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Meta-Analysis of Retrograde Signaling in Arabidopsis thaliana Reveals a Core Module of Genes Embedded in Complex Cellular Signaling Networks

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Molecular Plant 2014年第7期7卷 1167-1190页

作者： Christine GlaiBer Georg Haberer iris Finkemeier Thomas Pfannschmidt Tatjana Kleine Dario Leister Kari-Josef Dietz Rainer Erich Haiusler Bernhard Grimm Klaus Franz Xaver Mayer Helmholtz Zentrum Munchen German Research Center for Environmental Health Institute of Bioinformatics and Systems Biology(IBIS) Ingolstadter Landstr. 1 D-85764 Neuherberg Germany Biozentrum der LMU Munchen Department of Biologie I-Botanik Groβhaderner Str. 2-4 D-82152 Planegg-Martinsried Germany Friedrich-Schiller-Universitat Jena Institut fur AIIgemeine Botanik und Pflanzenphysiologie Dornburger Str. 159 D-07743 JenaGermany Laboratoire de Physiologie Cellulaire Vegetale (LPCV) CEA/CNRS/UJF iRTSV CEA Grenoble 17 rue des Martyrs 38054 Grenoble cedex 9France Biochemistry and Physiology of Plants Faculty of Biology Bielefeld University Universit~tsstrai3e 25 D-33615 Bielefeld Germany University of Cologne Botanical Institute Cologne Biocenter Zu1picher Str. 47B D-50674 Cologne Germany Humboldt-Universitat zu Berlin Institut fur Biologie AG Pflanzenphysiologie Philippstrasse 13 D-10115 Berlin Germany

Plastid-to-nucleus signaling is essential for the coordination and adjustment of cellular metabolism in response to environmental and developmental cues of plant cells. A variety of operational retrograde signaling path- ways have been described that are thought to be triggered by reactive oxygen species, photosynthesis redox imbalance, tetrapyrrole intermediates, and other metabolic traits. Here we report a meta-analysis based on transcriptome and pro- tein interaction data. Comparing the output of these pathways reveals the commonalities and peculiarities stimulated by six different sources impinging on operational retrograde signaling. Our study provides novel insights into the interplay of these pathways, supporting the existence of an as-yet unknown core response module of genes being regulated under all conditions tested. Our analysis further highlights affiliated regulatory cis-elements and classifies abscisic acid and auxin-based signaling as secondary components involved in the response cascades following a plastidial signal. Our study provides a global analysis of structure and interfaces of different pathways involved in plastid-to-nucleus signaling and a new view on this complex cellular communication network.

关键词： retrograde signaling meta-analysis abscisic acid auxin.

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Mutants, Overexpressors, and interactors of Arabidopsis Plastocyanin isoforms： Revised Roles of Plastocyanin in Photosynthetic Electron Flow and Thylakoid Redox State

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Molecular Plant 2009年第2期2卷 236-248页

作者： Paolo Pesaresi Michael Scharfenberg Martin Weigel irene Granlund Wolfgang R Schroder Giovanni Finazzi Fabrice Rappaport Simona Masiero Antonella Furini Peter Jahns Dario Leister Dipartimento di Produzione Vegetale Universita degli studi di Milano c/o Parco Tecnologico Padano Via Einstein Loc Cascina Codazza 1-26900 Lodi Italy Lehrstuhl fur botanik Department Biologie I Ludwig-Maximilians-Universitat Munchen GroBhaderner Str. 2 D-82152 Planegg-Martinsried Germany Abteilung fhr Pflanzenzuchtung und Genetik Max-Planck-lnstitut fur Zhchtungsforschung Carl-von-Linne-Weg 10 D-50829 Koln Germany institute of Chemistry and Umea Plant Science Centre (UPSC) Umea University SE-901 87 Umea Sweden institut de biologie Physico-Chimique UMR 7141 CNRS-Universite R et M. Curie 13 rue Pierre et Marie Curie F-75005 Paris France Dipatimento di Biologia Universita degli studi di Milano Via Celoria 26 L-20133 Milano Italy Dipartimento Scientifico e Tecnologico Universita degli studi di Verona Strade le Grazie 15 1-37134 Verona Italy institut fur Biochemie der Pflanzen Heinrich-Heine-Universitat Dusseldorf Universitatsstr. 1 D-40225 Dusseldorf Germany

