Cetaceans evolution: insights from the genome sequences of common minke whales.

BACKGROUND: Whales have captivated the human imagination for millennia. These incredible cetaceans are the only mammals that have adapted to life in the open oceans and have been a source of human food, fuel and tools around the globe. The transition from land to water has led to various aquatic specializations related to hairless skin and ability to regulate their body temperature in cold water. RESULTS: We present four common minke whale (Balaenoptera acutorostrata) genomes with depth of ×13 ~ ×17 coverage and perform resequencing technology without a reference sequence. Our results indicated the time to the most recent common ancestors of common minke whales to be about 2.3574 (95% HPD, 1.1521 - 3.9212) million years ago. Further, we found that genes associated with epilation and tooth-development showed signatures of positive selection, supporting the morphological uniqueness of whales. CONCLUSIONS: This whole-genome sequencing offers a chance to better understand the evolutionary journey of one of the largest mammals on earth.

Habitat use of loggerhead (Caretta caretta) and green (Chelonia mydas) turtles at the northern limit of their distribution range of the Northwest Pacific Ocean.

Verifying habitats, including the foraging and nesting areas for sea turtles, enables an understanding of their spatial ecology and successful planning of their conservation and management strategies. Recently, the observation frequency and bycatch of loggerhead (Caretta caretta) and green (Chelonia mydas) turtles have increased in the northern limit of their distribution range, in the northern part of the East China Sea and East (Japan) Sea. We conducted satellite tracking to investigate the habitat use of seven loggerhead and eight green turtles from June 2016 to August 2022 in this area, where little is known about their spatial ecology. We applied a 50 percent volume contour method to determine their main foraging areas and analyzed 6 environmental variables to characterize their habitats. Loggerhead turtles mainly stayed in and used the East China Sea as a foraging area during the tracking period, while two individuals among them also used the East Sea as a seasonal foraging area. Most green turtles also used the East China Sea as a foraging area, near South Korea and Japan, with one individual among them using the lower area of the East Sea as a seasonal foraging area. Notably, one green turtle traveled to Hainan Island in the South China Sea, a historical nesting area. Our results showed that the two sea turtle species included the East Sea as a seasonal foraging area, possibly owing to the abundance of food sources available, despite its relatively lower sea temperature. Considering that loggerhead and green sea turtles were observed using the northern part of the East China Sea and East Sea more frequently than previously known and that the sea temperature gradually increases due to climate change, conservation and management activities are required for sea turtles in these areas.

Movement Patterns of Juvenile Loggerhead Turtles (Caretta caretta L. 1758) and Green Turtles (Chelonia mydas L. 1758) Hatched in Captivity and Released in the Korean Waters.

With most sea turtle populations declining, activities to conserve their habitat and nesting grounds and restore their populations are being implemented worldwide. To preserve the Northwestern Pacific populations, the National Marine Biodiversity Institute of Korea has been releasing artificially propagated sea turtles, but whether these individuals join the wild population remains unknown. The present study aimed to determine the movement patterns of artificially propagated juvenile loggerhead (Caretta caretta) and green (Chelonia mydas) turtles fitted with satellite transmitters on their carapaces and released in the waters of Jeju or Yeosu, Republic of Korea, between August 2018 and April 2022. Loggerheads traveled northward to the East Sea, whereas green turtles moved west or southwest. Two 36-month-old and two 48-month-old loggerheads moved toward their potential nursery grounds and toward their feeding grounds, respectively. Three green turtles with a curved carapace length (CCL) of <40 cm moved toward their nursery or feeding grounds, while three individuals (CCL > 45 cm) moved toward their inshore foraging areas. The travel paths were closely related to the direction of local sea currents. Our results implied that releasing artificially propagated sea turtles, considering their age and CCL, can positively contribute to the conservation of Northwestern Pacific populations.

Accumulation and time trends (2003-2015) of persistent organic pollutants (POPs) in blubber of finless porpoises (Neophocaena asiaeorientalis) from Korean coastal waters.

