首页 > 最新文献

Research square最新文献

英文 中文
Sex specific effects of adoptive Tregs transfer on the brain and periphery in maternal immune activation offspring rescuing immune dysregulation. 过继性Tregs转移在母体免疫激活子代修复免疫失调中的脑和外周的性别特异性作用。
Pub Date : 2026-02-01 DOI: 10.21203/rs.3.rs-8414528/v1
Destanie Rose, Rachel Moreno, Hadley Osman, Megan Rowland, Jill Silverman, Annie Ciernia, Paul Ashwood

Autism spectrum disorder (ASD) is characterized by atypical communication, social interactions, and restricted interests. In ASD, there are dysfunctional immune regulatory control mechanisms that can lead to immune activation. Notably lower frequencies of regulatory T cells (Tregs) and reduced immunosuppressive cytokines are reported and associated with more impaired behaviors impacting both individuals with autism and their families. Therefore, therapeutic approaches that enhance immune regulation may offer substantial benefits. Using the maternal immune activation (MIA) model, we investigated whether adoptive transfer of wildtype Tregs into MIA offspring recipients could rescue immune activation, brain transcriptome changes and behaviors exhibited in adult MIA offspring. We also aimed to explore potential sex-differences in responses. In male but not female MIA offspring, Tregs transfer reduced the frequency of T helper (T H )-17 (RORγT⁺ CD4⁺) T cells in both the mesenteric lymph node (MLN) and spleen. Moreover, the frequency of CD25⁺Foxp3⁺ T cells was increased in the MLN and spleen of male but not female MIA offspring following Treg transfer. Splenocytes from male MIA offspring receiving Tregs showed reduced production of inflammatory cytokines (e.g., IL-6 and TNFα) following PMA/Ionomycin stimulations. In contrast, female MIA offspring that received Tregs exhibited different cytokine profiles characterized by increased production of cytokines, including GM-CSF, IFNγ, and IL-10. In the brain, bulk mRNA sequencing in the cerebellum, frontal cortex, and hippocampus revealed that Tregs-treated male MIA offspring had differentially expressed genes involved in neurodevelopmental disorders, synaptic function, and epigenetic regulation. Minimal gene expression differences were observed in female counterparts. There was significant improvement in self-grooming behaviors in males MIA offspring that received Tregs. In females, social novelty improved after Tregs treatment. In summary, adoptive Tregs transfer reduced systemic inflammation, brain transcription and behavior alterations in a sex dependent manner in the context of MIA. These findings suggest that adoptive Treg transfer may represent a viable therapeutic avenue for mitigating systemic inflammation and comorbidities associated with MIA and neurodevelopmental disorders such as ASD.

自闭症谱系障碍(ASD)的特点是不典型的沟通、社会互动和限制的兴趣。在ASD中,存在功能失调的免疫调节控制机制,可导致免疫激活。值得注意的是,据报道,调节性T细胞(Tregs)和免疫抑制细胞因子的频率较低,这与影响自闭症患者及其家庭的更多受损行为有关。因此,增强免疫调节的治疗方法可能会带来实质性的好处。利用母体免疫激活(MIA)模型,我们研究了将野生型Tregs过继转移到MIA后代受体是否可以挽救成年MIA后代的免疫激活、脑转录组变化和行为。我们还旨在探索反应中潜在的性别差异。在雄性而非雌性MIA后代中,Tregs转移降低了系膜淋巴结(MLN)和脾脏中辅助性T细胞(T H)-17 (RORγT + CD4 +)的频率。此外,在Treg移植后,雄性MIA后代MLN和脾脏中CD25 + Foxp3 + T细胞的频率增加,而雌性MIA后代中CD25 + Foxp3 + T细胞的频率没有增加。接受Tregs的雄性MIA后代的脾细胞在PMA/Ionomycin刺激后显示炎症细胞因子(如IL-6和tnf - α)的产生减少。相比之下,接受Tregs治疗的雌性MIA后代表现出不同的细胞因子特征,其特征是细胞因子的产生增加,包括GM-CSF、IFNγ和IL-10。在大脑中,小脑、额叶皮层和海马的大量mRNA测序显示,tregs治疗的雄性MIA后代具有涉及神经发育障碍、突触功能和表观遗传调控的差异表达基因。在女性同伴中观察到最小的基因表达差异。接受Tregs治疗的MIA雄性后代的自我梳理行为有显著改善。在接受Tregs治疗后,女性的社交新颖性有所改善。总之,在MIA的背景下,过继性Tregs转移以性别依赖的方式减少了全身性炎症、脑转录和行为改变。这些发现表明,过继性Treg转移可能是一种可行的治疗途径,可以减轻全身炎症和与MIA和神经发育障碍(如ASD)相关的合并症。
{"title":"Sex specific effects of adoptive Tregs transfer on the brain and periphery in maternal immune activation offspring rescuing immune dysregulation.","authors":"Destanie Rose, Rachel Moreno, Hadley Osman, Megan Rowland, Jill Silverman, Annie Ciernia, Paul Ashwood","doi":"10.21203/rs.3.rs-8414528/v1","DOIUrl":"https://doi.org/10.21203/rs.3.rs-8414528/v1","url":null,"abstract":"<p><p>Autism spectrum disorder (ASD) is characterized by atypical communication, social interactions, and restricted interests. In ASD, there are dysfunctional immune regulatory control mechanisms that can lead to immune activation. Notably lower frequencies of regulatory T cells (Tregs) and reduced immunosuppressive cytokines are reported and associated with more impaired behaviors impacting both individuals with autism and their families. Therefore, therapeutic approaches that enhance immune regulation may offer substantial benefits. Using the maternal immune activation (MIA) model, we investigated whether adoptive transfer of wildtype Tregs into MIA offspring recipients could rescue immune activation, brain transcriptome changes and behaviors exhibited in adult MIA offspring. We also aimed to explore potential sex-differences in responses. In male but not female MIA offspring, Tregs transfer reduced the frequency of T helper (T <sub>H</sub> )-17 (RORγT⁺ CD4⁺) T cells in both the mesenteric lymph node (MLN) and spleen. Moreover, the frequency of CD25⁺Foxp3⁺ T cells was increased in the MLN and spleen of male but not female MIA offspring following Treg transfer. Splenocytes from male MIA offspring receiving Tregs showed reduced production of inflammatory cytokines (e.g., IL-6 and TNFα) following PMA/Ionomycin stimulations. In contrast, female MIA offspring that received Tregs exhibited different cytokine profiles characterized by increased production of cytokines, including GM-CSF, IFNγ, and IL-10. In the brain, bulk mRNA sequencing in the cerebellum, frontal cortex, and hippocampus revealed that Tregs-treated male MIA offspring had differentially expressed genes involved in neurodevelopmental disorders, synaptic function, and epigenetic regulation. Minimal gene expression differences were observed in female counterparts. There was significant improvement in self-grooming behaviors in males MIA offspring that received Tregs. In females, social novelty improved after Tregs treatment. In summary, adoptive Tregs transfer reduced systemic inflammation, brain transcription and behavior alterations in a sex dependent manner in the context of MIA. These findings suggest that adoptive Treg transfer may represent a viable therapeutic avenue for mitigating systemic inflammation and comorbidities associated with MIA and neurodevelopmental disorders such as ASD.</p>","PeriodicalId":519972,"journal":{"name":"Research square","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2026-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12869585/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146129076","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
Soaking Up Success: Sponge-Assisted Nanoparticle Transfection. 吸收成功:海绵辅助纳米颗粒转染。
Pub Date : 2026-01-30 DOI: 10.21203/rs.3.rs-8428323/v1
Yevgeny Brudno, Rukesh Chinthapatla, Hayden Sandt, Israt Jahan Tulip, Vedamudra Kolluru, Hannah Haynes, Savannah Muron, Sharda Pandit, Christopher Moody, Madelyn VanBlunk, Soumen Saha, Ashutosh Chilkoti, Erin Heinzen, Pritha Agarwalla

Current cell transfection systems face efficiency limitations, particularly for challenging cell types. We present a sponge-assisted transfection method enabling efficient mRNA transfection at nanogram-scale doses-a several orders of magnitude-reduction compared to the microgram quantities typically required by lipid-based and membrane-disruption methods. This approach achieves robust, dose-dependent transfection across difficult-to-transfect cell types, establishing broad applicability for both basic research and therapeutic use.

