Open Biology最新文献

Sex-specific loss of mitochondrial membrane integrity in the auditory brainstem of a mouse model of Fragile X Syndrome. 脆性X综合征小鼠听觉脑干中线粒体膜完整性的性别特异性丧失。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-05-01 Epub Date: 2025-05-14 DOI: 10.1098/rsob.240384

Claire Caron, Elizabeth Anne McCullagh, Giulia Bertolin

{"title":"Sex-specific loss of mitochondrial membrane integrity in the auditory brainstem of a mouse model of Fragile X Syndrome.","authors":"Claire Caron, Elizabeth Anne McCullagh, Giulia Bertolin","doi":"10.1098/rsob.240384","DOIUrl":"10.1098/rsob.240384","url":null,"abstract":"Sound sensitivity is a common sensory complaint for people with autism spectrum disorder (ASD). How and why sounds are perceived as overwhelming by affected people is unknown. To process sound information properly, the brain requires high activity and fast processing, as seen in areas like the medial nucleus of the trapezoid body (MNTB) of the auditory brainstem. Recent work has shown dysfunction in mitochondria in a genetic model of ASD, Fragile X Syndrome (FXS). Whether mitochondrial functions are also altered in sound-processing neurons has not been characterized yet. To address this question, we imaged MNTB in a mouse model of FXS. We stained MNTB brain slices from wild-type and FXS mice with two mitochondrial markers, TOMM20 and PMPCB, located on the outer mitochondrial membrane and in the matrix, respectively. Our imaging reveals significant sex-specific differences between genotypes. Colocalization analyses between TOMM20 and PMPCB show that the integrity of mitochondrial subcompartments is most disrupted in female FXS mice compared with female wild-type mice. We highlight a quantitative fluorescence microscopy pipeline to monitor mitochondrial functions in the MNTB from control or FXS mice and provide four complementary readouts, paving the way to understanding how cellular mechanisms important to sound encoding are altered in ASD.","PeriodicalId":19629,"journal":{"name":"Open Biology","volume":"15 5","pages":"240384"},"PeriodicalIF":4.5,"publicationDate":"2025-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12082877/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143974224","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

Exploration of gene presence/absence variations in Oncorhynchus mykiss and their differentiation between wild and selection populations. 野生种群与选择种群间褐蝽基因存在/缺失差异的探讨。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-05-01 Epub Date: 2025-05-21 DOI: 10.1098/rsob.240382

Hancheng Bao, Na Xue, Boyuan Wang, Han Yu, Ming Huang, Jinghong He, Shuanglin Dong, Yangen Zhou, Qinfeng Gao, Yuan Tian

{"title":"Exploration of gene presence/absence variations in Oncorhynchus mykiss and their differentiation between wild and selection populations.","authors":"Hancheng Bao, Na Xue, Boyuan Wang, Han Yu, Ming Huang, Jinghong He, Shuanglin Dong, Yangen Zhou, Qinfeng Gao, Yuan Tian","doi":"10.1098/rsob.240382","DOIUrl":"10.1098/rsob.240382","url":null,"abstract":"Gene presence/absence variations (PAVs) have been considered as the important determinants of genome evolution and phenotypic diversity. However, studies on gene PAVs have been poorly documented, especially in fishes. In the present study, the pan-genome of rainbow trout was constructed based on 268 whole-genome re-sequencing accessions (4.38 Tb data). It recovered an additional 62 Mb sequences and 1288 protein-coding genes. Then, 9831 (22.77%) gene PAVs were genotyped across the 268 individuals. PAV-based PCA analysis, together with phylogenetic topology and STRUCTURE, revealed the clear separation among the different wild and selection populations. Additionally, a PAV-based genome-wide association study (GWAS) identified three candidate PAVs significantly associated with artificial selection. Meanwhile, fixation index analysis revealed 35 PAVs with significant frequency differences between wild and selection populations in Canada, while 15 candidate PAVs were detected between the populations in America. Their biological functions have been reported to participate in the regulation of growth performance and stress response. The present study deepens our understanding of widespread gene PAVs and facilitates the identification of key candidates that contribute to important traits.","PeriodicalId":19629,"journal":{"name":"Open Biology","volume":"15 5","pages":"240382"},"PeriodicalIF":4.5,"publicationDate":"2025-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12092107/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144111658","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

