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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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Empowering sonic hedgehog to rescue brain cells after ischemic stroke

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Neural Regeneration Research 2015年第3期10卷 360-362页

作者： olga v.Chechneva Wenbin Deng Department of Biochemistry and Molecular Medicine University of California Institute for Pediatric Regenerative Medicine Shriners Hospitals for Children

Ischemic stroke occurs when blood supply to the brain is interrupted. This can cause irreversible injury to the cen- tral nervous system （CNS） tissue. Each year in the United States almost 800,000 people experience a new or recur- rent stroke. 15% of stroke patients die shortly after insult and only 10% recover completely, leaving the majority of surviving stroke patients with disabilities. Tissue-type plasminogen activator （tPA） is the only available therapy for stroke but its clinical use is limited because of associ- ated danger of intracranial hemorrhage. Therefore, there is an emergent need for stroke therapeutics that are safe and effective when administered at a later time point after insult.

关键词： Shh Empowering sonic hedgehog to rescue brain cells after ischemic stroke PUR MCAO BBB

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Polyphony of domestic dog whines and vocal cues to body size

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Current Zoology 2021年第2期67卷 165-176页

作者： olga v.SIBIRYAKOvA Ilya A.vOLODIN Elena v.vOLODINA Department of vertebrate Zoology Faculty of BiologyLomonosov Moscow State UniversityMoscow 119234Russia Department of Behaviour and Behavioural Ecology A.N.Severtsov Institute of Ecology and EvolutionRussian Academy of SciencesMoscow 119071Russia

In domestic dogs Canis familiaris,vocal traits have been investigated for barks and growls,and the relationship between individual body size and vocal traits investigated for growls,with less corre-sponding information for *** this study,we examined the frequency and temporal traits of whines of 20 adult companion dogs(9 males,11 females),ranging in body mass from 3.5 to 70.0 kg and belonging to 16 *** whines(26-71 per individual,824 in total)were recorded in condi-tioned begging contexts modeled by dog *** had 3 independent fundamental fre-quencies:the low,the high and the ultra-high that occurred singly as monophonic calls or simul-taneously as 2-voice biphonic or 3 voice polyphonic *** the smallest to largest dog,the upper frequency limit varied from 0.24 to 2.13 kHz for the low fundamental frequency,from 2.95 to 10.46 kHz for the high fundamental frequency and from 9.99 to 23.26 kHz for the ultra-high funda-mental *** individuals,the low fundamental frequency was lower in monophonic than in biphonic whines,whereas the high fundamental frequency did not differ between those whine *** frequency variables of the low,high,and ultra-high fundamental frequencies cor-related negatively with dog body *** duration,no correlation with body mass was *** discuss potential production mechanisms and sound sources for each fundamental frequency;point to the acoustic similarity between high-frequency dog whines and rodent ultrasonic calls and hypothesize that ultra-high fundamental frequencies function to allow private,"tete-a-tete"com-munication between members of social groups.

关键词： acoustic communication Canis familiaris companion dogs high-frequency calls nonlinear phenomena vocalization

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Mitochondrial translocator protein(TSPO),astrocytes and neuroinflammation

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Neural Regeneration Research 2016年第7期11卷 1056-1057页

作者： olga v.Chechneva Wenbin Deng Department of Biochemistry and Molecular Medicine University of California Institute for Pediatric Regenerative Medicine Shriners Hospitals for Children

Mitochondrial translocator protein（TSPO）has been a somewhat mysterious player in searching for its true biological *** is involved in mitochondrial cholesterol transport and steroids biosynthesis and predominantly e... 详细信息

关键词： steroids predominantly somewhat synthesizing mitochondrial searching biosynthesis severity macrophages astrocyte

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JAK-STAT pathway in carcinogenesis:Is it relevant to cholangiocarcinoma progression?

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World Journal of Gastroenterology 2007年第48期13卷 6478-6491页

作者： olga v Smirnova Tatiana Yu Ostroukhova Roman L Bogorad Laboratory of Endocrinology Biological Faculty M.V. Lomonosov Moscow State University Inserm U845 Paris France Université Paris Descartes Faculté de Médecine René Descartes Centre de Recherche Croissance et Signalisation Equipe PRL GH and tumours Site Necker Paris F-75015 France

The features of JAK-STAT signaling in liver cells are discussed in the current review. The role of this signaling cascade in carcinogenesis is accentuated. The possible involvement of this pathway and alteration of its elements are compared for normal cholangiocytes, cholangiocarcinoma predisposition and development. Prolactin and interleukin-6 are described in detail as the best studied examples. In addition, the non-classical nuclear translocation of cytokine receptors is discussed in terms of its possible implication to cholangiocarcinoma development.