当前的细胞转染系统面临效率限制,特别是对于具有挑战性的细胞类型。我们提出了一种海绵辅助转染方法,能够在纳克级剂量下高效转染mRNA,与基于脂质和膜破坏的方法通常需要的微克量相比,减少了几个数量级。这种方法在难以转染的细胞类型中实现了稳健的剂量依赖性转染,为基础研究和治疗应用建立了广泛的适用性。
{"title":"Soaking Up Success: Sponge-Assisted Nanoparticle Transfection.","authors":"Yevgeny Brudno, Rukesh Chinthapatla, Hayden Sandt, Israt Jahan Tulip, Vedamudra Kolluru, Hannah Haynes, Savannah Muron, Sharda Pandit, Christopher Moody, Madelyn VanBlunk, Soumen Saha, Ashutosh Chilkoti, Erin Heinzen, Pritha Agarwalla","doi":"10.21203/rs.3.rs-8428323/v1","DOIUrl":"https://doi.org/10.21203/rs.3.rs-8428323/v1","url":null,"abstract":"<p><p>Current cell transfection systems face efficiency limitations, particularly for challenging cell types. We present a sponge-assisted transfection method enabling efficient mRNA transfection at nanogram-scale doses-a several orders of magnitude-reduction compared to the microgram quantities typically required by lipid-based and membrane-disruption methods. This approach achieves robust, dose-dependent transfection across difficult-to-transfect cell types, establishing broad applicability for both basic research and therapeutic use.</p>","PeriodicalId":519972,"journal":{"name":"Research square","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2026-01-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12869581/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146129109","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
Sex differences in self-reported symptoms and comorbidities associated with hypermobile Ehlers-Danlos syndrome and hypermobility spectrum disorders: A retrospective study. 与多动性埃勒-丹洛斯综合征和多动性谱系障碍相关的自我报告症状和合并症的性别差异:一项回顾性研究
Pub Date : 2026-01-30 DOI: 10.21203/rs.3.rs-8310986/v1
Frances C Wilson, Derek J Zangerle, Ashley A Darakjian, Mira Bhutani, Jessica J Fliess, Jessica M Gehin, Max W Strandes, Charwan Hamilton, Hanna J Sledge, David O Hodge, Benjamin W E Wang, Paldeep S Atwal, Ashley M Zeman, Chrisandra L Shufelt, Shilpa N Gajarawala, Katelyn A Bruno, Dacre R T Knight, DeLisa Fairweather

Background: Although hypermobile Ehlers-Danlos syndrome (hEDS) and hypermobility spectrum disorders (HSD) are inherited disorders expected to display a 1:1 sex ratio, most studies report a strong female dominance. This study analyzed sex differences in 122 self-reported symptoms and comorbidities in patients diagnosed with hEDS or HSD using the 2017 criteria.

Methods: Self-reported data was obtained from November 1, 2019, to April 25, 2025, (n=2,451) from an Intake Questionnaire of adult (≤18 years old) patients diagnosed with hEDS or HSD at the EDS Clinic at Mayo Clinic Florida and analyzed by sex.

Results: We found that 90.6% (n=575) of hEDS patients were female and 9.4% (n=60) were male, with a sex ratio of 9.6:1 female-to-male, while 95.2% (n=1,728) of HSD patients were female and 4.8% (n=88) were male, with a sex ratio of 19.6:1 female-to-male. Females were older than males: hEDS 35 vs. 28 years of age (p<0.001), HSD 34 vs. 31 years of age (p=0.004). Overall, females self-reported more symptoms/comorbidities than males: hEDS 31/122 (25.4%), HSD 59/122 (48.4%). In contrast, only 5/122 (4.1%) symptoms/comorbidities were self-reported more often in males including attention deficit disorder/attention deficit hyperactivity disorder, delay in developmental milestones, snoring, autism spectrum disorder, and obstructive sleep apnea. Females with HSD had more mast cell-related symptoms (i.e., hives p<0.001) which were reflected in higher mast cell scores than males (p<0.001). Patients with higher mast cell scores also had higher serum levels of total IgE (p=0.029). More females with HSD were diagnosed with fibromyalgia (p<0.001) and reported symptoms associated with autonomic dysfunction than males. Aside from abuse, which was higher in females (hEDS p=0.039, HSD p<0.001), few sex differences were reported for psychological symptoms/comorbidities. In support for the idea that elevated mast cell activity in females may lead to extracellular matrix remodeling that promotes hypermobility, females with hEDS/HSD had greater serum collagen-4α1 (p<0.0001) and fibronectin (p=0.015) than males by ELISA.

Conclusions: Females with hEDS and HSD report a higher burden of symptoms/comorbidities than males, providing a possible explanation for fewer males being reported in demographic data. Sex differences in symptoms/comorbidities may reflect sex differences in pathogenic drivers of disease.