Accumulation of persistent organic pollutants (POPs) in marine mammals is of great concern and is associated with declining populations. The concentrations of polychlorinated biphenyls (PCBs), organochlorine pesticides (OCPs), and polybrominated diphenyl ethers (PBDEs) were measured in blubber of finless porpoises (Neophocaena asiaeorientalis) collected from Korean coastal waters in 2010 and 2015, to assess the concentrations, time trends, and ecotoxicological effects. Among the POPs measured, DDTs were detected at the highest concentrations, followed by PCBs and PBDEs. Significant age- and sex-dependent accumulation of POPs was evident for porpoises collected in 2010, but not for those collected in 2015. This finding may be a function of stabilization of POP concentrations over time. In our study, accumulation patterns of POPs were dependent on consumption patterns and physico-chemical properties of the contaminants, and on the metabolism in the porpoises. Significant reductions of POPs were found between 2003 and 2010, likely reflecting the impact of domestic and global regulation of POPs. However, no changes in most POPs were found between 2010 and 2015, suggesting a trend toward stabilization. Approximately 10 % and 27 % of porpoises exceeded previously proposed threshold levels for PCBs and DDTs, respectively, implying a potential health risk.

Deciphering the evolutionary signatures of pinnipeds using novel genome sequences: The first genomes of Phoca largha, Callorhinus ursinus, and Eumetopias jubatus.

The pinnipeds, which comprise seals, sea lions, and walruses, are a remarkable group of marine animals with unique adaptations to semi-aquatic life. However, their genomes are poorly characterized. In this study, we sequenced and characterized the genomes of three pinnipeds (Phoca largha, Callorhinus ursinus, and Eumetopias jubatus), focusing on site-wise sequence changes. We detected rapidly evolving genes in pinniped lineages and substitutions unique to pinnipeds associated with amphibious sound perception. Phenotypic convergence-related sequence convergences are not common in marine mammals. For example, FASN, KCNA5, and IL17RA contain substitutions specific to pinnipeds, yet are potential candidates of phenotypic convergence (blubber, response to hypoxia, and immunity to pathogens) in all marine mammals. The outcomes of this study will provide insight into targets for future studies of convergent evolution or gene function.

The complete mitochondrial genome of Cirriformia cf. tentaculata (Polychaeta, Cirratulidae) from Dok-Do, Korea.

Mitogenome sequence of Cirriformia cf. tentaculata (Terebellida, Cirratulidae), a species of marine polychaete worm, was determined in this study. This is the first mitogenome reported for genus Cirriformia and family Cirratulidae. This complete mitogenome is 15,495 bp in length, containing 13 protein coding genes (PCGs), two ribosomal RNAs (rRNAs), and 23 transfer RNAs (tRNAs). The mitogenome of Cirriformia cf. tentaculata has high A + T content of 59.5% (A, 29.5%; C, 26.9%; G, 13.6%; T, 30.0%). In neighbour-joining (NJ) analysis, Cirriformia cf. tentaculata is clustered with the components of order Terebellida.

The complete mitochondrial genome of sponge Halichondria okadai (Demospongiae, Suberitida, Halichondriidae) from Korea water.

The mitogenome sequence of Sponge Halichondria okadai (Kadota, 1922) (Suberitida, Halichondriidae) was determined for the first time in this study. The circular genome is 20,722 bp in length, containing 14 protein coding genes (PCGs), two ribosomal RNAs (rRNAs), and 25 transfer RNAs (tRNAs). The nucleotide composition of mitogenome consists of 29.5% A, 14.2% C, 21.5% G, 34.7% T, showing a high content of A + T similar to the other Suberitid sponges. These results will be useful for inferring the phylogenetic relationships among the members of family Halichondriidae within the Suberitids.

Accumulation and temporal changes of PCDD/Fs and dioxin-like PCBs in finless porpoises (Neophocaena asiaeorientalis) from Korean coastal waters: Tracking the effectiveness of regulation.