关键词： Cholangiocarcinoma Janus tyrosine Kinases Signal Transducers and Activators of Transcription Prolactin Interleukin-6 Cytokine receptors Receptor tyrosine kinases

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Inflammation/bioenergetics-associated neurodegenerative pathologies and concomitant diseases:a role of mitochondria targeted catalase and xanthophylls

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Neural Regeneration Research 2021年第2期16卷 223-233页

作者： Mikhail A.Filippov olga G.Tatarnikova Natalia v.Pozdnyakova vasily v.vorobyov Sistema-BioTech LLCMoscowRussia Institute of Cell Biophysics Russian Academy of SciencesPushchinoRussia

various inflammatory stimuli are able to modify or even"re-program"the mitochondrial metabolism that results in generation of reactive oxygen *** noncommunicable chronic diseases such as atherosclerosis and other cardiovascular pathologies,type 2 diabetes and metabolic syndrome,these modifications become systemic and are characterized by chronic inflammation and,in particular,"neuroinflammation"in the central nervous *** processes associated with chronic inflammation are frequently grouped into"vicious circles"which are able to stimulate each other constantly amplifying the pathological *** circles are evidently observed in Alzheimer's disease,atherosclerosis,type 2 diabetes,metabolic syndrome and,possibly,other associated ***,chronic inflammation in peripheral tissues is frequently concomitant to Alzheimer's *** is supposedly associated with some common genetic polymorphisms,for example,Apolipoprotein-Eε4 allele carriers with Alzheimer's disease can also develop ***,in the transgenic mice expressing the recombinant mitochondria targeted catalase,that removes hydrogen peroxide from mitochondria,demonstrates the significant pathology amelioration and health *** addition,the beneficial effects of some natural products from the xanthophyll family,astaxanthin and fucoxanthin,which are able to target the reactive oxygen species at cellular or mitochondrial membranes,have been demonstrated in both animal and human *** propose that the normalization of mitochondrial functions could play a key role in the treatment of neurodegenerative disorders and other noncommunicable diseases associated with chronic inflammation in ***,some prospective drugs based on mitochondria targeted catalase or xanthophylls could be used as an effective treatment of these pathologies,especially at early stages of their development.

关键词： algae xanthophylls Alzheimer's disease atherosclerosis depression type 2 diabetes metabolic syndrome mitochondria-targeted catalase noncommunicable chronic diseases stress

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Isotopic Composition of Atmospheric Precipitation in the Cis-Ural Region

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Journal of Earth Science 2022年第3期33卷 831-838页

作者： Alena S.Kazantseva olga I.Kadebskaya Yuri v.Dublyansky Mining Institute of the Ural Branch of the Russian Academy of Sciences PermRussia Institute of Geology University of InnsbruckInnsbruckAustria

Using the Global Network of Isotopes in Precipitation(GNIP)method at three stations in the Cis-Ural region(Iskor,Perm,and Kungur),the monitoring results of the isotope composition of atmospheric precipitation conducted in 2016-2019 are *** lines of meteoric waters were obtained for each station and for the Cis-Ural region as a *** latitudinal zoning of changes in isotope parameters from north to south in the Cis-Ural region is noted,which is related to meteorological *** northern regions are characterized by isotopically light values compared to the southern ***,the correlation relationship between the isotopic compositions of atmospheric precipitation and meteorological parameters at each station is *** analysis data show that about 50%-90%of variations in the isotopic composition of precipitation within the annual cycle are determined by the air *** the same time,the amount of precipitation shows a relationship between the average strength and the isotopic composition of precipitation for a series of observations at Kungur Station;for a series of observations at Iskor and Perm stations,there is no *** in the relationship with meteorological data are explained by different sources of moisture introduction to the station and,accordingly,the formation of the isotopic composition of *** flow of moisture is controlled by the transfer of air masses in different directions,the formation of cyclones and ***,for the northern part of the region during the year is characterized by the predominance of cyclones,whereas for the southern-anticyclones.

关键词： precipitation isotopic composition Cis-Ural region correlation relationship Spear-man’s correlation coefficient

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New insights into renal lipid dysmetabolism in diabetic kidney disease

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World Journal of Diabetes 2021年第5期12卷 524-540页

作者： Alla mitrofanova George Burke Sandra Merscher Alessia Fornoni Peggy and Harold Katz Family Drug Discovery Center University of MiamiMiller School of MedicineMiamiFL 33136United States Katz Family Division of Nephrology and Hypertension Department of MedicineUniversity of MiamiMiller School of MedicineMiamiFL 33136United States Department of Surgery University of MiamiMiller School of MedicineMiamiFL 33136United States Diabetes Research Institute University of MiamiMiller School of MedicineMiamiFL 33136United States

