Biology Open最新文献

Intracellular dynamics of ubiquitin-like 3 visualized using an inducible fluorescent timer expression system. 利用可诱导荧光定时器表达系统观察泛素样 3 的胞内动态。

IF 1.8 4区生物学

Biology Open Pub Date : 2024-11-15 Epub Date: 2024-11-05 DOI: 10.1242/bio.060345

Yuka Terada, Kumi Obara, Yusuke Yoshioka, Takahiro Ochiya, Haruhiko Bito, Kunihiro Tsuchida, Hiroshi Ageta, Natsumi Ageta-Ishihara

{"title":"Intracellular dynamics of ubiquitin-like 3 visualized using an inducible fluorescent timer expression system.","authors":"Yuka Terada, Kumi Obara, Yusuke Yoshioka, Takahiro Ochiya, Haruhiko Bito, Kunihiro Tsuchida, Hiroshi Ageta, Natsumi Ageta-Ishihara","doi":"10.1242/bio.060345","DOIUrl":"10.1242/bio.060345","url":null,"abstract":"Exosomes are small extracellular vesicles (sEVs) secreted via multivesicular bodies (MVBs)/late endosomes and mediators of cell-cell communication. We previously reported a novel post-translational modification by ubiquitin-like 3 (UBL3). UBL3 is localized in MVBs and the plasma membrane and released outside as sEVs, including exosomes. Approximately 60% of proteins sorted in sEVs are affected by UBL3 and localized in various organelles, the plasma membrane, and the cytosol, suggesting that its dynamic movement in the cell before entering the MVBs. To examine the intracellular dynamics of UBL3, we constructed a sophisticated visualization system via fusing fluorescent timers that changed from blue to red form over time with UBL3 and by its expression under Tet-on regulation. Intriguingly, we found that after synthesis, UBL3 was initially distributed within the cytosol. Subsequently, UBL3 was localized to MVBs and the plasma membrane and finally showed predominant accumulation in MVBs. Furthermore, by super-resolution microscopy analysis, UBL3 was found to be associated with one of its substrates, α-tubulin, in the cytosol, and the complex was subsequently transported to MVBs. This spatiotemporal visualization system for UBL3 will form a basis for further studies to elucidate when and where UBL3 associates with its substrates/binding proteins before localization in MVBs.","PeriodicalId":9216,"journal":{"name":"Biology Open","volume":null,"pages":null},"PeriodicalIF":1.8,"publicationDate":"2024-11-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11556312/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142582075","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

Breeding zebra finches prioritize reproductive bout over self-maintenance under food restriction. 在食物受限的情况下，繁殖斑马雀会优先考虑繁殖而不是自我维护。

IF 1.8 4区生物学

Biology Open Pub Date : 2024-11-15 Epub Date: 2024-11-05 DOI: 10.1242/bio.060417

Victoria M Coutts, Kevin Pham, Gabriella Gilbert, Haruka Wada

{"title":"Breeding zebra finches prioritize reproductive bout over self-maintenance under food restriction.","authors":"Victoria M Coutts, Kevin Pham, Gabriella Gilbert, Haruka Wada","doi":"10.1242/bio.060417","DOIUrl":"10.1242/bio.060417","url":null,"abstract":"Reproduction requires high amounts of energy, and challenging environments during breeding can force parents to prioritize their current reproductive bout over self-maintenance or vice versa. However, little is known about how common stressors, such as food restriction, can influence these trade-offs during breeding, and the physiological mechanisms for these trade-off decisions. In this study, adult zebra finches (Taeniopygia castanotis) were subjected to a control diet (ad libitum) or a 40% food restriction while raising nestlings and fledglings, and we measured body mass, furculum fat, plasma corticosterone (CORT) and blood glucose levels of the parents at the time of pairing, when their offspring fledged, and when their offspring reached nutritional independence. We also measured body mass and growth rate in the offspring from hatching until the end of the treatment period. Food-restricted parents had lower body mass when their offspring fledged and reached nutritional independence and higher baseline CORT when their offspring fledged compared to controls. Offspring did not differ in body mass or growth rate between treatment groups. However, there was no effect of food restriction on parents' furculum fat, baseline glucose, the adrenocortical response, or the glucose response. Furthermore, path analysis results suggest that alterations in baseline glucose is the primary driver of changes in body mass in parents and offspring brood mass. Taken together, these results suggest that food restriction during chick rearing in a short-lived passerine drives parents to prioritize their current reproductive bout over self-maintenance, and glucose could potentially be a mechanism for diverting energy toward parental effort.","PeriodicalId":9216,"journal":{"name":"Biology Open","volume":null,"pages":null},"PeriodicalIF":1.8,"publicationDate":"2024-11-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11556311/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142458408","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