Temporal trend studies are useful to evaluate the effectiveness of regulations on local pollutants. The emission of polychlorinated dibenzo-p-dioxins and dibenzofurans (PCDD/Fs) and dioxin-like polychlorinated biphenyls (PCBs) has been regulated by the Korean government in accordance with the Stockholm Convention. The accumulation and temporal trends of PCDD/Fs and dioxin-like PCBs were investigated in finless porpoises (Neophocaena asiaeorientalis) collected in Korean waters. Median concentrations of PCDDs, PCDFs, non-ortho PCBs, and mono-ortho PCBs were 1.0, 1.1, 0.1, and 1.8pgTEQ/g lipid weight, respectively, which were lower than threshold values for marine mammals. Age- and sex-dependent accumulation patterns were found for PCDFs and DL-PCBs. Temporal trends in finless porpoises collected between 2003 and 2010 showed significant reduction rates of 57%, 54%, 69%, and 60% for PCDDs, PCDFs, non-ortho PCBs, and mono-ortho PCBs, respectively. Our results suggest that the regulations on dioxin-like contaminants have been effective for marine mammals in Korea.

Evolutionary constraints over microsatellite abundance in larger mammals as a potential mechanism against carcinogenic burden.

Larger organisms tend to live longer, have more potentially carcinogenic cells, and undergo more cell divisions. While one might intuitively expect cancer incidence to scale with body size, this assertion does not hold over the range of different mammals. Explaining this lack of correlation, so-called 'Peto's paradox' can likely increase our understanding of how cancer defense mechanisms are shaped by natural selection. Here, we study the occurrence of microsatellite in mammal genomes and observe that animals with expanded body size restrain the number of microsatellite. To take into account of higher mutation rate in the microsatellite region compared to that of genome, limiting the abundance of somatic mutations might explain how larger organisms could overcome the burden of cancer. These observations may serve as the basis to better understand how evolution has modeled protective mechanisms against cancer development.

Accumulation of butyltin compounds in finless porpoises (Neophocaena asiaeorientalis) from Korean coast: tracking the effectiveness of TBT regulation over time.

The concentrations of butyltin compounds (BTs) were measured in the livers of finless porpoises (Neophocaena asiaeorientalis) caught off the Korean coast in 2003 and 2010, to assess the effectiveness of legislative action against BTs. The concentrations of BTs ranged from 65.1 to 1432 (average: 370) ng/g wet weight, within the ranges reported by previous studies. The levels of BTs in almost all the samples exceeded the suggested threshold value, implying potential adverse health effects from the BT exposures. Concentrations of BTs were significantly correlated with body length, weight, and age of finless porpoises, but were not correlated with sex. Spatial differences in the concentrations of BTs were not observed between Yellow and South Seas, while there was a significant decrease in BTs between the sampling years of 2003 and 2010. Our result indicates that the effectiveness on TBT ban has reached to marine mammals in the coastal waters of Korea.

Accumulation of PAHs and synthetic musk compound in minke whales (Balanoptera acutorostrata) and long-beaked common dolphins (Delphinus capensis) from Korean coastal waters.

Information on the occurrence and accumulation profiles of polycyclic aromatic hydrocarbons (PAHs) and synthetic musk compounds (SMCs) in marine mammals is scarce. In the present study, we recorded the concentrations and profiles of PAHs and SMCs in liver tissue and blubber from minke whales and common dolphins from Korean coastal waters. The overall concentrations of PAHs and SMCs in blubber from both cetacean species were approximately three to five times higher than those in liver tissues. Residue levels of PAHs were lower, whereas levels of SMCs were relatively higher than those reported in other studies. Lack of species- and sex-dependent differences in the concentrations of PAHs and SMCs were found. Naphthalene and 1,3,4,6,7,8-hexahydro-4,6,6,7,8,8-hexamethylcyclopenta-r-2-benzopyran (HHCB) were predominant compounds in all the samples for PAHs and SMCs, respectively. The concentrations of PAHs and SMCs were significantly correlated with each other, but were not correlated with body size of cetaceans. The present data provide valuable information on the exposure of Korean cetaceans to PAHs and SMCs.

Occurrence and accumulation features of polycyclic aromatic hydrocarbons and synthetic musk compounds in finless porpoises (Neophocaena phocaenoides) from Korean coastal waters.

