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Large-scale genome-wide SNP analysis reveals the rugged(and ragged)landscape of global ancestry,phylogeny,and demographic history in chicken breeds

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Journal of Zhejiang University-Science B(Biomedicine & Biotechnology) 2024年第4期25卷 324-340页

作者： natalia v.dementieva Yuri S.SHCHERBAKOv Olga I.STANISHEvSKAYA Anatoly B.vAKHRAMEEv Tatiana A.LARKINA Artem P.DYSIN Olga A.NIKOLAEvA Anna E.RYABOvA Anastasiia I.AZOvTSEvA Olga v.MITROFANOvA Grigoriy K.PEGLIvANYAN natalia R.REINBACH Darren K.GRIFFIN Michael N.ROMANOv Russian Research Institute of Farm Animal Genetics and Breeding-Branch of the L.K.Ernst Federal Research Centre for Animal Husbandry.Pushkin St.Petersburg196601Russia School of Biosciences University of KentCanterburyCT27NJUK L.K.Ernst Federal Research Center for Animal Husbandry DubrovitsyPodolskMoscow Oblast142132Russia

The worldwide chicken gene pool encompasses a remarkable,but shrinking,number of divergently selected breeds of diverse *** study was a large-scale genome-wide analysis of the landscape of the complex molecular architecture,genetic variability,and detailed structure among 49 *** populations represent a significant sample of the world's chicken breeds from Europe(Russia,Czech Republic,France,Spain,UK,etc.),Asia(China),North America(USA),and Oceania(Australia).Based on the results of breed genotyping using the Illumina 60K single nucleotide polymorphism(SNP)chip,a bioinformatic analysis was carried *** included the calculation of heterozygosity/homozygosity statistics,inbreeding coefficients,and effective population *** also included assessment of linkage disequilibrium and construction of phylogenetic *** multidimensional scaling,principal component analysis,and ADMIXTURE-assisted global ancestry analysis,we explored the genetic structure of populations and subpopulations in each *** overall 49-population phylogeny analysis was also performed,and a refined evolutionary model of chicken breed formation was proposed,which included egg,meat,dual-purpose types,and ambiguous *** a large-scale survey of genetic resources in poultry farming using modern genomic methods is of great interest both from the viewpoint of a general understanding of the genetics of the domestic chicken and for the further development of genomic technologies and approaches in poultry *** general,whole genome SNP genotyping of promising chicken breeds from the worldwide gene pool will promote the further development of modern genomic science as applied to poultry.

关键词： Chicken genome diversity Single nucleotide polymorphism(SNP)analysis Gene pool Global ancestry Phylogeny Demographic history

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Design of Biologically Active Macromolecular Ligands and Their Luminescent Complexes with Terbium Ions

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Chinese Journal of Polymer Science 2024年第5期42卷 604-611,I0007页

作者： Tatiana N.Nekrasova Andrei I.Fischer natalia A.Nesterova Anatoliy v.Dobrodumov Anzhelika v.Garshinina Olga D.Shuvaeva Natalya v.Zakharova Evgenii F.Panarin Institute of Macromolecular Compounds Russian Academy of Sciences31 Bolshoy pr.St Petersburg199004Russia Smorodintsev Research Institute of Influenza Russian Ministry of Health15/17 ul.prof.PopovaSt Petersburg197376Russia

Water-soluble copolymers of p-methacrylamidobenzoic acid(MABA)with neutral comonomers(N-vinylpyrrolidone(vP),N-methyl-N-vinylacetamide(MvAA),N-methacryloyl glucosamine(MAG))and anionic comononer sodium styrene sulfonate(NaSS)were synthesized by radical *** interactions between the prepared copolymers and Tb^(3+)ions in aqueous solutions were studied;the significant influence of chemical structure of a comonomer on luminescence intensity of Tb^(3+)complexes with the copolymers was *** luminescence intensity of Tb^(3+)complexes with the copolymers containing N-vinylamide units(vP,MvAA)is three times more intense than that observed for the complexes between Tb^(3+)and MAG-containing *** the case of NaSS-containing copolymers,the luminescence intensity is controlled by the values of binding constants between Tb^(3+)and MABA and the content of MABA units in a *** studied copolymers and their complexes with Tb^(3+)have low cytotoxicity and a pronounced antiviral activity against human respiratory syncytial virus.