Two homologous plastocyanin isoforms are encoded by the genes PETE1 and PETE2 in the nuclear genome of Arabidopsis thaliana. The PETE2 transcript is expressed at considerably higher levels and the PETE2 protein is the more abundant isoform. Null mutations in the PETE genes resulted in plants, designated pete1 and pete2, with decreased plastocyanin contents. However, despite reducing plastocyanin levels by over -90%, a pete2 null mutation on its own affects rates of photosynthesis and growth only slightly, whereas pete1 knockout plants, with about 60-80% of the wild-type plastocyanin level, did not show any alteration. Hence, plastocyanin concentration is not limiting for photosynthetic elec- tron flow under optimal growth conditions, perhaps implying other possible physiological roles for the protein. indeed, plastocyanin has been proposed previously to cooperate with cytochrome C6A （Cyt C6A） in thylakoid redox reactions, but we find no evidence for a physical interaction between the two proteins, using interaction assays in yeast. We observed homodimerization of Cyt C6A in yeast interaction assays, but also Cyt C6A homodimers failed to interact with plastocyanin. Moreover, phenotypic analysis of atc6-1 pete1 and atc6-1 pete2 double mutants, each lacking Cyt C6A and one of the two piastocyanin-encoding genes, failed to reveal any genetic interaction. Overexpression of either PETE1 or PETE2 in the pete1 pete2 double knockout mutant background results in essentially wild-type photosynthetic performance, excluding the possibility that the two plastocyanin isoforms could have distinct functions in thylakoid electron flow.

关键词： Mutants Overexpressors nteractors of Arabidopsis Plastocyanin isoforms

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Contrasting soil fungal communities in Mediterranean pine forests subjected to different wildfire frequencies

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Fungal Diversity 2015年第1期70卷 85-99页

作者： Erika Buscardo Susana Rodríguez-Echeverría Helena Freitas Paolo De Angelis João Santos Pereira Ludo A.H.Muller Centro de Ecologia Funcional(CEF) Departamento de Ciências da VidaUniversidade de CoimbraCalçada Martim de Freitas3000-456 CoimbraPortugal Department for innovation in Biological Agro-Food and Forest Systems(DIBAF)University of TusciaVia S.Camillo de Lellis snc01100 ViterboItaly Escritório Central do LBA Instituto Nacional de Pesquisa da Amazônia(INPA)Av.AndréAraújo2936Campus IIAleixo69060-001 ManausAmazonasBrazil Departamento de Engenharia Florestal Instituto Superior de AgronomiaUniversidade Técnica de LisboaTapada da Ajuda1349-018 LisbonPortugal institut für biologie—botanik Freie Universität BerlinAltensteinstrasse 614195 BerlinGermany

Mediterranean forest ecosystems are characterized by various vascular plant groups with their associated mycor-rhizae and free living soil fungi with various ecological *** plays a major role in Mediterranean ecosystem dynamics and impacts both above-and below-ground community structure and ***,studies on the effects induced by altered disturbance regimes(associated with recent land use and climate extremes)on fire ecology and especially on its below-ground impacts are *** objectives of this study were to evaluate the effects of different wildfire regimes on soil fungal community structure using two different molecular *** investigated the long-term effects of wildfire on soil fungal communities associated with Pinus pinaster forests in central Portugal,by comparing the results of denaturing gradient gel electrophoresis(DGGE)-based profiling with those obtained with 454 *** forest stands with differing fire history and fire return interval,and vegetation cover(mature forest,early successional stage of pine regeneration,and forest converted to scrubland)were sampled 6 years after the last fire *** pyrosequencing-based approach indicated ***-fold higher numbers of taxa than ***,fungal community fingerprinting data obtained for the different study stands with DGGE were congruent with those obtained with *** short(7.6 years)and long(24 years)fire return intervals(indicated by the presence of ericaceous shrubs in the understorey)induced a decrease in the abun-dance ratio between basidiomycetes and ascomycetes and appeared to reduce the frequency of ectomycorrhizal fungal species and *** significantly reduced the frequency of late stage successional taxa(*** and Cantharellales)and known or putative saprophytes belonging to the Clavulinaceae and the ***,early successional fungal species belonging to the Thelephoraceae were fav

关键词： 454 Pyrosequencing DGGE Wildfire frequency Soil fungal community Maritime pine

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CRYSTALLOGRAPHiC AND SOLUTiON STUDiES OF H-PROTEiN FROM THE GLYCiNE DECARBOXYLASE COMPLEX iN PEA MiTOCHONDRiA

CRYSTALLOGRAPHIC AND SOLUTION STUDIES OF H-PROTEIN FROM THE ...