背景:虽然多动ehers - danlos综合征(hEDS)和多动谱系障碍(HSD)是一种遗传性疾病,预计会显示1:1的性别比例,但大多数研究报告女性占主导地位。本研究分析了使用2017年标准诊断为hEDS或HSD的患者中122例自我报告的症状和合并症的性别差异。方法:从2019年11月1日至2025年4月25日,从佛罗里达州梅奥诊所EDS诊所诊断为hEDS或HSD的成人(≤18岁)患者的摄入问卷中获得自我报告数据(n = 2451),并按性别进行分析。结果:hEDS患者中女性占90.6% (n =575),男性占9.4% (n =60),男女性别比为9.6:1;HSD患者中女性占95.2% (n = 1728),男性占4.8% (n =88),男女性别比为19.6:1。女性年龄大于男性:hEDS为35岁vs. 28岁(p p =0.004)。总体而言,女性自我报告的症状/合并症比男性多:hEDS 31/122 (25.4%), HSD 59/122(48.4%)。相比之下,只有5/122(4.1%)的男性自我报告的症状/合并症包括注意缺陷障碍/注意缺陷多动障碍、发育里程碑延迟、打鼾、自闭症谱系障碍和阻塞性睡眠呼吸暂停。患有HSD的女性有更多肥大细胞相关症状(即荨麻疹p p p =0.029)。ELISA结果显示,HSD患者中女性诊断为纤维肌痛的比例高于男性(p =0.039, HSD p =0.015)。结论:hEDS和HSD女性患者报告的症状/合并症负担高于男性,这可能解释了人口统计数据中男性报告较少的原因。症状/合并症的性别差异可能反映疾病致病因素的性别差异。
{"title":"Sex differences in self-reported symptoms and comorbidities associated with hypermobile Ehlers-Danlos syndrome and hypermobility spectrum disorders: A retrospective study.","authors":"Frances C Wilson, Derek J Zangerle, Ashley A Darakjian, Mira Bhutani, Jessica J Fliess, Jessica M Gehin, Max W Strandes, Charwan Hamilton, Hanna J Sledge, David O Hodge, Benjamin W E Wang, Paldeep S Atwal, Ashley M Zeman, Chrisandra L Shufelt, Shilpa N Gajarawala, Katelyn A Bruno, Dacre R T Knight, DeLisa Fairweather","doi":"10.21203/rs.3.rs-8310986/v1","DOIUrl":"10.21203/rs.3.rs-8310986/v1","url":null,"abstract":"<p><strong>Background: </strong>Although hypermobile Ehlers-Danlos syndrome (hEDS) and hypermobility spectrum disorders (HSD) are inherited disorders expected to display a 1:1 sex ratio, most studies report a strong female dominance. This study analyzed sex differences in 122 self-reported symptoms and comorbidities in patients diagnosed with hEDS or HSD using the 2017 criteria.</p><p><strong>Methods: </strong>Self-reported data was obtained from November 1, 2019, to April 25, 2025, (<i>n</i>=2,451) from an Intake Questionnaire of adult (≤18 years old) patients diagnosed with hEDS or HSD at the EDS Clinic at Mayo Clinic Florida and analyzed by sex.</p><p><strong>Results: </strong>We found that 90.6% (<i>n</i>=575) of hEDS patients were female and 9.4% (<i>n</i>=60) were male, with a sex ratio of 9.6:1 female-to-male, while 95.2% (<i>n</i>=1,728) of HSD patients were female and 4.8% (<i>n</i>=88) were male, with a sex ratio of 19.6:1 female-to-male. Females were older than males: hEDS 35 vs. 28 years of age (<i>p</i><0.001), HSD 34 vs. 31 years of age (<i>p</i>=0.004). Overall, females self-reported more symptoms/comorbidities than males: hEDS 31/122 (25.4%), HSD 59/122 (48.4%). In contrast, only 5/122 (4.1%) symptoms/comorbidities were self-reported more often in males including attention deficit disorder/attention deficit hyperactivity disorder, delay in developmental milestones, snoring, autism spectrum disorder, and obstructive sleep apnea. Females with HSD had more mast cell-related symptoms (i.e., hives <i>p</i><0.001) which were reflected in higher mast cell scores than males (<i>p</i><0.001). Patients with higher mast cell scores also had higher serum levels of total IgE (<i>p</i>=0.029). More females with HSD were diagnosed with fibromyalgia (<i>p</i><0.001) and reported symptoms associated with autonomic dysfunction than males. Aside from abuse, which was higher in females (hEDS <i>p</i>=0.039, HSD <i>p</i><0.001), few sex differences were reported for psychological symptoms/comorbidities. In support for the idea that elevated mast cell activity in females may lead to extracellular matrix remodeling that promotes hypermobility, females with hEDS/HSD had greater serum collagen-4α1 (<i>p</i><0.0001) and fibronectin (<i>p</i>=0.015) than males by ELISA.</p><p><strong>Conclusions: </strong>Females with hEDS and HSD report a higher burden of symptoms/comorbidities than males, providing a possible explanation for fewer males being reported in demographic data. Sex differences in symptoms/comorbidities may reflect sex differences in pathogenic drivers of disease.</p>","PeriodicalId":519972,"journal":{"name":"Research square","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2026-01-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12869590/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146129125","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
Cooperative and Opposing Functions of ANP32E and VPS72 Govern Gene Promoter Chromatin Status. ANP32E和VPS72的合作和对立功能影响基因启动子染色质状态。
Pub Date : 2026-01-30 DOI: 10.21203/rs.3.rs-8398559/v1
Patrick Murphy, Shan Hua, Noah Reger, Vladyslava Sokolova, KaiLieh Huang, MaryClaire Haseley, Mystie Parker, Karli Casler, Dongyan Tan, Eric Wagner

The histone variant H2A.Z resides within active gene promoters, but how it influences chromatin state and nucleosome stability remains poorly understood. Here, we probe two H2A.Z binding proteins with seemingly opposing function: VPS72, an SRCAP subunit that aids in H2A.Z deposition, and ANP32E, a histone chaperone which is thought to remove H2A.Z. Using functional genomics and biochemical assays, we show that VPS72 and ANP32E co-occupy active promoters yet function antagonistically. VPS72 promotes H2A.Z incorporation, acetylation, BRG1 recruitment, and transcription, whereas ANP32E constrains these features by stabilizing nucleosomes. Loss of ANP32E increases VPS72 binding, chromatin accessibility, and transcription, while co-depletion of VPS72 reverses these effects. Reconstitution assays show that ANP32E promotes nucleosome assembly and prevents DNA unwrapping, providing a mechanistic basis for in vivo function. Our results support a model where promoter accessibility arises from antagonistic and cooperative actions, revealing a general paradigm in which counterbalancing factors govern gene regulatory potential.

组蛋白变体H2A。Z存在于活性基因启动子中,但它如何影响染色质状态和核小体稳定性仍然知之甚少。这里,我们探测两个H2A。具有看似相反功能的Z结合蛋白:VPS72, SRCAP亚基,辅助H2A。Z沉积和ANP32E,一种被认为可以去除h2a。Z的组蛋白伴侣。通过功能基因组学和生化分析,我们发现VPS72和ANP32E共同占据活性启动子,但却具有拮抗作用。VPS72促进H2A。Z结合、乙酰化、BRG1招募和转录,而ANP32E通过稳定核小体来限制这些特征。ANP32E的缺失增加了VPS72的结合、染色质可及性和转录,而VPS72的共缺失则逆转了这些作用。重组分析表明,ANP32E促进核小体组装并阻止DNA展开,为体内功能提供了机制基础。我们的研究结果支持一个启动子可及性产生于拮抗和合作行为的模型,揭示了一个平衡因素控制基因调控潜力的一般范例。
{"title":"Cooperative and Opposing Functions of ANP32E and VPS72 Govern Gene Promoter Chromatin Status.","authors":"Patrick Murphy, Shan Hua, Noah Reger, Vladyslava Sokolova, KaiLieh Huang, MaryClaire Haseley, Mystie Parker, Karli Casler, Dongyan Tan, Eric Wagner","doi":"10.21203/rs.3.rs-8398559/v1","DOIUrl":"https://doi.org/10.21203/rs.3.rs-8398559/v1","url":null,"abstract":"<p><p>The histone variant H2A.Z resides within active gene promoters, but how it influences chromatin state and nucleosome stability remains poorly understood. Here, we probe two H2A.Z binding proteins with seemingly opposing function: VPS72, an SRCAP subunit that aids in H2A.Z deposition, and ANP32E, a histone chaperone which is thought to remove H2A.Z. Using functional genomics and biochemical assays, we show that VPS72 and ANP32E co-occupy active promoters yet function antagonistically. VPS72 promotes H2A.Z incorporation, acetylation, BRG1 recruitment, and transcription, whereas ANP32E constrains these features by stabilizing nucleosomes. Loss of ANP32E increases VPS72 binding, chromatin accessibility, and transcription, while co-depletion of VPS72 reverses these effects. Reconstitution assays show that ANP32E promotes nucleosome assembly and prevents DNA unwrapping, providing a mechanistic basis for <i>in vivo</i> function. Our results support a model where promoter accessibility arises from antagonistic and cooperative actions, revealing a general paradigm in which counterbalancing factors govern gene regulatory potential.</p>","PeriodicalId":519972,"journal":{"name":"Research square","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2026-01-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12869565/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146128810","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
High-resolution binding data of TFIID and cofactors show promoter-specific differences in vivo. TFIID和辅助因子的高分辨率结合数据显示了体内启动子特异性差异。
Pub Date : 2026-01-30 DOI: 10.21203/rs.3.rs-8428476/v1
Julia Zeitlinger, Sergio García-Moreno Alcántara, Simon Bourdareau, Melanie Weilert

TFIID is instrumental in recognizing promoter sequences and initiating transcription, yet a cohesive understanding of how this complex interacts with and functions at different promoter types in vivo is still lacking. Here, we employed ChIP-nexus to capture high resolution binding footprints of all Drosophila TFIID subunits across the genome. These footprints reveal TFIID sub-modules whose DNA contacts suggest new structural details. At different promoter types, the footprints of the TAFs are very similar, suggesting the presence of engaged TFIID across all promoters. In contrast, the binding profile of TBP is promoter-specific, enabling us to identify TATA, DPR, and TCT/housekeeping promoters de novo, along with their underlying core promoter elements. Notably, our data point to NC2 being specific for TBP binding at the TATA box and suggest that TATA promoters show both TAF-dependent and TAF-independent initiation in vivo. These data suggest a model for the increased burst size observed at TATA promoters and provide a comprehensive resource for linking structural and biochemical results to in vivo data.

