Genomics最新文献_第5页

High-fat diet promotes kidney lipid droplet deposition contributing to the pathogenesis of obesity-related glomerulopathy in mice through gut microbial metabolism 高脂肪饮食通过肠道微生物代谢促进肾脏脂滴沉积，参与小鼠肥胖相关性肾小球病变的发病机制。

IF 3 2区生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genomics

Pub Date : 2025-11-01 DOI: 10.1016/j.ygeno.2025.111151

Kai-Wen Cai , Ying-Ying Xie , Zi-Yan Deng , Zong-Chao Yu , Hong-Wei Wu , Zhuang-Feng Weng , Zhen-Chuan Lin , Bin Xia , Xiao-Hua Wang , Zhi-Hua Zheng , Chun Tang , Ting Zhu , Yong-Ping Lu

Background

Obesity-related glomerulopathy (ORG) is a kidney disorder associated with obesity, where dysbiosis of the gut microbiota and disturbances in lipid metabolism play crucial roles in its development. However, the exact mechanisms by which imbalances in gut microbiota influence lipid metabolism and contribute to the pathogenesis of ORG are still not fully understood.

Methods

A high-fat diet (HFD)-induced ORG model was established using 6-week-old male C57BL/6 J mice to investigate the role of gut microbiota and gut-derived metabolites in ORG progression. 16S rRNA sequencing was employed to profile the gut microbiota, while liquid chromatography-tandem mass spectrometry (LC-MS/MS) was applied for metabolite analysis in fecal, serum, and kidney samples.

Results

Compared to age-matched normal diet (ND) mice, ORG mice exhibited significant increases in triglycerides (TG), cholesterol (CHO), and urinary albumin-to-creatinine ratio (UACR), alongside enhanced lipid droplet accumulation in renal tubules and glomerular hypertrophy. Metabolomic analysis revealed altered metabolic profiles in ORG mice, particularly the reprogramming of glycerophospholipid metabolism. Additionally, 16S rRNA sequencing demonstrated reduced gut microbiota diversity in ORG mice relative to the ND group. Further investigation revealed that the shift in renal glycerophospholipid metabolism and elevated blood lipid levels in ORG mice were closely linked to gut microbiota dysbiosis, specifically increased abundance of Lachnospiraceae and decreased abundance of Muribaculaceae.

Conclusion

The dysbiosis of gut microbiota induced by a HFD leads to glycerophospholipid metabolic reprogramming, promoting lipid droplet deposition in the kidneys and contributing to ORG progression. Our study highlights the contribution of gut microbial metabolism to the development of ORG, offering new perspectives for potential therapeutic strategies targeting the gut in ORG treatment.

背景：肥胖相关性肾小球病（obesity -related glomerullopathy， ORG）是一种与肥胖相关的肾脏疾病，其中肠道菌群失调和脂质代谢紊乱在其发展中起着至关重要的作用。然而，肠道菌群失衡影响脂质代谢并导致ORG发病的确切机制尚不完全清楚。方法：以6周龄雄性C57BL/6 J小鼠为实验对象，建立高脂饮食（HFD）诱导的ORG模型，研究肠道菌群和肠道源性代谢物在ORG进展中的作用。采用16S rRNA测序分析肠道微生物群，采用液相色谱-串联质谱（LC-MS/MS）分析粪便、血清和肾脏样品的代谢物。结果：与年龄匹配的正常饮食（ND）小鼠相比，ORG小鼠表现出甘油三酯（TG）、胆固醇（CHO）和尿白蛋白与肌酐比率（UACR）的显著增加，同时肾小管脂滴积聚增强，肾小球肥大。代谢组学分析显示，ORG小鼠的代谢谱发生了改变，尤其是甘油磷脂代谢的重编程。此外，16S rRNA测序显示，相对于ND组，ORG小鼠的肠道微生物群多样性减少。进一步的研究表明，ORG小鼠肾脏甘油磷脂代谢的改变和血脂水平的升高与肠道菌群失调密切相关，特别是Lachnospiraceae的丰度增加和Muribaculaceae的丰度减少。结论：HFD诱导的肠道菌群失调导致甘油磷脂代谢重编程，促进肾脏脂滴沉积，促进ORG进展。我们的研究强调了肠道微生物代谢对ORG发展的贡献，为ORG治疗中针对肠道的潜在治疗策略提供了新的视角。