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Sixteenth Congress of the international Union of Crystallography

作者： C.Cohen-Addad S.Pares L.Sieker M.Neuburger R.Douce G.Zaccai inst.biologie Structurale 41 av.des MartyrsGrenoble 38027 Cedex 1France dept.of Biol.Structure SM-20Univ.of WashingtonSeattleWA 98195USA dept.de biologie LBSPCVC.E.N.G.BP85X38041 GrenobleFrance

＜正＞The oxidation of glycine by plant mitochondria represents an important step in the metabolic pathway of photorespiration in leaf tissue and is catalyzed by the glycine decarboxylase *** complex,purified from pea leaf mitochondria,contains four proteins,P,T,H and L（Bourguignon,Neuburger ＆ Douce,1988）. The pivotal enzyme is the 13.3kDA lipoamide-containing H-protein.

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太阳紫外辐射增加对水生生态系统的影响

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人类环境杂志 1995年第3期24卷 173-179页

作者： Donat-P.Hder Robert C.Worrest H.D.Kumar Raymond C.Smith 王新宇 Donat-P. Hader PhD Institut fur Botanik und Pharmazeutische Biologie der Universitat Erlangen-Nurnberg Staudtstraβe 5 D-910S8 Erlangen Germany Consortium for international Earth Science information Network (CiESiN)1747 Pennsylvania Ave. . NW Suite 200 Washington DC 20006 USA Centre of Advanced Study in Botany Banaras Hindu UniversityC-1/1 Jodhpur Colony P. O. Box 5014Varanasi 221005 india Center for Remote Sensing and Environmental Optics University of California Santa Barbara California 93106 USA

水生生物系统为人类提供大量的食物,其主要形式是鱼类、甲壳类和海藻。全球人类所消耗的动物蛋白质的30%以上来自于海洋,在很多国家,特别是发展中国家,这个比例还会大大增加。因此,了解大阳 UV—B辐射(280～315nm)的增加对水生生态系统... 详细信息

水生生物系统为人类提供大量的食物,其主要形式是鱼类、甲壳类和海藻。全球人类所消耗的动物蛋白质的30%以上来自于海洋,在很多国家,特别是发展中国家,这个比例还会大大增加。因此,了解大阳 UV—B辐射(280～315nm)的增加对水生生态系统产品的产量有怎样的影响是十分重要的。另外,海洋还在全球变暖的过程中起着重要作用。海洋浮游生物是大气中CO_2的主要的汇,对未来大气中CO_2浓度的变化趋势起着决定性作用。海洋生物系和陆地生物圈对CO_2的净吸收的相对重要性已成为当前很多研究项目的主要内容。浮游生物构成了水中各种其它生物赖以生存的食物链的基础。海洋中浮游生物在全球海洋中的分布并不均匀。研究发现,除了大陆架的涌升区域外,高纬度地区浮游生物的浓度最高,要比热带和亚热带地区浮游生物的浓度高10～100倍。除养分、温度、盐度和光照因素外,热带和亚热带地区经常发生的高强度太阳 UV—B辐射也是影响浮游生物分布的因素之一。某种主要的浮游生物数量的减少会严重影响到水生生态系统的复杂的食物链及食物的总产量。据测算,大气中臭氧含量耗损16%会导致浮游生物数量减少5%,也就等于全世界每年的鱼产量将减少700万t。要确定UV—B辐射量小的变化对生物的影响到底有多大可能是困难的,因为生物本身有很大的不确定性和变异,而且未能很好地确定臭氧减少前的浮游生物的产量。浮游生物生产局限于透光层,即水域的上层,因为这里有充足的阳光。有机物在透光层中的位置受风和海浪作用的影响。另外,很多浮游生物因活动能力强而增加了产量及生存能力。像人类一样,浮游生物不能察觉进而避免UV—B辐射。研究表明,太阳UV—B辐射对浮游生物的定向性和游动两方面均有影响,最终会导致这些有机物生存能力的降低。研究人员直接测量了UV—B辐射在南极水域的增加量和穿透性,并提供了臭氧变化对自然界浮游生物群落影响的结论性证据。利用与南极臭氧洞有关的UV—B辐射的时间和空间的变化特性,研究人员估算了臭氧洞所覆盖的范围内浮游生物的产量,并与洞外区域进行了比较。结果表明,由于臭氧的减少而导致的UV—B辐射的增加直接引起了浮游生物数量的减少。一项研究指出,在结冰带的边缘,浮游生物的这种减少量为6%～12%。近年来,UV—B辐射对藻类和海草的影响引起了人们的关注。与浮游生物相比,多数较大型的植物被固定在它们生长的地方,因此仅受到自己生长的地方的UV—B辐射的作用和影响。最近的研究已经证明,很多红色、褐色和绿色藻类不进行光合作用。人们还发现,大阳UV—B辐射对鱼虾蟹类、两栖类及其它动物早期发育阶段有损害作用。最严重的是降低它们的繁殖能力和损害幼体的成长发育。甚至在目前强度水平下,太阳UV—B辐射仍是一种限制因素,UV—B辐射量稍微增加便会导致一些有机物数量的大大减少。在高纬度地区(高于北纬40°)的晚春季节,UV—B辐射的增加可能会影响到一些物种,因为UV—B#射的增强恰好发生在它们生长发育的关键阶段。即使UV—B辐射很少量的增加或短期的波动也会很严重地影响较敏感的物种。最近的研究已经论述了氯氟烃化合物的替代物及其分解物的潜在影响。一些氢氟碳化合物(HFCs)和氢氯氟烃化合物(HCFCs),特别是HFC134a,HCFC123和 HCFC124降解并主要生成三氟醋酸(TFA)。TFA对大多数海洋和淡水中的浮游生物来说具有轻度的毒性,人们还在推测TFA是否会在食物链中聚集。即使TFA的生产维持到下一世纪,TFA也不会达到严重毒害整个海洋浮游生物的程度。然而在局部水生生物系统内,可能会达到剧毒的程度。虽然大量的资料证明,过量的UV—B辐射无疑对水生生态系统是有害的,但目前我们只能对其潜在危害作一个粗略的估计。

