Acta Naturae最新文献_第10页

Bioinformatics-Structural Approach to the Search for New D-Amino Acid Oxidases. 寻找新的D-氨基酸氧化酶的生物信息学结构方法。

IF 2 4区生物学

Acta Naturae Pub Date : 2022-10-01 DOI: 10.32607/actanaturae.11812

D L Atroshenko, D I Golovina, E P Sergeev, M D Shelomov, A G Elcheninov, I V Kublanov, T A Chubar, A A Pometun, S S Savin, V I Tishkov

{"title":"Bioinformatics-Structural Approach to the Search for New D-Amino Acid Oxidases.","authors":"D L Atroshenko, D I Golovina, E P Sergeev, M D Shelomov, A G Elcheninov, I V Kublanov, T A Chubar, A A Pometun, S S Savin, V I Tishkov","doi":"10.32607/actanaturae.11812","DOIUrl":"10.32607/actanaturae.11812","url":null,"abstract":"D-amino acid oxidase (DAAO, EC 1.2.1.2) plays an important role in the functioning of prokaryotes as well as of lower (yeast and fungi) and higher eukaryotes (mammals). DAAO genes have not yet been found in archaean genomes. D-amino acid oxidase is increasingly used in various fields, which requires the development of new variants of the enzyme with specific properties. However, even within one related group (bacteria, yeasts and fungi, mammals), DAAOs show very low homology between amino acid sequences. In particular, this fact is clearly observed in the case of DAAO from bacteria. The high variability in the primary structures of DAAO severely limits the search for new enzymes in known genomes. As a result, many (if not most) DAAO genes remain either unannotated or incorrectly annotated. We propose an approach that uses bioinformatic methods in combination with general 3D structure and active center structure analysis to confirm that the gene found encodes D-amino acid oxidase and to predict the possible type of its substrate specificity. Using a homology search, we obtained a set of candidate sequences, modelled the tertiary structure of the selected enzymes, and compared them with experimental and model structures of known DAAOs. The effectiveness of the proposed approach for discrimination of DAAOs and glycine oxidases is shown. Using this approach, new DAAO genes were found in the genomes of six strains of extremophilic bacteria, and for the first time in the world, one gene was identified in the genome of halophilic archaea. Preliminary experiments confirmed the predicted specificity of DAAO from Natronosporangium hydrolyticum ACPA39 with D-Leu and D-Phe.","PeriodicalId":6989,"journal":{"name":"Acta Naturae","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2022-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9844085/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10277320","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Multiple Sclerosis Is Associated with Immunoglobulin Germline Gene Variation of Transitional B Cells. 多发性硬化与移行B细胞免疫球蛋白生殖系基因变异有关。

IF 2 4区生物学

Acta Naturae Pub Date : 2022-10-01 DOI: 10.32607/actanaturae.11794

Y A Lomakin, L A Ovchinnikova, M N Zakharova, M V Ivanova, T O Simaniv, M R Kabilov, N A Bykova, V S Mukhina, A N Kaminskaya, A E Tupikin, M Y Zakharova, A V Favorov, S N Illarioshkin, A A Belogurov, A G Gabibov

{"title":"Multiple Sclerosis Is Associated with Immunoglobulin Germline Gene Variation of Transitional B Cells.","authors":"Y A Lomakin, L A Ovchinnikova, M N Zakharova, M V Ivanova, T O Simaniv, M R Kabilov, N A Bykova, V S Mukhina, A N Kaminskaya, A E Tupikin, M Y Zakharova, A V Favorov, S N Illarioshkin, A A Belogurov, A G Gabibov","doi":"10.32607/actanaturae.11794","DOIUrl":"10.32607/actanaturae.11794","url":null,"abstract":"The regulatory functions of the B-cell compartment play an important role in the development and suppression of the immune response. Disruption of their anti-inflammatory functions may lead to the acceleration of immunopathological processes, and to autoimmune diseases, in particular. Unfortunately, the exact mechanism underlying the functioning and development of regulatory B cells (Breg) has not yet been fully elucidated. Almost nothing is known about their specificity and the structure of their B-cell receptors (BCRs). In this research, we analyzed the BCR repertoire of the transitional Breg (tBreg) subpopulation with the CD19+CD24highCD38high phenotype in patients with multiple sclerosis (MS), using next-generation sequencing (NGS). We show, for the first time, that the immunoglobulin germline distribution in the tBreg subpopulation is different between MS patients and healthy donors. The registered variation was more significant in patients with a more severe form of the disease, highly active MS (HAMS), compared to those with benign MS (BMS). Our data suggest that during MS development, deviations in the immunoglobulin Breg repertoire occur already at the early stage of B-cell maturation, namely at the stage of tBregs: between immature B cells in the bone marrow and mature peripheral B cells.","PeriodicalId":6989,"journal":{"name":"Acta Naturae","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2022-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9844083/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9187723","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Rhodobacter capsulatus PG Lipopolysaccharide Blocks the Effects of a Lipoteichoic Acid, a Toll-Like Receptor 2 Agonist. 荚膜红杆菌PG脂多糖阻断脂磷壁酸，一种Toll样受体2激动剂的作用。