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引用次数: 0

Construction of a genome-wide linkage map and QTL mapping for growth and hypoxia tolerance traits in Chinese longsnout catfish (Leiocassis longirostris) 中国长鼻鲶鱼生长和耐缺氧性状全基因组连锁图谱的构建及QTL定位

IF 3 2区生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genomics

Pub Date : 2025-11-01 DOI: 10.1016/j.ygeno.2025.111157

Fenfei Liang , Zhiru Yang , Wei Liu , Faling Zhang , Xia Liang , Cheng Zhao , Guosong Zhang

The Chinese longsnout catfish (Leiocassis longirostris) is an important freshwater aquaculture species, and the selective breeding of fast-growth and hypoxia tolerance population will have a positive impact on its industry. In order to promote the breeding process of Chinese longsnout catfish, construction of the genetic linkage map and identification of molecular markers associated with fast-growth and hypoxia tolerance is critical for the marker-assisted selection (MAS) of Chinese longsnout catfish. In the present study, whole-genome resequencing was used to construct a high-density genetic linkage map of the Chinese longsnout catfish. The map containing 2946 bin markers was distributed over 26 linkage groups (LGs) with a total genetic coverage of 1980.76 cM and an average density of 0.67 cM. Based on the genetic map, quantitative trait locus (QTL) mapping results suggested that 17 QTLs associated with growth traits and 1 QTL associated with hypoxia tolerance were identified in eight LGs with the phenotypic variability explained (PVE) ranged from 5.1 % to 9.3 %. Four SNP loci from these QTLs were associated with the phenotypic traits validated by Kompetitive Allele Specific PCR or Sanger sequencing. In addition, the expression of three candidate genes for growth traits and five candidate genes for hypoxia tolerance was examined in different growth speed populations and the process of hypoxia exposure and reoxygenation, respectively. The high-density genetic linkage map and QTLs for growth traits and hypoxia tolerance obtained in the present study could further provide the basis for genetic breeding and molecular marker-assisted breeding of Chinese longsnout catfish.

中国长鼻鲶鱼（Leiocassis longirostris）是一种重要的淡水养殖品种，对其快速生长和耐缺氧种群的选育将对其产业产生积极影响。为了促进中国长鼻鲶鱼的育种进程，构建遗传连锁图谱和鉴定与快速生长和耐缺氧相关的分子标记是中国长鼻鲶鱼标记辅助选择（MAS）的关键。本研究采用全基因组重测序技术构建了中国长鼻鲶鱼高密度遗传连锁图谱。该图谱包含2946个标记，分布在26个连锁群（LGs）上，总遗传盖度为1980.76 cM，平均密度为0.67 cM。基于遗传图谱，数量性状位点（QTL）定位结果表明，8个LGs中鉴定出17个与生长性状相关的QTL和1个与耐缺氧相关的QTL，表型变异解释（PVE）范围为5.1% ~ 9.3%。这些qtl中的4个SNP位点与竞争性等位基因特异性PCR或Sanger测序验证的表型性状相关。此外，还检测了3个生长性状候选基因和5个耐缺氧候选基因在不同生长速度群体以及缺氧暴露和再氧化过程中的表达情况。本研究获得的生长性状和耐缺氧性状的高密度遗传连锁图谱和qtl可进一步为中国长鼻鲶鱼的遗传育种和分子标记辅助育种提供依据。

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引用次数: 0

Genomic and physiological characterization of beer spoiling Megasphaera spp. 啤酒腐坏Megasphaera的基因组和生理特性。

IF 3 2区生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genomics

Pub Date : 2025-11-01 DOI: 10.1016/j.ygeno.2025.111139

Manuel J. Arnold , Matthias A. Ehrmann , Yohanes N. Kurniawan , Koji Suzuki , Wolfgang Liebl

Beer spoiling bacteria represent a major concern for the brewing industry. Anaerobic spoilers of the genus Megasphaera are especially dreadful. Until now, the genome analysis of Megasphaera spp. was limited to mammal-associated species, yet beer borne Megasphaera species and their abilities to tolerate the multiple high stress factors in their niche were broadly overlooked. This study is the first to carry out an in silico genome comparison of ten strains from three different beer spoiling Megasphaera species (M. cerevisiae, M. paucivorans and M. sueciensis). We experimentally show a hitherto unseen resilience of beer spoiling Megasphaera strains, which can grow in lager beer with an isoα-acids content of up to 120 IBU, an ethanol concentration of up to 7.0 % (v/v) and at pH 4.0. The genomes revealed genes appearing to aid survival in the harsh brewing environment mainly comprised of hop, ethanol and acid stress.

