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| 1 | Global transcriptome analysis for identification of interactions between coding and noncoding RNAs during human erythroid differentiation显示文摘在 erythroid 开发期间编码基因, miRNAs,和 lncRNAs 上的研究在最近的年里被执行了。然而,集中于三种 RNA 类型的集成的分析还得被做。在现在的学习,我们比较了编码基因, miRNA,和 lncRNA 表示侧面的动力学。为了在在 transcriptome 控制这些变化的红血球生成和潜在的机制探索动态变化,铺平,我们利用了定序技术从绳索血获得 transcriptome 数据的高产量造血的干细胞和下列四个 erythroid 区别阶段,以及从成熟的红血房间。结果显示 lncRNAs 为 erythroid 区别正在答应房间标记候选人。聚类分析分类差别表示基因进在 stemness 维护期间对应于动态变化的四种子类型,中间区别,并且成熟。综合分析揭示了 RNA 潜在地参予了控制血细胞成熟的那 noncoding,并且特别与到氧种类和 DNA 损坏的 heme 新陈代谢和回答联系了。这些规章的相互作用在一个全面网络,在 RNA 之间的从而推断的关联和他们的联系功能被显示。这些数据为正常红血球生成的学习提供了一个大量的资源,它将允许 erythroid 开发的进一步的调查和理解并且获得 erythroid 混乱。 | Nan Ding Jiafei Xi Yanming Li Xiaoyan Xie Jian Shi Zhaojun Zhang Yanhua Li Fang Fang Sihan Wang Wen Yue Xuetao Pei Xiangdong Fang | 2016 | Frontiers of Medicine2016，10，3： | 6 |
| 2 | MPK14-mediated auxin signaling controls lateral root development via ERF13-regulated very-long-chain fatty acid biosynthesis显示文摘Auxin plays a critical role in lateral root(LR)formation.The signaling module composed of auxin-response factors(ARFs)and lateral organ boundaries domain transcription factors mediates auxin signaling to control almost every stage of LR development.Here,we show that auxin-induced degradation of the APETALA2/Ethylene Responsive Factor(AP2/ERF)transcription factor ERF13,dependent on MITOGENACTIVATED PROTEIN KINASE MPK14-mediated phosphorylation,plays an essential role in LR development.Overexpression of ERF13 results in restricted passage of the LR primordia through the endodermal layer,greatly reducing LR emergence,whereas the erf13 mutants showed an increase in emerged LR.ERF13 inhibits the expression of 3-ketoacyl-CoA synthase16(KCS16),which encodes a fatty acid elongase involved in very-long-chain fatty acid(VLCFA)biosynthesis.Overexpression of KCS16 or exogenous VLCFA treatment rescues the LR emergence defects in ERF13 overexpression lines,indicating a role downstream of the auxin-MPK14-ERF13 signaling module.Collectively,our study uncovers a novel molecular mechanism by which MPK14-mediated auxin signaling modulates LR development via ERF13-regulated VLCFA biosynthesis. | Bingsheng Lv Kaijing Wei Kongqin Hu Te Tian Feng Zhang Zipeng Yu Dajian Zhang Yinghua Su Yalin Sang Xiansheng Zhang Zhaojun Ding | 2021 | Molecular Plant2021，14，2： | 6 |
| 3 | Contribution of Microbial Inter-kingdom Balance to Plant Health显示文摘Soil-borne fungal and oomycetal pathogens cause devastating agricultural losses every year. The abundance and diversity of filamentous eukaryotes in the roots of healthy plants are in flue need by root-associated bacteria that protect host plants from disease caused by fungi and oomycetes (Duran et al., 2018). | Chunlei Zhang Youming Zhang Zhaojun Ding Yang Bai | 2019 | Molecular Plant2019，12，2： | 5 |
| 4 | Asymmetric distribution of cytokinins determines root hydrotropism in Arabidopsis thaliana显示文摘The phenomenon of plant root tips sensing moisture gradient in soil and growing towards higher water potential is designated as root hydrotropism,which is critical for plants to survive when water is a limited factor.Molecular mechanisms regulating such a fundamental process,however,are largely unknown.Here we report our identification that cytokinins are key signaling molecules directing root growth orientation in a hydrostimulation(moisture gradient)condition.Lower water potential side of the root tip shows more cytokinin response relative to the higher water potential side.Consequently,two cytokinin downstream type-A response regulators,ARR16 and ARR17,were found to be up-regulated at the lower water potential side,causing increased cell division in the meristem zone,which allows the root to bend towards higher water potential side.Genetic analyses