关键词： Luminescence Water-soluble copolymers Lanthanide complexes Antiviral activity Cytotoxicity

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Quality of drinking water and risk to the health of the population of the south Baikal region (Russia)

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Emerging Contaminants 2024年第2期10卷 106-114页

作者： viktor S.Rukavishnikov natalia v.Efimova Mikhail F.Savchenkov Inna v.Mylnikova Alexander A.Lisovtsov East-Siberian Institute of Medical and Ecological Research 665827AngarskRussia

Providing good quality water in sufficient quantities is a major challenge in the *** purpose of the study is to assess the quality of drinking water and the health risk of various population groups in the southern Baikal region(Siberia,Russia)under changing hydrological *** Baikal is the largest freshwater body of water and is one of the sites protected by *** and *** analysis of centralized and non-centralized water supply was carried out in the south-eastern part of the Irkutsk region,adjacent to Lake *** data used are from the Baikal(regional)Information Center for 2011–2022,and they include the results of monitoring the water quality of the centralized domestic and drinking water supply(CDW)with 140 thousand samples,and non-centralized domestic and drinking water supply(NDW)with 108 thousand *** all samples,17 substances were *** addition,during the flood period,accompanied by additional water disinfection,trihalomethanes were determined in populated areas exposed to negative *** quality of drinking water was assessed in comparison with the maximum permissible concentrations of substances(MPCs)approved by regulatory documents of *** assessment of the characteristics of drinking water consumption by the population of the Baikal region was carried out,based on interview data from sample groups of the *** assessment of the risk to public health,due to chronic oral intake of chemicals,was carried out using the values of the hazard coefficient(HQi),the hazard index(HI),individual carcinogenic risk(ICR),and population carcinogenic risk(PCR).village residents more often use underground water sources(centralized and non-centralized).Residents of cities are provided with water from surface sources(Lake Baikal and the Angara River).Significant concentrations of iron,nitrates,and manganese were found in drinking water used by *** concentrations of iron-2.25 mg/dl,manganese

关键词： Drinking water Noncarcinogenic risk Carcinogenic risk Population South Baikal region

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Core needle biopsy for thyroid nodules assessment-a new horizon?

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World Journal of Clinical Oncology 2024年第5期15卷 580-586页

作者： David D Dolidze Serghei Covantsev Grigorii M Chechenin natalia v Pichugina Anastasia v Bedina Anna Bumbu Department of Clinical Research and Development Botkin HospitalMoscow 125284Russia Department of Surgery Russian Medical Academy of Continuous Professional EducationMoscow 125445Russia Emergency Surgery No.76 Botkin HospitalMoscow 125284Russia Department of Surgery Botkin HospitalMoscow 125284Russia Department of Medical Ultrasonography Botkin HospitalMoscow 125284Russia Medicine Moscow State Medical University I.M.SechenovMoscow 119048Russia Department of Oncology Botkin HospitalMoscow 125284Russia

Ultrasound-guided fine-needle aspiration is the standard for evaluating thyroid nodules with a high safety profile and a relatively low number of non-diagnostic cytological ***,this diagnostic method traditionally has its weak *** diagnostic categories such as BethesdaⅠ,ⅢandⅣare not reliable for thyroid carcinoma risk *** advancements in a core needle biopsy made it possible to use this tool as a new method for thyroid nodules *** main feature of this method is the use of thin needles(18-21G)and guns with an automatic trigger *** histological material collected with the use of a core needle biopsy is usually superior to ***,the core needle biopsy can be used as a complementary technique to a standard fine needle aspiration in difficult and dubious cases of thyroid neoplasia with uncertain malignant potential.

关键词： Core-needle biopsy Thyroid Follicular tumor Fine-needle aspiration Thyroid cancer

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Impact of Transition Metal Layer vacancy on the Structure and Performance of P2 Type Layered Sodium Cathode Material

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Nano-Micro Letters 2024年第11期16卷 340-358页

作者： Orynbay Zhanadilov Sourav Baiju natalia voronina Jun Ho Yu A.-Yeon Kim Hun‑Gi Jung Kyuwook Ihm Olivier Guillon Payam Kaghazchi Seung‑Taek Myung Department of Nanotechnology and Advanced Materials Engineering and Sejong Battery Institute Hybrid Materials Research CenterSejong University98 Gunja‑DongGwangjin‑GuSeoul 05006South Korea Institute of Energy and Climate Research‑Materials Synthesis and Processing(IEK‑1) Forschungszentrum Jülich GmbH52425 JülichGermany Center for Energy Storage Research Korea Institute of Science and TechnologySeoul 02792South Korea KIST‑SKKU Carbon‑Neutral Research Center Sungkyunkwan UniversitySuwon 16419South Korea Department of Energy Science Sungkyunkwan UniversitySuwon 16419South Korea Pohang Accelerator Laboratory 80 Jigokro‑127‑BeongilNam‑GuPohangGyeongbuk 37673South Korea MESA+Institute for Nanotechnology University of Twente7500 AE EnschedeThe Netherlands