啤酒腐坏细菌是酿酒行业关注的主要问题。Megasphaera属的厌氧破坏者尤其可怕。到目前为止，人们对巨斑蛛的基因组分析仅限于哺乳动物的亲缘种，而啤酒源的巨斑蛛及其对生态位中多种高应激因素的耐受能力却被广泛忽视。本研究首次对三种不同的啤酒腐坏Megasphaera物种（M. cerevisiae， M. paucivorans和M. sueciensis）的10株菌株进行了计算机基因组比较。我们通过实验显示了迄今为止未见的啤酒变质Megasphaera菌株的恢复能力，它可以在异α-酸含量高达120 IBU、乙醇浓度高达7.0 % （v/v）和pH 4.0的啤酒中生长。基因组揭示了在恶劣的酿造环境中帮助生存的基因，主要包括啤酒花、乙醇和酸胁迫。

引用次数: 0

Strategic intercropping with mulberry (Morus alba L.) predictably modulates rhizosphere microbiome assembly and enriches pathways for secondary metabolite production 桑树策略间作可预测地调节根际微生物组的组装并丰富次生代谢物的产生途径。

IF 3 2区生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genomics

Pub Date : 2025-11-01 DOI: 10.1016/j.ygeno.2025.111129

Zhou Hu , Yuheng Lei , Tianrui Li , Tingfu Zhang , Qian Yang , Jun Yang , Gaiqun Huang , Delong Guan , Jian Zou

Intercropping is a key strategy for sustainable agriculture, but its effects on the rhizosphere microbiome remain poorly understood. Here, we investigated how intercropping mulberry (Morus alba L.) with functionally distinct partners—a nitrogen-fixing legume (Pisum sativum), a saprotrophic fungus (Morchella esculenta), and a medicinal plant (Polygonatum sibiricum)—shapes its rhizosphere bacterial community. Compared to monoculture, all intercropping systems significantly increased bacterial diversity and established unique community structures and functional signatures. Legume intercropping specifically enriched nitrogen-cycling bacteria like Bradyrhizobium and enhanced nitrogen metabolism pathways, whereas fungal intercropping fostered anaerobic decomposers. Crucially, all systems enriched pathways for secondary metabolite biosynthesis, suggesting a potential to enhance mulberry's economic value. Our findings establish that strategic partner selection is a powerful microbiome design tool, enabling predictable modulation of rhizosphere function for sustainable mulberry cultivation.

间作是可持续农业的一项关键策略，但其对根际微生物群的影响仍知之甚少。在这里，我们研究了桑树（Morus alba L.）与功能不同的伙伴——固氮豆科植物（Pisum sativum）、腐养真菌（Morchella esculenta）和药用植物（Polygonatum sibiricum）的间作是如何塑造其根际细菌群落的。与单作相比，所有间作制度均显著增加了细菌多样性，并建立了独特的群落结构和功能特征。豆科作物间作特别富集了缓生根瘤菌等氮循环细菌，增强了氮代谢途径，而真菌间作则培养了厌氧分解者。至关重要的是，所有系统都丰富了次生代谢物生物合成的途径，这表明有可能提高桑树的经济价值。我们的研究结果表明，战略合作伙伴选择是一种强大的微生物组设计工具，可以预测根际功能的调节，以实现桑树的可持续种植。

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引用次数: 0

Metabolic heterogeneity in adipose resident immunocytes and its link to type 2 diabetes via response to catabolism defects 脂肪常驻免疫细胞的代谢异质性及其通过对分解代谢缺陷的反应与2型糖尿病的联系

IF 3 2区生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genomics

Pub Date : 2025-11-01 DOI: 10.1016/j.ygeno.2025.111152

Shanshan Huang , Xuetao Chen , Yue Yuan , Yuan Yuan , Lei Shen , Hongdong Wang , Wenjuan Tang , Yan Bi , Tianyu Wu

