Genomic signatures of freshwater adaptation in Pacific herring (Clupea pallasii)

Pacific herring (Clupea pallasii) is an essential target of commercial fishing in the North Pacific Ocean. Previous studies have suggested the existence of marine and lake ecological forms of this species within its range. The lake ecological form of herring has a shortened life cycle, spending the winter and spawning in brackish waters near the shoreline without long migrations for feed-ing; it also has a relatively smaller body size than the marine form. Genetic-based studies have shown that brackish water Pacific herring not only can be distinguished as a separate lake eco-logical form but possibly has its genetic legacy. Here, as part of an ongoing study, using ddRAD-sequencing data for marine and lake ecological forms from a total of 54 individuals and methods of comparative bioinformatics, we describe genomic signatures of freshwater adaptivity in Pacific herring. In total, 253 genes containing discriminating SNPs were found, and part of those genes was organized into genome clusters, also known as “genomic islands of divergence”. Moreover, the Tajima’s D test showed that these loci are under directional selection in the lake populations of the Pacific herring. Yet, most discriminating loci between the lake and marine eco-logical forms of Pacific herring do not intersect (by gene name) with those in other known marine fish species with known freshwater/brackish populations. However, some are associated with the same physiological trait—osmoregulation.publishedVersio

Durvalumab Plus Carboplatin/Paclitaxel Followed by Maintenance Durvalumab With or Without Olaparib as First-Line Treatment for Advanced Endometrial Cancer: The Phase III DUO-E Trial

PURPOSE Immunotherapy and chemotherapy combinations have shown activity in endometrial cancer, with greater benefit in mismatch repair (MMR)-deficient (dMMR) than MMR-proficient (pMMR) disease. Adding a poly(ADP-ribose) polymerase inhibitor may improve outcomes, especially in pMMR disease. METHODS This phase III, global, double-blind, placebo-controlled trial randomly assigned eligible patients with newly diagnosed advanced or recurrent endometrial cancer 1:1:1 to: carboplatin/paclitaxel plus durvalumab placebo followed by placebo maintenance (control arm); carboplatin/paclitaxel plus durvalumab followed by maintenance durvalumab plus olaparib placebo (durvalumab arm); or carboplatin/paclitaxel plus durvalumab followed by maintenance durvalumab plus olaparib (durvalumab + olaparib arm). The primary end points were progression-free survival (PFS) in the durvalumab arm versus control and the durvalumab + olaparib arm versus control. RESULTS Seven hundred eighteen patients were randomly assigned. In the intention-to-treat population, statistically significant PFS benefit was observed in the durvalumab (hazard ratio [HR], 0.71 [95% CI, 0.57 to 0.89]; P = .003) and durvalumab + olaparib arms (HR, 0.55 [95% CI, 0.43 to 0.69]; P < .0001) versus control. Prespecified, exploratory subgroup analyses showed PFS benefit in dMMR (HR [durvalumab v control], 0.42 [95% CI, 0.22 to 0.80]; HR [durvalumab + olaparib v control], 0.41 [95% CI, 0.21 to 0.75]) and pMMR subgroups (HR [durvalumab v control], 0.77 [95% CI, 0.60 to 0.97]; HR [durvalumab + olaparib v control] 0.57; [95% CI, 0.44 to 0.73]); and in PD-L1-positive subgroups (HR [durvalumab v control], 0.63 [95% CI, 0.48 to 0.83]; HR [durvalumab + olaparib v control], 0.42 [95% CI, 0.31 to 0.57]). Interim overall survival results (maturity approximately 28%) were supportive of the primary outcomes (durvalumab v control: HR, 0.77 [95% CI, 0.56 to 1.07]; P = .120; durvalumab + olaparib v control: HR, 0.59 [95% CI, 0.42 to 0.83]; P = .003). The safety profiles of the experimental arms were generally consistent with individual agents. CONCLUSION Carboplatin/paclitaxel plus durvalumab followed by maintenance durvalumab with or without olaparib demonstrated a statistically significant and clinically meaningful PFS benefit in patients with advanced or recurrent endometrial cancer

Polymorphism of mtDNA gene Cyt b of the Chukchi Sea polar cod, Boreogadus saida (Gadidae, Gadiformes)

Polar cod (Boreogadus saida) is a species with an extensive pan-Arctic distribution. Although it is not an important target of commercial fisheries, due to its extremely high abundance and as a keystone species linking zooplankton with higher trophic levels of mammals and birds, polar cod are considered a critical component of the Arctic Ocean pelagic ecosystem. For the Chukchi and Beaufort Seas, either a complete absence of a popu-lation structure or very weak differences between this part of its range and others is shown. The purpose of this work is to identify the intraspecific organization of the polar cod based on mtDNA from most areas of the Chukchi Sea and the adjacent part of the Beaufort Sea. This is the first presentation of results from analysis of the Cyt b gene polymorphism of mitochondrial DNA in samples of polar cod from the western Chukchi Sea. Results indicated that there is no genetic differentiation of polar cod in the surveyed area. The exception are several samples from the Kotzebue Sound, central Chukchi Sea and western Beaufort Sea, which may be due to the transport of polar cod eggs, larvae or early juveniles by currents from the spawning grounds of Kotzebue Sound first to the central Chukchi Sea, and then to the western Beaufort Sea. The Kotzebue Sound population differs in nucleotide diversity index, as well as in pairwise values of the FST genetic differentiation index, which may be due to the isolation of this site from main currents in the area

