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Impact of embryo size on apoptosis in C. elegans. 胚胎大小对秀丽隐杆线虫凋亡的影响。
microPublication biology Pub Date : 2025-05-19 eCollection Date: 2025-01-01 DOI: 10.17912/micropub.biology.001608
Madiha Javeed Ghani, Jens Van Eeckhoven, Barbara Conradt
{"title":"Impact of embryo size on apoptosis in <i>C. elegans</i>.","authors":"Madiha Javeed Ghani, Jens Van Eeckhoven, Barbara Conradt","doi":"10.17912/micropub.biology.001608","DOIUrl":"10.17912/micropub.biology.001608","url":null,"abstract":"<p><p>During <i>C. elegans</i> development 131 somatic cells reproducibly undergo programmed cell death. Many of these 131 cells 'programmed to die' are the smaller daughter of a neuroblast that divides asymmetrically and die through apoptosis. To determine whether cell size impacts the ability of cells programmed to die to undergo apoptosis, we increased or decreased embryo size by RNA interference-mediated knock-down of the genes <i>C27D9.1</i> or <i>ima-3</i> , respectively. We found that in apoptosis-compromised genetic backgrounds, <i>C27D9.1</i> ( <i>RNAi</i> ) enhances and <i>ima-3</i> ( <i>RNAi</i> ) partially suppresses inappropriate survival of cells programmed to die. This supports the notion that in <i>C. elegans</i> embryos, an increase in cell size compromises and a decrease in cell size promotes the ability of cells programmed to die to undergo apoptosis.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2025 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12131072/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144217729","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","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 comparative analysis of distinct assays for the investigation of Caenorhabditis elegans behavior during organophosphate exposure. 有机磷暴露时秀丽隐杆线虫行为调查的不同测定方法的比较分析。
microPublication biology Pub Date : 2025-05-16 eCollection Date: 2025-01-01 DOI: 10.17912/micropub.biology.001533
Johanna Haszczyn, Vincent O'Connor, Lindy Holden-Dye, A Christopher Green, James Kearn
{"title":"A comparative analysis of distinct assays for the investigation of <i>Caenorhabditis elegans</i> behavior during organophosphate exposure.","authors":"Johanna Haszczyn, Vincent O'Connor, Lindy Holden-Dye, A Christopher Green, James Kearn","doi":"10.17912/micropub.biology.001533","DOIUrl":"10.17912/micropub.biology.001533","url":null,"abstract":"<p><p><i>C. elegans</i> motility is a convenient paradigm to describe the behavioral outcome of genetic- and drug-induced changes in neural circuits. Motility may be parameterized by scoring movement on solid medium or in liquid. In addition, body wall muscle contraction inhibits pharyngeal pumping, providing an indirect measure of motility. Here, the ability of these different experimental approaches to resolve organophosphate-related effects over time was investigated. In addition, two genetic mutations that alter neuromuscular function at the L-type body wall muscle were also investigated using these assays. This work highlights the benefits and limitations of distinct screening approaches for <i>C. elegans</i> behavior when analysing organophosphate mode of action on neuromuscular signalling. In particular, this work showed that pharyngeal pumping was able to resolve acute and chronic organophosphate-related effects, however liquid-based assays were best suited to resolve the phenotype of the genetic mutant L-AChR ( <i>ufis6).</i></p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2025 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12125632/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144201017","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
The cadherin domains and the kinesin-binding intracellular domain of CASY-1/calsyntenin function in a redundant manner for learning. CASY-1/calsyntenin的钙粘蛋白结构域和运动蛋白结合的细胞内结构域在学习中以冗余的方式起作用。
microPublication biology Pub Date : 2025-05-16 eCollection Date: 2025-01-01 DOI: 10.17912/micropub.biology.001600
Hayao Ohno, Yuzuha Komachiya, Yuichi Iino