Adipose resident immune cells are vital contributors to adipose dysfunction in metabolic diseases. While current research has focused on immunogenic heterogeneities, investigations into metabolic heterogeneity are needed to reveal the diverse responses to metabolic perturbations. This study dissected and profiled the metabolic activities of 9243 resident immunocytes from visceral adipose tissue. Clustering analysis revealed seven metabolic patterns with diverse functions. Differential analysis showed that these metabolic patterns exhibit heterogeneous responses to systemic metabolic reductions paralleling a type 2 diabetes-associated trajectory. Graph theory analysis of correlation networks further delineated that impaired capacities to catabolize complex lipids with peroxisomes and degrade amino acids are core metabolic defects regulating resident immune cell functions in type 2 diabetes. Collectively, these results unveiled the role of metabolic heterogeneity in the diverse responses of resident immunocytes to metabolic perturbations, with lipid and amino acid catabolic defects as core metabolic factors contributing to type 2 diabetes.

脂肪常驻免疫细胞是代谢疾病中脂肪功能障碍的重要贡献者。虽然目前的研究主要集中在免疫原性异质性上，但需要对代谢异质性进行研究，以揭示对代谢扰动的不同反应。本研究解剖并描述了9243个来自内脏脂肪组织的常驻免疫细胞的代谢活动。聚类分析显示了7种不同功能的代谢模式。差异分析表明，这些代谢模式对与2型糖尿病相关的系统性代谢减少表现出异质反应。相关网络的图论分析进一步表明，与过氧化物酶体分解复杂脂质和降解氨基酸的能力受损是2型糖尿病患者调节常驻免疫细胞功能的核心代谢缺陷。总的来说，这些结果揭示了代谢异质性在常驻免疫细胞对代谢扰动的不同反应中的作用，脂质和氨基酸分解代谢缺陷是导致2型糖尿病的核心代谢因素。

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引用次数: 0

Neutrophil extracellular trap-related signature predicts the prognosis and immunotherapy outcome of lung adenocarcinoma 中性粒细胞胞外陷阱相关特征预测肺腺癌的预后和免疫治疗结果。

IF 3 2区生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genomics

Pub Date : 2025-11-01 DOI: 10.1016/j.ygeno.2025.111147

Yuquan Bai, Yang Gao, He Xu, Fan Gao, Jingwei Sun, Peilong Bao, Jinbo Zhao, Tao Jiang

Neutrophil extracellular traps (NETs) are a kind of DNA reticular structure that can capture and kill pathogenic microorganisms. NETs are closely related to the progression of tumors, but the role of NETs in the immunotherapy of lung adenocarcinoma (LUAD) remains unclear. We constructed a NETs-related prognosis signature based on ATG7, BST1, CEACAM3 and TNFRSF10C, and the prognosis of LUAD patients in the NET-high group was worse than NET-low group. At the same time, we constructed a nomogram to improve the validity of NETs-related signature and achieved good results in external datasets. The NET-high group was associated with a higher mutation burden, higher TIDE predicted MSI score and a poorer immunotherapy outcome. Finally, we found that MEK inhibitors (selumetinib and trametinib) were more sensitive in the NET-high group and can inhibit the invasion and migration of LUAD cells. The NETs-related signature was able to predict the prognosis and immunotherapy outcome of LUAD patients.

中性粒细胞胞外捕集器是一种能够捕获和杀灭病原微生物的DNA网状结构。NETs与肿瘤的进展密切相关，但NETs在肺腺癌（LUAD）免疫治疗中的作用尚不清楚。我们基于ATG7、BST1、CEACAM3和TNFRSF10C构建了nets相关预后特征，net高组LUAD患者预后差于net低组。同时，我们构建了一个nomogram来提高nets相关签名的有效性，并在外部数据集上取得了很好的效果。net高组与较高的突变负担、较高的TIDE预测的MSI评分和较差的免疫治疗结果相关。最后，我们发现MEK抑制剂（selumetinib和trametinib）在NET-high组更敏感，可以抑制LUAD细胞的侵袭和迁移。nets相关特征能够预测LUAD患者的预后和免疫治疗结果。

引用次数: 0

Expression profiling, functional characterization, and potential functional variants of the COL7A1 gene in sheep horn development COL7A1基因在羊角发育中的表达谱、功能特征和潜在功能变异