Beyond pathogenicity: the immunomodulatory role of the type III secretion system in beneficial plant-microbe interactions. 超越致病性：III型分泌系统在有益植物-微生物相互作用中的免疫调节作用。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-05-01 Epub Date: 2025-05-28 DOI: 10.1098/rsob.240318

Iva Atanasković, Marija Nedeljković, Jelena Lozo

引用次数: 0

Genomic, transcriptomic and epigenomic signatures of ageing and cold adaptation in the Antarctic clam Laternula elliptica. 南极椭圆蛤衰老和寒冷适应的基因组、转录组学和表观基因组特征。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-05-01 Epub Date: 2025-05-21 DOI: 10.1098/rsob.250009

Victoria A Sleight, Melody S Clark, Meghan K Yap-Chiongco, Frances Turner, Kevin M Kocot

{"title":"Genomic, transcriptomic and epigenomic signatures of ageing and cold adaptation in the Antarctic clam Laternula elliptica.","authors":"Victoria A Sleight, Melody S Clark, Meghan K Yap-Chiongco, Frances Turner, Kevin M Kocot","doi":"10.1098/rsob.250009","DOIUrl":"10.1098/rsob.250009","url":null,"abstract":"Genomic data are lacking for most Antarctic marine invertebrates, predicating our ability to understand physiological adaptation and specific life-history traits, such as longevity. The environmental stress response of the Antarctic infaunal clam Laternula elliptica is much diminished in older adult animals compared with younger juvenile individuals. However, the mechanism underlying this reduced capacity is unknown. In this study, we describe and analyse the genome of L. elliptica and use it as a tool to understand transcriptomic responses to shell damage across different age cohorts. Gene expression data were combined with reduced representation enzymic methyl sequencing to identify if methylation was acting as an epigenetic mechanism driving age-dependent transcriptional profiles. Our transcriptomic results demonstrated a clear bipartite molecular response in L. elliptica, associated with a rapid growth phase in juveniles and a stabilization phase in reproductively mature adults. Genes active in the response to damage repair in juvenile animals are silent in adults but can be reactivated after several months following damage stimulus; however, these genes were not methylated. Hence, the trigger for this critical and imprinted change in physiological state is, as yet, unknown. While epigenetics is likely involved in this process, the mechanism is unlikely to be methylation.","PeriodicalId":19629,"journal":{"name":"Open Biology","volume":"15 5","pages":"250009"},"PeriodicalIF":4.5,"publicationDate":"2025-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12092138/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144111659","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

Cancer cells' chamber of secrets: the link between micronuclei, chromothripsis and malignancy. 癌细胞的密室：微核、染色体分裂和恶性肿瘤之间的联系。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-05-01 Epub Date: 2025-05-14 DOI: 10.1098/rsob.240388

Truman Raleigh Mcneil, Sweta Sikder, Yamini Dalal

引用次数: 0

Centrosomes and cilia in neurodegeneration: main actors or mere spectators? 中心体和纤毛在神经退行性变中的作用：主要参与者还是旁观者？

IF 4.5 3区生物学

Open Biology Pub Date : 2025-05-01 Epub Date: 2025-05-21 DOI: 10.1098/rsob.240317