Lipid dysmetabolism is one of the main features of diabetes mellitus and manifests by dyslipidemia as well as the ectopic accumulation of lipids in various tissues and organs,including the *** suggests that impaired cholesterol metabolism,increased lipid uptake or synthesis,increased fatty acid oxidation,lipid droplet accumulation and an imbalance in biologically active sphingolipids(such as ceramide,ceramide-1-phosphate and sphingosine-1-phosphate)contribute to the development of diabetic kidney disease(DKD).Currently,the literature suggests that both quality and quantity of lipids are associated with DKD and contribute to increased reactive oxygen species production,oxidative stress,inflammation,or cell ***,control of renal lipid dysmetabolism is a very important therapeutic goal,which needs to be *** article will review some of the recent advances leading to a better understanding of the mechanisms of dyslipidemia and the role of particular lipids and sphingolipids in DKD.

关键词： Diabetes Lipids Free fatty acids ATP-binding cassette transporters sub-class A Sterol-O-acyltransferase 1 CD36 Sphingolipids Sphingomyelin phosphodiesterase acid-like 3b Diabetic kidney disease

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On the winter enhancement of adaptive humoral immunity: hypothesis testing in desert hamsters (Phodopus roborovskii: Cricetidae, Rodentia) kept under long-day and short-day photoperiod

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Integrative Zoology 2020年第3期15卷 232-247页

作者： Nina Yu.vASILIEvA Anastasiya M.KHRUSHCHOvA Alexander v.KUPTSOv olga N.SHEKAROvA olga v.SOKOLOvA Dehua WANG Konstantin A.ROGOvIN Severtsov Institute of Ecology and Evolution RAS MoscowRussia Institute of Zoology Chinese Academy of Science Chaoyang DistrictBeijingChina

We tested the winter immunity enhancement hypothesis(WIEH)on male desert hamsters(Phodopus roborovskii)kept under long-day(LD)and short-day(SD)*** assumed that under SD in a laboratory,the adaptive humoral immune responsiveness to the antigenic challenge would be enhanced due to the lack of winter physical stressors and food shortages and/or because of the action of an endogenous winter bolstering mechanism,while under LD the immune responsiveness would be suppressed by the activity of the reproductive *** results support the WIEH in *** did not find a difference in antibody production in response to sheep erythrocytes between SD and LD hamsters,but SD males had the lower number of granulocytes and the higher number of lymphocytes in white blood cell *** activity was lower in SD *** males demonstrated an increase in their mass-specific resting metabolic rate,their mass-specific maximal metabolic rate and their level of *** result of a generalized linear model analysis indicates the negative effect on secondary immunoresponsiveness to sheep erythrocytes of mid-ventral gland size,the organ characterizing individual reproductive quality,and designates a tradeoff between antibody production and reproductive *** mass-independent maximal metabolic rate also negatively affected antibody production,indicating a tradeoff between maximal aerobic performance and the adaptive immune *** higher stress in SD males seems to be the most likely reason for the lack of the effect of daylight duration on antibody production.

关键词： adaptive humoral immunity desert hamster photoperiodicity winter immunoenhancement

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WAvELET-BASED ANALYSIS OF CEREBROvASCULAR DYNAMICS IN NEWBORN RATS WITH INTRACRANIAL HEMORRHAGES

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Journal of Innovative Optical Health Sciences 2014年第1期7卷 66-75页

作者： ALEXEY N.PAvLOv ALEXEY I.NAZIMOv olga N.PAvLOvA vLADISLAv v.LYCHAGOv vALERY v.TUCHIN olga A.BIBIKOvA SERGEYS.SINDEEv OXANA v.SEMYACHKINA-GLUSHKOvSKAYA Department of Physics Saratou State University 83 Astrakhanskaya str.Saratou 410012Russia

Intracranial hemorrhage(I)is a major problem of neonatal intensive *** incidence of Iistypically asymptomatic and'canmot be effectively detected by standard diagnostic *** mechanisms underlying IH are unknown but there is evidence that stress-induced disorders inadrenergic regulation of cerebral venous blood flow (CvBF) are among the main *** and qualitative:could significantly advance understanding ofthe nature of I in newbornslth1sions of CvBF in newborn rats withan experimental model of *** analysis is bas ed on theDoppler optical coheavelet-based approachthat provides sensitiv external *** resultsccompanied by asupprectivity to *** show that the values0velopent of *** conclude that t he revealed areactivity of the cerebral veins to adrenaline represents a possible mechanism responsible forpat hological changes in CvBF.

关键词： Brain hemorhages optical coherence tomography cerebrovascular dynamics wavelet analy sis stress.

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