检索结果-南通市图书馆

Comparative analysis of constitutes and metabolites for traditional Chinese medicine using IDA and swath data acquisition modes on LC-Q-TOF ms

引用

Journal of Pharmaceutical Analysis 2020年第6期10卷 588-596页

作者： Dian Kang Qingqing Ding Yangfan Xu Xiaoxi Yin Huimin Guo Tengjie Yu He Wang Wenshuo Xu Guangji Wang Yan Liang Key Lab of Drug Metabolism&Pharmacokinetics State Key Laboratory of Natural MedicinesChina Pharmaceutical UniversityTongjiaxiang 24Nanjing210009PR China Department of Geriatric Oncology First Affiliated Hospital of Nanjing Medical University(Jiangsu People’s Hospital)No.300 Guangzhou RoadNanjing210029PR China

Identification of components and metabolites of traditional Chinese medicines(TCms)employing liquid chromatography-quadrupole time-of-flight mass spectrometry(LC-Q-TOF ms)techniques with information-dependent acquisition(IDA)approaches is increasingly frequent.A current drawback of IDA-ms is that the complexity of a sample might prevent important compounds from being triggered in IDA settings.Sequential window acquisition of all theoretical fragment-ion spectra(swath)is a dataindependent acquisition(DIA)method where the instrument deterministically fragments all precursor ions within the predefined m/z range in a systematic and unbiased fashion.Herein,the superiority of swath on the detection of TCms’components was firstly investigated by comparing the detection efficiency of swath-ms and IDA-ms data acquisition modes,and sanguisorbin extract was used as a mode TCM.After optimizing the setting parameters of swath,rolling collision energy(CE)and variable Q1 isolation windows were found to be more efficient for sanguisorbin identification than the fixed CE and fixed Q1 isolation window.More importantly,the qualitative efficiency of swath-ms on sanguisorbins was found significantly higher than that of IDA-ms data acquisition.In IDA mode,18 kinds of sanguisorbins were detected in sanguisorbin extract.A total of 47 sanguisorbins were detected when swath-ms was used under rolling CE and flexible Q1 isolation window modes.Besides,26 metabolites of sanguisorbins were identified in rat plasma,and their metabolic pathways could be deduced as decarbonylation,oxidization,reduction,methylation,and glucuronidation according to their fragmental ions acquired in swath-ms mode.Thus,swath-ms data acquisition could provide more comprehensive information for the component and metabolite identification for TCms than IDA-ms.

关键词： LC-Q-TOF ms swath-ms IDA-ms Sanguisorbin extract Sanguisorbins

来源：

维普期刊数据库

同方期刊数据库评论

在线全文

学校读者我要写书评

暂无评论

Charcot-Marie-Tooth-1A and sciatic nerve crush rat models:insights from proteomics

引用

Neural Regeneration Research 2023年第6期18卷 1354-1363页

作者： Zeina msheik Stephanie Durand Emilie Pinault Martial Caillaud Laetitia Vignaud Fabrice Billet Mohamed El Massry Alexis Desmoulière UR20218 NeurIT(NEURopathies périphériques et Innovation Thérapeutique) University of LimogesLimogesFrance BISCEm(Biologie Intégrative SantéChimie Environnement)Platform US 42 Inserm/UAR 2015 CNRSUniversity of LimogesLimogesFrance UMR 1308 Inserm/CHU–CAPTuR(Contrôle de l’Activation cellulaire Progression Tumorale et Résistance thérapeutique)University of LimogesLimogesFrance Inserm UMR1235–TENS(The Enteric Nervous System in Gut and Brain Diseases) University of NantesNantesFrance