Glutaraldehyde-enhanced autofluorescence as a general tool for 3D morphological imaging. 作为三维形态成像通用工具的戊二醛增强自发荧光。

IF 1.8 4区生物学

Biology Open Pub Date : 2024-11-15 Epub Date: 2024-11-11 DOI: 10.1242/bio.060428

Miika Niemeläinen, Anna-Mari Haapanen-Saaristo, Leena M Koskinen, Josef Gullmets, Emilia Peuhu, Annika Meinander, Sara Calhim, Ilkka Paatero

引用次数: 0

Sexual dimorphism and the impact of aging on ball rolling-associated locomotor behavior in Drosophila. 果蝇的性双态性和衰老对滚球相关运动行为的影响

IF 1.8 4区生物学

Biology Open Pub Date : 2024-11-15 Epub Date: 2024-11-13 DOI: 10.1242/bio.060609

Gupta Soyam, Nisha N Kannan

{"title":"Sexual dimorphism and the impact of aging on ball rolling-associated locomotor behavior in Drosophila.","authors":"Gupta Soyam, Nisha N Kannan","doi":"10.1242/bio.060609","DOIUrl":"10.1242/bio.060609","url":null,"abstract":"Insects exhibit a remarkable ability to interact with inanimate objects to facilitate essential behaviors such as foraging, reproduction, shelter building, and defense. In this study, we assessed whether Drosophila interacted with inanimate objects when they were suspended on their wings and provided with a thermocol ball (foam ball). Drosophila indeed exhibited ball rolling behavior. We further examined the sexual dimorphism in this ball rolling-associated locomotor behavior. We carried out a ball rolling assay using 3-day-old male and female w1118 flies and measured the duration for which the flies could roll the ball without dropping it within a 10 min period. The ball was returned to the flies whenever they dropped it, and we calculated the number of times the ball was dropped within the 10 min duration. Females exhibited a longer ball holding duration than males. We also observed a decrease in ball holding duration and an increase in the number of times the ball was dropped by 15-day-old male and female flies than their younger counterparts. These results suggest sexual dimorphism and age-dependent alterations in Drosophila ball rolling-associated locomotor behavior.","PeriodicalId":9216,"journal":{"name":"Biology Open","volume":null,"pages":null},"PeriodicalIF":1.8,"publicationDate":"2024-11-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142458410","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

Does swimming at the bottom serve as a hydraulic advantage for benthic fish Neogobius melanostomus Pallas (1814) in flowing water? 底栖鱼类 Neogobius melanostomus Pallas（1814 年）在流水中的水力优势是在水底游动吗？

IF 1.8 4区生物学

Biology Open Pub Date : 2024-11-15 Epub Date: 2024-10-30 DOI: 10.1242/bio.060533

Nandhakumar Govindasamy, Georg Rauter, Frank Seidel, Patricia Burkhardt-Holm, Philipp E Hirsch, Joschka Wiegleb

{"title":"Does swimming at the bottom serve as a hydraulic advantage for benthic fish Neogobius melanostomus Pallas (1814) in flowing water?","authors":"Nandhakumar Govindasamy, Georg Rauter, Frank Seidel, Patricia Burkhardt-Holm, Philipp E Hirsch, Joschka Wiegleb","doi":"10.1242/bio.060533","DOIUrl":"https://doi.org/10.1242/bio.060533","url":null,"abstract":"Benthic fish, such as the round goby (Neogobius melanostomus Pallas, 1814) tend to swim near the bottom, especially at increased water velocities. To test whether these fish have a hydraulic advantage from swimming near the bottom and how the substrate affects the forces experienced, we measured the hydraulic forces experienced by preserved fish in a flow channel. The fish were tested 5.0 mm above the bottom at smooth and rough surface, and in the water column (10.0 cm elevation) above smooth and rough surface at 0.95 m/s water velocity. No significant effect among the mean hydraulic forces was observed between both fish positions, whereas the mean hydraulic forces in the water column were significantly higher (P<0.05) above the rough surface (mean 0.077 N±0.025 s.d.) than above the smooth surface (mean 0.068 N±0.021 s.d.). A convolutional neural network (CNN) predicted the column smooth treatment was the most characteristic force data time series (mean F1=0.88±0.03 s.d.). We conclude that the body posture and body movements of the fish are more relevant for the hydraulic forces experienced by the fish than the vertical position in the water column. Further factors explaining the affinity to swimming near the bottom are discussed.","PeriodicalId":9216,"journal":{"name":"Biology Open","volume":null,"pages":null},"PeriodicalIF":1.8,"publicationDate":"2024-11-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142543791","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