TFIID在识别启动子序列和启动转录方面发挥着重要作用,但对于该复合物如何与体内不同类型的启动子相互作用和起作用,目前仍缺乏完整的理解。在这里,我们使用ChIP-nexus捕获整个基因组中所有果蝇TFIID亚基的高分辨率结合足迹。这些足迹揭示了TFIID子模块,其DNA接触暗示了新的结构细节。在不同的启动子类型中,TAFs的足迹非常相似,这表明在所有启动子中都存在参与的TFIID。相比之下,TBP的结合谱是特定于启动子的,这使我们能够从头识别TATA、DPR和TCT/管家启动子,以及它们潜在的核心启动子元素。值得注意的是,我们的数据表明NC2对TATA盒上的TBP结合具有特异性,并表明TATA启动子在体内既表现出taf依赖性启动,也表现出taf非依赖性启动。这些数据提示了在TATA启动子中观察到的爆发大小增加的模型,并为将结构和生化结果与体内数据联系起来提供了全面的资源。
{"title":"High-resolution binding data of TFIID and cofactors show promoter-specific differences in vivo.","authors":"Julia Zeitlinger, Sergio García-Moreno Alcántara, Simon Bourdareau, Melanie Weilert","doi":"10.21203/rs.3.rs-8428476/v1","DOIUrl":"https://doi.org/10.21203/rs.3.rs-8428476/v1","url":null,"abstract":"<p><p>TFIID is instrumental in recognizing promoter sequences and initiating transcription, yet a cohesive understanding of how this complex interacts with and functions at different promoter types in vivo is still lacking. Here, we employed ChIP-nexus to capture high resolution binding footprints of all Drosophila TFIID subunits across the genome. These footprints reveal TFIID sub-modules whose DNA contacts suggest new structural details. At different promoter types, the footprints of the TAFs are very similar, suggesting the presence of engaged TFIID across all promoters. In contrast, the binding profile of TBP is promoter-specific, enabling us to identify TATA, DPR, and TCT/housekeeping promoters de novo, along with their underlying core promoter elements. Notably, our data point to NC2 being specific for TBP binding at the TATA box and suggest that TATA promoters show both TAF-dependent and TAF-independent initiation in vivo. These data suggest a model for the increased burst size observed at TATA promoters and provide a comprehensive resource for linking structural and biochemical results to in vivo data.</p>","PeriodicalId":519972,"journal":{"name":"Research square","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2026-01-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12869606/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146129000","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
Coordination of spike timing among the neurons of the cerebellum. 小脑神经元间脉冲时间的协调。
Pub Date : 2026-01-30 DOI: 10.21203/rs.3.rs-8681449/v1
Reza Shadmehr, Mohammad Amin Fakharian, Elijah Taeckens, Alexander Vasserman, Alden Shoup

We tend to think of neurons as either excitatory or inhibitory, but certain neurons chemically inhibit their downstream targets while electrically exciting their neighbors. For example, in the cerebellum, molecular layer interneurons (MLIs) inhibit Purkinje cells (P-cells) via release of GABA but promote spiking in each other via gap junctions. What is gained by having an inhibitory neuron excite its neighbor? Here, we recorded activities of P-cells and MLIs as marmosets performed saccadic eye movements and found that spike timing in pairs of neighboring neurons of the same type exhibited a mathematical regularity: as firing rates increased, rate of spikes that were within 1ms of each other grew disproportionately while 2-4ms intervals were suppressed. To uncover the purpose of this coordination, during saccades we recorded thousands of neuron triplets in which two MLIs converged onto a single target P-cell. When the MLIs spiked within 1ms of each other, they produced superposition of their individual effects on their target; a deep inhibition followed by a post-inhibitory rebound. However, when the MLIs spiked 2-4ms apart, the two spikes interfered with each other, producing partial cancellation. Thus, electrical coupling between inhibitory neurons orchestrated their spike timing so that as firing rates increased, the temporal intervals that induced constructive superposition were promoted while the intervals that caused destructive competition were suppressed.

我们倾向于认为神经元要么是兴奋性的,要么是抑制性的,但某些神经元在化学上抑制它们的下游目标,同时电刺激它们的邻居。例如,在小脑中,分子层中间神经元(MLIs)通过释放GABA抑制浦肯野细胞(p细胞),但通过间隙连接促进彼此之间的尖峰。抑制性神经元刺激它的邻居会得到什么?在这里,我们记录了狨猴进行跳眼运动时p细胞和MLIs的活动,发现相邻的同类型神经元成对的峰值时间表现出数学规律:随着放电速率的增加,间隔在1ms内的峰值速率不成比例地增长,而间隔在2-4ms的峰值被抑制。为了揭示这种协调的目的,在扫视期间,我们记录了数千个神经元三胞胎,其中两个mli聚合到单个目标p细胞上。当MLIs在彼此相距1毫秒的范围内出现峰值时,它们对目标产生了各自效应的叠加;深度抑制之后是抑制后反弹。然而,当mli峰值间隔2-4ms时,两个峰值相互干扰,产生部分抵消。因此,抑制性神经元之间的电耦合协调了它们的峰值时间,因此随着放电率的增加,诱发建设性叠加的时间间隔被提升,而引起破坏性竞争的时间间隔被抑制。
{"title":"Coordination of spike timing among the neurons of the cerebellum.","authors":"Reza Shadmehr, Mohammad Amin Fakharian, Elijah Taeckens, Alexander Vasserman, Alden Shoup","doi":"10.21203/rs.3.rs-8681449/v1","DOIUrl":"https://doi.org/10.21203/rs.3.rs-8681449/v1","url":null,"abstract":"<p><p>We tend to think of neurons as either excitatory or inhibitory, but certain neurons chemically inhibit their downstream targets while electrically exciting their neighbors. For example, in the cerebellum, molecular layer interneurons (MLIs) inhibit Purkinje cells (P-cells) via release of GABA but promote spiking in each other via gap junctions. What is gained by having an inhibitory neuron excite its neighbor? Here, we recorded activities of P-cells and MLIs as marmosets performed saccadic eye movements and found that spike timing in pairs of neighboring neurons of the same type exhibited a mathematical regularity: as firing rates increased, rate of spikes that were within 1ms of each other grew disproportionately while 2-4ms intervals were suppressed. To uncover the purpose of this coordination, during saccades we recorded thousands of neuron triplets in which two MLIs converged onto a single target P-cell. When the MLIs spiked within 1ms of each other, they produced superposition of their individual effects on their target; a deep inhibition followed by a post-inhibitory rebound. However, when the MLIs spiked 2-4ms apart, the two spikes interfered with each other, producing partial cancellation. Thus, electrical coupling between inhibitory neurons orchestrated their spike timing so that as firing rates increased, the temporal intervals that induced constructive superposition were promoted while the intervals that caused destructive competition were suppressed.</p>","PeriodicalId":519972,"journal":{"name":"Research square","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2026-01-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12869569/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146128893","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
Low-density asymptomatic parasitemia in southern Zambia does not lead to clinical malaria and is not associated with household transmission: results from a two-year cohort study. 赞比亚南部低密度无症状寄生虫病不会导致临床疟疾,也与家庭传播无关:来自一项为期两年的队列研究的结果。
Pub Date : 2026-01-30 DOI: 10.21203/rs.3.rs-8641961/v1
Jessica L Schue, Anne C Martin, Japhet Matoba, Caison Sing'anga, Mukuma Lubinda, Ben Katowa, Michael Musonda, Sophie Berube, Timothy Shields, Tamaki Kobayashi, Harry Hamapumbu, Edgar Simulundu, Douglas E Norris, Amy Wesolowksi, William J Moss

