Open Biology最新文献_第10页

Rapid Raman spectroscopy-based test for antimicrobial resistance. 基于拉曼光谱的抗菌素耐药性快速检测。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-02-01 Epub Date: 2025-02-26 DOI: 10.1098/rsob.240258

Vladimir Mushenkov, Ksenia Zhigalova, Pavel Denisov, Alexey Gordeev, Dmitry Lukyanov, Vladimir Kukushkin, Tatiana Priputnevich, Elena Zavyalova

{"title":"Rapid Raman spectroscopy-based test for antimicrobial resistance.","authors":"Vladimir Mushenkov, Ksenia Zhigalova, Pavel Denisov, Alexey Gordeev, Dmitry Lukyanov, Vladimir Kukushkin, Tatiana Priputnevich, Elena Zavyalova","doi":"10.1098/rsob.240258","DOIUrl":"10.1098/rsob.240258","url":null,"abstract":"Antimicrobial resistance (AMR) is one of the top global health threats. In 2019, AMR was associated with 4.95 million deaths, of which 1.97 million were caused by drug-resistant infections directly. The main subset of AMR is antibiotic resistance, that is, the resistance of bacteria to antibiotic treatment. Traditional and most commonly used antibiotic susceptibility tests are based on the detection of bacterial growth and its inhibition in the presence of an antimicrobial. These tests typically take over 1-2 days to perform, so empirical therapy schemes are often administered before proper testing. Rapid tests for AMR are necessary to optimize the treatment of bacterial infection. Here, we combine the MTT test with Raman spectroscopy to provide a 1.5 h long test for minimal inhibitory concentration determination. Several Escherichia coli and Klebsiella pneumoniae strains were tested with three types of antibiotics, including ampicillin from penicillin family, kanamycin from aminoglycoside family and levofloxacin from fluoroquinolone family. The test provided the same minimal inhibitory concentrations as traditional Etest confirming its robustness.","PeriodicalId":19629,"journal":{"name":"Open Biology","volume":"15 2","pages":"240258"},"PeriodicalIF":4.5,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11858750/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143502987","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

Interactions of N- and C-terminal parts of Ana1 permitting centriole duplication but not elongation. Ana1的N端和c端相互作用允许中心粒复制，但不允许延伸。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-02-01 Epub Date: 2025-02-05 DOI: 10.1098/rsob.240325

Agota Nagy, Levente Kovacs, Helene Rangone, Jingyan Fu, Mark Ladinsky, David M Glover

{"title":"Interactions of N- and C-terminal parts of Ana1 permitting centriole duplication but not elongation.","authors":"Agota Nagy, Levente Kovacs, Helene Rangone, Jingyan Fu, Mark Ladinsky, David M Glover","doi":"10.1098/rsob.240325","DOIUrl":"10.1098/rsob.240325","url":null,"abstract":"The conserved process of centriole duplication requires the establishment of a Sas6-centred cartwheel initiated by Plk4's phosphorylation of Ana1/STIL. Subsequently, the centriole undergoes conversion to a centrosome requiring its radial expansion and elongation, mediated by a network requiring interactions between Cep135, Ana1/Cep295 and Asterless/Cep152. Here, we show that mutant alleles encoding overlapping N- and C-terminal parts of Ana1 are capable of intragenic complementation to rescue radial expansion. This permits the recruitment of Asl and thereby centriole duplication and mechanosensory cilia formation to restore the coordination defects of these mutants. This genetic combination also rescues centriole duplication in the male germ line but does not rescue the elongation of the triplet microtubule-containing centrioles of primary spermatocytes. Consequently, these males are coordinated but sterile. Such centriole elongation is rescued by the continuous, full-length Ana1 sequence. We define a region that when deleted within otherwise intact Ana1 does not permit primary spermatocyte centrioles to elongate but still allows recruitment of Asl. Our findings point to differing demands upon the physical organization of Ana1 for the distinct processes of radial expansion and elongation of centrioles.","PeriodicalId":19629,"journal":{"name":"Open Biology","volume":"15 2","pages":"240325"},"PeriodicalIF":4.5,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11793955/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143189399","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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 factors contribute to female dominance in migratory bioflows. 多种因素导致女性在迁徙生物流动中占主导地位。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-02-01 Epub Date: 2025-02-12 DOI: 10.1098/rsob.240235