A New Species of Lycodapus from the Emperor Seamount Chain, Northwestern Pacific Ocean (Teleostei: Zoarcidae)

A new species, Lycodapus imperatorius, is described from the seamounts of the Emperor Ridge, North Pacific Ocean. The new species can be identified by its stout gill rakers, single interorbital pore, four preopercular and four mandibular pores, 95&ndash;99 vertebrae, numerous vomerine and palatine teeth, and COI mtDNA sequences. Although the new species is most similar to L. endemoscotus and L. antarcticus in morphology, the closest match to already published sequences was Lycodapus fierasfer, which is fairly different from the new species in terms of morphology. The incongruence between molecular and morphological inferences might be explained by the homoplastic nature of the morphological characteristics used for species delimitation in Lycodapus. The percent of genetic identity between the closest species of Lycodapus ranges from 95.4 to 98.6% in comparison with 99.5&ndash;100.0% between individuals of the same valid species. A key of the genus is amended to include the new species

A New Species of <i>Lycodapus</i> from the Emperor Seamount Chain, Northwestern Pacific Ocean (Teleostei: Zoarcidae)

A new species, Lycodapus imperatorius, is described from the seamounts of the Emperor Ridge, North Pacific Ocean. The new species can be identified by its stout gill rakers, single interorbital pore, four preopercular and four mandibular pores, 95–99 vertebrae, numerous vomerine and palatine teeth, and COI mtDNA sequences. Although the new species is most similar to L. endemoscotus and L. antarcticus in morphology, the closest match to already published sequences was Lycodapus fierasfer, which is fairly different from the new species in terms of morphology. The incongruence between molecular and morphological inferences might be explained by the homoplastic nature of the morphological characteristics used for species delimitation in Lycodapus. The percent of genetic identity between the closest species of Lycodapus ranges from 95.4 to 98.6% in comparison with 99.5–100.0% between individuals of the same valid species. A key of the genus is amended to include the new species

Walleye Pollock Gadus chalcogrammus, a Species with Continuous Range from the Norwegian Sea to Korea, Japan, and California: New Records from the Siberian Arctic

The first records of walleye pollock Gadus chalcogrammus Pallas, 1814 in the seas of the Siberian Arctic (the Laptev Sea, the Kara Sea, the southeastern Barents Sea), are documented. Information about the external morphology (morphometric and meristic characters), photos of sagittal otoliths and fish, and data on the sequences of the CO1 mtDNA gene are presented. The results of a comparative analysis indicate that walleye pollock caught in the Siberian Arctic do not differ in principle from North Pacific and North Atlantic individuals. Previous conclusions about the conspecificity of the walleye and Norwegian pollock Theragra finnmarchica are confirmed. New captures of walleye pollock in the Siberian Arctic allow us to formulate a hypothesis about its continuous species’ range from the coasts of Norway in the North Atlantic to the coasts of Korea, Japan, and California in the North Pacific. The few records of walleye pollock in the North Atlantic originate from the North Pacific due to the transport of early pelagic juveniles to the Arctic by currents through the Bering Strait and further active westward migrations of individuals which have switched to the bentho-pelagic mode of life

Genomic signatures of freshwater adaptation in Pacific herring (Clupea pallasii)

Pacific herring (Clupea pallasii) is an essential target of commercial fishing in the North Pacific Ocean. Previous studies have suggested the existence of marine and lake ecological forms of this species within its range. The lake ecological form of herring has a shortened life cycle, spending the winter and spawning in brackish waters near the shoreline without long migrations for feed-ing; it also has a relatively smaller body size than the marine form. Genetic-based studies have shown that brackish water Pacific herring not only can be distinguished as a separate lake eco-logical form but possibly has its genetic legacy. Here, as part of an ongoing study, using ddRAD-sequencing data for marine and lake ecological forms from a total of 54 individuals and methods of comparative bioinformatics, we describe genomic signatures of freshwater adaptivity in Pacific herring. In total, 253 genes containing discriminating SNPs were found, and part of those genes was organized into genome clusters, also known as “genomic islands of divergence”. Moreover, the Tajima’s D test showed that these loci are under directional selection in the lake populations of the Pacific herring. Yet, most discriminating loci between the lake and marine eco-logical forms of Pacific herring do not intersect (by gene name) with those in other known marine fish species with known freshwater/brackish populations. However, some are associated with the same physiological trait—osmoregulation

Application of cold plasma to control the microbiota composition on the surface of potato tubers

A study of the effect of low-temperature plasma on potato tubers was carried out. A comparative assessment of changes in the rate of germination, the size of shoots and the mass of shoots was carried out. Changes in the number of bacteria and fungi on the surface of tubers were analysed for different durations of exposure. It was found that growth characteristics did not change. The number of bacteria on the surface of tubers was significantly reduced due to the exposure to low-temperature plasma