Yan Zhu

Chinese Academy of Sciences

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Wen‐Hui Shen

Institut de Biologie Moléculaire des Plantes

Aiwu Dong

Fudan University

Huijia Kang

State Key Laboratory of Genetic Engineering

Tianyi Fan

Fudan University

Di Wu

Fudan University

Jing Ma

Xinjiang Medical University

Yu Yu

Xinjiang Academy of Agricultural and Reclamation Science

Kaiming Cao

Fudan University

Sudong Guan

Bengbu Medical College

Jiabing Wu

Fudan University

Cooperative Institutions

Fudan University

Chinese Academy of Sciences

Sun Yat-sen University

University of Chinese Academy of Sciences

Chinese Academy of Medical Sciences & Peking Union Medical College

Shanghai Jiao Tong University

Central South University

Peking University

Sichuan University

Ministry of Agriculture and Rural Affairs

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Odorant receptor gene choice and axonal wiring in mice with deletion mutations in the odorant receptor gene SR1

Molecular and Cellular Neuroscience (2013)

Stefan H. Fuss Yan Zhu Peter Mombaerts

Gene targeting

10.1016/j.mcn.2013.05.002

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Citations (16)

Molecular characterization of three rice SET-domain proteins

Plant Science (2007)

Bo Ding Yan Zhu Juan Gao Yu Yu Kaiming Cao

Subfamily

Homology

10.1016/j.plantsci.2007.03.009

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Citations (16)

Global Transcriptome Analysis Reveals Acclimation-Primed Processes Involved in the Acquisition of Desiccation Tolerance inBoea hygrometrica

Plant and Cell Physiology (2015)

Yan Zhu Bo Wang Jonathan Phillips Zhennan Zhang Hong Du

Boea hygrometrica resurrection plants require a period of acclimation by slow soil-drying in order to survive a subsequent period of rapid desiccation. The molecular basis of this observation was investigated by comparing gene expression profiles under different degrees of water deprivation. Transcripts were clustered according to the expression profiles in plants that were air-dried (rapid desiccation), soil-dried (gradual desiccation), rehydrated (acclimated) and air-dried after acclimation. Although phenotypically indistinguishable, it was shown by principal component analysis that the gene expression profiles in rehydrated, acclimated plants resemble those of desiccated plants more closely than those of hydrated acclimated plants. Enrichment analysis based on gene ontology was performed to deconvolute the processes that accompanied desiccation tolerance. Transcripts associated with autophagy and α-tocopherol accumulation were found to be activated in both air-dried, acclimated plants and soil-dried non-acclimated plants. Furthermore, transcripts associated with biosynthesis of ascorbic acid, cell wall catabolism, chaperone-assisted protein folding, respiration and macromolecule catabolism were activated and maintained during soil-drying and rehydration. Based on these findings, we hypothesize that activation of these processes leads to the establishment of an optimal physiological and cellular state that enables tolerance during rapid air-drying. Our study provides a novel insight into the transcriptional regulation of critical priming responses to enable survival following rapid dehydration in B. hygrometrica.

Desiccation Tolerance

Catabolism

Cryptobiosis

10.1093/pcp/pcv059

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Citations (62)

Arabidopsis γ-H2A.X-INTERACTING PROTEIN participates in DNA damage response and safeguards chromatin stability

Nature Communications (2022)

Tianyi Fan Huijia Kang Di Wu Xinyu Zhu Lin Huang

Abstract Upon the occurrence of DNA double strand breaks (DSB), the proximal histone variant H2A.X is phosphorylated as γ-H2A.X, a critical signal for consequent DSB signaling and repair pathways. Although γ-H2A.X-triggered DNA damage response (DDR) has been well-characterized in yeast and animals, the corresponding pathways in plant DDR are less well understood. Here, we show that an Arabidopsis protein γ-H2A.X-INTERACTING PROTEIN (XIP) can interact with γ-H2A.X. Its C-terminal dual-BRCT-like domain contributes to its specific interaction with γ-H2A.X. XIP -deficient seedlings display smaller meristems, inhibited growth, and higher sensitivity to DSB-inducing treatment. Loss-of-function in XIP causes transcriptome changes mimicking wild-type plants subject to replicative or genotoxic stresses. After genotoxic bleomycin treatment, more proteins with upregulated phosphorylation modifications, more DNA fragments and cell death were found in xip mutants. Moreover, XIP physically interacts with RAD51, the key recombinase in homologous recombination (HR), and somatic HR frequency is significantly reduced in xip mutants. Collectively, XIP participates in plant response to DSB and contributes to chromatin stability.