Toby D Doyle, Oliver M Poole, Jaimie Christopher Barnes, Will Leo S Hawkes, Eva Jimenez Guri, Karl R Wotton

{"title":"Multiple factors contribute to female dominance in migratory bioflows.","authors":"Toby D Doyle, Oliver M Poole, Jaimie Christopher Barnes, Will Leo S Hawkes, Eva Jimenez Guri, Karl R Wotton","doi":"10.1098/rsob.240235","DOIUrl":"10.1098/rsob.240235","url":null,"abstract":"Migration is a widely observed phenomenon supported by morphological, physiological and behavioural traits that vary with season and sex in many species. Recently, the genetic components underpinning migration in the marmalade hoverfly (Diptera: Syrphidae) have been unpacked through detection of differentially expressed genes between migrant and non-migrant females. Males also migrate, but changing sex ratios during autumn migration, from around 50% female in northern Europe to around 90% in southern Europe, suggests males are poor long-distance fliers. To elucidate the mechanisms underpinning this sex difference, we performed morphological, physiological and transcriptomic characterization of actively migrating females and males. Both sexes show similar physiological adaptations including hyperphagia and starvation resistance, but females display higher tolerance to cold, have lower wing loading values and display a greater flight capacity. In addition, females modulate the expression of genes involved in immunity, hypoxia and longevity while suppressing hormonal pathways involved in maintaining reproductive diapause. These traits contribute to the success of female migrants and underlie the diminishing pool of males, influencing population dynamics across huge geographic areas and through the whole migratory and overwintering period.","PeriodicalId":19629,"journal":{"name":"Open Biology","volume":"15 2","pages":"240235"},"PeriodicalIF":4.5,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11813574/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143399626","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

An odorant-binding protein functions in fire ant social immunity interfacing with innate immunity. 一种气味结合蛋白在火蚁的社会免疫和先天免疫中起作用。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-02-01 Epub Date: 2025-02-12 DOI: 10.1098/rsob.240254

Wei Zhang, Xuanyu Chen, Jiaxin Tian, Coby Schal, Amr Mohamed, Lian-Sheng Zang, Yuxian Xia, Nemat O Keyhani

{"title":"An odorant-binding protein functions in fire ant social immunity interfacing with innate immunity.","authors":"Wei Zhang, Xuanyu Chen, Jiaxin Tian, Coby Schal, Amr Mohamed, Lian-Sheng Zang, Yuxian Xia, Nemat O Keyhani","doi":"10.1098/rsob.240254","DOIUrl":"10.1098/rsob.240254","url":null,"abstract":"Social immunity-mediated sanitation behaviours occur in insects when microbially killed corpses are removed and/or dismembered by healthy nestmates. However, little is known concerning the chemical signals or receptor proteins that mediate these responses. Here, we identify cuticular components in the eusocial red important fire ant, Solenopsis invicta: behenic acid, which induces dismemberment behaviour, and oleic and cis,cis-9,12-linoleic acids, which inhibit dismemberment in a process mediated by S. invicta odorant-binding protein-15 (SiOBP15). Yeast two-hybrid screening and protein-protein interaction analyses identified the ant immunity-related proteins apolipophorin-III (SiApoLp-III) and fatty acid binding protein-5 (SiFABP5) as SiOBP15 interacting partners. SiOBP15 and SiFABP5 bound all three dismemberment-related compounds, whereas interactions between SiOBP15 and SiApoLp-III narrowed binding to behenic acid. RNAi-mediated gene expression knockdown of SiOBP15, SiApoLp-III or SiFABP5 revealed that behenic acid chemoreception determines dismemberment behaviour via SiApoLp-III/SiOBP15, whereas SiOBP15 or SiOBP15/SiFABP5 recognition of linoleic acid inhibits dismemberment behaviour. These data identify a host circuit linking olfactory proteins and proteins involved in innate immunity to control the degree of sanitation behaviour elicited in response to microbial infection. We identify specific chemical cues transduced by these proteins, providing a mechanism connecting olfaction-related processes to innate immunity, host-pathogen interactions and social immunity.","PeriodicalId":19629,"journal":{"name":"Open Biology","volume":"15 2","pages":"240254"},"PeriodicalIF":4.5,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11813584/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143399623","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