indicated that various cytokinin biosynthesis and signaling mutants,including the arr16 arr17 double mutant,are significantly less responsive to hydrostimulation.Consistently,treatments with chemical inhibitors interfering with either cytokinin biosynthesis or cell division completely abolished root hydrotropic response.Asymmetrically induced expression of ARR16 or ARR17 effectively led to root bending in both wild-type and miz1,a previously known hydrotropism-defective mutant.These data demonstrate that asymmetric cytokinin distribution is a primary determinant governing root hydrotropism. | Jinke Chang Xiaopeng Li Weihao Fu Jiawen Wang Yueyuan Yong Hongyong Shi Zhaojun Ding Hong Kui Xiaoping Gou Kai He Jia Li | 2019 | Cell Research2019，29，12： | 4 |
| 5 | Light participates in the auxin-dependent regulation of plant growth显示文摘Light is the energy source for plant photosynthesis and influences plant growth and development.Through multiple photoreceptors, plant interprets light signals through various downstream phytohormones such as auxin. Recently, Chen et al.(2020) uncover a new layer of regulation in IPyA pathway of auxin biosynthesis by light. Here we highlight recent studies about how light controls plant growth through regulating auxin biosynthesis and signaling. | Bingsheng Lv Jiayong Zhu Xiangpei Kong Zhaojun Ding | 2021 | Journal of Integrative Plant Biology2021，63，5： | 3 |
| 6 | Auxin signaling:Research advances over the past 30 years显示文摘Auxin,one of the first identified and most widely studied phytohormones,has been and will remain a hot topic in plant biology.After more than a century of passionate exploration,the mysteries of its synthesis,transport,signaling,and metabolism have largely been unlocked.Due to the rapid development of new technologies,new methods,and new genetic materials,the study of auxin has entered the fast lane over the past 30 years.Here,we highlight advances in understanding auxin signaling,including auxin perception,rapid auxin responses,TRANSPORT INHIBITOR RESPONSE 1 and AUXIN SIGNALING F-boxes(TIR1/AFBs)-mediated transcriptional and non-transcriptional branches,and the epigenetic regulation of auxin signaling.We also focus on feedback inhibition mechanisms that prevent the over-amplification of auxin signals.In addition,we cover the TRANSMEMBRANE KINASE-mediated non-canonical signaling,which converges with TIR1/AFBs-mediated transcriptional regulation to coordinate plant growth and development.The identification of additional auxin signaling components and their regulation will continue to open new avenues of research in this field,leading to an increasingly deeper,more comprehensive understanding of how auxin signals are interpreted at the cellular level to regulate plant growth and development. | Zipeng Yu Feng Zhang JiříFriml Zhaojun Ding | 2022 | Journal of Integrative Plant Biology2022，64，2： | 3 |
| 7 | SIZ1 negatively regulates aluminum resistance by mediating the STOP1–ALMT1 pathway in Arabidopsis显示文摘Sensitive to proton rhizotoxicity 1(STOP1) functions as a crucial regulator of root growth during aluminum(Al) stress. However, how this transcription factor is regulated by Al stress to affect downstream genes expression is not well understood. To explore the underlying mechanisms of the function and regulation of STOP1, we employed a yeast two hybrid screen to identify STOP1-interacting proteins. The SUMO E3 ligase SIZ1, was found to interact with STOP1 and mainly facilitate its SUMO modification at K40 and K212 residues. Simultaneous introduction of K40 R and K212 R substitutions in STOP1 enhances its transactivation activity to upregulate the expression of aluminum-activated malate transporter 1(ALMT1)via increasing the association with mediator 16(MED16) transcriptional co-activator. Loss of function of SIZ1 causes highly increased expression of ALMT1, thus enhancing Al-induced malate exudation and Al tolerance. Also, we found that the protein level of SIZ1 is reduced in response to Al stress. Genetic evidence demonstrates that STOP1/ALMT1 is epistatic to SIZ1 in regulating root growth response to Al stress. This study suggests a mechanism about how the SIZ1–STOP1–ALMT1 signaling module is involved in root growth response to Al stress. | Jiameng Xu Jiayong Zhu Jiajia Liu Junxia Wang Zhaojun Ding Huiyu Tian | 2021 | Journal of Integrative Plant Biology2021，63，6： | 2 |