Winging it: hummingbirds alter flying kinematics during molt. 飞起来蜂鸟在蜕皮过程中改变了飞行运动学。

IF 1.8 4区生物学

Biology Open Pub Date : 2024-11-15 Epub Date: 2024-11-11 DOI: 10.1242/bio.060370

Andrés F Díaz-Salazar, Felipe Garzón-Agudelo, Ashley Smiley, Carlos Daniel Cadena, Alejandro Rico-Guevara

引用次数: 0

Shared and unique consequences of Joubert Syndrome gene dysfunction on the zebrafish central nervous system. 朱伯特综合征基因功能失调对斑马鱼中枢神经系统的共同和独特影响

IF 1.8 4区生物学

Biology Open Pub Date : 2024-11-15 Epub Date: 2024-11-12 DOI: 10.1242/bio.060421

Alexandra R Noble, Markus Masek, Claudia Hofmann, Arianna Cuoco, Tamara D S Rusterholz, Hayriye Özkoc, Nadja R Greter, Ian G Phelps, Nikita Vladimirov, Sepp Kollmorgen, Esther Stoeckli, Ruxandra Bachmann-Gagescu

{"title":"Shared and unique consequences of Joubert Syndrome gene dysfunction on the zebrafish central nervous system.","authors":"Alexandra R Noble, Markus Masek, Claudia Hofmann, Arianna Cuoco, Tamara D S Rusterholz, Hayriye Özkoc, Nadja R Greter, Ian G Phelps, Nikita Vladimirov, Sepp Kollmorgen, Esther Stoeckli, Ruxandra Bachmann-Gagescu","doi":"10.1242/bio.060421","DOIUrl":"10.1242/bio.060421","url":null,"abstract":"Joubert Syndrome (JBTS) is a neurodevelopmental ciliopathy defined by a highly specific midbrain-hindbrain malformation, variably associated with additional neurological features. JBTS displays prominent genetic heterogeneity with >40 causative genes that encode proteins localising to the primary cilium, a sensory organelle that is essential for transduction of signalling pathways during neurodevelopment, among other vital functions. JBTS proteins localise to distinct ciliary subcompartments, suggesting diverse functions in cilium biology. Currently, there is no unifying pathomechanism to explain how dysfunction of such diverse primary cilia-related proteins results in such a highly specific brain abnormality. To identify the shared consequence of JBTS gene dysfunction, we carried out transcriptomic analysis using zebrafish mutants for the JBTS-causative genes cc2d2aw38, cep290fh297, inpp5ezh506, talpid3i264 and togaram1zh510 and the Bardet-Biedl syndrome-causative gene bbs1k742. We identified no commonly dysregulated signalling pathways in these mutants and yet all mutants displayed an enrichment of altered gene sets related to central nervous system function. We found that JBTS mutants have altered primary cilia throughout the brain but do not display abnormal brain morphology. Nonetheless, behavioural analyses revealed reduced locomotion and loss of postural control which, together with the transcriptomic results, hint at underlying abnormalities in neuronal activity and/or neuronal circuit function. These zebrafish models therefore offer the unique opportunity to study the role of primary cilia in neuronal function beyond early patterning, proliferation and differentiation.","PeriodicalId":9216,"journal":{"name":"Biology Open","volume":null,"pages":null},"PeriodicalIF":1.8,"publicationDate":"2024-11-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142458411","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

Reliable yeast replicative lifespan determination with a single-channel microfluidic chip. 利用单通道微流控芯片可靠测定酵母的复制寿命

IF 1.8 4区生物学

Biology Open Pub Date : 2024-10-31 DOI: 10.1242/bio.060596

Valentina Salzman, Moises R Bustamante Torres, Francisco G Correa Tedesco, Nahuel Tarkovski, María J Godás Willems, Joaquín N Bravo, Magalí Mercuri, Dante G Mercado, Guido Berlin, Martín G Bellino, Pablo S Aguilar, Laura C Estrada