Background In low malaria transmission settings targeting elimination, the World Health Organization recommends a combination of mass (e.g., mass test-and-treat), targeted (e.g., chemoprophylaxis or treatment for travelers), and reactive (e.g., reactive drug administration) strategies. Most of these strategies would not identify and treat individuals with asymptomatic parasitemia. This study was conducted in a pre-elimination setting in Southern Province, Zambia to examine risk factors for asymptomatic parasitemia, its epidemiologic relationship to incident clinical malaria, and evidence of its contribution to ongoing transmission to inform policy on whether these parasitemic individuals need to be identified and treated to achieve malaria elimination. Methods An intensive longitudinal cohort study of 197 households within the catchment area of a single health center was designed to capture all clinical malaria cases and episodes of asymptomatic parasitemia between 2018 and 2020. During monthly collections, all household members and overnight visitors were administered a questionnaire and a blood sample was collected to identify Plasmodium falciparum parasitemia by qPCR. Passive surveillance was also established at the local health center to identify cases of clinical malaria. The statistical analysis examined risk factors for parasitemia and associations between asymptomatic parasitemia and subsequent episodes of clinical malaria within individuals and parasitemia in household members. Results Of the 1071 individuals enrolled in the cohort, 144 (13%) were positive by qPCR for P. falciparum at least once during the two-year study period. Monthly parasite prevalence by qPCR never exceeded 4% and parasite density was very low with a median of four parasites/µL. Incidence of self-reported clinical malaria was 46.7 cases per 1000 person-years. Low-density asymptomatic parasitemia was identified in all age groups, including young children. There was no association between asymptomatic parasitemia and clinical malaria within individuals, nor was there an association between asymptomatic parasitemia and subsequent parasitemia in household members beyond one month of the index case. Conclusion Low-level parasitemia was prevalent despite few cases of clinical malaria in this low transmission setting. There was no evidence that low-level asymptomatic parasitemia led to clinical cases of malaria or transmission to other household members.