| 8 | Initiation and maintenance of plant stem cells in root and shoot apical meristems显示文摘Plant stem cells are a small group of cells with a self-renewal capacity and serve as a steady supply of precursor cells to form new differentiated tissues and organs in plants.Root stem cells and shoot stem cells,which are located in the root apical meristem and in the shoot apical meristem,respectively,play a critical role in plant longitudinal growth.These stem cells in shoot and root apical meristems remain as pluripotent state throughout the lifespan of the plant and control the growth and development of plants.The molecular mechanisms of initiation and maintenance of plant stem cells have been extensively investigated.In this review,we mainly discuss how the plant phytohormones,such as auxin and cytokinin,coordinate with the key transcription factors to regulate plant stem cell initiation and maintenance in root and shoot apical meristems.In addition,we highlight the common regulatory mechanisms of both root and shoot apical meristems. | Junxia Wang Yinghua Su Xiangpei Kong Zhaojun Ding Xian Sheng Zhang | 2020 | aBIOTECH2020，1，3： | 1 |
| 9 | NAC1 regulates root ground tissue maturation by coordinating with the SCR/SHR-CYCD6;1 module in Arabidopsis显示文摘Precise spatiotemporal control of the timing and extent of asymmetric cell divisions(AcDs)is essential for plant development.In the Arabidopsis root,ground tissue maturation involves an additional AcD of the endo-dermis that maintains the inner cell layer as the endodermis and generates the middle cortex to the outside.Through regulation of the cell cycle regulator CYCLIND6;1(CYCD6;1),the transcription factors SCARECROW(SCR)and SHORT-ROOT(SHR)play critical roles in this process.In the present study,we found that loss of function of NAC1,a NAC transcription factor family gene,causes markedly increased periclinal cell divisions in the root endodermis.Importantly,NAC1 directly represses the transcription of CYCD6;1 by recruiting the co-repressor TOPLESS(TPL),creating a fine-tuned mechanism to maintain proper root ground tissue patterning by limiting production of middle cortex cells.Biochemical and genetic analyses further showed that NAC1 physically interacts with SCR and SHR to restrict excessive periclinal cell divisions in the endo-dermis during root middle cortex formation.Although NAC1-TPL is recruited to the CYCD6;1 promoter and represses its transcription in an SCR-dependent manner,NAC1 and SHR antagonize each other to regu-late the expression of CYCD6;1.Collectively,our study provides mechanistic insights into how the NAC1-TPL module integrates with the master transcriptional regulators SCR and SHR to control root ground tissue patterning by fine-tuning spatiotemporal expression of CYCD6;1 in Arabidopsis. | Chuantian Xie Cuiling Li Fengxia Wang Feng Zhang Jiajia Liu Junxia Wang Xiansheng Zhang Xiangpei Kong Zhaojun Ding | 2023 | Molecular Plant2023，16，4： | 1 |