IF 2 4区生物学

Acta Naturae Pub Date : 2022-10-01 DOI: 10.32607/actanaturae.11747

S V Zubova, N I Kosyakova, S V Grachev, I R Prokhorenko

引用次数: 1

Définition d’un référentiel d’activité acoustique des Chiroptères à l’échelle de l’île de la Réunion 定义reunion岛蝙蝠声学活动的参考框架

IF 2 4区生物学

Acta Naturae Pub Date : 2022-09-21 DOI: 10.5852/naturae2022a14

Guillaume Amirault, Alexandre Haquart, Séverine Goertz

{"title":"Définition d’un référentiel d’activité acoustique des Chiroptères à l’échelle de l’île de la Réunion","authors":"Guillaume Amirault, Alexandre Haquart, Séverine Goertz","doi":"10.5852/naturae2022a14","DOIUrl":"https://doi.org/10.5852/naturae2022a14","url":null,"abstract":"Le recensement des Chiroptères par enregistrement acoustique est une méthode facile à mettre en œuvre, répandue et maîtrisée. Cette pratique fournit énormément de données mais leur interprétation nécessite un certain recul, des outils d’analyse standard permettant de quantifier l’activité acoustique et des données de référence pour évaluer cette activité. Sur l’île de la Réunion aucune référence n’existait jusqu’à présent pour l’interprétation de ces données. Nous proposons ici une méthode de standardisation des données acoustiques ainsi qu’un référentiel quantifiant objectivement l’activité acoustique des trois espèces de microchiroptères actuellement présentes sur l’île : Mormopterus francoismoutoui Goodman, Jansen van Vuuren, Ratrimomanarico, Probst & Bowie, 2008, Taphozous mauritianus É. Geoffroy Saint-Hilaire, 1818 et Chiroptera sp1 (présence observée par l’acoustique mais pas encore confirmée par la capture et la génétique). La finalité est d’objectiver la prise en compte et l’évaluation des enjeux de conservation des chauves-souris dans le cadre d’évaluations environnementales à la Réunion (Mascareignes / Océan Indien). Pour définir ce référentiel d’activité, nous nous sommes appuyés sur des travaux équivalents menés en métropole, en les adaptant au contexte local. Il a été construit grâce à une base de données acoustiques de 215 nuits complètes enregistrées à différentes périodes de l’année entre 2012 et 2018 et couvrant l’intégralité du territoire réunionnais.","PeriodicalId":6989,"journal":{"name":"Acta Naturae","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2022-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"82926400","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Breeding phenology of amphibians in a Mediterranean ephemeral stream (Ardèche, France) 地中海短流中两栖动物的繁殖物候(法国ard<e:1>区)

IF 2 4区生物学

Acta Naturae Pub Date : 2022-09-07 DOI: 10.5852/naturae2022a13

R. Duguet

引用次数: 0

Suivi par radiopistage du Desman des Pyrénées Galemys pyrenaicus (É. Geoffroy Saint Hilaire, 1811) sur deux cours d’eau d’Ariège : rythme d’activité, utilisation de l’espace et influence des variations de débit 在ariege的两条河流上对比利牛斯山脉的Desman Galemys pyrenaicus (e . Geoffroy Saint Hilaire, 1811)进行无线电测光监测:活动率、空间利用和流量变化的影响

IF 2 4区生物学

Acta Naturae Pub Date : 2022-07-20 DOI: 10.5852/naturae2022a12

Melody Lim, C. Fournier-Chambrillon, Émile Poncet, Vincent Lacaze, P. Fournier, F. Blanc, Mélanie Némoz