背景:在以消除疟疾为目标的低疟疾传播环境中,世界卫生组织建议采用大规模(如大规模检测和治疗)、针对性(如对旅行者进行化学预防或治疗)和反应性(如反应性药物管理)战略相结合的方法。大多数这些策略不能识别和治疗无症状寄生虫病患者。本研究是在赞比亚南部省的消除前环境中进行的,目的是检查无症状寄生虫病的危险因素、其与临床疟疾事件的流行病学关系,以及其对持续传播的影响,从而为是否需要识别和治疗这些寄生虫个体以实现消除疟疾的政策提供信息。方法对某卫生中心集水区197户家庭进行纵向队列研究,收集2018 - 2020年所有临床疟疾病例和无症状寄生虫病发作情况。在每月收集期间,对所有家庭成员和过夜访客进行问卷调查,并采集血样,通过qPCR方法鉴定恶性疟原虫寄生虫病。还在地方保健中心建立了被动监测,以确定临床疟疾病例。统计分析检查了寄生虫病的危险因素,以及个人无症状寄生虫病和随后的临床疟疾发作与家庭成员寄生虫病之间的关联。结果在纳入的1071名个体中,144名(13%)在两年的研究期间至少一次通过qPCR检测恶性疟原虫呈阳性。qPCR检测的月寄生虫流行率从未超过4%,寄生虫密度非常低,中位数为4只/µL。自我报告的临床疟疾发病率为每1000人年46.7例。在包括幼儿在内的所有年龄组中均发现低密度无症状寄生虫病。无症状寄生虫病与个体内的临床疟疾之间没有关联,无症状寄生虫病与随后在指示病例发生一个月后的家庭成员中出现寄生虫病之间也没有关联。结论该地区临床疟疾病例较少,但低水平寄生虫病普遍存在。没有证据表明低水平无症状寄生虫病导致疟疾临床病例或传播给其他家庭成员。
{"title":"Low-density asymptomatic parasitemia in southern Zambia does not lead to clinical malaria and is not associated with household transmission: results from a two-year cohort study.","authors":"Jessica L Schue, Anne C Martin, Japhet Matoba, Caison Sing'anga, Mukuma Lubinda, Ben Katowa, Michael Musonda, Sophie Berube, Timothy Shields, Tamaki Kobayashi, Harry Hamapumbu, Edgar Simulundu, Douglas E Norris, Amy Wesolowksi, William J Moss","doi":"10.21203/rs.3.rs-8641961/v1","DOIUrl":"https://doi.org/10.21203/rs.3.rs-8641961/v1","url":null,"abstract":"<p><p>Background In low malaria transmission settings targeting elimination, the World Health Organization recommends a combination of mass (e.g., mass test-and-treat), targeted (e.g., chemoprophylaxis or treatment for travelers), and reactive (e.g., reactive drug administration) strategies. Most of these strategies would not identify and treat individuals with asymptomatic parasitemia. This study was conducted in a pre-elimination setting in Southern Province, Zambia to examine risk factors for asymptomatic parasitemia, its epidemiologic relationship to incident clinical malaria, and evidence of its contribution to ongoing transmission to inform policy on whether these parasitemic individuals need to be identified and treated to achieve malaria elimination. Methods An intensive longitudinal cohort study of 197 households within the catchment area of a single health center was designed to capture all clinical malaria cases and episodes of asymptomatic parasitemia between 2018 and 2020. During monthly collections, all household members and overnight visitors were administered a questionnaire and a blood sample was collected to identify <i>Plasmodium falciparum</i> parasitemia by qPCR. Passive surveillance was also established at the local health center to identify cases of clinical malaria. The statistical analysis examined risk factors for parasitemia and associations between asymptomatic parasitemia and subsequent episodes of clinical malaria within individuals and parasitemia in household members. Results Of the 1071 individuals enrolled in the cohort, 144 (13%) were positive by qPCR for <i>P. falciparum</i> at least once during the two-year study period. Monthly parasite prevalence by qPCR never exceeded 4% and parasite density was very low with a median of four parasites/µL. Incidence of self-reported clinical malaria was 46.7 cases per 1000 person-years. Low-density asymptomatic parasitemia was identified in all age groups, including young children. There was no association between asymptomatic parasitemia and clinical malaria within individuals, nor was there an association between asymptomatic parasitemia and subsequent parasitemia in household members beyond one month of the index case. Conclusion Low-level parasitemia was prevalent despite few cases of clinical malaria in this low transmission setting. There was no evidence that low-level asymptomatic parasitemia led to clinical cases of malaria or transmission to other household members.</p>","PeriodicalId":519972,"journal":{"name":"Research square","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2026-01-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12869586/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146128896","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
Intrinsic tumor factors and extrinsic environmental and social exposures contribute to endometrial cancer recurrence patterns. 内在的肿瘤因素和外在的环境和社会暴露有助于子宫内膜癌的复发模式。
Pub Date : 2026-01-30 DOI: 10.21203/rs.3.rs-8682460/v1
Jesus Gonzalez Bosquet, Oyomoare Osazuwa-Peters, Vincent M Wagner, Andrew Polio, Rebecca Hoyd, Ahmad A Tarhini, Casey M Cosgrove, Marilyn S Huang, Bradley R Corr, Aliza L Leiser, Bodour Salhia, Kathleen Darcy, Rob L Dood, Lauren E Dockery, Michael J Cavnar, Lisa Landrum, Laura Chambers, Aik Choon Tan, Ning Jin, Robert J Rounbehler, Michelle L Churchman, Dan Spakowicz
<p><p>Purpose In a previous study, we trained, validated and tested models of endometrial cancer (EC) recurrence integrating clinical, genomic and pathological data from the Oncology Research Information Exchange Network (ORIEN). Preliminary studies also have demonstrated that bacterial communities may influence the risk of EC recurrence by altering the local environment within the upper female genital tract. The objective of this study was to evaluate whether extrinsic and environmental factors, including tumor-associated bacterial communities, tumor immune contexture and air pollution alongside clinical, pathologic and genomic features are associated with EC recurrence across clinically relevant risk groups. Patients and Methods: We performed a retrospective, multi-institution, case-control study with data from the ORIEN network EC dataset. Data was stratified into low-risk, FIGO grade 1 and 2, stage I (N = 329), high-risk, or FIGO grade 3 or stages II-IV (N = 324), and non-endometrioid histology (N = 239) groups. RNA and DNA were extracted from tumor specimens and processed to obtain the necessary genomic/metagenomic data. Genus level microbiome data were extracted and curated) from RNA sequencing using <i>Kraken2</i> , <i>Bracken</i> and <i>exotic</i> software packages. Risk of EC recurrence was evaluated by integrating microbiome and environmental data alongside existing clinical, pathological and genomic data using topic modelling with latent dirichlet allocation (LDA). Prediction models of EC recurrence were created using machine and deep learning analytics (ML and DL) with <i>MATLAB</i> apps and <i>TensorFlow</i> . Finally, performance of both topic and prediction models were externally validated in an independent EC dataset from TCGA. Results The resulting models, analyzed with topic modelling, demonstrated the complexity of factors involved in recurrence of disease for EC. The components of the resulting topic models, and specifically the microbiome, changed when environmental factors, like air pollutants, were introduced in the model. In the low-risk EC group, microbes that were quite abundant in models before introducing environmental factors, were scarcely seen afterwards, like genera <i>Thermothielavioides</i> , <i>Theileria</i> , <i>Rhizoctonia</i> . <i>Bacillus</i> was the genus with higher per-topic probability within all risk groups, especially for low-risk EC (28%). Ozone (O <sub>3</sub> ) was a resulting component of all risk groups' models. BMI was the sole informative clinical variable after data integration, and only present in the low-risk group. Resulting models from the high-risk and non-endometrioid groups included differential gene expressions: <i>MMP13, S100A7, SMOC1, ACACA</i> and <i>ADD2, DLX5, SLCO2B1, NWD1</i> respectively. CNVs also were present in both low-risk and non-endometrioid groups, but their per-topic probabilities were low. The same was true for the immune contexture data. The components of the resultin
在之前的一项研究中,我们结合肿瘤研究信息交换网络(ORIEN)的临床、基因组和病理数据,训练、验证和测试了子宫内膜癌(EC)复发模型。初步研究还表明,细菌群落可能通过改变女性上生殖道内的局部环境来影响EC复发的风险。本研究的目的是评估外在因素和环境因素,包括肿瘤相关的细菌群落、肿瘤免疫环境、空气污染以及临床、病理和基因组特征是否与临床相关危险组的EC复发有关。患者和方法:我们进行了一项回顾性、多机构、病例对照研究,数据来自ORIEN网络EC数据集。数据分为低危组、FIGO 1级和2级组、I期组(N = 329)、高危组、FIGO 3级组或II-IV期组(N = 324)和非子宫内膜样组织学组(N = 239)。从肿瘤标本中提取RNA和DNA并进行处理以获得必要的基因组/宏基因组数据。利用Kraken2、Bracken和exotic软件包从RNA测序中提取和整理属级微生物组数据。利用潜在狄利克雷分配(latent dirichlet allocation, LDA)的主题模型,综合微生物组和环境数据以及现有的临床、病理和基因组数据,评估EC复发的风险。使用机器和深度学习分析(ML和DL)与MATLAB应用程序和TensorFlow创建EC递归预测模型。最后,在TCGA独立的EC数据集中对主题模型和预测模型的性能进行了外部验证。结果所建立的模型经主题建模分析,显示了影响EC复发因素的复杂性。当模型中引入空气污染物等环境因素时,生成的主题模型的组成部分,特别是微生物组,会发生变化。在低风险EC组中,在引入环境因素之前在模型中相当丰富的微生物,在引入环境因素之后几乎看不到,如Thermothielavioides属、Theileria属、Rhizoctonia属。在所有风险组中,芽孢杆菌属的每主题概率较高,特别是在低风险EC中(28%)。臭氧(o3)是所有风险群体模型的结果组成部分。在数据整合后,BMI是唯一的临床变量,且仅存在于低危组。来自高危组和非子宫内膜样组的模型包括差异基因表达:MMP13、S100A7、SMOC1、ACACA和ADD2、DLX5、SLCO2B1、NWD1。在低风险和非子宫内膜异位症组中也存在CNVs,但其每个主题的概率较低。免疫环境数据也是如此。所得到的主题模型的组成部分用于训练、验证和测试按风险组预测EC复发的模型。这些模型的性能都很好(@ 0.9)。尽管从得到的主题模型中缺少TCGA中的微生物组数据,但在ORIEN集中训练的预测模型在TCGA测试集中具有相似的性能,重叠的AUC为95% ci。结论外因因素(肿瘤相关菌群、肿瘤免疫环境和空气污染)和内因因素均可预测EC的复发。影响癌症复发的肿瘤和宿主因素的复杂性强调了对疾病结果的更个性化预测模型的需求。
{"title":"Intrinsic tumor factors and extrinsic environmental and social exposures contribute to endometrial cancer recurrence patterns.","authors":"Jesus Gonzalez Bosquet, Oyomoare Osazuwa-Peters, Vincent M Wagner, Andrew Polio, Rebecca Hoyd, Ahmad A Tarhini, Casey M Cosgrove, Marilyn S Huang, Bradley R Corr, Aliza L Leiser, Bodour Salhia, Kathleen Darcy, Rob L Dood, Lauren E Dockery, Michael J Cavnar, Lisa Landrum, Laura Chambers, Aik Choon Tan, Ning Jin, Robert J Rounbehler, Michelle L Churchman, Dan Spakowicz","doi":"10.21203/rs.3.rs-8682460/v1","DOIUrl":"https://doi.org/10.21203/rs.3.rs-8682460/v1","url":null,"abstract":"&lt;p&gt;&lt;p&gt;Purpose In a previous study, we trained, validated and tested models of endometrial cancer (EC) recurrence integrating clinical, genomic and pathological data from the Oncology Research Information Exchange Network (ORIEN). Preliminary studies also have demonstrated that bacterial communities may influence the risk of EC recurrence by altering the local environment within the upper female genital tract. The objective of this study was to evaluate whether extrinsic and environmental factors, including tumor-associated bacterial communities, tumor immune contexture and air pollution alongside clinical, pathologic and genomic features are associated with EC recurrence across clinically relevant risk groups. Patients and Methods: We performed a retrospective, multi-institution, case-control study with data from the ORIEN network EC dataset. Data was stratified into low-risk, FIGO grade 1 and 2, stage I (N = 329), high-risk, or FIGO grade 3 or stages II-IV (N = 324), and non-endometrioid histology (N = 239) groups. RNA and DNA were extracted from tumor specimens and processed to obtain the necessary genomic/metagenomic data. Genus level microbiome data were extracted and curated) from RNA sequencing using &lt;i&gt;Kraken2&lt;/i&gt; , &lt;i&gt;Bracken&lt;/i&gt; and &lt;i&gt;exotic&lt;/i&gt; software packages. Risk of EC recurrence was evaluated by integrating microbiome and environmental data alongside existing clinical, pathological and genomic data using topic modelling with latent dirichlet allocation (LDA). Prediction models of EC recurrence were created using machine and deep learning analytics (ML and DL) with &lt;i&gt;MATLAB&lt;/i&gt; apps and &lt;i&gt;TensorFlow&lt;/i&gt; . Finally, performance of both topic and prediction models were externally validated in an independent EC dataset from TCGA. Results The resulting models, analyzed with topic modelling, demonstrated the complexity of factors involved in recurrence of disease for EC. The components of the resulting topic models, and specifically the microbiome, changed when environmental factors, like air pollutants, were introduced in the model. In the low-risk EC group, microbes that were quite abundant in models before introducing environmental factors, were scarcely seen afterwards, like genera &lt;i&gt;Thermothielavioides&lt;/i&gt; , &lt;i&gt;Theileria&lt;/i&gt; , &lt;i&gt;Rhizoctonia&lt;/i&gt; . &lt;i&gt;Bacillus&lt;/i&gt; was the genus with higher per-topic probability within all risk groups, especially for low-risk EC (28%). Ozone (O &lt;sub&gt;3&lt;/sub&gt; ) was a resulting component of all risk groups' models. BMI was the sole informative clinical variable after data integration, and only present in the low-risk group. Resulting models from the high-risk and non-endometrioid groups included differential gene expressions: &lt;i&gt;MMP13, S100A7, SMOC1, ACACA&lt;/i&gt; and &lt;i&gt;ADD2, DLX5, SLCO2B1, NWD1&lt;/i&gt; respectively. CNVs also were present in both low-risk and non-endometrioid groups, but their per-topic probabilities were low. The same was true for the immune contexture data. The components of the resultin","PeriodicalId":519972,"journal":{"name":"Research square","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2026-01-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12869553/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146128607","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
Cervical Cancer Screening Rates and Associated Sociodemographic and Behavioral Factors among People Experiencing Homelessness in Indiana. 印第安纳州无家可归者的子宫颈癌筛查率及相关社会人口和行为因素
Pub Date : 2026-01-30 DOI: 10.21203/rs.3.rs-8524257/v1
Natalia M Rodriguez, Xue Case, Lara Balian, Rebecca Ziolkowski, Kalesia Smith, Janelle Tipton