关键词：太阳紫外辐射水生生态系统水生生物学

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力敏感离子通道Piezo1分布与活性的力学调控及其与细胞转化态的关系

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医用生物力学 2021年第S1期36卷 88-88页

作者：姚明曦 Ajay Tijore Charles D Cox Anushya Hariharan Guy Tran Van Nhieu Boris Martinac Michael Sheetz 南方科技大学生物医学工程系深圳518055 Mechanobiology institute National University of Singapore Victor Chang Cardiac Research institute NSW 2010Australia Equipe Communication intercellulaire et infections Microbiennes Centre de Recherche Interdisciplinaire en Biologie(CIRB)Collège de FranceFrance Department of Biological Sciences National University of Singapore Molecular MechanoMedicine Program Dept.of Biochemistry and Molecular BiologyUniversity of Texas Medical BranchUSA

目的近十年来新发现广泛表达于多种组织细胞中的力敏感钙离子通道Piezo1在触觉/听觉感受,血压控制,免疫激活等生理过程中起到关键的力学感知作用。经典模型认为,Piezo1在细胞膜上扩散分布并在细胞膜局部表面张力起伏的作用下被激活,但... 详细信息

目的近十年来新发现广泛表达于多种组织细胞中的力敏感钙离子通道Piezo1在触觉/听觉感受,血压控制,免疫激活等生理过程中起到关键的力学感知作用。经典模型认为,Piezo1在细胞膜上扩散分布并在细胞膜局部表面张力起伏的作用下被激活,但其在细胞复杂生理过程中的调控还有很多未知问题尚待回答。方法通过一系列显微成像方法研究了Piezo1的时空分布与活性在不同种类细胞中的力学调控。

关键词：钙离子通道细胞转化力学调控免疫激活血压控制组织细胞经典模型未知问题

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Nature：大规模研究揭示生命所必需的基因

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现代生物医学进展 2016年第31期16卷 I0002-I0003页

