Nature biotechnology最新文献_第10页

A tissue-specific atlas of protein–protein associations enables prioritization of candidate disease genes 蛋白质-蛋白质关联的组织特异性图谱使候选疾病基因的优先级

IF 46.9 1区生物学

Nature biotechnology Pub Date : 2025-05-02 DOI: 10.1038/s41587-025-02659-z

Diederik S. Laman Trip, Marc van Oostrum, Danish Memon, Fabian Frommelt, Delora Baptista, Kalpana Panneerselvam, Glyn Bradley, Luana Licata, Henning Hermjakob, Sandra Orchard, Gosia Trynka, Ellen M. McDonagh, Andrea Fossati, Ruedi Aebersold, Matthias Gstaiger, Bernd Wollscheid, Pedro Beltrao

{"title":"A tissue-specific atlas of protein–protein associations enables prioritization of candidate disease genes","authors":"Diederik S. Laman Trip, Marc van Oostrum, Danish Memon, Fabian Frommelt, Delora Baptista, Kalpana Panneerselvam, Glyn Bradley, Luana Licata, Henning Hermjakob, Sandra Orchard, Gosia Trynka, Ellen M. McDonagh, Andrea Fossati, Ruedi Aebersold, Matthias Gstaiger, Bernd Wollscheid, Pedro Beltrao","doi":"10.1038/s41587-025-02659-z","DOIUrl":"https://doi.org/10.1038/s41587-025-02659-z","url":null,"abstract":"Despite progress in mapping protein–protein interactions, their tissue specificity is understudied. Here, given that protein coabundance is predictive of functional association, we compiled and analyzed protein abundance data of 7,811 proteomic samples from 11 human tissues to produce an atlas of tissue-specific protein associations. We find that this method recapitulates known protein complexes and the larger structural organization of the cell. Interactions of stable protein complexes are well preserved across tissues, while cell-type-specific cellular structures, such as synaptic components, are found to represent a substantial driver of differences between tissues. Over 25% of associations are tissue specific, of which <7% are because of differences in gene expression. We validate protein associations for the brain through cofractionation experiments in synaptosomes, curation of brain-derived pulldown data and AlphaFold2 modeling. We also construct a network of brain interactions for schizophrenia-related genes, indicating that our approach can functionally prioritize candidate disease genes in loci linked to brain disorders.","PeriodicalId":19084,"journal":{"name":"Nature biotechnology","volume":"111 1","pages":""},"PeriodicalIF":46.9,"publicationDate":"2025-05-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143898176","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A mini-colon models colon cancer and its microenvironment. 迷你结肠模拟结肠癌及其微环境。

IF 33.1 1区生物学

Nature biotechnology Pub Date : 2025-05-01 DOI: 10.1038/s41587-024-02343-8

Colin Hutton, Vivian S W Li

引用次数: 0

CRISPR screens of tumor-infiltrating NK cells identify genetic checkpoints for CAR-NK therapy. 对肿瘤浸润 NK 细胞进行 CRISPR 筛选，确定 CAR-NK 疗法的基因检查点。

IF 33.1 1区生物学

Nature biotechnology Pub Date : 2025-05-01 DOI: 10.1038/s41587-024-02319-8

引用次数: 0

Publisher Correction: Machine learning prediction of prime editing efficiency across diverse chromatin contexts. 出版商更正：机器学习预测不同染色质背景下的素材编辑效率。

IF 33.1 1区生物学

Nature biotechnology Pub Date : 2025-05-01 DOI: 10.1038/s41587-024-02383-0

Nicolas Mathis, Ahmed Allam, András Tálas, Lucas Kissling, Elena Benvenuto, Lukas Schmidheini, Ruben Schep, Tanav Damodharan, Zsolt Balázs, Sharan Janjuha, Eleonora I Ioannidi, Desirée Böck, Bas van Steensel, Michael Krauthammer, Gerald Schwank

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Enabling next-generation anaerobic cultivation through biotechnology to advance functional microbiome research 通过生物技术实现下一代厌氧培养，推进功能性微生物组研究

IF 46.9 1区生物学

Nature biotechnology Pub Date : 2025-04-29 DOI: 10.1038/s41587-025-02660-6

Thomas Clavel, Franziska Faber, Mathieu Groussin, Dirk Haller, Jörg Overmann, Charlie Pauvert, Mathilde Poyet, Joel Selkrig, Bärbel Stecher, Athanasios Typas, Maria J. G. T. Vehreschild, Alexander J. Westermann, David Wylensek, Lisa Maier