IF 3 2区生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genomics

Pub Date : 2025-11-01 DOI: 10.1016/j.ygeno.2025.111133

Shiwen Zhang , Hao Li , Zhu Meng , Fei Liu , Yangshuo Hu , Huaiqiang Yang , Qiao Mei , Xiangbin You , Qiankun Wang , Zhangyuan Pan , Youbing Yang

The morphological diversity of sheep horns affects livestock production, yet its molecular regulation is poorly understood. COL7A1, essential for anchoring the epidermis to the dermis, was investigated using RNA-seq, WGS, and protein interaction prediction. COL7A1 was highly expressed in soft horn and skin, with higher levels in Scurred than Horned sheep (p < 0.05), suggesting a role in horn morphology. Cross-species alignment of 18 COL7A1 sequences revealed 15 amino acids unique to horned ruminants. RNA-seq and WGS identified four allele-specific expression (ASE) loci and 18 SNPs linked to horn traits. Two missense variants—SNP8 (p.Glu181Asp) and SNP14 (p.Ala2857Thr)—may alter protein structure, with SNP14 showing ASE. Kompetitive Allele-Specific PCR (KASP) genotyping of SNP4 and SNP8 confirmed associations with horn length (p < 0.05). Protein interaction modeling indicated COL7A1 synergizes with laminin γ2 (LAMC2), implicating basement membrane assembly. These results provided molecular insights into ovine horn development and support marker-assisted selection.

羊角形态多样性影响畜牧生产，但其分子调控机制尚不清楚。COL7A1是将表皮锚定到真皮层所必需的，我们使用RNA-seq、WGS和蛋白质相互作用预测对其进行了研究。COL7A1在软角和皮肤中高度表达，在红羊中表达水平高于有角羊(p

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引用次数: 0

SerpinB2 promotes the proliferation of glioma cells by regulating the cell cycle through the Wnt/β-catenin signaling pathway SerpinB2通过Wnt/β-catenin信号通路调节细胞周期，促进胶质瘤细胞增殖。

IF 3 2区生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genomics

Pub Date : 2025-11-01 DOI: 10.1016/j.ygeno.2025.111148

Ji-xin Xie , Qing-hua Zhang , Wen-ying He , Hai-lei Liao , Li-bin Wang , Li-juan Wang

Objective

By combining transcriptome sequencing with single-cell transcriptomic analysis of the tumor microenvironment, we aim to elucidate the molecular mechanisms underlying SerpinB2 (plasminogen activator inhibitor type 2, PAI-2) in regulating glioma cell proliferation.

Methods

The CGGA and TISCH databases were used to analyze SerpinB2 expression in glioma tissues. The effect of SerpinB2 on the proliferation and migration of glioma cells was determined using CCK-8 and wound healing assays. The signaling pathways potentially regulated by SerpinB2 in glioma cells were analyzed using transcriptome sequencing and single-cell sequencing. Flow cytometry identified the cell cycle of the cells. The expression of cell cycle and Wnt/β-catenin signaling pathway-related mRNA and proteins was determined using q-PCR and Western blotting. Finally, the effect of SerpinB2 on glioma proliferation was verified by constructing a tumor-bearing mouse model.

Results

SerpinB2 was highly expressed in malignant glioma tissues and was associated with low patient survival rates. Lv-SerpinB2 enhanced the proliferation and migration of glioma cells. Transcriptome data demonstrated that SerpinB2 regulates the cell cycle. Flow cytometry revealed that SerpinB2 keeps glioma cells in the S phase. The Western blotting results confirmed that the cell cycle-related proteins CCND1, CDK4, and the Wnt/β-catenin signaling pathway proteins β-catenin, Wnt-5a, and C-myc all exhibited increased levels. The tumor-bearing mouse model demonstrated that SerpinB2 promoted the growth of glioma in the Lv-SerpinB2 group.

Conclusion

SerpinB2 promotes the proliferation of glioma cells by regulating the cell cycle through the Wnt/β-catenin signaling pathway.