作者： Dickinson, Mary E. Flenniken, Ann M. Ji, Xiao Teboul, Lydia Wong, Michael D. White, Jacqueline K. Meehan, Terrence F. Weninger, Wolfgang J. Westerberg, Henrik Adissu, Hibret Baker, Candice N. Bower, Lynette Brown, James M. Caddle, L. Brianna Chiani, Francesco Clary, Dave Cleak, James Daly, Mark J. Denegre, James M. Doe, Brendan Dolan, Mary E. Edie, Sarah M. Fuchs, Helmut Gailus-Durner, Valerie Galli, Antonella Gambadoro, Alessia Gallegos, Juan Guo, Shiying Horner, Neil R. Hsu, Chih-Wei Johnson, Sara J. Kalaga, Sowmya Keith, Lance C. Lanoue, Louise Lawson, Thomas N. Lek, Monkol Mark, Manuel Arschall, Susan M. Mason, Jeremy McElwee, Melissa L. Newbigging, Susan Nutter, Lauryl M. J. Peterson, Kevin A. Ramirez-Solis, Ramiro Rowland, Douglas J. Ryder, Edward Samocha, Kaitlin E. Seavitt, John R. Selloum, Mohammed Szoke-Kovacs, Zsombor Tamura, Masaru Trainor, Amanda G. Tudose, ilinca Wakana, Shigeharu Warren, Jonathan Wendling, Olivia West, David B. Wong, Leeyean Yoshiki, Atsushi MacArthur, Daniel G. Tocchini-Valentini, Glauco P. Gao, Xiang Flicek, Paul Bradley, Allan Skarnes, William C. Justice, Monica J. Parkinson, Helen E. Moore, Mark Wells, Sara Braun, Robert E. Svenson, Karen L. de Angelis, Martin Hrabe Herault, Yann Mohun, Tim Mallon, Ann-Marie Henkelman, R. Mark Brown, Steve D. M. Adams, David J. Lloyd, K. C. Kent McKerlie, Colin Beaudet, Arthur L. Bucan, Maja Murray, Stephen A. dept Mol Physiol & Biophys Houston TX 77030 USA Toronto Ctr Phenogen Toronto ON M5T 3H7 Canada Mt Sinai Hosp Toronto ON M5G 1X5 Canada Univ Penn Perelman Sch Med Genom & Computat Biol Program Philadelphia PA 19104 USA Med Res Council Harwell Mammalian Genet Unit Harwell OX11 0RD Oxon England Mary Lyon Ctr Harwell OX11 0RD Oxon England Hosp Sick Children Mouse Imaging Ctr Toronto ON M5T 3H7 Canada Wellcome Trust Sanger inst Wellcome Trust Genome Campus Cambridge CB10 1SA England European Bioinformat inst European Mol Biol Lab Wellcome Trust Genome Campus Cambridge CB10 1SD England Med Univ Vienna Ctr Anat & Cell Biol A-1090 Vienna Austria Hosp Sick Children 555 Univ Ave Toronto ON M5G 1X8 Canada Jackson Lab 600 Main St Bar Harbor ME 04609 USA Univ Calif Davis Mouse Biol Program Davis CA 95618 USA italian Natl Res Council CNR Inst Cell Biol & Neurobiol Monterotondo Mouse Clin I-00015 Monterotondo Italy Massachusetts Gen Hosp Analyt & Translat Genet Unit Boston MA 02114 USA Broad inst MiT & Harvard Program Med & Populat Genet Cambridge MA 02142 USA German Res Ctr Environm Hlth Helmholtz Zentrum Munchen Inst Expt Genet D-85764 Neuherberg Germany German Mouse Clin D-85764 Neuherberg Germany Baylor Coll Med Dept Mol & Human Genet Houston TX 77030 USA Nanjing Univ Nanjing Biomed Res Inst Collaborat Innovat Ctr Genet & Dev SKL Pharmaceut Biotechnol & Model Anim Res Ctr Nanjing 210061 Jiangsu Peoples R China Univ Strasbourg ICS Infrastruct Natl PHENOMIN F-67404 Illkirch Graffenstaden France Univ Strasbourg INSERM CNRS IGBMC F-67404 Illkirch Graffenstaden France RiKEN BioResource Ctr Tsukuba Ibaraki 3050074 Japan Childrens Hosp Oakland Res Inst Oakland CA 94609 USA iMPC San Anselmo CA 94960 USA Tech Univ Munich Sch Life Sci Weihenstephan Chair Expt Genet D-81675 Freising Weihenstephan Germany German Ctr Diabet Res DZD D-85764 Neuherberg Germany Francis Crick inst Mill Hill Lab Mill Hill London NW1 1AT England Univ Penn Perlman

在哺乳动物基因组中。大约三分之一的基因是生命所必需的。在一项新的研究中，来自美国贝勒医学院等多个机构的研究人员描述了这些基因的大规模发现。以及它将如何影响对哺乳动物发育和人类疾病的理解。相关研究结果在线发表在Nature期... 详细信息

在哺乳动物基因组中。大约三分之一的基因是生命所必需的。在一项新的研究中，来自美国贝勒医学院等多个机构的研究人员描述了这些基因的大规模发现。以及它将如何影响对哺乳动物发育和人类疾病的理解。相关研究结果在线发表在Nature期刊上，论文标题为“High—throughput discovery of novel developmental phenotypes”。

关键词：动物基因组生命哺乳动物研究人员人类疾病医学院

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