{"title":"The cadherin domains and the kinesin-binding intracellular domain of CASY-1/calsyntenin function in a redundant manner for learning.","authors":"Hayao Ohno, Yuzuha Komachiya, Yuichi Iino","doi":"10.17912/micropub.biology.001600","DOIUrl":"10.17912/micropub.biology.001600","url":null,"abstract":"<p><p>Taste avoidance learning in <i>Caenorhabditis elegans</i> is regulated by the calsyntenin/alcadein homolog CASY-1 , which transports the insulin receptor DAF-2c to the synaptic region. This transport involves binding of the CASY-1 intracellular domain to the kinesin-1 (KIF5) complex. However, a previous study showed that the intracellular domain of CASY-1 is dispensable for learning. To investigate how CASY-1 functions, we performed functional domain mapping of CASY-1 . Both the cadherin domains of CASY-1 and its binding to kinesin-1 are individually dispensable, while simultaneous loss of both abolished the CASY-1 function, suggesting that CASY-1 enables robust intracellular transport through physical interactions with multiple proteins.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2025 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12125631/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144201019","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Suppression of har-1/CHCHD10 phenotypes for ALS-FTD therapy discovery. 抑制har-1/CHCHD10表型对ALS-FTD治疗的发现
microPublication biology Pub Date : 2025-05-15 eCollection Date: 2025-01-01 DOI: 10.17912/micropub.biology.001598
Audrey Labarre, Ericka Guitard, Gilles Tossing, J Alex Parker
{"title":"Suppression of <i>har-1/CHCHD10</i> phenotypes for ALS-FTD therapy discovery.","authors":"Audrey Labarre, Ericka Guitard, Gilles Tossing, J Alex Parker","doi":"10.17912/micropub.biology.001598","DOIUrl":"10.17912/micropub.biology.001598","url":null,"abstract":"<p><p>Mutations in <i>CHCHD10</i> are linked to a variety of neurodegenerative diseases, including amyotrophic lateral sclerosis and frontotemporal dementia (ALS-FTD). The <i>Caenorhabditis elegans</i> orthologue of <i>CHCHD10</i> is <i>har-1 ,</i> and we investigated whether <i>har-1</i> mutants could be used for therapeutic discovery in ALS-FTD. Our results show that the small molecule pioglitazone and the probiotic <i>Lacticaseibacillus rhamnosus</i> HA-114 can alleviate <i>har-1</i> mutant phenotypes. These findings suggest that <i>har-1</i> mutants are suitable for modifier screens and could be adapted for high-throughput drug screening and microbiome studies to aid in discovering therapies for ALS-FTD.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2025 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12123439/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144201018","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
har-1/CHCHD10 mutations induce neurodegeneration and mitochondrial fragmentation in Caenorhabditis elegans. har1 /CHCHD10突变可诱导秀丽隐杆线虫的神经变性和线粒体断裂。
microPublication biology Pub Date : 2025-05-15 eCollection Date: 2025-01-01 DOI: 10.17912/micropub.biology.001597
Audrey Labarre, Ericka Guitard, Gilles Tossing, J Alex Parker
{"title":"<i>har-1/CHCHD10</i> mutations induce neurodegeneration and mitochondrial fragmentation in <i>Caenorhabditis elegans</i>.","authors":"Audrey Labarre, Ericka Guitard, Gilles Tossing, J Alex Parker","doi":"10.17912/micropub.biology.001597","DOIUrl":"10.17912/micropub.biology.001597","url":null,"abstract":"<p><p><i>CHCHD10</i> encodes a mitochondrial protein that plays a role in cristae morphology and oxidative phosphorylation, with mutations associated with neurodegenerative diseases, including the spectrum of amyotrophic lateral sclerosis and frontotemporal dementia (ALS-FTD). The <i>Caenorhabditis elegans</i> ortholog of <i>CHCHD10</i> is <i>har-1</i> , which can be used to model CHCHD10-related neurodegenerative diseases. We focused on two <i>har-1</i> mutant strains: one featuring a 260 bp deletion ( <i>gk3124</i> ) and the other with a G73E point mutation ( <i>ad2155</i> ). Both <i>har-1</i> mutants displayed progressive paralysis, degeneration of GABAergic motor neurons, and mitochondrial fragmentation. These strains may be valuable tools for investigating pathogenic mechanisms and therapeutic strategies for neurodegenerative diseases.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2025 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12123440/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144201016","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Collaborative research efforts benefit both Primarily Undergraduate Institution faculty and students and a biotechnology company in reproducibility project. 在可重复性项目中，合作研究工作使主要本科院校的教师和学生以及生物技术公司受益。