| 10 | Transcriptome Analysis of Monozygotic Twin Brothers with Childhood Primary Myelofibrosis显示文摘Primary myelofibrosis(PMF) is a chronic myeloproliferative disorder in human bone marrow. Over 50% of patients with myelofibrosis have mutations in JAK2, MPL, or CALR. However, these mutations are rarely detected in children, suggesting a difference in the pathogenesis of childhood PMF. In this study, we investigated the response to drug treatment of a monozygotic twin pair with typical childhood PMF. The twin exhibited different clinical outcomes despite followingthe same treatment regimen. The transcriptomic profiles of patient samples after drug treatment(E2and Y2) were significantly different between the twin pair, which is consistent with the observation that the drug treatment was effective only in the younger brother, despite the twin being genetically identical. Bioinformatics analysis of the drug-responsive genes showed that the JAK-STAT pathway was activated in the cured younger brother, which is opposite to the pathway inhibition observed in adult PMF cases following treatment. Moreover, apoptosis and cell cycle processes were both significantly influenced by drug treatment in the sample of younger brother(Y2), implying their potential association with the pathogenesis of childhood PMF. Gene mutations in JAK2,MPL, or CALR were not observed; however, mutations in genes including SRSF2 and SF3B1 occurred in this twin pair with childhood PMF. Gene fusion events were extensively screened in the twin pair samples and the occurrence of IGLV2-14-IGLL5 gene fusion was confirmed. The current study reported at transcriptomic level the different responses of monozygotic twin brothers with childhood PMF to the same androgen/prednisone treatment regimen providing new insights into the potential pathogenesis of childhood PMF for further research and clinical applications. | Nan Ding Zhaojun Zhang Wenyu Yang Lan Ren Yingchi Zhang Jingliao Zhang Zhanqi Li Peihong Zhang Xiaofan Zhu Xiaojuan Chen Xiangdong Fang | 2017 | Genomics, Proteomics & Bioinformatics2017，15，1： | 1 |
| 11 | The pre-mRNA splicing factor RDM16 regulates root stem cell maintenance in Arabidopsis显示文摘Pre-mRNA(messenger RNA)splicing participates in the regulation of numerous biological processes in plants.For example,alternative splicing shapes transcriptomic responses to abiotic and biotic stress,and controls developmental programs.However,no study has revealed a role for splicing in maintaining the root stem cell niche.Here,a screen for defects in root growth in Arabidopsis thaliana identified an ethyl methane sulfonate mutant defective in pre-m RNA splicing(rdm16-4).The rdm16-4 mutant displays a short-root phenotype resulting from fewer cells in the root apical meristem.The PLETHORA1(PLT1)and PLT2 transcription factor genes are important for root development and were alternatively spliced in rdm16-4 mutants,resulting in a disordered root stem cell niche and retarded root growth.The root cap of rdm16-4 contained reduced levels of cytokinins,which promote differentiation in the developing root.This reduction was associated with the alternative splicing of genes encoding cytokinin signaling factors,such as ARABIDOPSIS HISTIDINE PHOSPHOTRANSFER PROTEIN5 and ARABIDOPSIS RESPONSE REGULATORS(ARR1,ARR2,and ARR11).Furthermore,expression of the full-length coding sequence of ARR1 or exogenous cytokinin application partially rescued the short-root phenotype of rdm16-4.This reveals that the RDM16-mediated alternative splicing of cytokinin signaling components contributes to root growth. | Bingsheng Lv Kongqin Hu Te Tian Kaijing Wei Feng Zhang Yuebin Jia Huiyu Tian Zhaojun Ding | 2021 | Journal of Integrative Plant Biology2021，63，4： | 1 |