目的：通过转录组测序与肿瘤微环境单细胞转录组分析相结合，旨在阐明SerpinB2（纤溶酶原激活物抑制剂2型，PAI-2）调控胶质瘤细胞增殖的分子机制。方法：采用CGGA和TISCH数据库分析胶质瘤组织中SerpinB2的表达。采用CCK-8法和创面愈合法检测SerpinB2对胶质瘤细胞增殖和迁移的影响。利用转录组测序和单细胞测序分析了胶质瘤细胞中SerpinB2可能调控的信号通路。流式细胞术检测细胞周期。采用q-PCR和Western blotting检测细胞周期和Wnt/β-catenin信号通路相关mRNA和蛋白的表达。最后，通过构建荷瘤小鼠模型验证SerpinB2对胶质瘤增殖的影响。结果：SerpinB2在恶性胶质瘤组织中高表达，与患者生存率低相关。Lv-SerpinB2促进胶质瘤细胞的增殖和迁移。转录组数据表明，SerpinB2调节细胞周期。流式细胞术显示SerpinB2使胶质瘤细胞处于S期。Western blotting结果证实细胞周期相关蛋白CCND1、CDK4，以及Wnt/β-catenin信号通路蛋白β-catenin、Wnt-5a、C-myc水平均升高。荷瘤小鼠模型显示，在Lv-SerpinB2组，SerpinB2促进胶质瘤的生长。结论：SerpinB2通过Wnt/β-catenin信号通路调节细胞周期，促进胶质瘤细胞增殖。

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引用次数: 0

Integrative microbiome-metabolomics identifies Pseudomonas as a potential pathogenic factor in endometriosis 综合微生物代谢组学鉴定假单胞菌是子宫内膜异位症的潜在致病因素。

IF 3 2区生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genomics

Pub Date : 2025-11-01 DOI: 10.1016/j.ygeno.2025.111149

Xinyang Lu , Yue Yang , Yifang Peng , Runrong Li , Chuxi Chen , Yarui Luo , Yetong Jiang , Mohan Xu , Zhizhang Wang , Fanliang Meng

Endometriosis (EMS) is a chronic disease characterized by unclear etiology, influenced by various genetic and environmental factors, with no definitive biomarkers available for early screening. Recent studies suggest that the abdominal microbiome and its metabolites, shaped by the host's genetic composition and environmental exposures, play significant roles in the pathogenesis and regulation of EMS. This study aims to integrate microbiome and metabolomics analyses to identify bacteria and metabolites critical to the progression of EMS. Multi–omics characterization was performed on pelvic cavity washings (PCW) from 7 EMS patients and 8 matched controls using 16S rRNA gene sequencing and liquid chromatography-mass spectrometry (LC–MS). A validation cohort of 42 EMS patients and 42 controls was assessed for clinical measures. Metabolomics revealed 7 metabolites across 12 metabolic pathways, with three uniquely distinguished in the endometriosis group. Microbial diversity analysis identified 2471 operational taxonomic units (OTUs), showing significant compositional disparities between groups. Notably, Pseudomonas enrichment in PCW was associated with advanced disease progression, especially in stage III and IV EMS, characterized by extensive pelvic adhesions and larger lesion sizes. Our findings highlight Pseudomonas as a potential biomarker for EMS severity, advancing the understanding of its pathogenesis and offering promising implications for non-hormonal therapeutic strategies.

Key message

Comprehensive analyses show significant interactions between Pseudomonas and its metabolite guanylate in endometriosis patients. Increased Pseudomonas levels correlate with larger lesions and more severe pelvic adhesions, suggesting it may serve as a biomarker and potential driver of disease severity, informing new preventive strategies and non-hormonal treatments.

子宫内膜异位症（EMS）是一种病因不明的慢性疾病，受各种遗传和环境因素的影响，没有明确的生物标志物可用于早期筛查。最近的研究表明，受宿主遗传组成和环境暴露的影响，腹部微生物群及其代谢物在EMS的发病和调控中起着重要作用。本研究旨在整合微生物组学和代谢组学分析，以鉴定对EMS进展至关重要的细菌和代谢物。采用16S rRNA基因测序和液相色谱-质谱（LC-MS）对7例EMS患者和8例匹配对照的盆腔冲洗（PCW）进行多组学表征。对42名EMS患者和42名对照者的验证队列进行临床评估。代谢组学揭示了12种代谢途径中的7种代谢物，其中三种在子宫内膜异位症组中有独特的区别。微生物多样性分析共鉴定出2471个操作分类单元（otu），类群间存在显著差异。值得注意的是，PCW中假单胞菌的富集与晚期疾病进展有关，特别是在III期和IV期EMS，其特征是广泛的盆腔粘连和更大的病变大小。我们的研究结果强调假单胞菌是EMS严重程度的潜在生物标志物，促进了对其发病机制的理解，并为非激素治疗策略提供了有希望的启示。关键信息：综合分析显示子宫内膜异位症患者假单胞菌及其代谢物鸟苷酸之间存在显著的相互作用。假单胞菌水平升高与更大的病变和更严重的盆腔粘连相关，表明它可能作为疾病严重程度的生物标志物和潜在驱动因素，为新的预防策略和非激素治疗提供信息。