The sensorimotor and histological aspects of peripheral neuropathies were already studied by our team in two rat models:the sciatic nerve crush and the Charcot-Marie-Tooth-1A disease.In this study,we sought to highlight and compare the protein signature of these two pathological situations.Indeed,the identification of protein profiles in diseases can play an important role in the development of pharmacological targets.In fact,Charcot-Marie-Tooth-1A rats develop motor impairments that are more severe in the hind limbs.Therefore,for the first time,protein expression in sciatic nerve of Charcot-Marie-Tooth-1A rats was examined.First,distal sciatic nerves were collected from Charcot-Marie-Tooth-1A and uninjured wild-type rats aged 3 months.After protein extraction,sequential window acquisition of all theoretical fragment ion spectra liquid chromatography and mass spectrometry was employed.445 proteins mapped to Swiss-Prot or trEMBL Uniprot databases were identified and quantified.Of these,153 proteins showed statistically significant differences between Charcot-Marie-Tooth-1A and wild-type groups.The majority of these proteins were overexpressed in Charcot-Marie-Tooth-1A.Hierarchical clustering and functional enrichment using Gene Ontology were used to group these proteins based on their biological effects concerning Charcot-Marie-Tooth-1A pathophysiology.Second,proteomic characterization of wild-type rats subjected to sciatic nerve crush was performed sequential window acquisition of all theoretical fragment ion spectra liquid chromatography and mass spectrometry.One month after injury,distal sciatic nerves were collected and analyzed as described above.Out of 459 identified proteins,92 showed significant differences between sciatic nerve crush and the uninjured wild-type rats used in the first study.The results suggest that young adult Charcot-Marie-Tooth-1A rats(3 months old)develop compensatory mechanisms at the level of redox balance,protein folding,myelination,and axonogenesis.These mechanisms seem insufficient

关键词： Charcot-Marie-Tooth-1A endoplasmic reticulum Gene Ontology neurogenesis oxidative stress proteomics rat repair sciatic nerve crush swath-ms

来源：

维普期刊数据库

同方期刊数据库评论

在线全文

学校读者我要写书评

暂无评论

RIP1-dependent linear and nonlinear recruitments of caspase-8 and RIP3 respectively to necrosome specify distinct cell death outcomes

引用

Protein & Cell 2021年第11期12卷 858-876页

作者： Xiang Li Chuan-Qi Zhong Rui Wu Xiaozheng Xu Zhang-Hua Yang Shaowei Cai Xiurong Wu Xin Chen Zhiyong Yin Qingzu He Dianjie Li Fei Xu Yihua Yan Hong Qi Changchuan Xie Jianwei Shuai Jiahuai Han State Key Laboratory of Cellular Stress Biology School of Life SciencesInnovation Center for Cell Signaling NetworkXiamen UniversityXiamen 361102China Department of Physics Xiamen UniversityXiamen 361005China National Institute for Data Science in Health and Medicine Xiamen 361102China Complex Systems Research Center Shanxi UniversityTaiyuan 030006ChinaState Key Laboratory of Cellular Stress BiologySchool of Life SciencesInnovation Center for Cell Signaling NetworkXiamen UniversityXiamen 361102China

There remains a significant gap in our quantitative understanding of crosstalk between apoptosis and necroptosis pathways.By employing the swath-ms technique,we quantified absolute amounts of up to thousands of proteins in dynamic assembling/de-assembling of TNF signaling complexes.Combining swath-ms-based network modeling and experimental validation,we found that when RIP1 level is below~1000 molecules/cell(mpc),the cell solely undergoes TRADD-dependent apoptosis.When RIP1 is above~1000 mpc,pro-caspase-8 and RIP3 are recruited to necrosome respectively with linear and nonlinear dependence on RIP1 amount,which well explains the co-occurrence of apoptosis and necroptosis and the paradoxical obser-vations that RIP1 is required for necroptosis but its increase down-regulates necroptosis.Higher amount of RIP1(>~46,000 mpc)suppresses apoptosis,leading to necroptosis alone.The relation between RIP1 level and occurrence of necroptosis or total cell death is biphasic.Our study provides a resource for encoding the com-plexity of TNF signaling and a quantitative picture how distinct dynamic interplay among proteins function as basis sets in signaling complexes,enabling RIP1 to play diverse roles in governing cell fate decisions.

关键词： necrosome protein complexes quantification RIP1 swath-ms network modeling

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

A different vision of translational research in biomarker discovery: a pilot study on circulatory mitochondrial proteins as Parkinson’s disease potential biomarkers

引用

Translational Neurodegeneration 2020年第2期9卷 118-131页

作者： Sandra I.Anjo Patrícia Valério dos Santos Luiza Rosado Graça Baltazar Inês Baldeiras Diana Pires Andreia Gomes Cristina Januário Miguel Castelo-Branco Mário Grãos Bruno Manadas CNC-Center for Neuroscience and Cell Biology University of CoimbraCoimbraPortugal Faculty of Medicine University of CoimbraCoimbraPortugal Centro de Investigação em Ciências da Saúde(CICS-UBI) Universidade da Beira InteriorCovilhãPortugal Centro Hospitalar Cova da Beira E.P.ECovilhãPortugal Neurology Department Centro Hospitalar e Universitário de CoimbraCoimbraPortugal Coimbra Institute for Biomedical Imaging and Translational Research(CIBIT) CoimbraPortugal Biocant Biotechnology Transfer AssociationCantanhedePortugal Institute for Interdisciplinary Research University of Coimbra(IIIUC)CoimbraPortugal