| 12 | A study of transarterial infusion chemotherapy of gemcitabine plus three dimensional conformal radiotherapy for local advanced pancreatic cancer显示文摘Objective: To evaluate the clinical effect of transarterial infusion chemotherapy of gemcitabine plus three dimen- sional conformal radiotherapy on patients with local advanced pancreatic cancer. Methods: Fifty-one patients with local ad- vanced pancreatic cancer from June 2002 to February 2004 were enrolled, twenty-four patients of combined group were treat- ed with transarterial infusion chemotherapy of gemcitabine plus three dimensional conformal radiotherapy, while twenty-seven patients of control group were treated only with transarterial infusion chemotherapy of gemcitabine. Results: There were significant statistical differences between two groups in clinical benefit response (91.7% versus 74.1%, P < 0.01) and overall remission rate (70.8% versus 33.3%, P < 0.01). The 6-month survival rate, 12-month survival rate and 24-month survival rate of combined group were 83.3%, 62.5% and 37.5% respectively, while that of control group were 55.6%, 33.3% and 11.1% respectively. This showed significant difference between the two groups. Conclusion: Transarterial infusion chemotherapy of gemcitabine plus three dimensional conformal radiotherapy may be better than single transarterial infusion chemotherapy of gemcitabine in improving survival rates and elongating survival time of patients with local advanced pancreatic cancer. | Zhaojun Ding Yanwei Sun Jiayun Zhou | 2007 | The Chinese-German Journal of Clinical Oncology2007，6，3： | 1 |
| 13 | D53: The Missing Link in Strigolactone Signaling显示文摘Strigolactones (SLs),a group of small carotenoid-derived terpenoid lactones,have been recently identified as plant hormones controlling plant architecture through modulating shoot and root branching (Brewer et al.,2013).SLs were first discovered in the rhizosphere because of their involvement in both symbiotic and parasitic interactions.Deficiencies in SL biosynthesis and perception lead to excessive growth of axillary bud,which is exemplified through various mutants such as max1,max2,max3,and max4 (more axillary growth) in Arabidopsis,d27,d10,d14,d3 (dwarf) in rice,dad3,dad1,dad2 (decreased apical dominance) in petunia,and rms5,rms1,rms4 (ramosus) in pea (de Saint Germain et al.,2013).Among these,D14/AtD14/DAD2 and D3/MAX2/PhMAX2A,which encode a predicted α/β-fold hydrolase and an F-box protein,respectively,have been proved to play important roles in SLs perception (Hamiaux et al.,2012;Zhao et al.,2013).A previous study shows that the D3 F-box protein is a key component of the Skp-Cullin-F-box (SCF) E3 ubiquitin ligase complex,implying that ubiquitination and proteasome-mediated degradation of targets,which were so far unknown,might be essential for SL signaling. | Xiangpei Kong Maolin Zhang Zhaojun Ding | 2014 | Molecular Plant2014，7，5： | 1 |
| 14 | Factors affecting spring bloom in the South of Cheju Island in the East China Sea显示文摘A soil circulation occurs in the south of Cheju Island in the spring. Nutrients and its influence on chlorophyll a(Chl a) around the circulations were studied from April 9 to May 6, 2007. Spring bloom with elevated concentrations of Chl a was observed during the investigation. High concentrations of phosphate, nitrate and silicate at 0.6, 12, and 8 mmol/m3, respectively, were detected. A low water temperature prevented the growth of phytoplankton. Chl a concentrations in the study area might be strongly associated with the high silicate concentration. | FU Dongyang HUANG Zhaojun ZHANG Yuanzhi PAN Delu DING Youzhua LIU Dazhao ZHANG Ying MAO Zhihua CHEN Jianfang | 2015 | Acta Oceanologica Sinica2015，34，3： | 1 |
| 15 | Light-mediated polarization of the PIN3 auxintransporter for the phototropic response in Arabidopsis显示文摘 | Ding Zhaojun Galvan-Ampudia C S Demarsy E | 2011 | Nature Cell Biology2011，13，4： | 1 |
| 16 | Role of silicon in enhancing resistance to freezing stress in two contrasting winter wheat cultivars显示文摘 | Yongchao Liang Jia Zhu Zhaojun Li Guixin Chu Yanfang Ding Jie Zhang Wanchun Sun | 2008 | Environmental and Experimental Botany2008，，3： | 1 |