Whole organism and tissue-specific analysis of pexophagy in Drosophila. 果蝇食腐的全生物和组织特异性分析。

IF 3.6 3区生物学

Open Biology Pub Date : 2025-02-01 Epub Date: 2025-02-05 DOI: 10.1098/rsob.240291

Francesco G Barone, Marco Marcello, Sylvie Urbé, Natalia Sanchez-Soriano, Michael J Clague

{"title":"Whole organism and tissue-specific analysis of pexophagy in Drosophila.","authors":"Francesco G Barone, Marco Marcello, Sylvie Urbé, Natalia Sanchez-Soriano, Michael J Clague","doi":"10.1098/rsob.240291","DOIUrl":"10.1098/rsob.240291","url":null,"abstract":"Peroxisomes are essential organelles involved in critical metabolic processes in animals such as fatty acid oxidation, ether phospholipid production and reactive oxygen species detoxification. We have generated transgenic Drosophila melanogaster models expressing fluorescent reporters for the selective autophagy of peroxisomes, a process known as pexophagy. We show that these reporters are colocalized with a peroxisomal marker and that they can reflect pexophagy induction by iron chelation and inhibition by depletion of the core autophagy protein Atg5. Using light sheet microscopy, we have been able to obtain a global overview of pexophagy levels across the entire organism at different stages of development. Tissue-specific control of pexophagy is exemplified by areas of peroxisome abundance but minimal pexophagy, observed in clusters of oenocytes surrounded by epithelial cells where pexophagy is much more evident. Enhancement of pexophagy was achieved by feeding flies with the iron chelator deferiprone, in line with past results using mammalian cells. Specific drivers were used to visualize pexophagy in neurons, and to demonstrate that specific depletion in the larval central nervous system of Hsc70-5, the Drosophila homologue of the chaperone HSPA9/mortalin, led to a substantial elevation in pexophagy.","PeriodicalId":19629,"journal":{"name":"Open Biology","volume":"15 2","pages":"240291"},"PeriodicalIF":3.6,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12311911/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143189669","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

Serious issues with cryo-EM structures of human prothrombinase. 人凝血酶原的低温电镜结构存在严重问题。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-01-01 Epub Date: 2025-01-22 DOI: 10.1098/rsob.240193

James A Huntington, Alexandre Faille, Fatma Isik Ustok

{"title":"Serious issues with cryo-EM structures of human prothrombinase.","authors":"James A Huntington, Alexandre Faille, Fatma Isik Ustok","doi":"10.1098/rsob.240193","DOIUrl":"10.1098/rsob.240193","url":null,"abstract":"Thrombin is generated from prothrombin through sequential cleavage at two sites by the enzyme complex prothrombinase, composed of a serine protease, factor (f) Xa and a cofactor, fVa, on phospholipid membranes. In a recent paper published in Blood, Ruben et al. (Ruben et al. 2022 Blood 139, 3463-3473 (doi:10.1182/blood.2022015807)) reported a major breakthrough in the field: the cryogenic electron microscopy structures of human prothrombinase on nanodiscs at 5.5 Å resolution (7TPQ) and of a catalytically inert human prothrombinase with its substrate prothrombin in the absence of any membrane at 4.1 Å resolution (7TPP). As is the norm in structural biology, the original paper was reviewed without access to the coordinates and maps, and it was therefore not possible for referees to assess the validity of the structures or their interpretations. In this article, we provide a post hoc analysis of the quality of the reported coordinates and maps, and look closely at the claimed intermolecular contacts on which the supposed breakthrough depends. We demonstrate that the work is deeply flawed, with not a single claimed intermolecular contact supported by the map, and conclude that the two reported structures do not contain any useful information regarding the assembly or function of the prothrombinase complex.","PeriodicalId":19629,"journal":{"name":"Open Biology","volume":"15 1","pages":"240193"},"PeriodicalIF":4.5,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11750407/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143009216","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

Stepwise order in protein complex assembly: approaches and emerging themes. 蛋白质复合体组装的逐步顺序：方法和新兴主题。

IF 3.6 3区生物学

Open Biology Pub Date : 2025-01-01 Epub Date: 2025-01-15 DOI: 10.1098/rsob.240283

