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| 1 | Essential roles of exosome and circRNA_101093 on ferroptosis desensitization in lung adenocarcinoma显示文摘Background:Resistance to ferroptosis,a regulated cell death caused by irondependent excessive accumulation of lipid peroxides,has recently been linked to lung adenocarcinoma(LUAD).Intracellular antioxidant systems are required for protection against ferroptosis.The purpose of the present studywas to investigate whether and how extracellular system desensitizes LUAD cells to ferroptosis.Methods:Established human lung fibroblasts MRC-5,WI38,and human LUAD H1650,PC9,H1975,H358,A549,and H1299 cell lines,tumor and matched normal adjacent tissues of LUAD,and plasma from healthy individuals and LUAD patients were used in this study.Immunohistochemistry and immunoblotting were used to analyze protein expression,and quantitative reverse transcription-PCR was used to analyze mRNA expression.Cell viability,cell death,and the lipid reactive oxygen species generationwere measured to evaluate the responses to ferroptosis.Exosomes were observed using transmission electron microscope.The localization of arachidonic acid(AA)was detected using click chemistry labeling followed by confocal microscopy.Interactions between RNAs and proteins were detected using RNA pull-down,RNA immunoprecipitation and photoactivatable ribonucleoside-enhanced crosslinking and immunoprecipitation methods.Proteomic analysis was used to investigate RNA-regulated proteins,and metabolomic analysis was performed to analyze metabolites.Cellderived xenograft,patient-derived xenograft,cell-implanted intrapulmonary LUAD mouse models and plasma/tissue specimens from LUAD patients were used to validate the molecular mechanism.Results:Plasma exosome from LUAD patients specifically reduced lipid peroxidation and desensitized LUAD cells to ferroptosis.A potential explanation is that exosomal circRNA_101093(cir93)maintained an elevation in intracellular cir93 in LUAD to modulate AA,a poly-unsaturated fatty acid critical for ferroptosisassociated increased peroxidation in the plasma membrane.Mechanistically,cir93 interacted with and increased fatty acid-binding protein 3(FABP3),which transported AA and facilitated its reaction with taurine.Thus,global AA was reduced,whereas N-arachidonoyl taurine(NAT,the product of AA and taurine)was induced.Notably,the role of NAT in suppressing AA incorporation into the plasma membrane was also revealed.In pre-clinical in vivo models,reducing exosome improved ferroptosis-based treatment.Conclusion:Exosome and cir93 are essential for desensitizing LUAD cells to ferroptosis,and blocking exosome may be helpful for future LUAD treatment. | Xiao Zhang Yunhua Xu Lifang Ma Keke Yu Yongjie Niu Xin Xu Yi Shi Susu Guo Xiangfei Xue Yikun Wang Shiyu Qiu Jiangtao Cui Hong Wang Xiaoting Tian Yayou Miao Fanyu Meng Yongxia Qiao Yongchun Yu Jiayi Wang | 2022 | Cancer Communications2022，42，4： | 10 |
| 2 | Allele-aware chromosome-level genome assembly of Artemisia annua reveals the correlation between ADS expansion and artemisinin yield显示文摘Artemisia annua is the major natural source of artemisinin,an anti-malarial medicine commonly used worldwide.Here,we present chromosome-level haploid maps for two A.annua strains with different artemisinin contents to explore the relationships between genomic organization and artemisinin production.High-fidelity sequencing,optical mapping,and chromatin conformation capture sequencing were used to assemble the heterogeneous and repetitive genome and resolve the haplotypes of A.annua.Approximately 5o,ooo genes were annotated for each haplotype genome,and a triplication event that occurred approximately 58.12million years ago was examined for the first time in this species.A total of 3,903,467-5,193,414 variants(SNPs,indels,and structural variants)were identified in the 1.5-Gb genome during pairwise comparison between haplotypes,consistent with the high heterozygosity of this species.Genomic analyses revealed a correlation between artemisinin concents and the copy number of amorpha-4,11-dienes ynthasegenes.This correlation was further confirmed by resequencing of 36A.annua samples with varied artemisinin contents.Circular consensus sequencing of transcripts facilitated the detection of paralog expression.Collectively,our study provides chromosome-level allele-aware genome assemblies for two A.annua strains and new insights into the biosynthesis of artemisinin and its regulation,which will contribute to conquering malaria worldwide. | Baosheng Liao Xiaofeng Shen Li Xiang Shuai Guo Shiyu Chen Ying Meng Yu Liang Dandan Ding Junqi Bai Dong Zhang Tomasz Czechowski Yi Li Hui Yao Tingyu Mai Caroline Howard Chao Sun Haitao Liu Jiushi Liu Jin Pei Jihai Gao Jigang Wang Xiaohui Qiu Zhihai Huang Hongyi Li Ling Yuan Jianhe Wei lan Graham Jiang Xu Boli Zhang Shilin Chen | 2022 | Molecular Plant2022，15，8： | 9 |
