植物中的邻近标签。

IF 21.3 1区 生物学 Q1 PLANT SCIENCES Annual review of plant biology Pub Date : 2023-05-22 Epub Date: 2023-02-28 DOI:10.1146/annurev-arplant-070522-052132
Shou-Ling Xu, Ruben Shrestha, Sumudu S Karunadasa, Pei-Qiao Xie
{"title":"植物中的邻近标签。","authors":"Shou-Ling Xu,&nbsp;Ruben Shrestha,&nbsp;Sumudu S Karunadasa,&nbsp;Pei-Qiao Xie","doi":"10.1146/annurev-arplant-070522-052132","DOIUrl":null,"url":null,"abstract":"<p><p>Proteins are workhorses in the cell; they form stable and more often dynamic, transient protein-protein interactions, assemblies, and networks and have an intimate interplay with DNA and RNA. These network interactions underlie fundamental biological processes and play essential roles in cellular function. The proximity-dependent biotinylation labeling approach combined with mass spectrometry (PL-MS) has recently emerged as a powerful technique to dissect the complex cellular network at the molecular level. In PL-MS, by fusing a genetically encoded proximity-labeling (PL) enzyme to a protein or a localization signal peptide, the enzyme is targeted to a protein complex of interest or to an organelle, allowing labeling of proximity proteins within a zoom radius. These biotinylated proteins can then be captured by streptavidin beads and identified and quantified by mass spectrometry. Recently engineered PL enzymes such as TurboID have a much-improved enzymatic activity, enabling spatiotemporal mapping with a dramatically increased signal-to-noise ratio. PL-MS has revolutionized the way we perform proteomics by overcoming several hurdles imposed by traditional technology, such as biochemical fractionation and affinity purification mass spectrometry. In this review, we focus on biotin ligase-based PL-MS applications that have been, or are likely to be, adopted by the plant field. We discuss the experimental designs and review the different choices for engineered biotin ligases, enrichment, and quantification strategies. Lastly, we review the validation and discuss future perspectives.</p>","PeriodicalId":8335,"journal":{"name":"Annual review of plant biology","volume":null,"pages":null},"PeriodicalIF":21.3000,"publicationDate":"2023-05-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10576617/pdf/","citationCount":"4","resultStr":"{\"title\":\"Proximity Labeling in Plants.\",\"authors\":\"Shou-Ling Xu,&nbsp;Ruben Shrestha,&nbsp;Sumudu S Karunadasa,&nbsp;Pei-Qiao Xie\",\"doi\":\"10.1146/annurev-arplant-070522-052132\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><p>Proteins are workhorses in the cell; they form stable and more often dynamic, transient protein-protein interactions, assemblies, and networks and have an intimate interplay with DNA and RNA. These network interactions underlie fundamental biological processes and play essential roles in cellular function. The proximity-dependent biotinylation labeling approach combined with mass spectrometry (PL-MS) has recently emerged as a powerful technique to dissect the complex cellular network at the molecular level. In PL-MS, by fusing a genetically encoded proximity-labeling (PL) enzyme to a protein or a localization signal peptide, the enzyme is targeted to a protein complex of interest or to an organelle, allowing labeling of proximity proteins within a zoom radius. These biotinylated proteins can then be captured by streptavidin beads and identified and quantified by mass spectrometry. Recently engineered PL enzymes such as TurboID have a much-improved enzymatic activity, enabling spatiotemporal mapping with a dramatically increased signal-to-noise ratio. PL-MS has revolutionized the way we perform proteomics by overcoming several hurdles imposed by traditional technology, such as biochemical fractionation and affinity purification mass spectrometry. In this review, we focus on biotin ligase-based PL-MS applications that have been, or are likely to be, adopted by the plant field. We discuss the experimental designs and review the different choices for engineered biotin ligases, enrichment, and quantification strategies. Lastly, we review the validation and discuss future perspectives.</p>\",\"PeriodicalId\":8335,\"journal\":{\"name\":\"Annual review of plant biology\",\"volume\":null,\"pages\":null},\"PeriodicalIF\":21.3000,\"publicationDate\":\"2023-05-22\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10576617/pdf/\",\"citationCount\":\"4\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Annual review of plant biology\",\"FirstCategoryId\":\"99\",\"ListUrlMain\":\"https://doi.org/10.1146/annurev-arplant-070522-052132\",\"RegionNum\":1,\"RegionCategory\":\"生物学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"2023/2/28 0:00:00\",\"PubModel\":\"Epub\",\"JCR\":\"Q1\",\"JCRName\":\"PLANT SCIENCES\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Annual review of plant biology","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.1146/annurev-arplant-070522-052132","RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2023/2/28 0:00:00","PubModel":"Epub","JCR":"Q1","JCRName":"PLANT SCIENCES","Score":null,"Total":0}
引用次数: 4