Objective To estimate cervical cancer screening rates, prevalence of risk factors, and factors associated with being overdue for screening among people experiencing homelessness in two Indiana cities. Methods Rapid assessment surveys were conducted at two large homelessness service agencies in Indianapolis and Lafayette, Indiana (November 2023 to November 2024). Participants were aged 21-69 years, assigned female at birth, and currently experiencing homelessness. Screening status was categorized as up-to-date (screened within 5 years) or overdue (more than 5 years or never screened). Descriptive statistics and multivariable logistic regression examined predictors of being overdue. Results Among n = 212 participants, 35% were overdue and 49% had not been screened within 3 years. Prevalence of risk factors was high, including smoking (74%), sexual debut before age 18 (73%), and no HPV vaccination (75%). Older age and having experienced homelessness for 5 years or more were associated with higher odds of being overdue. Conclusions Longer duration of homelessness significantly increased the likelihood of being overdue for cervical cancer screening, underscoring the cumulative disadvantage of chronic housing instability. Cervical cancer prevention is a critical unmet need among women experiencing homelessness, and findings highlight the importance of developing targeted interventions to improve screening access in this population.

目的评估印第安纳州两个城市无家可归者的宫颈癌筛查率、危险因素的流行程度以及与筛查逾期相关的因素。方法于2023年11月至2024年11月在印第安纳波利斯和拉斐特两家大型无家可归者服务机构进行快速评估调查。参与者年龄在21-69岁之间,出生时被指定为女性,目前正在经历无家可归。筛查状态分为最新(5年内筛查)或过期(5年以上或从未筛查)。描述性统计和多变量逻辑回归检验了逾期的预测因子。结果在212名参与者中,35%逾期,49%在3年内未筛查。流行的危险因素很高,包括吸烟(74%)、18岁前性行为(73%)和未接种HPV疫苗(75%)。年龄较大和无家可归5年或更长时间的人逾期还款的几率更高。结论:较长的无家可归时间显著增加了宫颈癌筛查逾期的可能性,强调了慢性住房不稳定的累积劣势。在无家可归的妇女中,预防宫颈癌是一个关键的未满足的需求,研究结果强调了制定有针对性的干预措施以改善这一人群的筛查机会的重要性。
{"title":"Cervical Cancer Screening Rates and Associated Sociodemographic and Behavioral Factors among People Experiencing Homelessness in Indiana.","authors":"Natalia M Rodriguez, Xue Case, Lara Balian, Rebecca Ziolkowski, Kalesia Smith, Janelle Tipton","doi":"10.21203/rs.3.rs-8524257/v1","DOIUrl":"https://doi.org/10.21203/rs.3.rs-8524257/v1","url":null,"abstract":"<p><p>Objective To estimate cervical cancer screening rates, prevalence of risk factors, and factors associated with being overdue for screening among people experiencing homelessness in two Indiana cities. Methods Rapid assessment surveys were conducted at two large homelessness service agencies in Indianapolis and Lafayette, Indiana (November 2023 to November 2024). Participants were aged 21-69 years, assigned female at birth, and currently experiencing homelessness. Screening status was categorized as up-to-date (screened within 5 years) or overdue (more than 5 years or never screened). Descriptive statistics and multivariable logistic regression examined predictors of being overdue. Results Among n = 212 participants, 35% were overdue and 49% had not been screened within 3 years. Prevalence of risk factors was high, including smoking (74%), sexual debut before age 18 (73%), and no HPV vaccination (75%). Older age and having experienced homelessness for 5 years or more were associated with higher odds of being overdue. Conclusions Longer duration of homelessness significantly increased the likelihood of being overdue for cervical cancer screening, underscoring the cumulative disadvantage of chronic housing instability. Cervical cancer prevention is a critical unmet need among women experiencing homelessness, and findings highlight the importance of developing targeted interventions to improve screening access in this population.</p>","PeriodicalId":519972,"journal":{"name":"Research square","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2026-01-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12869572/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146128334","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
PTEN-AKT2 Regulates Mixed Lineage Liver Cancer Development and Sensitizes Cancer Cells to TGFβ Treatment. PTEN-AKT2调节混合谱系肝癌的发展并使癌细胞对TGFβ治疗敏感。
Pub Date : 2026-01-30 DOI: 10.21203/rs.3.rs-8697220/v1
Bangyan Stiles, Qi Tang, Ielyzaveta Slarve, Jingyu Chen, Ni Zeng, Yiwei Gu, Lina He, Shunan Hu, Diala Alhousari, Zifei Xu, Brittney Hua, Guo Zhang, Phillip Nguyen, Mario Alba, Jian Xu, Baoan Ji, Shefali Chopra, Gary Kanel, Liyun Yuan

Primary liver cancers, including hepatocellular carcinoma (HCC) and cholangiocarcinoma (CCA), arise from the neoplastic transformation of hepatocytes and cholangiocytes, respectively. Loss or downregulation of PTEN, a tumor suppressor negatively regulating the PI3K/AKT pathway, is frequently observed in CCA and HCC. Notably, PTEN mutations are observed at nearly twice the frequency in combined CCA-HCC tumors than either HCC or CCA alone. Using lineage-specific liver-targeted PTEN-deficient mouse models, we demonstrate that PTEN loss drives cellular dedifferentiation and tumorigenesis, a process that is critically dependent on AKT2. Mechanistically, PTEN deficiency induces activation of NOTCH and upregulation of transcriptional factor SOX9, which plays a central role in tumor cell transformation. In parallel, PTEN loss increases SMAD4 expression and sensitizes the tumor cells to TGFβ signaling, with TGFβ treatment repressing SOX9 expression in tumor cells lacking PTEN. Together, our study defined a critical role for PTEN-AKT2 signaling in maintaining liver epithelial lineage fidelity and revealed how its disruption promotes the conversion of mature hepatocytes or cholangiocytes into liver cancer stem-like cells (LCSCs). Furthermore, we identify a PTEN-dependent crosstalk between NOTCH and TGFβ pathways that governs liver tumor development. Together, this work provides mechanistic insight into lineage plasticity in liver cancer with implications for pathway-directed therapy.