| 3 | Exome sequencing reveals genetic architecture in patients with isolated or syndromic short stature显示文摘Short stature is among the most common endocrinological disease phenotypes of childhood and may occur as an isolated finding or in conjunction with other clinical manifestations.Although the diagnostic utility of clinical genetic testing in short stature has been implicated,the genetic architecture and the utility of genomic studies such as exome sequencing(ES)in a sizable cohort of patients with short stature have not been investigated systematically.In this study,we recruited 561 individuals with short stature from two centers in China during a 4-year period.We performed ES for all patients and available parents.All patients were retrospectively divided into two groups:an isolated short stature group(group I,n=257)and an apparently syndromic short stature group(group II,n=304).Causal variants were identified in 135 of 561(24.1%)patients.In group I,29 of 257(11.3%)of the patients were solved by variants in 24 genes.In group II,106 of 304(34.9%)patients were solved by variants in 57 genes.Genes involved in fundamental cellularprocess played an important role in the genetic architecture of syndromic short stature.Distinct genetic architectures and pathophysiological processes underlie isolated and syndromic short stature. | Xin Fan Sen Zhao Chenxi Yu Di Wu Zihui Yan Lijun Fan Yanning Song Yi Wang Chuan Li Yue Ming Baoheng Gui Yuchen Niu Xiaoxin Li Xinzhuang Yang Shiyu Luo Qiang Zhang Xiuli Zhao Hui Pan Mei Li Weibo Xia Guixing Qiu Pengfei Liu Shuyang Zhang Jianguo Zhang Zhihong Wu James R.Lupski Jennifer E.Posey Shaoke Chen Chunxiu Gong Nan Wu | 2021 | Journal of Genetics and Genomics2021，48，5： | 2 |
| 4 | Transcriptome analysis of purple pigment formation in Colocasia esculenta显示文摘Taro(Colocasia esculenta(L.)Schott)is an important crop in Africa,Southeast Asia,and subtropics and is used as a food and medicine.The purple color pigmentation is an appealing character in taro.We sampled taro corms of the cultivar‘Lipu Taro’at four developmental stages,including LPYS1(without purple pigment,50 days of development(DOD)),LPYS2(very few purple pigments,75 DOD),LPYS3(moderate purple pigments,115 DOD)and LPYS4(high purple pigments,205 DOD).The purpose of our study was to identify the key genes underpinning the purple pigmentation in taro based on RNA-sequencing.Through RNA-Seq,6453 differentially expressed transcripts(DETs)were identified between purple and non-purple pigmented samples.We identified 41 and 12 flavonoid and anthocyanin related DETs transcripts,respectively.These DETs were upregulated at LPYS2,LPYS3,and LPYS4 as compared to LPYS1,indicating their positive contribution to the color formation in taro.Moreover,we identified several DETs encoding for transcription factors,including MYB and bHLH,known to be major regulators of structural genes involved in the flavonoid-anthocyanin pathway.Finally,we reported several plant hormones(ethylene,auxin,gibberellin,jasmonic acid,and cytokinin)related DETs,which are predicted to play important roles in the corm coloration.Different regulation of transcripts representing the flavonoid-anthocyanin biosynthesis pathway,plant hormone transduction pathway,and transcription factors may have key roles in purple pigmentation in taro.Our findings will facilitate future research on improving the quality and appeal of taro. | FANGLIAN HE WEIQING DONG SHAOLONG WEI ZUYANG QIU JINGLI HUANG HUIPING JIANG SHIYU HUANG LILI LIU | 2021 | BIOCELL2021，45，3： | 2 |