Michael T Brown, Michael A McMurray

引用次数: 0

The information overload, immunology and their relationship to world health. 信息超载，免疫学及其与世界健康的关系。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-01-01 Epub Date: 2025-05-07 DOI: 10.1098/rsob.240392

Peter A Bretscher

引用次数: 0

The role of KLF4 in human primordial germ cell development. KLF4在人类原始生殖细胞发育中的作用。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-01-01 Epub Date: 2025-01-22 DOI: 10.1098/rsob.240214

Sun-Min Lee, Merrick Pierson Smela, M Azim Surani

{"title":"The role of KLF4 in human primordial germ cell development.","authors":"Sun-Min Lee, Merrick Pierson Smela, M Azim Surani","doi":"10.1098/rsob.240214","DOIUrl":"10.1098/rsob.240214","url":null,"abstract":"Primordial germ cells (PGCs) are the founder cells that develop into mature gametes. PGCs emerge during weeks 2-3 of human embryo development. Pluripotency genes are reactivated during PGC specification, including Krüppel-like factor KLF4, but its precise role in PGC development is unclear. Here, we investigated the role of KLF4 in PGC development using our in vitro model for human PGC-like cells (hPGCLCs). We demonstrate that the depletion of KLF4 reduces the efficiency of hPGCLC specification, resulting in hPGCLCs with an aberrant transcriptome. Cut-and-run and transcriptomic analyses reveal that KLF4 represses somatic markers involved in neuronal and endodermal differentiation while promoting the expression of genes associated with PGC specification, such as PAX5, and epigenetic regulators, including DNMT3L and REST. KLF4 targets in hPGCLCs showed significant co-enrichment of motifs for SP and STAT factors, which are known to regulate cell cycle and migration genes. KLF4 contributes to human PGC development by activating genes involved in PGC specification and cell cycle regulation, while repressing somatic genes to maintain PGC identity.","PeriodicalId":19629,"journal":{"name":"Open Biology","volume":"15 1","pages":"240214"},"PeriodicalIF":4.5,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11750398/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143009219","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

CryoEM structure and small-angle X-ray scattering analyses of porcine retinol-binding protein 3. 猪视黄醇结合蛋白3的低温电镜结构及小角x射线散射分析。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-01-01 Epub Date: 2025-01-22 DOI: 10.1098/rsob.240180

Vineeta Kaushik, Luca Gessa, Nelam Kumar, Matyáš Pinkas, Mariusz Czarnocki-Cieciura, Krzysztof Palczewski, Jiří Nováček, Humberto Fernandes

{"title":"CryoEM structure and small-angle X-ray scattering analyses of porcine retinol-binding protein 3.","authors":"Vineeta Kaushik, Luca Gessa, Nelam Kumar, Matyáš Pinkas, Mariusz Czarnocki-Cieciura, Krzysztof Palczewski, Jiří Nováček, Humberto Fernandes","doi":"10.1098/rsob.240180","DOIUrl":"10.1098/rsob.240180","url":null,"abstract":"The vertebrate visual cycle hinges on enzymatically converting all-trans-retinol (at-ROL) into 11-cis-retinal (11c-RAL), the chromophore that binds to opsins in photoreceptors, forming light-responsive pigments. When struck by a photon, these pigments activate the phototransduction pathway and initiate the process of vision. The enzymatic isomerization of at-ROL, crucial for restoring the visual pigments and preparing them to receive new light stimuli, relies on various enzymes found in both the photoreceptors and retinal pigment epithelium cells. To function effectively, retinoids must shuttle between these two cell types. Retinol-binding protein 3 (RBP3), located in the interphotoreceptor matrix, probably plays a pivotal role in this transport mechanism. Comprised of four retinoid-binding modules, RBP3 also binds fatty acids, potentially aiding retinal function by facilitating the loading and unloading of different retinoids at specific cell types thereby directing the cycle. In this study, we present a 3.67 Å cryoEM structure of porcine RBP3, along with molecular docking analysis and corroborative in-solution small-angle X-ray scattering data for titration of RBP3 with relevant ligands, that also give insights on RBP3 conformational adaptability.","PeriodicalId":19629,"journal":{"name":"Open Biology","volume":"15 1","pages":"240180"},"PeriodicalIF":4.5,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11750400/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143059951","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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