Background The identification of circulating biomarkers that closely correlate with Parkinson’s Disease(PD)has failed several times in the past.Nevertheless,in this pilot study,a translational approach was conducted,allowing the evaluation of the plasma levels of two mitochondrial-related proteins,whose combination leads to a robust model with potential diagnostic value to discriminate the PD patients from matched controls.Methods The proposed translational approach was initiated by the analysis of secretomes from cells cultured under control or well-defined oxidative stress conditions,followed by the identification of proteins related to PD pathologic mechanisms that were altered between the two states.This pipeline was further translated into the analysis of undepleted plasma samples from 28 control and 31 PD patients.Results From the secretome analysis,several mitochondria-related proteins were found to be differentially released between control and stress conditions and to be able to distinguish the two secretomes.Similarly,two mitochondrial-related proteins were found to be significantly changed in a PD cohort compared to matched controls.Moreover,a linear discriminant model with potential diagnostic value to discriminate PD patients was obtained using the combination of these two proteins.Both proteins are associated with apoptotic mitochondrial changes,which may correspond to potential indicators of cell death.Moreover,one of these proteins,the VPS35 protein,was reported in plasma for the first time,and its quantification was only possible due to its previous identification in the secretome analysis.Conclusions In this work,an adaptation of a translational pipeline for biomarker selection was presented and transposed to neurological diseases,in the present case Parkinson’s Disease.The novelty and success of this pilot study may arise from the combination of:i)a translational research pipeline,where plasma samples are interrogated using knowledge previously obtained from the evaluation of cells’secretome un

关键词： Mitochondrial-related proteins swath-ms Parkinson's disease Biomarker discovery Blood-biomarker Secretomes Oxidative stress

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

定量蛋白组学分析揭示与四倍体鲫鲤肝脏代谢及生长相关的蛋白和通路

定量蛋白组学分析揭示与四倍体鲫鲤肝脏代谢及生长相关的蛋白和通...

引用

作者：王君婷湖南师范大学

学位级别：硕士

异源四倍体鲫鲤(Allotetraploid,缩写为4n AT,4n=200)是首例人工培育的两性可育的四倍体鱼。它由普通红鲫(Carassius auratus red var,缩写RCC,2n=100)(♀)和湘江野鲤(Cyprinus carpio缩写为CC,2n=100)(♂)杂交形成。作为我国遗传性状稳定的特色淡水四倍体鱼类,4n AT在多倍体化进化理论研究和多倍体育种等基础研究中起到重要的作用。肝脏是鱼类最大的消化腺,参与体内消化、分泌、代谢和免疫等过程,被广泛应用于能量代谢、脂类合成转运等研究。蛋白质作为生命活动的物质基础,是构成细胞的基本有机物,其表达水平的变化可能导致有机体生命现象的改变。蛋白组学研究可针对4n AT及其亲本的肝脏细胞所有蛋白质进行定性及定量研究,从分子层面对其生长代谢等进行探究。本研究以4n AT及其原始亲本RCC、CC为实验材料,对4n AT、RCC和CC的肝脏组织以WATH-ms质谱技术进行蛋白质的全面鉴定和定量,采用T检验(统计阈值Pswath-ms质谱技术对4n AT及其亲本进行定量蛋白质组学研究,并建立了4n AT及其亲本的定量蛋白质组学数据库。其次,本研究将定量蛋白组学与生物学通路和网络结构分析相结合应用于4n AT及其亲本,并鉴定到ACSBG1、OAT和LDHBA等关键基因可能直接影响4n AT的生长和代谢,并调控4n AT的形态、生长速率等表型介于两亲本之间。同时,研究结果侧面验证了swath-ms质谱技术在定量蛋白组学研究中的高通路可行性。