Ramona Lattao

{"title":"Centrosomes and cilia in neurodegeneration: main actors or mere spectators?","authors":"Ramona Lattao","doi":"10.1098/rsob.240317","DOIUrl":"10.1098/rsob.240317","url":null,"abstract":"Centrosomes are intracellular organelles traditionally recognized as the primary microtubule (MT) organizing centres (MTOCs) in the cell, playing a crucial role in organizing the cytoskeleton and forming the MT-based spindle during cell division. However, it is now well established that centrosomes also function as central hubs for a wide range of signalling pathways. In non-dividing cells, they give rise to the primary cilium, a surface antenna that serves as a key structure for signalling. Neurons are highly specialized cells with a distinctive morphology, and most neurons have cilia. During brain development, cilia regulate the self-renewal of neural progenitors, as well as the differentiation, migration and synapse formation of newly generated neurons. As a consequence, defects in cilia result in various neurodevelopmental disorders. The role of centrosomes and cilia in neurodegeneration, or the progressive loss of neurons, is less understood. Centrosomes take part in several cellular processes that are often disrupted in neurodegenerative diseases (NDDs), and many proteins associated with these conditions have been found at centrosomes or cilia suggesting a link between these organelles and the underlying mechanisms that contribute to neuronal decline. Unravelling if and how centrosome dysfunction contributes to neurodegeneration could significantly deepen our understanding of the underlying biology of these disorders. Such insights may pave the way for new therapeutic approaches to address these debilitating conditions.","PeriodicalId":19629,"journal":{"name":"Open Biology","volume":"15 5","pages":"240317"},"PeriodicalIF":4.5,"publicationDate":"2025-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12092100/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144111657","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

Devastating disease can cause increased breeding effort and success that improves population resilience. 毁灭性的疾病可以增加繁殖的努力和成功，从而提高种群的适应力。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-05-01 Epub Date: 2025-05-28 DOI: 10.1098/rsob.240385

Laura A Brannelly, Danielle K Wallace, Alexander S Wendt, Quinn Higgs, Siyu Zhang, Marcus A Hough, Ke Diao, Eleyne Ferguson, Lee Berger, Lee F Skerratt

{"title":"Devastating disease can cause increased breeding effort and success that improves population resilience.","authors":"Laura A Brannelly, Danielle K Wallace, Alexander S Wendt, Quinn Higgs, Siyu Zhang, Marcus A Hough, Ke Diao, Eleyne Ferguson, Lee Berger, Lee F Skerratt","doi":"10.1098/rsob.240385","DOIUrl":"10.1098/rsob.240385","url":null,"abstract":"Novel and invasive diseases are a key threat to wildlife. The disease chytridiomycosis has had devastating global impacts, but some amphibian species can persist and even rebound after severe declines. Understanding how these species persist is critical to discovering management techniques for supporting declining species. Here, we explored the impacts of disease on reproduction in the threatened Litoria verreauxii alpina, investigating its effect on reproductive effort and success using a combination of laboratory-based clinical trials and field sampling through capture-mark-recapture surveys. We found that male frogs are increasing various facets of their breeding effort resulting in increased offspring. Infected male frogs (i) increased vocal sac coloration, (ii) increased sperm quality, and (iii) fathered more egg masses than uninfected males. Our research demonstrates that frogs can counteract high disease-caused mortality through enhanced breeding effort, which could lead to population persistence. Mitigation for wildlife diseases often aims to directly reduce mortality, such as through increasing host resistance or decreasing environmental suitability for the pathogen. Our work indicates that reproductive output is also important and should be considered when protecting our precious amphibians.","PeriodicalId":19629,"journal":{"name":"Open Biology","volume":"15 5","pages":"240385"},"PeriodicalIF":4.5,"publicationDate":"2025-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12115809/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144160763","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

Relationship troubles at the mitochondrial level and what it might mean for human disease. 线粒体水平的关系问题及其对人类疾病的影响。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-05-01 Epub Date: 2025-05-21 DOI: 10.1098/rsob.240331

Rachel James

引用次数: 0

Unveiling the functional nature of retrogenes in dinoflagellates. 揭示甲藻中逆转录基因的功能本质。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-04-01 Epub Date: 2025-04-23 DOI: 10.1098/rsob.240221