| 17 | RNA-Seq analysis and development of SSR and KASP markers in lentil(Lens culinaris Medikus subsp. culinaris)显示文摘Lentil(Lens culinaris Medikus subsp.culinaris,2 n=14)is a cool-season legume with high production potential for multiple uses.However,limited molecular research has been conducted in this species owing to its large genome,which impedes the generation of genome sequences and the development of molecular markers.In this study,more than 1.37 billion filtered clean reads were collected by RNA-Seq of six diverse lentil accessions and217,836 transcripts and 161,095 unigenes were de novo assembled,yielding respectively 257.1 and 240.6 million nucleotides.The mean transcript length was 1180 bp and the N50 and N90 lengths were respectively 2075 and 479 bp.The mean length of the unigenes was 1494 bp and their N50 and N90 values were respectively 2203 and 714 bp.The unigenes were annotated against seven databases.The FLOWERING LOCUS T(FT)gene homolog in lentil showed high protein sequence similarity to the FT gene homologs of pea and alfalfa.On the basis of the RNA-Seq analysis,26,449 EST-SSR markers were designed in silico,and 276 preliminarily screened markers were selected to evaluate polymorphism in 94 diverse lentil accessions.In total,125(45.29%)of 276 EST-SSR markers were found to be polymorphic.A total of 130,073 SNP loci were detected and 78(61.41%)of 127 SNPs were successfully converted to KASP markers.Population genetic analyses of the lentil accessions with EST-SSR and KASP markers revealed similar genetic structures,suggesting that the RNA-Seq-generated resources and the developed markers are reliable for use in molecular marker-assisted breeding of lentil. | Dong Wang Tao Yang Rong Liu Nana Li Xiaomu Wang Ashutosh Sarker Xiaodong Zhang Runfang Li Yanyan Pu Guan Li Yuning Huang Yishan Ji Zhaojun Li Qian Tian Xuxiao Zong Hanfeng Ding | 2020 | The Crop Journal2020，8，6： | 1 |
| 18 | Role of silicon in enhancing resistance to freezing stress in two contrasting winter wheat cultivars显示文摘 | Yongchao Liang Jia Zhu Zhaojun Li Guixin Chu Yanfang Ding Jie Zhang Wanchun Sun | 2008 | Environmental and Experimental Botany2008，，3： | 1 |
| 19 | Artemin对胰腺癌细胞系MIA PaCa-2浸润能力的研究(英文)显示文摘Objective:The aim of this study was to analyze the capacity of Artemin promoting the motility and invasiveness of MIA PaCa-2 pancreatic cancer (PAC) cells.Methods:The PAC cell line MIA PaCa-2 was cultured in vitro and studied using Transwell chamber analysis.The motility and invasiveness ability affected by different concentrations of Artemin and its receptor GFRα3 were determined.Expression level of matrix metalloproteinase-2 (MMP-2),epithelial cadherin (E-cadherin) were quantitative analysis using RT-PCR and Western blot in MIA PaCa-2 cells stimulated with Artemin and receptor GFRα3.Results:MIA PaCa-2 PAC cell motility and invasiveness was significantly increased with Artemin and its receptor GFRα3 increasing concentrations than control (P<0.01).150 ng/mL was the best of both the role of concentration.MMP-2 was increased significantly (t=6.35,t=7.32),while E-cadherin was significantly lower (t=4.27,t=5.61),after affected by the 150 ng/mL Artemin and GFRα3,respectively.The difference was statistically significant compared with the control group (P<0.01).Conclusion:Artemin and its receptor GFRα3 can promote PAC cell motility and invasiveness ability and contribute to the aggressive behavior.The mechanism may be related to increased expression of MMP-2 molecule and E-cadherin down-regulation expression. | Lingxin Meng Yuhua Chi Xiangxu Wang Zhaojun Ding Ling Mou Wen Cui Yingjie Xue | 2012 | The Chinese-German Journal of Clinical Oncology2012，11，4： | 0 |
| 20 | Meristem Biology Flourishes Under Mt. Tai显示文摘 | Yuling Jiao Olivier Hamant Zhaojun Ding Xian Sheng Zhang | 2016 | Molecular Plant2016，9，8： | 0 |
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