摘要

蛋白质是细胞中的主力;它们形成稳定的、更经常是动态的、短暂的蛋白质-蛋白质相互作用、组装和网络,并与DNA和RNA密切相互作用。这些网络相互作用是基本生物过程的基础,在细胞功能中发挥着重要作用。最近,与质谱法(PL-MS)相结合的邻近依赖性生物素标记方法已成为在分子水平上剖析复杂细胞网络的一种强大技术。在PL-MS中,通过将遗传编码的邻近标记(PL)酶融合到蛋白质或定位信号肽,该酶被靶向感兴趣的蛋白质复合物或细胞器,从而允许在缩放半径内标记邻近蛋白质。然后,这些生物素化的蛋白质可以被链亲和素珠捕获,并通过质谱法进行鉴定和定量。最近工程化的PL酶,如TurboID,具有显著提高的酶活性,能够以显著提高的信噪比进行时空映射。PL-MS通过克服传统技术带来的几个障碍,如生化分馏和亲和纯化质谱,彻底改变了我们进行蛋白质组学的方式。在这篇综述中,我们重点关注已经或可能被植物领域采用的基于生物素连接酶的PL-MS应用。我们讨论了实验设计,并回顾了工程化生物素连接酶的不同选择、富集和定量策略。最后,我们回顾了验证并讨论了未来的展望。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

摘要图片

摘要图片

摘要图片

查看原文
分享 分享
微信好友 朋友圈 QQ好友 复制链接
本刊更多论文
Proximity Labeling in Plants.

Proteins are workhorses in the cell; they form stable and more often dynamic, transient protein-protein interactions, assemblies, and networks and have an intimate interplay with DNA and RNA. These network interactions underlie fundamental biological processes and play essential roles in cellular function. The proximity-dependent biotinylation labeling approach combined with mass spectrometry (PL-MS) has recently emerged as a powerful technique to dissect the complex cellular network at the molecular level. In PL-MS, by fusing a genetically encoded proximity-labeling (PL) enzyme to a protein or a localization signal peptide, the enzyme is targeted to a protein complex of interest or to an organelle, allowing labeling of proximity proteins within a zoom radius. These biotinylated proteins can then be captured by streptavidin beads and identified and quantified by mass spectrometry. Recently engineered PL enzymes such as TurboID have a much-improved enzymatic activity, enabling spatiotemporal mapping with a dramatically increased signal-to-noise ratio. PL-MS has revolutionized the way we perform proteomics by overcoming several hurdles imposed by traditional technology, such as biochemical fractionation and affinity purification mass spectrometry. In this review, we focus on biotin ligase-based PL-MS applications that have been, or are likely to be, adopted by the plant field. We discuss the experimental designs and review the different choices for engineered biotin ligases, enrichment, and quantification strategies. Lastly, we review the validation and discuss future perspectives.

求助全文
通过发布文献求助,成功后即可免费获取论文全文。 去求助
来源期刊
Annual review of plant biology
Annual review of plant biology 生物-植物科学
CiteScore
40.40
自引率
0.40%
发文量
29
期刊介绍: The Annual Review of Plant Biology is a peer-reviewed scientific journal published by Annual Reviews. It has been in publication since 1950 and covers significant developments in the field of plant biology, including biochemistry and biosynthesis, genetics, genomics and molecular biology, cell differentiation, tissue, organ and whole plant events, acclimation and adaptation, and methods and model organisms. The current volume of this journal has been converted from gated to open access through Annual Reviews' Subscribe to Open program, with all articles published under a CC BY license.
期刊最新文献
Adaptation and the Geographic Spread of Crop Species. Environmental Control of Hypocotyl Elongation. Plant Cryopreservation: Principles, Applications, and Challenges of Banking Plant Diversity at Ultralow Temperatures. Structure and Function of Auxin Transporters. Structural and Evolutionary Aspects of Plant Endocytosis.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
×
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
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
已复制链接
已复制链接
快去分享给好友吧!
我知道了
×
扫码分享
扫码分享
Book学术官方微信
Book学术文献互助
Book学术文献互助群
群 号:481959085
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