This study explores the impact of introducing vacancy in the transition metal layer of rationally designed Na_(0.6)[Ni_(0.3)Ru_(0.3)Mn_(0.4)]O_(2)(NRM)cathode *** incorporation of Ru,Ni,and vacancy enhances the structural stability during extensive cycling,increases the operation voltage,and induces a capacity increase while also activating oxygen redox,respectively,in Na_(0.7)[Ni_(0.2)v_(Ni0.1)Ru_(0.3)Mn_(0.4)]O_(2)(v-NRM)*** analytical techniques including transmission electron microscopy,X-ray absorption near edge spectroscopy,operando X-ray diffraction,and operando differential electrochemical mass spectrometry are employed to assess changes in the average oxidation states and structural *** results demonstrate that v-NRM exhibits higher capacity than NRM and maintains a moderate capacity retention of 81%after 100 ***,the formation of additional lone-pair electrons in the O 2p orbital enables v-NRM to utilize more capacity from the oxygen redox validated by density functional calculation,leading to a widened dominance of the OP4 phase without releasing O_(2) *** findings offer valuable insights for the design of advanced high-capacity cathode materials with improved performance and sustainability in sodium-ion batteries.

关键词： Layered oxide Oxygen evolution Sodium battery vacancy Cathode

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Gut Microbiota and Cytokine Profile in Cirrhosis

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Journal of Clinical and Translational Hepatology 2024年第8期12卷 689-700页

作者： Irina Efremova Roman Maslennikov Anna Kudryavtseva Anastasia Avdeeva George Krasnov Mikhail Diatroptov vyacheslav Bakhitov Salekh Aliev natalia Sedova Maria Fedorova Elena Poluektova Oxana Zolnikova Nariman Aliev Anna Levshina vladimir Ivashkin Department of Internal Medicine Gastroenterology and HepatologySechenov UniversityMoscowRussia Post-Genomic Research Laboratory Engelhardt Institute of Molecular BiologyRussian Academy of SciencesMoscowRussia v.A.Nasonova Research Institute of Rheumatology MoscowRussia Consultative and Diagnostic Center 2 of the Moscow Health Department MoscowRussia First Hospital Surgery Department Pirogov Russian National Research Medical UniversityMoscowRussia Department of Clinical Laboratory Diagnostics FGBOU DPO“Russian Medical Academy of Continuing Professional Education of the Ministry of Health of the Russian Federation”MoscowRussia The Interregional Public Organization“Scientific Community for the Promotion of the Clinical Study” MoscowRussia

Background and Aims:Gut dysbiosis and abnormal cytokine profiles are common in *** study aimed to evaluate the correlations between ***:In the blood plasma of cirrhosis patients and controls,27 cytokines were examined using a multiplex *** plasma levels of nitrites(stable metabolites of the endothelial dysfunction biomarker nitric oxide)and lipopolysaccharide(LPS)were *** fecal microbiota was assessed by 16S rRNA gene ***:Levels of IL-1b,IL-2,IL-6,IL-13,IP-10,IFN-g,TNF-a,LPS,and nitrites were higher in cirrhosis patients than in controls,while levels of IL-4,IL-7,and PDGF-BB were *** LPS level was directly correlated with the levels of IL-1b,IL1-Ra,IL-9,IL-17,PDGF-BB,IL-6,TNF-a,and *** nitrite level was significantly directly correlated with the levels of TNF-a,GM-CSF,IL-17,and IL-12,and inversely correlated with the IL-7 ***-a levels were directly correlated with ascites severity and the abundance of Negativicutes,Enterobacteriaceae,veillonellaceae,and Klebsiella,while inversely correlated with the abundance of Firmicutes,Clostridia,and ***-g levels were directly correlated with the abundance of Bacteroidaceae,Lactobacillaceae,Bacteroides,and Megasphaera,and inversely correlated with the abundance of verrucomicrobiota,Akkermansiaceae,Coriobacteriaceae,Akkermansia,Collinsella,and ***-1b levels were directly correlated with the abundance of Comamonadaceae and Enterobacteriaceae and inversely correlated with the abundance of Marinifilaceae and ***-6 levels were directly correlated with the abundance of Enterobacteriaceae,hepatic encephalopathy,and ascites severity,and inversely correlated with the abundance of Peptostreptococcaceae,Streptococcaceae,and ***:The abundance of harmful gut microbiota taxa and endotoxinemia directly correlates with the levels of proinflammatory cytokines.

关键词： Endotoxin Leaky gut Gut microbiome Systemic inflammation Gut-liver axis Endotoxemia

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Electric field distributions along helium plasma jets

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High voltage 2020年第6期5卷 650-653页

作者： George v.Naidis natalia Yu Babaeva Joint Institute for High Temperatures RAS 125412 MoscowRussia

Results of simulations of streamers propagating along the atmospheric-pressure helium plasma jets ejected from a thin tube into ambient air are presented. The computational model includes the equations governing the helium-air mixture composition along and across the jet, as well as the equations, describing streamer propagation in the mixture, for the electric field and the charged species densities. Streamer velocity and spatial-temporal profiles of plasma parameters are obtained for various values of the helium flow rate. It is shown, in agreement with available experimental data, that the electric field values in the heads of streamers increase nearly linearly with the distance from the tube exit and that the slope of this dependence decreases with the growth of the helium flow rate.