10.1038/s41467-022-35715-2

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Citations (19)

Passively-targeted mitochondrial tungsten-based nanodots for efficient acute kidney injury treatment

Bioactive Materials (2022)

Qiong Huang Yuqi Yang Tianjiao Zhao Qiaohui Chen Min Liu

Acute kidney injury (AKI) can lead to loss of kidney function and a substantial increase in mortality. The burst of reactive oxygen species (ROS) plays a key role in the pathological progression of AKI. Mitochondrial-targeted antioxidant therapy is very promising because mitochondria are the main source of ROS in AKI. Antioxidant nanodrugs with actively targeted mitochondria have achieved encouraging success in many oxidative stress-induced diseases. However, most strategies to actively target mitochondria make the size of nanodrugs too large to pass through the glomerular system to reach the renal tubules, the main damage site of AKI. Here, an ultra-small Tungsten-based nanodots (TWNDs) with strong ROS scavenging can be very effective for treatment of AKI. TWNDs can reach the tubular site after crossing the glomerular barrier, and enter the mitochondria of the renal tubule without resorting to complex active targeting strategies. To our knowledge, this is the first time that ultra-small negatively charged nanodots can be used to passively target mitochondrial therapy for AKI. Through in-depth study of the therapeutic mechanism, such passive mitochondria-targeted TWNDs are highly effective in protecting mitochondria by reducing mitochondrial ROS and increasing mitophagy. In addition, TWNDs can also reduce the infiltration of inflammatory cells. This work provides a new way to passively target mitochondria for AKI, and give inspiration for the treatment of many major diseases closely related to mitochondria, such as myocardial infarction and cerebral infarction.

Mitochondrial ROS

10.1016/j.bioactmat.2022.08.022

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Citations (58)

AtINO80 and AtARP5 physically interact and play common as well as distinct roles in regulating plant growth and development

New Phytologist (2019)

Huijia Kang Chi Zhang Zengxuan An Wen‐Hui Shen Yan Zhu

The proper modulation of chromatin structure is dependent on the activities of chromatin-remodeling factors and their interplays. Here, we show that the Arabidopsis chromatin-remodeler AtINO80 interacts with the actin-related protein AtARP5 and can form a larger protein complex. Genetic analysis demonstrated that AtARP5 acts in concert with AtINO80 during plant cellular proliferation and replication stress response. At the same time, AtARP5 is not required for AtINO80-mediated control of flowering time and related transcriptional regulation, and their chromatin distribution patterns on regions of flowering-repressor genes FLC/MAF4/MAF5 are also different. An in vitro DNase I digestion assay revealed that the AtINO80N-terminus can weakly bind DNA, an interaction that is significantly inhibited by H2A.Z/H2B addition. AtARP6, a specific subunit of SWR1-C that mediates the H2A.Z exchange, was found to have a previously unexpected inhibitory role in the local chromatin enrichment of AtINO80. Further genetic analyses revealed the functional interplay between AtINO80 and AtARP6 and their critical roles in embryogenesis and post-embryonic organ development, as well as the synergy of AtARP5 and AtARP6 in maintaining genomic stability. Our findings provide insights into the common and distinct roles of AtINO80 and AtARP5 in diverse aspects of plant development.