microPublication biology Pub Date : 2025-05-14 eCollection Date: 2025-01-01 DOI: 10.17912/micropub.biology.001604
Kristen C Johnson, Lori Hensley, Christin Pruett, Lyndsay Avery, Roslyn Crowder, Laura Diaz-Martinez, Rebecca Giorno, Audrey Kim, Paul Kim, Adriana LaGier, Jamie Newman, Elizabeth Padilla-Crespo, Nik Tsotakos, Nathan Reyna
{"title":"Collaborative research efforts benefit both Primarily Undergraduate Institution faculty and students and a biotechnology company in reproducibility project.","authors":"Kristen C Johnson, Lori Hensley, Christin Pruett, Lyndsay Avery, Roslyn Crowder, Laura Diaz-Martinez, Rebecca Giorno, Audrey Kim, Paul Kim, Adriana LaGier, Jamie Newman, Elizabeth Padilla-Crespo, Nik Tsotakos, Nathan Reyna","doi":"10.17912/micropub.biology.001604","DOIUrl":"10.17912/micropub.biology.001604","url":null,"abstract":"<p><p>Undergraduate students often have limited access to industry-focused research opportunities. To address this, faculty and students from 10 primarily undergraduate institutions collaborated with Sampling Human, a biotechnology company, to test a biocytometry workflow for single-cell analysis. The project engaged 15 students with varying levels of research experience and demonstrated that prior research expertise was not essential for successfully using the workflow. Participants followed standardized protocols and generated reproducible data comparable to that of PhD-level scientists. Despite some technical challenges, 91.7% of participants completed the study, showcasing the approachability and reliability of the workflow. This collaboration highlights the potential of industry partnerships to expand research opportunities, enhance academic visibility, and foster academic-corporate co-publications.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2025 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12120560/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144181938","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Associative learning by C. elegans is variable when butanone is paired with starvation. 当丁酮与饥饿配对时，秀丽隐杆线虫的联想学习是可变的。
microPublication biology Pub Date : 2025-05-13 eCollection Date: 2025-01-01 DOI: 10.17912/micropub.biology.001568
Samiha Tasnim, Amber Liu, Antony Jose
{"title":"Associative learning by <i>C. elegans</i> is variable when butanone is paired with starvation.","authors":"Samiha Tasnim, Amber Liu, Antony Jose","doi":"10.17912/micropub.biology.001568","DOIUrl":"10.17912/micropub.biology.001568","url":null,"abstract":"<p><p>The nematode <i>C. elegans</i> has been reported to show a reduction in its preference for the odorant butanone after prior exposure to butanone coupled with starvation. Here we report unexplained variability in such associative learning. Pre-exposure of unfed worms to butanone resulted in different responses during different trials of subsequent chemotaxis assays - from strong avoidance to enhanced attraction. Given this variation in associative learning despite the artificially controlled lab setting, we speculate that in dynamic natural environments such learning might be rare and highlight the challenge in discovering evolutionarily selected mechanisms that could underlie learning in the wild.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2025 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12117385/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144175840","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Investigating the effects of liquid handling robot pipetting speed on yeast growth and gene expression using growth assays and RNA-seq. 利用生长试验和RNA-seq研究液体处理机器人移液速度对酵母生长和基因表达的影响。
microPublication biology Pub Date : 2025-05-13 eCollection Date: 2025-01-01 DOI: 10.17912/micropub.biology.001566
Shodai Taguchi, Ryosuke Matsuzawa, Yasuyuki Suda, Kenji Irie, Haruka Ozaki