关键词： field mixture ambient

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Ultrasensitive detection of DNA and protein markers in cancer cells

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Cancer Biology & Medicine 2015年第3期12卷 143-149页

作者： Irina v.Smolina natalia E.Broude Department of Biomedical Engineering Boston University

Cancer cells differ from normal cells in various parameters, and these differences are caused by genomic mutations and consequential altered gene expression. The genetic and functional heterogeneity of tumor cells is a major challenge in cancer research, detection, and effective treatment. As such, the use of diagnostic methods is important to reveal this heterogeneity at the single-cell level. Droplet microfluidic devices are effective tools that provide exceptional sensitivity for analyzing single cells and molecules. In this review, we highlight two novel methods that employ droplet microfluidics for ultrasensitive detection of nucleic acids and protein markers in cancer cells. We also discuss the future practical applications of these methods.

关键词： Microfluidic droplets rolling circle amplification (RCA) peptide nucleic acids (PNA) cell-surface protein marker

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Dispersion of ventricular repolarization: Temporal and spatial

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World Journal of Cardiology 2020年第9期12卷 437-449页

作者： natalia v Arteyeva Laboratory of Cardiac Physiology Institute of Physiology of Komi Science Centre of the Ural Branch of the Russian Academy of SciencesSyktyvkar 167982Russia

Repolarization heterogeneity(RH)is an intrinsic property of ventricular myocardium and the reason for T-wave formation on electrocardiogram(ECG).Exceeding the physiologically based RH level is associated with appearance of life-threatening ventricular arrhythmias and sudden cardiac *** this regard,an accurate and comprehensive evaluation of the degree of RH parameters is of importance for assessment of heart state and arrhythmic *** review is devoted to comprehensive consideration of RH phenomena in terms of electrophysiological processes underlying RH,cardiac electric field formation during ventricular repolarization,as well as clinical significance of RH and its reflection on ECG *** formation of transmural,apicobasal,left-toright and anterior-posterior gradients of action potential durations and end of repolarization times resulting from the heterogenous distribution of repolarizing ion currents and action potential morphology throughout the heart ventricles,and the different sensitivity of myocardial cells in different ventricular regions to the action of pharmacological agents,temperature,frequency of stimulation,etc.,are being *** review is focused on the fact that RH has different aspects–temporal and spatial,global and local;ECG reflection of various RH aspects and their clinical significance are being *** for comprehensive assessment of ventricular RH using different ECG indices reflecting various RH aspects are presented.

关键词： Temporal Spatial Global and local dispersion of repolarization Action potential duration Tpeak-Tend interval Tpeak-Tend dispersion T-vector Arrhythmogenesis

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Cell signaling mechanisms and metabolic regulation of germination and dormancy in barley seeds

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The Crop Journal 2017年第6期5卷 459-477页

作者： Zhenguo Ma natalia v.Bykova Abir U.Igamberdiev Department of Biology Memorial University of Newfoundland Pacific Forestry Centre Natural Resources Canada Morden Research and Development Centre Agriculture and Agri-Food Canada

During germination of barley(Hordeum vulgare L.) seeds, important morphological and physiological changes take place, including development of organs and tissues and activation of metabolic pathways. Germination and dormancy of seeds are regulated by abscisic acid, gibberellins, reactive oxygen species(ROS), reactive nitrogen species(RNS)and several other factors. Activities of ascorbate-glutathione cycle enzymes, responsible for scavenging ROS, strongly increase. Catalase and superoxide dismutase activities, also scavenging ROS, decrease at the onset of seed germination and then increase. With the increase in aerobic metabolism after radicle protrusion, the activities of the fermentation enzymes lactate and alcohol dehydrogenase decline rapidly. The RNS-scavenging activity of S-nitrosoglutathione reductase decreases in the course of seed germination, in concert with elevation of nitric oxide production and protein nitrosylation. This activity supports the role of RNS in regulating seed germination. Transcription of various genes at different phases of seed germination exhibits phase-specific changes. During imbibition, genes involved in cell wall metabolism are highly expressed; in the middle phase of seed germination before radicle protrusion, genes involved in amino acid synthesis, protein synthesis, and transport and nucleic acid synthesis are upregulated significantly, and after radicle protrusion, genes involved in photosynthetic metabolism are induced. In summary, signal transduction and metabolic regulation of seed germination involve diverse reactions and complex regulation at different levels of metabolic organization.

关键词： Seed germination Reactive oxygen species Reactive nitrogen species Signal transduction Gene expression

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