| 5 | Immobilization of heparin on decellularized kidney scaffold to construct microenvironment for antithrombosis and inducing reendothelialization显示文摘In recent years, rapid development of tissue engineering technology provides possibilities for the construction of artificial tissues or organs. In construction of engineered kidneys, researchers used native decellularized extracellular matrix(ECM) as the scaffolds to recellularization. However, thrombosis has been a great issue that hinders the progress of transplantation in vivo. In this study, heparin was immobilized to the collagen part of decellularized scaffold with collagen-binding peptide(CBP). Through the anticoagulant and endothelial cell reperfusion experiments, it can be demonstrated that the heparinized scaffolds absorbed less platelets and red blood cells which can effectively reduce the formation of thrombosis. Moreover, it is conducive to longterm adhesion of endothelial cells which is important for the formation of subsequent vascularization. Taken together, our results reveal that the whole kidney can be modified by CBP-heparin composite to reduce the thrombosis and provide the better conditions for neovascularization. | Miao Wang Lili Bao Xinyu Qiu Xiaoshan Yang Siying Liu Yuting Su Lulu Wang Bo Liu Qing He Shiyu Liu Yan Jin | 2018 | Science China(Life Sciences)2018，61，10： | 1 |
| 6 | Selective Adsorption and Electrocatalysis of Polysulfides through Hexatomic Nickel Clusters Embedded in N-Doped Graphene toward High-Performance Li-S Batteries显示文摘The shuttle effect hinders the practical application of lithium-sulfur(Li-S)batteries due to the poor affinity between a substrate and Li polysulfides(LiPSs)and the sluggish transition of soluble LiPSs to insoluble Li2S or elemental S.Here,we report that Ni hexatomic clusters embedded in a nitrogen-doped three-dimensional(3D)graphene framework(Ni-N/G)possess stronger interaction with soluble polysulfides than that with insoluble polysulfides.The synthetic electrocatalyst deployed in the sulfur cathode plays a multifunctional role:(i)selectively adsorbing the polysulfides dissolved in the electrolyte,(ii)expediting the sluggish liquid-solid phase transformations at the active sites as electrocatalysts,and(iii)accelerating the kinetics of the electrochemical reaction of multielectron sulfur,thereby inhibiting the dissolution of LiPSs.The constructed S@Ni-N/G cathode delivers an areal capacity of 9.43mAhcm^(-2) at 0.1 C at S loading of 6.8 mg cm^(-2),and it exhibits a gravimetric capacity of 1104mAhg^(-1) with a capacity fading rate of 0.045%per cycle over 50 cycles at 0.2 C at S loading of 2.0 mg cm^(-2).This work opens a rational approach to achieve the selective adsorption and expediting of polysulfide transition for the performance enhancement of Li-S batteries. | Jiapeng Ji Ying Sha Zeheng Li Xuehui Gao Teng Zhang Shiyu Zhou Tong Qiu Shaodong Zhou Liang Zhang Min Ling Yanglong Hou Chengdu Liang | 2020 | Research2020，，1： | 1 |
| 7 | Oxygen-coordinated low-nucleus cluster catalysts for enhanced electrocatalytic water oxidation显示文摘The oxygen evolution reaction(OER)activity of single-atom catalysts(SACs)is closely related to the coordination environment of the active site.Oxygencoordinated atomic metal species bring about unique features beyond nitrogen-coordinated atomic metal species due to the fact that the M-O bond is weaker than the M-N bond.Herein,a series of metal-oxygen-carbon structured low-nucleus clusters(LNCs)are successfully anchored on the surface of multiwalled carbon nanotubes(M-MWCNTs,M=Ni,Co,or Fe)through a foolproof low-temperature gas transfer(300℃)method without any further treatment.The morphology and coordination configuration of the LNCs at the atomic level were confirmed by comprehensive characterizations.The synthetic Ni-MWCNTs electrocatalyst features excellent OER activity and stability under alkaline conditions,transcending the performances of Co-MWCNTs,Fe-MWCNTs and RuO_(2).Density functional theory calculations reveal that the moderate oxidation of low-nucleus Ni clusters changes the unoccupied orbital of Ni atoms,thereby lowering the energy barrier of the OER rate-limiting step and making the OER process more energy-efficient.This study demonstrates a novel versatile platform for large-scale manufacturing of oxygen-coordinated LNC catalysts. | Jiapeng Ji Yunpeng Hou Shiyu Zhou Tong Qiu Liang Zhang Lu Ma Chao Qian Shaodong Zhou Chengdu Liang Min Ling | 2023 | Carbon Energy2023，5，2： | 1 |
| 8 | Real-life effectiveness and safety of secukinumab in axial spondyloarthritis:a single-center study显示文摘To the Editor:Axial spondyloarthritis(axSpA)is a chronic inflammatory disease.[1]The hallmark of ankylosing spondylitis(AS)phenotype is sacroiliac joint and spinal damage characterized by the new bone formation and joint fusion,which results in irreversible functional disability and reduced quality of life. | Yuankai Sun Jiajia Wang Yulu Qiu Shiyu Lin Fang Wang Wenfeng Tan | 2022 | Chinese Medical Journal2022，135，21： | 0 |