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引用次数: 0

Phenotypical, phytohormone and transcriptomic analysis revealed the mechanism of exogenous salicylic acid promoting alfalfa(Medicago sativa L.)germination under freezing stress 表型、激素和转录组学分析揭示了外源水杨酸促进冰冻胁迫下紫花苜蓿发芽的机制。

IF 3 2区生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genomics

Pub Date : 2025-11-01 DOI: 10.1016/j.ygeno.2025.111150

Xia Wang , Jingtian Xu , Xingyue Bu , Liuxian Wang , Keru Chen , Zhixuan Huang , Mingyang Shen , Dongbei Xu

Freezing stress (FS), especially during germination, severely impacts the growth, development, productivity, and distribution of alfalfa (Medicago sativa L.). Exogenous salicylic acid (SA), a signal molecule involved in abiotic stress responses, effectively improves the FS response of seeds. We investigate changes in seedling phenotype and hormone contents, and perform transcriptome analyses to identify how SA may improve the FS response in alfalfa during germination. Compared with control values, after 16 h FS, exogenous SA promotes seedling lengthening, and increases endogenous contents of jasmonic, abscisic, and gibberellic acids, and decreases indole-3-acetic acid (IAA), and zeatin; after 24 h FS, contents of SA, IAA, and gibberellic and abscisic acids increased, and JA and zeatin content decreased. Phytohormone biosynthesis and signaling pathways genes were induced by SA after FS. Weighted correlation network analysis suggests that GH3.1 and HSP70 play important roles in SA regulation of FS. We report a possible working model, where exogenous SA inhibits GH3.1 expression to decrease IAA content, causing TIR1 to negatively regulate expression of AUX/IAA and auxin response related genes to suppress the IAA signaling pathway, and for TIR1 to repress the SA signaling pathway after FS. For the NPR1-dependent pathway, NPR1 could bind to TGAs to regulate expression of PR1 genes to defend against FS. For the NPR1-independent pathway, superoxide dismutase, ascorbateperoxidase, glutathione-S-transferase, heat shock protein, alternative oxidase, and late embryogenesis abundant encoded genes were induced following FS.

低温胁迫（FS）严重影响苜蓿（Medicago sativa L.）的生长、发育、产量和分布，尤其是萌发期的低温胁迫。外源水杨酸（SA）是参与非生物胁迫响应的信号分子，能有效提高种子对FS的响应。我们研究了幼苗表型和激素含量的变化，并进行转录组分析，以确定SA如何改善苜蓿萌发过程中对FS的响应。与对照相比，16 h后，外源SA促进幼苗长势，增加内源茉莉酸、脱落酸和赤霉素含量，降低吲哚-3-乙酸（IAA）和玉米素含量；24 h后，SA、IAA、赤霉素和脱落酸含量升高，JA和玉米素含量降低。FS后SA诱导植物激素生物合成及信号通路基因。加权相关网络分析表明GH3.1和HSP70在SA对FS的调控中起重要作用。我们报道了一个可能的工作模型，外源SA抑制GH3.1表达，降低IAA含量，导致TIR1负调控AUX/IAA和生长素反应相关基因的表达，抑制IAA信号通路，使TIR1在FS后抑制SA信号通路。在NPR1依赖通路中，NPR1可以结合TGAs调节PR1基因的表达，防御FS。在npr1非依赖性途径中，FS诱导了超氧化物歧化酶、抗坏血酸过氧化物酶、谷胱甘肽- s转移酶、热休克蛋白、替代氧化酶和晚期胚胎发育丰富的编码基因。

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引用次数: 0