{"title":"Investigating the effects of liquid handling robot pipetting speed on yeast growth and gene expression using growth assays and RNA-seq.","authors":"Shodai Taguchi, Ryosuke Matsuzawa, Yasuyuki Suda, Kenji Irie, Haruka Ozaki","doi":"10.17912/micropub.biology.001566","DOIUrl":"10.17912/micropub.biology.001566","url":null,"abstract":"<p><p>Assessing the impact of experimental parameters like pipetting speed is essential in life science research but challenging in manual experiments. Recent advancements in laboratory automation enable precise control and systematic evaluation of these parameters. Here, we employed the Opentrons OT-2, an affordable, open-source liquid handling robot, to systematically investigate the effect of pipetting speed on growth and gene expression in the budding yeast <i>Saccharomyces cerevisiae</i> . Growth assays revealed no significant differences across the tested pipetting speeds (ANOVA, p > 0.05). RNA-seq analysis corroborated these findings, demonstrating highly similar gene expression profiles across all 24 samples (minimum Pearson correlation coefficient = 0.9528), with no differentially expressed genes identified by generalized linear model analysis (false discovery rate > 0.01). Our results highlight the utility of robotic platforms in optimizing experimental parameters, improving reproducibility, and enhancing accuracy in biological research, thus providing valuable insights for future applications.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2025 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12117386/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144175966","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Genomic Complexity of ccdc40 in Xenopus : Implications for CRISPR Targeting and Disease Modeling. 爪蟾ccdc40的基因组复杂性：对CRISPR靶向和疾病建模的影响
microPublication biology Pub Date : 2025-05-09 eCollection Date: 2025-01-01 DOI: 10.17912/micropub.biology.001596
Takuya Nakayama, Saurabh Kulkarni
{"title":"Genomic Complexity of <i>ccdc40</i> in <i>Xenopus</i> : Implications for CRISPR Targeting and Disease Modeling.","authors":"Takuya Nakayama, Saurabh Kulkarni","doi":"10.17912/micropub.biology.001596","DOIUrl":"10.17912/micropub.biology.001596","url":null,"abstract":"<p><p>Mutations in <i>CCDC40</i> cause primary ciliary dyskinesia in humans. To evaluate the pathogenicity of variants in <i>CCDC40</i> , we examined the genomic structure of this gene in <i>Xenopus tropicalis</i> , a diploid frog suitable as a model for genetic studies. We identified inconsistencies in the current <i>ccdc40</i> gene model and discovered two distinct <i>ccdc40</i> genes near the previously annotated locus. Surprisingly, <i>Xenopus</i> <i>laevis</i> , an allotetraploid species that typically has two homoeologs, contains only one homoeolog ( <i>ccdc40.S</i> ), making it a more suitable genetic model for studying <i>ccdc40</i> function and potentially expediting the functional characterization of CCDC40 variants linked to primary ciliary dyskinesia.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2025 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12100157/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144144719","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
UCK2-dependent conversion of cytidine to CTP is required for CTP uptake by Chlamydia trachomatis. 沙眼衣原体摄取CTP需要依赖uck2的胞苷转化为CTP。
microPublication biology Pub Date : 2025-05-09 eCollection Date: 2025-01-01 DOI: 10.17912/micropub.biology.001607
Laure Blanchet, Agathe Subtil
{"title":"UCK2-dependent conversion of cytidine to CTP is required for CTP uptake by <i>Chlamydia trachomatis</i>.","authors":"Laure Blanchet, Agathe Subtil","doi":"10.17912/micropub.biology.001607","DOIUrl":"10.17912/micropub.biology.001607","url":null,"abstract":"<p><p><i>Chlamydia trachomatis</i> , an obligate intracellular bacterium, develops into a vacuolar compartment called the inclusion. The bacteria import nucleoside triphosphates (NTPs) present in the inclusion lumen. It remains unclear whether nucleosides enter the inclusion lumen in their native form or as phosphorylated nucleotides. Using click chemistry coupled with fluorescence microscopy we provide evidence that cytidine requires phosphorylation by host uridine-cytidine kinase 2 (UCK2) prior to its incorporation into bacterial nucleic acids. These findings support the hypothesis that nucleosides are converted into nucleotides in the host cytoplasm prior to translocation into the inclusion lumen. Future work should therefore focus on the identification of nucleotide transporter(s) at the inclusion membrane.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2025 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12102696/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144144773","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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