| 9 | NAD^(+) exhaustion by CD38 upregulation contributes to blood pressuree elevation and vascular damage in hypertension显示文摘Hypertension is characterized by endothelial dysfunction and arterial stiffness,which contribute to the pathogenesis of atherosclerotic cardiovascular diseases.Nicotinamide adenine dinucleotide(NAD^(+))is an indispensable cofactor in all living cells that is involved in fundamental biological processes.However,in hypertensive patients,alterations in NAD^(+)levels and their relation with blood pressure(BP)elevation and vascular damage have not yet been studied. | Yumin Qiu Shiyue Xu Xi Chen Xing Wu Zhe Zhou Jianning Zhang Qiang Tu Bing Dong Zhefu Liu Jiang He Xiaoyu Zhang Shuangshuang Liu Chen Su Hui Huang Wenhao Xia Jun Tao | 2023 | Signal Transduction and Targeted Therapy2023，8，10： | 0 |
| 10 | Development of a radiolabeled site-specific single-domain antibody positron emission tomography probe for monitoring PD-L1 expression in cancer显示文摘Despite advances in immunotherapy for the treatment of cancers,not all patients can benefit from programmed cell death ligand 1(PD-L1)immune checkpoint blockade therapy.Anti-PD-L1 therapeutic effects reportedly correlate with the PD-L1 expression level;hence,accurate detection of PD-L1 expression can guide immunotherapy to achieve better therapeutic effects.Therefore,based on the high affinity antibody Nb109,a new site-specifically radiolabeled tracer,^(68)Ga-NODA-cysteine,aspartic acid,and valine(CDV)-Nb109,was designed and synthesized to accurately monitor PD-L1 expression.The tracer ^(68)Ga-NODA-CDV-Nb109 was obtained using a site-specific conjugation strategy with a radiochemical yield of about 95%and radiochemical purity of 97%.It showed high affinity for PD-L1 with a dissociation constant of 12.34±1.65 nM.Both the cell uptake assay and positron emission tomography(PET)imaging revealed higher tracer uptake in PD-L1-positive A375-hPD-L1 and U87 tumor cells than in PD-L1-negative A375 tumor cells.Meanwhile,dynamic PET imaging of a NCI-H1299 xenograft indicated that doxorubicin could upregulate PD-L1 expression,allowing timely interventional immunotherapy.In conclusion,this tracer could sensitively and dynamically monitor changes in PD-L1 expression levels in different cancers and help screen patients who can benefit from anti-PD-L1 immunotherapy. | Yinfei Chen Shiyu Zhu Jiayu Fu Jianguo Lin Yan Sun Gaochao Lv Minhao Xie Tao Xu Ling Qiu | 2022 | Journal of Pharmaceutical Analysis2022，12，6： | 0 |
| 11 | Time series canopy phenotyping enables the identification of genetic variants controlling dynamic phenotypes in soybean显示文摘Advances in plant phenotyping technologies are dramatically reducing the marginal costs of collecting multiple phenotypic measurements across several time points.Yet,most current approaches and best statistical practices implemented to link genetic and phenotypic variation in plants have been developed in an era of single-time-point data.Here,we used time-series phenotypic data collected with an unmanned aircraft system for a large panel of soybean(Glycine max(L.)Merr.)varieties to identify previously uncharacterized loci.Specifically,we focused on the dissection of canopy coverage(CC)variation from this rich data set.We also inferred the speed of canopy closure,an additional dimension of CC,from the time-series data,as it may represent an important trait for weed control.Genome-wide association studies(GWASs)identified 35 loci exhibiting dynamic associations with CC across developmental stages.The time-series data enabled the identification of 10 known flowering time and plant height quantitative trait loci(QTLs)detected in previous studies of adult plants and the identification of novel QTLs influencing CC.These novel QTLs were disproportionately likely to act earlier in development,which may explain why they were missed in previous single-time-point studies.Moreover,this time-series data set contributed to the high accuracy of the GWASs,which we evaluated by permutation tests,as evidenced by the repeated identification of loci across multiple time points.Two novel loci showed evidence of adaptive selection during domestication,with different genotypes/haplotypes favored in different geographic regions.In summary,the time-series data,with soybean CC as an example,improved the accuracy and statistical power to dissect the genetic basis of traits and offered a promising opportunity for crop breeding with quantitative growth curves. | Delin Li Dong Bai Yu Tian Ying-Hui Li Chaosen Zhao Qi Wang Shiyu Guo Yongzhe Gu Xiaoyan Luan Ruizhen Wang Jinliang Yang Malcolm J.Hawkesford James C.Schnable Xiuliang Jin Li-Juan Qiu | 2023 | Journal of Integrative Plant Biology2023，65，1： | 0 |