关键词：异源四倍体鲫鲤肝脏 swath-ms 蛋白-蛋白网络分析生长代谢

来源：

同方学位论文库评论

在线全文

同方学位论文库

学校读者我要写书评

暂无评论

swathtoMRM:发展高覆盖靶向代谢组学方法

SWATHtoMRM:发展高覆盖靶向代谢组学方法

引用

第三届全国质谱分析学术报告会

作者：查海红蔡玉萍尹岩东朱正江中科院上海有机化学研究所生物与化学交叉研究中心质谱与代谢组学实验室中国科学院大学

代谢组学的目标是实现复杂生物样品中的所有代谢物的全面分析。由于生物样品中的代谢物结构多样,且浓度跨度范围广,因此,代谢组学的研究方法需要具有覆盖范围广、灵敏度和特异性高以及动态范围广的特点。虽然非靶向方法的覆盖范围广,但... 详细信息

代谢组学的目标是实现复杂生物样品中的所有代谢物的全面分析。由于生物样品中的代谢物结构多样,且浓度跨度范围广,因此,代谢组学的研究方法需要具有覆盖范围广、灵敏度和特异性高以及动态范围广的特点。虽然非靶向方法的覆盖范围广,但是它检测的线性范围窄,定量效果和灵敏度不好,因为高响应的离子很容易在全扫模式中饱和,进而影响了定量的准确性。相比之下,基于MRM的靶向方法能准确定量已知的代谢物,并被称为定量的黄金标准,因为它检测的灵敏度高、线性范围广、以及重现性好。但是覆盖率低是目前靶向方法发展的瓶颈。因此靶向与非靶向方法的结合是代谢组学发展趋势。近年来,一些研究者通过非靶向方式获取大规模的离子对来提高靶向检测的覆盖率。但是,从DDA(data-dependent acquisition)数据中获取的离子对信息不够全面,不能覆盖样品中的所有代谢物;通过质谱仪逐步扫描的方式获取的离子对信息虽然比DDA覆盖率高,但是仍不能涵盖所有的代谢物,并且获取离子对的采集过程过于繁琐,效率比较低。在此,我们开发完成了一个新的高通量、高覆盖率的靶向代谢组学方法swathtoMRM,即从swath(sequential windowed acquisition of all theoretical fragment ions)数据中提取MRM(multiple reaction monitoring)离子对信息用于靶向检测。首先,我们对包含了所有代谢物信息的swath数据进行处理,并对每个代谢物生成consensus二级谱图;然后,为每个代谢物挑选合适的MRM离子对用于靶向检测;最后,优化靶向检测方法对代谢物进行检测并定量分析。我们用人体尿液样品对整个方法进行了测试,我们尿液样品的swath数据中从提取出2,376个代谢物离子对,并在MRM中成功检测到1,900多个代谢物,检测的成功率达到80%,说明swathtoMRM方法可以从swath数据中提取可靠的离子对用于靶向检测。而且,swath模式的二级采集比率比DDA模式多20-30%,从swath数据中提取的离子对有更广的覆盖率。另外,我们从重现性、灵敏度、动态范围、准确度这几个方面比较了MRM,swathS,swathS的定量效果,MRM都展现出更好的定量效果。因此,swathtoMRM不仅有很高的覆盖率,而且对代谢物有很好的定量效果,显著提升了靶向代谢组学的覆盖范围和通量,为更准确的找出更多潜在的生物标志物提供了新的技术手段。

关键词：靶向代谢组学 swath-ms 高覆盖

来源： cnki会议评论

在线全文

cnki会议

学校读者我要写书评

暂无评论

欢迎您,

建议与咨询留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

时间限定

文献类型

馆藏选择

核心期刊

语言

文献类型

帮助

文字说明：

检索规则说明：

检索范例：

分类表

所选分类

限定检索结果

文献类型

馆藏范围

日期分布

学科分类号

主题

机构

作者

语言

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

请选择保存的检索档案：

请选择收藏分类：

通借通还

欢迎您,

建议与咨询 留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

时间限定

文献类型

馆藏选择

核心期刊

语言

文献类型

帮助

文字说明：

检索规则说明：

检索范例：

分类表

所选分类

限定检索结果

文献类型

馆藏范围

日期分布

学科分类号

主题

机构

作者

语言

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

请选择保存的检索档案： 新增检索档案 确定 取消

请选择收藏分类： 新增自定义分类 确定 取消

通借通还

建议与咨询留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

请选择保存的检索档案：

请选择收藏分类：