Ronie Haro, Renny Lee, Claudio H Slamovits

{"title":"Unveiling the functional nature of retrogenes in dinoflagellates.","authors":"Ronie Haro, Renny Lee, Claudio H Slamovits","doi":"10.1098/rsob.240221","DOIUrl":"https://doi.org/10.1098/rsob.240221","url":null,"abstract":"Retroposition is a gene duplication mechanism that uses RNA molecules as intermediaries to generate new gene copies. Dinoflagellates are proposed as an ideal model for exploring this process due to the tagging of retrogenes with DNA-encoded remnants of the dinoflagellate-specific splice-leader motif at their 5' end. We conducted a comprehensive search for retrogenes in dinoflagellate transcriptomes to uncover their functional nature and the processes underlying their redundancy. We obtained a high-confidence set of hypothetical functional retrogenes widespread through the dinoflagellate lineage. Through annotations and gene ontology enrichment analysis, we found that the functional diversity of retrogenes reflects the most prevalent and active processes during stress periods, particularly those involving post-translational modifications and cell signalling pathways. Additionally, the significant presence of retrogenes linked to specific biological processes involved in symbiosis and toxin production underscores the role of retrogenes in adaptation. The expression profile and codon composition similar to protein-coding genes confirm the operational status of retrogenes and strengthen the idea that retrogenes recapitulate parental gene expression and function. This study provides new evidence supporting widespread gene retroposition across dinoflagellates and highlights the functional link of retrogenes with the core activity of the cell.","PeriodicalId":19629,"journal":{"name":"Open Biology","volume":"15 4","pages":"240221"},"PeriodicalIF":4.5,"publicationDate":"2025-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12014239/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144036542","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

A comprehensive toolkit for protein localization and functional analysis in trypanosomatids. 锥虫蛋白定位和功能分析的综合工具箱。

IF 4.5 3区生物学

Open Biology Pub Date : 2025-04-01 Epub Date: 2025-04-02 DOI: 10.1098/rsob.240361

Athina Paterou, Julia Sáez Conde, Jiří Týč, Jack Daniel Sunter, Sue Vaughan, Keith Gull, Samuel Dean

{"title":"A comprehensive toolkit for protein localization and functional analysis in trypanosomatids.","authors":"Athina Paterou, Julia Sáez Conde, Jiří Týč, Jack Daniel Sunter, Sue Vaughan, Keith Gull, Samuel Dean","doi":"10.1098/rsob.240361","DOIUrl":"10.1098/rsob.240361","url":null,"abstract":"African trypanosomes are medically important parasites that cause sleeping sickness in humans and nagana in animals. In addition to their pathogenic role, they have emerged as valuable model organisms for studying fundamental biological processes. Protein tagging is a powerful tool for investigating protein localization and function. In a previous study, we developed two plasmids for rapid and reproducible polymerase chain reaction-based protein tagging in trypanosomes, which enabled the subcellular mapping of 89% of the trypanosome proteome. However, the limited selection of fluorescent protein tags and selectable markers restricted the flexibility of this approach. Here, we present an extended set of >100 plasmids that incorporate universal primer annealing sequences, enabling protein tagging with a range of fluorescent, biochemical and epitope tags, using five different selection markers. We evaluated the suitability of various fluorescent proteins for live and fixed cell imaging, fluorescent movies, and we demonstrate the use of tagging plasmids encoding tandem epitope tags to support expansion microscopy approaches. We show that this series of plasmids is functional in other trypanosomatid parasites, significantly increasing its value. Finally, we developed a new plasmid for tagging glycosylphosphatidylinositol-anchored proteins. We anticipate that this will be an important toolset for investigating trypanosomatid protein localization and function.","PeriodicalId":19629,"journal":{"name":"Open Biology","volume":"15 4","pages":"240361"},"PeriodicalIF":4.5,"publicationDate":"2025-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11961264/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143764463","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