{"title":"Suivi par radiopistage du Desman des Pyrénées Galemys pyrenaicus (É. Geoffroy Saint Hilaire, 1811) sur deux cours d’eau d’Ariège : rythme d’activité, utilisation de l’espace et influence des variations de débit","authors":"Melody Lim, C. Fournier-Chambrillon, Émile Poncet, Vincent Lacaze, P. Fournier, F. Blanc, Mélanie Némoz","doi":"10.5852/naturae2022a12","DOIUrl":"https://doi.org/10.5852/naturae2022a12","url":null,"abstract":"Les faibles connaissances sur le comportement du Desman des Pyrénées Galemys pyrenaicus (É. Geoffroy Saint Hilaire, 1811) en réponse aux variations hydrauliques nous ont amenés à mettre en œuvre trois opérations de radiopistage sur deux tronçons court-circuités de cours d’eau ariégeois. Les opérations ont eu lieu en octobre 2014 et mai 2015 sur l’Aston, puis en septembre 2018 sur le Vicdessos, dans des contextes d’hydrologie variable, avec de fortes variations de débit liées à l’exploitation des ouvrages ou à des travaux de réfection. Six Desmans ont été suivis, dont un au cours des deux opérations sur l’Aston. Les données recueillies montrent que l’espèce présente une activité nocturne et diurne, avec cependant des déplacements plus importants la nuit. Elles ont également mis en exergue le caractère social des individus. En effet, certains partagent tout ou partie de leurs domaines vitaux et certains de leurs gîtes, auxquels ils sont d’ailleurs très fidèles. Nous avons pu observer des réactions aux variations de débit chez les Desmans suivis, parmi lesquelles des changements de gîtes, des translations de domaines vitaux ou bien encore une modification des cycles d’activité. Ces observations et apports de connaissances confirment l’importance d’une bonne prise en compte du Desman dans la gestion des débits mais également d’une manière plus globale pour une meilleure préservation de l’espèce.","PeriodicalId":6989,"journal":{"name":"Acta Naturae","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2022-07-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"78211336","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The Role of a Pathological Interaction between β-amyloid and Mitochondria in the Occurrence and Development of Alzheimer's Disease. β-淀粉样蛋白和线粒体病理相互作用在阿尔茨海默病发生和发展中的作用

IF 2 4区生物学

Acta Naturae Pub Date : 2022-07-01 DOI: 10.32607/actanaturae.11723

N S Nikolaeva, E Yu Yandulova, Yu R Aleksandrova, A S Starikov, M E Neganova

引用次数: 1

Reporter Transgenes for Monitoring the Antitumor Efficacy of Recombinant Oncolytic Viruses. 用于监测重组溶瘤病毒抗肿瘤功效的报告基因

IF 2 4区生物学

Acta Naturae Pub Date : 2022-07-01 DOI: 10.32607/actanaturae.11719

A V Semenova, G F Sivolobova, A A Grazhdantseva, A P Agafonov, G V Kochneva

{"title":"Reporter Transgenes for Monitoring the Antitumor Efficacy of Recombinant Oncolytic Viruses.","authors":"A V Semenova, G F Sivolobova, A A Grazhdantseva, A P Agafonov, G V Kochneva","doi":"10.32607/actanaturae.11719","DOIUrl":"10.32607/actanaturae.11719","url":null,"abstract":"Accurate measurement of tumor size and margins is crucial for successful oncotherapy. In the last decade, non-invasive imaging modalities, including optical imaging using non-radioactive substrates, deep-tissue imaging with radioactive substrates, and magnetic resonance imaging have been developed. Reporter genes play the most important role among visualization tools; their expression in tumors and metastases makes it possible to track changes in the tumor growth and gauge therapy effectiveness. Oncolytic viruses are often chosen as a vector for delivering reporter genes into tumor cells, since oncolytic viruses are tumor-specific, meaning that they infect and lyse tumor cells without damaging normal cells. The choice of reporter transgenes for genetic modification of oncolytic viruses depends on the study objectives and imaging methods used. Optical imaging techniques are suitable for in vitro studies and small animal models, while deep-tissue imaging techniques are used to evaluate virotherapy in large animals and humans. For optical imaging, transgenes of fluorescent proteins, luciferases, and tyrosinases are used; for deep-tissue imaging, the most promising transgene is the sodium/iodide symporter (NIS), which ensures an accumulation of radioactive isotopes in virus-infected tumor cells. Currently, NIS is the only reporter transgene that has been shown to be effective in monitoring tumor virotherapy not only in preclinical but also in clinical studies.","PeriodicalId":6989,"journal":{"name":"Acta Naturae","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2022-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9611865/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10623325","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