Reports of the occurrence and accumulation patterns of polycyclic aromatic hydrocarbons (PAHs) and synthetic musk compounds (SMCs) in marine mammals are scarce. In this study, the concentrations and accumulation profiles of PAHs and SMCs were determined in blubber from finless porpoises in Korean coastal waters. Total concentrations of PAHs and SMCs ranged from 6.0 to 432 (mean: 160) ng/g lipid weight and from 17 to 144 (mean: 52) ng/g lipid weight, respectively. Residue levels of PAHs were lower than those reported from other studies, while residue levels of SMCs were relatively higher than those reported in other studies. Naphthalene was the most abundant PAH and HHCB was the dominant SMC observed in finless porpoises. The concentrations of PAHs and SMCs were not correlated with each other, but were significantly correlated within the same chemical groups. No correlations were found between body size and residue levels of PAHs and SMCs.

Accumulation of butyltin compounds in cetaceans from Korean coastal waters.

Data on the occurrence and accumulation profiles of butyltins (BTs), including tributyltin (TBT), in marine mammals are scarce. This is the first study to investigate residue levels and accumulation patterns of BTs in cetaceans from Korean coastal waters. The total concentrations of BTs (sum of mono- to tri-butyltins) in minke whales (Balaenoptera acutorostrata) and long-beaked common dolphins (Delphinus capensis) ranged from 15.7 to 297 ng/g wet weight (mean: 100 ng/g wet weight) and from 59.0 to 412 ng/g wet weight (mean: 228 ng/g wet weight), respectively. Dibutyltin (DBT) accounted for 63% of the total BTs in all cetacean samples. Significant species-specific differences in BT concentrations, possibly due to the differences in their habitat and diet, were found between the two cetacean species. The concentrations of DBT and TBT in most cetacean samples exceeded the threshold value for cytotoxic effects in cetaceans, implying potentially adverse health risks from exposure to BTs.

Concentrations and accumulation features of PCDDs, PCDFs and dioxin-like PCBs in cetaceans from Korean coastal waters.

Despite several studies that report accumulation of polychlorinated biphenyls (PCBs) and DDT in marine mammals worldwide, very few have examined polychlorinated dibenzo-p-dioxins and dibenzofurans (PCDD/Fs) and dioxin-like PCBs. In particular, no earlier studies have reported concentrations and accumulation profiles of persistent organic pollutants (POPs) in marine mammals from Korea. In this study, concentrations and accumulation features of PCDD/Fs and dioxin-like PCBs were measured in liver and blubber of minke whales and long-beaked common dolphins collected from Korean coastal waters. The concentrations of PCDFs and dioxin-like PCBs in blubber were 3-10 times higher than the concentrations measured in liver, but PCDDs were higher in liver than blubber. Total toxic equivalent (TEQ) concentrations in blubber of minke whales and common dolphins from Korean coastal waters were similar to, or higher than those reported for cetaceans and seals from other countries. Homologue and congener profiles of PCDD/Fs were different between livers and blubbers, while the profiles of dioxin-like PCBs were similar between the tissues. Concentrations of PCDD/Fs and dioxin-like PCBs in liver and blubber of dolphins were significantly higher than those measured in whales, due to differences in habitat and diet. The relative contribution of individual chemical groups to total TEQs was different between the two cetacean species, suggesting different exposures and metabolic activity. The TEQ levels in minke whales did not exceed the threshold level suggested for immunomodulation, while TEQs in all dolphin samples exceeded the suggested threshold level, implying potential adverse health effects from exposure to PCDD/Fs and PCBs.

Contamination status and accumulation features of PCDDs, PCDFs and dioxin-like PCBs in finless porpoises (Neophocaena phocaenoides) from Korean coastal waters.