{"title":"Reliable yeast replicative lifespan determination with a single-channel microfluidic chip.","authors":"Valentina Salzman, Moises R Bustamante Torres, Francisco G Correa Tedesco, Nahuel Tarkovski, María J Godás Willems, Joaquín N Bravo, Magalí Mercuri, Dante G Mercado, Guido Berlin, Martín G Bellino, Pablo S Aguilar, Laura C Estrada","doi":"10.1242/bio.060596","DOIUrl":"10.1242/bio.060596","url":null,"abstract":"Saccharomyces cerevisiae is a powerful model for aging research due to its short lifespan and genetic malleability. Microfluidic devices offer an attractive approach enabling rapid monitoring of hundreds of cells during their entire replicative lifespan (RLS). Yet, key operational issues such as contaminations, cell loss, and cell aggregates-dependent flow obstruction can hinder RLS experiments. We report the development of a microfluidic device configuration that effectively prevents flow blockage. We conducted comprehensive performance characterization, evaluating trapping efficiency, cell retention, budding orientation, and cell aggregate formation. The optimized device successfully supported long-term culturing and reliable RLS measurements of budding yeast strains. For accurate lifespan determination, a detailed workflow is provided that includes device fabrication, live microscopy setup, and characterization of cell age distribution. This work describes an accessible and reliable microfluidic device for yeast RLS studies, promoting further exploration in aging research.","PeriodicalId":9216,"journal":{"name":"Biology Open","volume":null,"pages":null},"PeriodicalIF":1.8,"publicationDate":"2024-10-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142543790","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

Disrupting the interaction between AMBRA1 and DLC1 prevents apoptosis while enhancing autophagy and mitophagy. 破坏 AMBRA1 和 DLC1 之间的相互作用可防止细胞凋亡，同时增强自噬和有丝分裂。

IF 1.8 4区生物学

Biology Open Pub Date : 2024-10-29 DOI: 10.1242/bio.060380

Kate Hawkins, Meg Watt, Sébastien Gillotin, Maya Hanspal, Martin Helley, Jill Richardson, Nicola Corbett, Janet Brownlees

{"title":"Disrupting the interaction between AMBRA1 and DLC1 prevents apoptosis while enhancing autophagy and mitophagy.","authors":"Kate Hawkins, Meg Watt, Sébastien Gillotin, Maya Hanspal, Martin Helley, Jill Richardson, Nicola Corbett, Janet Brownlees","doi":"10.1242/bio.060380","DOIUrl":"https://doi.org/10.1242/bio.060380","url":null,"abstract":"AMBRA1 has critical roles in autophagy, mitophagy, cell cycle regulation, neurogenesis and apoptosis. Dysregulation of these processes are hallmarks of various neurodegenerative diseases and therefore AMBRA1 represents a potential therapeutic target. The flexibility of its intrinsically disordered regions allows AMBRA1 to undergo conformational changes and thus perform its function as an adaptor protein for various different complexes. Understanding the relevance of these multiple protein-protein interactions will allow us to gain information about which to target pharmacologically. To compare potential AMBRA1 activation strategies we have designed and validated several previously described mutant constructs in addition to characterising their effects on proliferation, apoptosis, autophagy and mitophagy in SHSY5Y cells. AMBRA1TAT, which is a mutant form of AMBRA1 that can't interact with DLC1 at the microtubules, produced the most promising results. Overexpression of this mutant protected cells against apoptosis and induced autophagy/mitophagy in SHSY5Y cells in addition to enhancing the switch from quiescence to proliferation in mouse NSCs. Future studies should focus on designing compounds that inhibit the protein-protein interaction between AMBRA1/DLC1 and thus have potential to be used as a drug strategy for neurodegeneration.","PeriodicalId":9216,"journal":{"name":"Biology Open","volume":null,"pages":null},"PeriodicalIF":1.8,"publicationDate":"2024-10-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142520984","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

Immunofluorescent detection of protein CoAlation in mammalian cells under oxidative stress. 免疫荧光检测氧化应激下哺乳动物细胞中的蛋白质 CoAlation。

IF 1.8 4区生物学

Biology Open Pub Date : 2024-10-15 Epub Date: 2024-09-30 DOI: 10.1242/bio.061685

Oksana Malanchuk, Antonina Khoruzhenko, Viktoriia Kosach, Anna Bdzhola, Dariy Bidiuk, Charlie Brett, Ivan Gout, Valeriy Filonenko

引用次数: 0