
Global biotic and abiotic threats, particularly from pervasive human activities, are progressively pushing large, apex carnivorous mammals into the functional role of mesopredator. Hunters are now ...becoming the hunted. Despite marked impacts on these animals and the ecosystems in which they live, little is known about the physiological repercussions of this role downgrading from ultimate to penultimate predator.
Here we examine how such ecological role reversals alter the physiological processes associated with energy expenditure, and ultimately the cost of survival during peak performance.
Taxonomic group, preferred habitat and domestication affected the capacity of the oxygen pathway to support high levels of aerobic performance by carnivorous mammals. Fear responses associated with anthropogenic threats also impacted aerobic performance.
Allometric trends for three energetic metrics maximum oxygen consumption, field metabolic rates (FMRs) and the cost per stride or stroke, showed distinct trends in aerobic capacity for different evolutionary lineages of mammalian predators. Cursorial canids that chase down prey demonstrated the highest relative maximum oxygen consumption rates (10–25 times resting levels) and FMRs, while ambush predators (i.e. felids) and diving marine mammals had aerobic capacities that were similar to or lower than sedentary domestic mammals of comparable size.
The maximum energetic cost of performance for apex predators depended on whether the animals were hunters or the hunted. Escape responses were exceptionally costly for marine (narwhal Monodon monoceros) and terrestrial (mountain lion Puma concolor) locomotor specialists, as well as semi‐aquatic (polar bear Ursus maritimus) species; all showed a nearly two‐fold increase in peak energy expenditure when avoiding threats.
As the duration and frequency of threats to wild species continue to grow, cumulative energetic costs are becoming more apparent. In view of this, attention to the energy demands of apex predators will provide vital predictive power to anticipate mismatches between a species' functional design and human‐induced pressures, and allow for the development of conservation strategies based on how species are built to survive.
A free Plain Language Summary can be found within the Supporting Information of this article.
A free Plain Language Summary can be found within the Supporting Information of this article.
Two major oceanographic changes have recently propagated through several trophic levels in coastal areas of Southeast Greenland (SEG). Firstly, the amount of drift‐ice exported from the Fram Strait ...and transported with the East Greenland Current (EGC) has decreased significantly over the past two decades, and a main tipping element (summer sea ice) has virtually disappeared since 2003 leading to a regime shift in oceanographic and ecological conditions in the region. The following 20‐year period with low or no coastal sea ice is unique in the 200‐year history of ice observations in the region, and the regime shift is also obvious in the volume of ice export through the Fram Strait after 2013. In the same period, the temperature of the EGC south of 73.5 N has increased significantly (>2°C) since 1980. Secondly, the warm Irminger Current, which advects warm, saline Atlantic Water into the region, has become warmer since 1990. The lack of pack ice in summer together with a warming ocean generated cascading effects on the ecosystem in SEG that are manifested in a changed fish fauna with an influx of boreal species in the south and the subarctic capelin further north. At higher trophic levels there has been an increase in the abundance of several boreal cetaceans (humpback, fin, killer, and pilot whales and dolphins) that are either new to this area or occur in historically large numbers. It is estimated that the new cetacean species in SEG are responsible for an annual predation level of 700,000 tons of fish. In addition, predation on krill species is estimated at >1,500,000 tons mainly consumed by fin whales. Simultaneously, there has been a reduction in the abundance and catches of narwhals and walruses in SEG and it is suggested that these species have been impacted by the habitat changes.
The amount of drift‐ice along East Greenland has decreased significantly over the past two decades, and the summer sea ice has virtually disappeared since 2003 leading to a regime shift in oceanographic and ecological conditions in the region. The lack of pack ice in summer together with a warming ocean generated cascading effects on the ecosystem in East Greenland that are manifested in a changed fish and marine mammal fauna with an influx of boreal species.
North America is currently home to a number of grey wolf (Canis lupus) and wolf-like canid populations, including the coyote (Canis latrans) and the taxonomically controversial red, Eastern timber ...and Great Lakes wolves. We explored their population structure and regional gene flow using a dataset of 40 full genome sequences that represent the extant diversity of North American wolves and wolf-like canid populations. This included 15 new genomes (13 North American grey wolves, 1 red wolf and 1 Eastern timber/Great Lakes wolf), ranging from 0.4 to 15x coverage. In addition to providing full genome support for the previously proposed coyote-wolf admixture origin for the taxonomically controversial red, Eastern timber and Great Lakes wolves, the discriminatory power offered by our dataset suggests all North American grey wolves, including the Mexican form, are monophyletic, and thus share a common ancestor to the exclusion of all other wolves. Furthermore, we identify three distinct populations in the high arctic, one being a previously unidentified "Polar wolf" population endemic to Ellesmere Island and Greenland. Genetic diversity analyses reveal particularly high inbreeding and low heterozygosity in these Polar wolves, consistent with long-term isolation from the other North American wolves.
Celotno besedilo
Dostopno za:
DOBA, IZUM, KILJ, NUK, PILJ, PNG, SAZU, SIK, UILJ, UKNU, UL, UM, UPUK
The effects of climate change constitute a major concern in Arctic waters due to the rapid decline of sea ice, which may strongly alter the movements and habitat availability of Arctic marine ...mammals. We tracked 98 bowhead whales by satellite over an 11-year period (2001-2011) in Baffin Bay - West Greenland to investigate the environmental drivers (specifically sea surface temperature and sea ice) involved in bowhead whale's movements. Movement patterns differed according to season, with aggregations of whales found at higher latitudes during spring and summer likely in response to sea-ice retreat and increasing sea temperature (SST) facilitated by the warm West Greenland Current. In contrast, the whales moved further south in response to sea temperature decrease during autumn and winter. Statistical models indicated that the whales targeted a narrow range of SSTs from -0.5 to 2 °C. Sea surface temperatures are predicted to undergo a marked increase in the Arctic, which could expose bowhead whales to both thermal stress and altered stratification and vertical transport of water masses. With such profound changes, bowhead whales may face extensive habitat loss. Our results highlight the need for closer investigation and monitoring in order to predict the extent of future distribution changes.
Genomic studies of species threatened by extinction are providing crucial information about evolutionary mechanisms and genetic consequences of population declines and bottlenecks. However, to ...understand how species avoid the extinction vortex, insights can be drawn by studying species that thrive despite past declines. Here, we studied the population genomics of the muskox (Ovibos moschatus), an Ice Age relict that was at the brink of extinction for thousands of years at the end of the Pleistocene yet appears to be thriving today. We analysed 108 whole genomes, including present‐day individuals representing the current native range of both muskox subspecies, the white‐faced and the barren‐ground muskox (O. moschatus wardi and O. moschatus moschatus) and a ~21,000‐year‐old ancient individual from Siberia. We found that the muskox' demographic history was profoundly shaped by past climate changes and post‐glacial re‐colonizations. In particular, the white‐faced muskox has the lowest genome‐wide heterozygosity recorded in an ungulate. Yet, there is no evidence of inbreeding depression in native muskox populations. We hypothesize that this can be explained by the effect of long‐term gradual population declines that allowed for purging of strongly deleterious mutations. This study provides insights into how species with a history of population bottlenecks, small population sizes and low genetic diversity survive against all odds.
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