Data on the concentrations and accumulation profiles of polychlorinated dibenzo-p-dioxins and dibenzofurans (PCDD/Fs) and dioxin-like polychlorinated biphenyls (DL-PCBs) in cetaceans are scarce. In this study, concentrations and accumulation profiles of PCDD/Fs and DL-PCBs were measured in the blubber of finless porpoises (Neophocaena phocaenoides) collected from Korean coastal waters. Total dioxin-like toxic equivalent (TEQ) concentrations (6.5-31 pg/g lipid weight) in finless porpoises were lower than those reported for cetaceans and pinnipeds from other countries. Significant gender-specific differences were found in the concentrations and accumulation profiles of PCDD/Fs and DL-PCBs and this difference was associated with maternal and lactation transfer of contaminants from mature females to their fetus. All of the PCDD/F homologue groups were detected in all of the samples and the proportions of PCDFs were higher than those of PCDDs. The dominant congeners found in finless porpoise blubber were 2,3,4,7,8-PeCDF, 1,2,3,4,7,8-HxCDF and OCDD for PCDD/Fs and PCB 118 for DL-PCBs. The accumulation profiles of PCDD/Fs in finless porpoise in our study were different from those found for cetaceans from other countries. Total TEQ levels in finless porpoises in Korea were below the suggested threshold values for adverse health effects in marine mammals.

Organohalogen contaminants in finless porpoises (Neophocaena phocaenoides) from Korean coastal waters: contamination status, maternal transfer and ecotoxicological implications.

Information on the occurrence of organochlorine compounds (OCs) and polybrominated diphenyl ethers (PBDEs) in marine mammals from Korea is scarce. In this study, OCs and PBDEs were determined in the blubber of 52 finless porpoises (Neophocaena phocaenoides) from Korean coastal waters. The highest contamination was found for DDTs, followed by PCBs, PBDEs, HCHs, CHLs and HCB. Concentrations of OCs in finless porpoises were lower than those reported worldwide, but PBDE contamination was comparable to other studies, due to ongoing use of PBDE products in Korea. Significant gender-specific differences were found for concentrations and accumulation profiles of OCs and PBDEs, due to maternal transfer and lactation of mature females. The BDEs 49 and 66 comprised 4-16% of total PBDEs in finless porpoises, which seems to be associated with debromination of higher BDEs. The DDT levels in Korean finless porpoises have almost reached the levels associated with immunosuppression in marine mammals.

Perfluorinated compounds in minke whales (Balaenoptera acutorostrata) and long-beaked common dolphins (Delphinus capensis) from Korean coastal waters.

This is the first study to report the concentrations and accumulation profiles of PFCs in marine mammals from Korea. The concentrations and profiles of 10 PFCs in the liver of minke whales and common dolphins from Korean coastal waters were recorded in this study. The mean concentrations of PFOS and PFUnDA were 3-20 times higher than that found for other PFCs analyzed. The concentrations of PFOS in cetaceans from Korea were relatively lower than those reported in other countries. Inter-species differences in the concentrations of PFOS, PFOSA and PFNA were found between two cetacean species, while no difference was observed in the concentrations of PFDA, PFUnDA and PFDoDA between the species. The dominant PFC compounds found in cetaceans were PFUnDA and PFOS, accounting for 70-80% of the PFCs. The accumulation profiles and correlation analysis indicated that two cetacean species have different exposure routes and metabolic capacity for PFCs.

Chlorinated and brominated contaminants including PCBs and PBDEs in minke whales and common dolphins from Korean coastal waters.

Information on the occurrence and distribution of polychlorinated biphenyls (PCBs), organochlorine pesticides (OCPs) and polybrominated diphenyl ethers (PBDEs) in marine mammals from Korean coastal waters is not available to date. This is the first study to investigate concentrations and accumulation of PCBs, OCPs, and PBDEs in liver and blubber of minke whales and common dolphins from Korean coastal waters. The concentrations of organochlorines and PBDEs in blubber were several times higher than in liver. The concentrations of PCBs and OCPs were generally low, but the concentrations of PBDEs were similar to those reported for cetaceans elsewhere. The accumulation profiles of OCPs differed between liver and blubber, while the profiles of PCBs and PBDEs were relatively similar in both tissues. The concentrations of PCBs, DDTs, CHLs and PBDEs in common dolphins were significantly higher than those in minke whales, while there were no inter-species differences for HCHs and HCB. The predominant OCP, PCB and PBDE congeners in cetaceans were p,p'-DDE, PCB 153 and BDE 47, respectively. The concentrations of PCBs and DDTs in Korean cetaceans were close to the threshold for adverse health effects.