10.1111/nph.15780

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Citations (24)

A comparative study on Ca content and distribution in two Gesneriaceae species reveals distinctive mechanisms to cope with high rhizospheric soluble calcium

Frontiers in Plant Science (2014)

Wenlong Li Falun Xu Shixuan Chen Zhennan Zhang Yan Zhao

Excessive Ca is toxic to plants thus significantly affects plant growth and species distribution in Ca-rich karst areas. To understand how plants survive high Ca soil, laboratory experiments were established to compare the physiological responses and internal Ca distribution in organ, tissue, cell and intracellular levels under different Ca levels for Lysionotus pauciflorus and Boea hygrometrica, two karst habitant Gesneriaceae species in Southwest China. In the controlled condition, L. pauciflorus could survive as high as 200 mM rhizospheric soluble Ca, attributed to a series of physiological responses and preferential storage that limited Ca accumulation in chloroplasts of palisade cells. In contrast, B. hygrometrica could survive only 20 mM rhizospheric soluble Ca, but accumulated a high level of internal Ca in both palisade and spongy cells without disturbance on photosynthetic activity. By phenotype screening of transgenic plants expressing high Ca-inducible genes from B. hygrometrica, the expression of BhDNAJC2 in A. thaliana was found to enhance plant growth and photosynthesis under high soluble Ca stress. BhDNAJC2 encodes a recently reported heat shock protein (HSP) 40 family DnaJ-domain protein. The Ca-resistant phenotype of BhDNAJC2 highlights the important role of chaperone-mediated protein quality control in Ca tolerance in B. hygrometrica. Taken together, our results revealed that distinctive mechanisms were employed in the two Gesneriaceae karst habitants to cope with a high Ca environment.

Gesneriaceae

10.3389/fpls.2014.00647

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Citations (20)

Activities of Chromatin Remodeling Factors and Histone Chaperones and Their Effects in Root Apical Meristem Development

International Journal of Molecular Sciences (2020)

Huijia Kang Di Wu Tianyi Fan Yan Zhu

Eukaryotic genes are packaged into dynamic but stable chromatin structures to deal with transcriptional reprogramming and inheritance during development. Chromatin remodeling factors and histone chaperones are epigenetic factors that target nucleosomes and/or histones to establish and maintain proper chromatin structures during critical physiological processes such as DNA replication and transcriptional modulation. Root apical meristems are vital for plant root development. Regarding the well-characterized transcription factors involved in stem cell proliferation and differentiation, there is increasing evidence of the functional implications of epigenetic regulation in root apical meristem development. In this review, we focus on the activities of chromatin remodeling factors and histone chaperones in the root apical meristems of the model plant species Arabidopsis and rice.

Histone code

Reprogramming

10.3390/ijms21030771

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Citations (12)

A Non‐canonical Transferred DNA Insertion at the BRI1 Locus in Arabidopsis thaliana

Journal of Integrative Plant Biology (2009)

Zhong Zhao Yan Zhu Mathieu Erhardt Ying Ruan Wen‐Hui Shen

Abstract Agrobacterium ‐mediated transformation is widely used in transgenic plant engineering and has been proven to be a powerful tool for insertional mutagenesis of the plant genome. The transferred DNA (T‐DNA) from Agrobacterium is integrated into the plant genome through illegitimate recombination between the T‐DNA and the plant DNA. Contrasting to the canonical insertion, here we report on a locus showing a complex mutation associated with T‐DNA insertion at the BRI1 gene in Arabidopsis thaliana . We obtained a mutant line, named salade for its phenotype of dwarf stature and proliferating rosette. Molecular characterization of this mutant revealed that in addition to T‐DNA a non‐T‐DNA‐localized transposon from bacteria was inserted in the Arabidopsis genome and that a region of more than 11.5 kb of the Arabidopsis genome was deleted at the insertion site. The deleted region contains the brassinosteroid receptor gene BRI1 and the transcription factor gene WRKY13 . Our finding reveals non‐canonical T‐DNA insertion, implicating horizontal gene transfer and cautioning the use of T‐DNA as mutagen in transgenic research.

Insertional mutagenesis

10.1111/j.1744-7909.2009.00821.x

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Citations (10)

Cloning and molecular characterization of rutin degrading enzyme from tartary buckwheat (Fagopyrum tataricum Gaertn.)

Plant Physiology and Biochemistry (2019)

Peng Jia Yuan Wang Yinan Niu Xiaowei Han Yan Zhu

Fagopyrum tataricum

Fagopyrum

10.1016/j.plaphy.2019.08.016

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Citations (11)