MicroRNA Expression Profile Changes in the Leukocytes of Parkinson's Disease Patients. 帕金森病患者白细胞中MicroRNA表达谱的变化

IF 2 4区生物学

Acta Naturae Pub Date : 2022-07-01 DOI: 10.32607/actanaturae.11729

N S Ardashirova, N Yu Abramycheva, E Yu Fedotova, S N Illarioshkin

{"title":"MicroRNA Expression Profile Changes in the Leukocytes of Parkinson's Disease Patients.","authors":"N S Ardashirova, N Yu Abramycheva, E Yu Fedotova, S N Illarioshkin","doi":"10.32607/actanaturae.11729","DOIUrl":"https://doi.org/10.32607/actanaturae.11729","url":null,"abstract":"Parkinson's disease (PD) is one of the most common movement disorders. It is primarily diagnosed clinically. A correct diagnosis of PD in its early stages is important for the development of a pathogenic treatment, which necessitates a search for potential biomarkers of the disease. We evaluated the diagnostic value of several microRNAs and their relationship with the clinical characteristics of PD. The study included 70 PD patients and 40 healthy volunteers. We analyzed the expression of 15 microRNAs in blood leukocytes, which were selected based on literature data and modern concepts of molecular PD pathogenesis. All patients were evaluated using the Hoehn and Yahr scale, UPDRS, NMSQ, and PDQ-39. The data analysis revealed a statistically significant increase in the expression of miR-7-5p, miR-29c-3p, and miR-185-5p and a statistically significant decrease in the expression of miR-29a-3p and miR-30c-1-5p in leukocytes in PD. However, the altered microRNA profile was shown to have a moderate diagnostic value for PD diagnosis. MicroRNA expression changes were associated with the motor and non-motor phenotypic features of PD and administration of anti-Parkinson's drugs. Also, a relationship between some of the microRNAs studied and the duration and severity of PD was found, which may potentially be used to monitor disease progression.","PeriodicalId":6989,"journal":{"name":"Acta Naturae","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2022-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9611861/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40688162","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

Extracellular Vesicles Derived from Metastatic Melanoma Cells Transfer α7-nAChR mRNA, Thus Increasing the Surface Expression of the Receptor and Stimulating the Growth of Normal Keratinocytes. 转移性黑色素瘤细胞的细胞外囊泡转移α7-nAChR mRNA，从而增加受体的表面表达并刺激正常角质形成细胞的生长。

IF 2 4区生物学

Acta Naturae Pub Date : 2022-07-01 DOI: 10.32607/actanaturae.11734

M L Bychkov, A V Kirichenko, I N Mikhaylova, A S Paramonov, M P Kirpichnikov, M A Shulepko, E N Lyukmanova

{"title":"Extracellular Vesicles Derived from Metastatic Melanoma Cells Transfer α7-nAChR mRNA, Thus Increasing the Surface Expression of the Receptor and Stimulating the Growth of Normal Keratinocytes.","authors":"M L Bychkov, A V Kirichenko, I N Mikhaylova, A S Paramonov, M P Kirpichnikov, M A Shulepko, E N Lyukmanova","doi":"10.32607/actanaturae.11734","DOIUrl":"https://doi.org/10.32607/actanaturae.11734","url":null,"abstract":"We have previously shown that extracellular vesicles secreted by metastatic melanoma cells stimulate the growth, migration, and stemness of normal keratinocytes. This study showed for the first time that extracellular vesicles secreted by the metastatic melanoma cell lines mel H, mel Kor, and mel P contain, both at the mRNA and protein levels, the α7-type nicotinic acetylcholine receptor (α7-nAChR), which is involved in the regulation of the oncogenic signaling pathways in epithelial cells. Incubation with the vesicles secreted by mel H cells and containing the highest amount of mRNA coding α7-nAChR increased the surface expression of α7-nAChR in normal Het-1A keratinocytes and stimulated their growth. Meanwhile, both of these effects disappeared in the presence of α-bungarotoxin, an α7-nAChR inhibitor. A bioinformatic analysis revealed a correlation between the increased expression of the CHRNA7 gene coding α7-nAChR in patients with metastatic melanoma and a poor survival prognosis. Therefore, extracellular vesicles derived from metastatic melanoma cells can transfer mRNA coding α7-nAChR, thus enhancing the surface expression of this receptor and stimulating the growth of normal keratinocytes. Targeting of α7-nAChR may become a new strategy for controlling the malignant transformation of keratinocytes.","PeriodicalId":6989,"journal":{"name":"Acta Naturae","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2022-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9611855/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40688163","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1