{"title":"Enabling next-generation anaerobic cultivation through biotechnology to advance functional microbiome research","authors":"Thomas Clavel, Franziska Faber, Mathieu Groussin, Dirk Haller, Jörg Overmann, Charlie Pauvert, Mathilde Poyet, Joel Selkrig, Bärbel Stecher, Athanasios Typas, Maria J. G. T. Vehreschild, Alexander J. Westermann, David Wylensek, Lisa Maier","doi":"10.1038/s41587-025-02660-6","DOIUrl":"https://doi.org/10.1038/s41587-025-02660-6","url":null,"abstract":"Microbiomes are complex communities of microorganisms that are essential for biochemical processes on Earth and for the health of humans, animals and plants. Many environmental and host-associated microbiomes are dominated by anaerobic microbes, some of which cannot tolerate oxygen. Anaerobic microbial communities have been extensively studied over the last 20 years using molecular techniques, especially next-generation sequencing. However, there is a renewed interest in microbial cultivation because isolates provide the basis for understanding the taxonomic and functional units of biodiversity, elucidating novel biochemical pathways and the mechanisms underlying microbe–microbe and microbe–host interactions and opening new avenues for biotechnological and clinical applications. In this Perspective, we present areas of research and applications that will benefit from advancement in anaerobic microbial cultivation. We highlight key technical and infrastructural hurdles associated with the development and deployment of sophisticated cultivation workflows. Improving the performance of cultivation techniques will set new trends in functional microbiome research in the coming years.","PeriodicalId":19084,"journal":{"name":"Nature biotechnology","volume":"222 1","pages":""},"PeriodicalIF":46.9,"publicationDate":"2025-04-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143884772","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Membrane-permeable trehalose 6-phosphate precursor spray increases wheat yields in field trials 膜透性海藻糖6-磷酸前体喷雾在田间试验中提高小麦产量

IF 46.9 1区生物学

Nature biotechnology Pub Date : 2025-04-29 DOI: 10.1038/s41587-025-02611-1

Cara A. Griffiths, Xiaochao Xue, Javier A. Miret, Fernando Salvagiotti, Liana G. Acevedo-Siaca, Jacinta Gimeno, Matthew P. Reynolds, Kirsty L. Hassall, Kirstie Halsey, Swati Puranik, Maria Oszvald, Smita Kurup, Benjamin G. Davis, Matthew J. Paul

{"title":"Membrane-permeable trehalose 6-phosphate precursor spray increases wheat yields in field trials","authors":"Cara A. Griffiths, Xiaochao Xue, Javier A. Miret, Fernando Salvagiotti, Liana G. Acevedo-Siaca, Jacinta Gimeno, Matthew P. Reynolds, Kirsty L. Hassall, Kirstie Halsey, Swati Puranik, Maria Oszvald, Smita Kurup, Benjamin G. Davis, Matthew J. Paul","doi":"10.1038/s41587-025-02611-1","DOIUrl":"https://doi.org/10.1038/s41587-025-02611-1","url":null,"abstract":"Trehalose 6-phosphate (T6P) is an endogenous sugar signal in plants that promotes growth, yet it cannot be introduced directly into crops or fully genetically controlled. Here we show that wheat yields were improved using a timed microdose of a plant-permeable, sunlight-activated T6P signaling precursor, DMNB-T6P, under a variety of agricultural conditions. Under both well-watered and water-stressed conditions over 4 years, DMNB-T6P stimulated yield of three elite varieties. Yield increases were an order of magnitude larger than average annual genetic gains of breeding programs and occurred without additional water or fertilizer. Mechanistic analyses reveal that these benefits arise from increased CO2 fixation and linear electron flow (‘source’) as well as from increased starchy endosperm volume, enhanced grain sieve tube development and upregulation of genes for starch, amino acid and protein synthesis (‘sink’). These data demonstrate a step-change, scalable technology with net benefit to the environment that could provide sustainable yield improvements of diverse staple cereal crops.","PeriodicalId":19084,"journal":{"name":"Nature biotechnology","volume":"66 1","pages":""},"PeriodicalIF":46.9,"publicationDate":"2025-04-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143884771","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Environmental monitoring from the air with hyperspectral reporters 用高光谱报告器从空中进行环境监测

IF 46.9 1区生物学

Nature biotechnology Pub Date : 2025-04-29 DOI: 10.1038/s41587-025-02668-y

Maxwell Z. Wilson

引用次数: 0

Application of a sunlight-switched sugar signal increases wheat yield in the field 应用日光开关糖信号可提高田间小麦产量

IF 46.9 1区生物学

Nature biotechnology Pub Date : 2025-04-29 DOI: 10.1038/s41587-025-02667-z

引用次数: 0

Precision neuroscience 精密神经科学

IF 46.9 1区生物学