原发性肝癌,包括肝细胞癌(HCC)和胆管癌(CCA),分别是由肝细胞和胆管细胞的肿瘤转化引起的。PTEN是一种负调节PI3K/AKT通路的肿瘤抑制因子,在CCA和HCC中经常观察到PTEN的缺失或下调。值得注意的是,在CCA-HCC联合肿瘤中观察到的PTEN突变频率几乎是HCC或单独CCA的两倍。使用谱系特异性肝脏靶向PTEN缺陷小鼠模型,我们证明PTEN缺失驱动细胞去分化和肿瘤发生,这一过程严重依赖于AKT2。在机制上,PTEN缺乏诱导NOTCH的激活和转录因子SOX9的上调,而SOX9在肿瘤细胞转化中起着核心作用。同时,PTEN缺失增加了SMAD4的表达,使肿瘤细胞对tgf - β信号敏感,tgf - β治疗抑制了缺乏PTEN的肿瘤细胞中SOX9的表达。总之,我们的研究确定了PTEN-AKT2信号在维持肝上皮谱系保真度中的关键作用,并揭示了其破坏如何促进成熟肝细胞或胆管细胞转化为肝癌干细胞样细胞(LCSCs)。此外,我们确定了NOTCH和TGFβ通路之间的pten依赖性串扰,该串扰控制肝脏肿瘤的发展。总之,这项工作为肝癌的谱系可塑性提供了机制见解,并对途径导向治疗具有指导意义。
{"title":"PTEN-AKT2 Regulates Mixed Lineage Liver Cancer Development and Sensitizes Cancer Cells to TGFβ Treatment.","authors":"Bangyan Stiles, Qi Tang, Ielyzaveta Slarve, Jingyu Chen, Ni Zeng, Yiwei Gu, Lina He, Shunan Hu, Diala Alhousari, Zifei Xu, Brittney Hua, Guo Zhang, Phillip Nguyen, Mario Alba, Jian Xu, Baoan Ji, Shefali Chopra, Gary Kanel, Liyun Yuan","doi":"10.21203/rs.3.rs-8697220/v1","DOIUrl":"https://doi.org/10.21203/rs.3.rs-8697220/v1","url":null,"abstract":"<p><p>Primary liver cancers, including hepatocellular carcinoma (HCC) and cholangiocarcinoma (CCA), arise from the neoplastic transformation of hepatocytes and cholangiocytes, respectively. Loss or downregulation of PTEN, a tumor suppressor negatively regulating the PI3K/AKT pathway, is frequently observed in CCA and HCC. Notably, <i>PTEN</i> mutations are observed at nearly twice the frequency in combined CCA-HCC tumors than either HCC or CCA alone. Using lineage-specific liver-targeted PTEN-deficient mouse models, we demonstrate that PTEN loss drives cellular dedifferentiation and tumorigenesis, a process that is critically dependent on AKT2. Mechanistically, PTEN deficiency induces activation of NOTCH and upregulation of transcriptional factor SOX9, which plays a central role in tumor cell transformation. In parallel, PTEN loss increases SMAD4 expression and sensitizes the tumor cells to TGFβ signaling, with TGFβ treatment repressing SOX9 expression in tumor cells lacking PTEN. Together, our study defined a critical role for PTEN-AKT2 signaling in maintaining liver epithelial lineage fidelity and revealed how its disruption promotes the conversion of mature hepatocytes or cholangiocytes into liver cancer stem-like cells (LCSCs). Furthermore, we identify a PTEN-dependent crosstalk between NOTCH and TGFβ pathways that governs liver tumor development. Together, this work provides mechanistic insight into lineage plasticity in liver cancer with implications for pathway-directed therapy.</p>","PeriodicalId":519972,"journal":{"name":"Research square","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2026-01-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12869578/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146128793","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
期刊
Research square
全部 Acc. Chem. Res. ACS Applied Bio Materials ACS Appl. Electron. Mater. ACS Appl. Energy Mater. ACS Appl. Mater. Interfaces ACS Appl. Nano Mater. ACS Appl. Polym. Mater. ACS BIOMATER-SCI ENG ACS Catal. ACS Cent. Sci. ACS Chem. Biol. ACS Chemical Health & Safety ACS Chem. Neurosci. ACS Comb. Sci. ACS Earth Space Chem. ACS Energy Lett. ACS Infect. Dis. ACS Macro Lett. ACS Mater. Lett. ACS Med. Chem. Lett. ACS Nano ACS Omega ACS Photonics ACS Sens. ACS Sustainable Chem. Eng. ACS Synth. Biol. Anal. Chem. BIOCHEMISTRY-US Bioconjugate Chem. BIOMACROMOLECULES Chem. Res. Toxicol. Chem. Rev. Chem. Mater. CRYST GROWTH DES ENERG FUEL Environ. Sci. Technol. Environ. Sci. Technol. Lett. Eur. J. Inorg. Chem. IND ENG CHEM RES Inorg. Chem. J. Agric. Food. Chem. J. Chem. Eng. Data J. Chem. Educ. J. Chem. Inf. Model. J. Chem. Theory Comput. J. Med. Chem. J. Nat. Prod. J PROTEOME RES J. Am. Chem. Soc. LANGMUIR MACROMOLECULES Mol. Pharmaceutics Nano Lett. Org. Lett. ORG PROCESS RES DEV ORGANOMETALLICS J. Org. Chem. J. Phys. Chem. J. Phys. Chem. A J. Phys. Chem. B J. Phys. Chem. C J. Phys. Chem. Lett. Analyst Anal. Methods Biomater. Sci. Catal. Sci. Technol. Chem. Commun. Chem. Soc. Rev. CHEM EDUC RES PRACT CRYSTENGCOMM Dalton Trans. Energy Environ. Sci. ENVIRON SCI-NANO ENVIRON SCI-PROC IMP ENVIRON SCI-WAT RES Faraday Discuss. Food Funct. Green Chem. Inorg. Chem. Front. Integr. Biol. J. Anal. At. Spectrom. J. Mater. Chem. A J. Mater. Chem. B J. Mater. Chem. C Lab Chip Mater. Chem. Front. Mater. Horiz. MEDCHEMCOMM Metallomics Mol. Biosyst. Mol. Syst. Des. Eng. Nanoscale Nanoscale Horiz. Nat. Prod. Rep. New J. Chem. Org. Biomol. Chem. Org. Chem. Front. PHOTOCH PHOTOBIO SCI PCCP Polym. Chem.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
0
微信
客服QQ
Book学术公众号 扫码关注我们
反馈
×
意见反馈
请填写您的意见或建议
请填写您的手机或邮箱
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
现在去查看 取消
×
提示
确定
Book学术官方微信
Book学术文献互助
Book学术文献互助群
群 号:604180095
Book学术
文献互助 智能选刊 最新文献 互助须知 联系我们:info@booksci.cn
Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。
Copyright © 2023 Book学术 All rights reserved.
ghs 京公网安备 11010802042870号 京ICP备2023020795号-1