| 12 | Simulated Sunlight Irradiation Based Photocatalytic Degradation of Acrylonitrile by Sn-F Co-doped TiO 2/SiO 2 Nano Powder Catalyst显示文摘This study proved the significance of simulated sunlight irradiation response capability of Sn-F co-doped TiO_(2)/SiO_(2)(Sn-F-TiO_(2)/SiO_(2))photocatalysts,which were prepared by a simple sol-gel method and were evaluated by acrylonitrile degradation for photocatalytic activity.The synthesized catalysts were characterized by X-ray Diffraction(XRD),Scanning Electron Microscopy(SEM),Energy Dispersive Spectrometer(EDS),X-ray Photoelectron Spectroscopy(XPS),Brunauer-Emmett-Teller(BET),Ultraviolet-Visible Absorption spectroscopy(UV-Vis),and Photoluminescence Spectroscopy(PL).UV-Visible spectroscopy demonstrated that Sn doping caused remarkable red shift in TiO_(2),which significantly increased the absorption efficiency of the catalysts.The XPS results showed that Sn was successfully doped into the TiO_(2) lattice.The photocatalytic degradation of acrylonitrile indicated that the Sn-F-TiO_(2)/SiO_(2) photocatalysts exhibited excellent photocatalytic activity when being annealed at 550℃for 2 h.The degradation rate of acrylonitrile reached 67.7%after irradiation under simulated sunlight for 6 min,and the hole was the most important active species. | Hanliang Li Shiyu Miao Lu Qiu Bandna Bharti Feng Ouyang | 2021 | Journal of Harbin Institute of Technology(New Series)2021，28，1： | 0 |
| 13 | The prevalence of deleterious mutations during the domestication and improvement of soybean显示文摘Soybean(Glycine max L.)is a protein and oil crop grown worldwide.Its fitness may be reduced by deleterious mutations,whose identification and purging is desirable for crop breeding.In the published whole-genome re-sequenced data of 2214 soybean accessions,including 221 wild soybean,1132 landrace cultivars and 861 improved soybean lines,we identified 115,275 deleterious single-nucleotide polymorphisms(SNPs).Numbers of deleterious alleles increased from wild soybeans to landraces and decreased from landraces to modern improved lines.Genes in selective-sweep regions showed fewer deleterious mutations than the remaining genes.Deleterious mutations explained 4.3%-48%more phenotypic variation than randomly selected SNPs for resistance to soybean cyst nematode race 2(SCN2),soybean cyst nematode race 3(SCN3)and soybean mosaic virus race 3(SMV3).These findings illustrate how mutation load has shifted during soybean domestication,expansion and improvement and provide candidate sites for breeding out deleterious mutations in soybean by genome editing and/or conventional breeding focused on the selection of progeny with fewer deleterious alleles. | Shichao Sun Yumin Wang He Wei David E.Hufnagel Ya Wang Shiyu Guo Yinghui Li Li Wang Li-juan Qiu | 2023 | The Crop Journal2023，11，2： | 0 |
| 14 | Self-adaptive hydrogel for breast cancer therapy via accurate tumor elimination and on-demand adipose tissue regeneration显示文摘The irregular defects and residual tumor tissue after surgery are challenges for effective breast cancer treatment.Herein,a smart hydrogel with self-adaptable size and dual responsive cargos release was fabricated to treat breast cancer via accurate tumor elimination,on-demand adipose tissue regeneration and effective infection inhibition.The hydrogel consisted of thiol groups ended polyethylene glycol(SH-PEG-SH)and doxorubicin encapsulated mesoporous silica nanocarriers(DOX@MSNs)double crosslinked hyaluronic acid(HA)after loading of antibacterial peptides(AP)and adipose-derived stem cells(ADSCs).A pH-cleavable unsaturated amide bond was pre-introduced between MSNs and HA frame to perform the tumor-specific acidic environment dependent DOX@MSNs release,meanwhile an esterase degradable glyceryl dimethacrylate cap was grafted on MSNs,which contributed to the selective chemotherapy in tumor cells with over-expressed esterase.The bond cleavage between MSNs and HA would also cause the swelling of the hydrogel,which not only provide sufficient space for the growth of ADSCs,but allows the hydrogel to fully fill the irregular defects generated by surgery and residual tumor atrophy,resulting in the on-demand regeneration of adipose tissue.Moreover,the sustained release of AP could be simultaneously triggered along with the size change of hydrogel,which further avoided bacterial infection to promote tissue regeneration. | Ran Tian Xinyu Qiu Wenyun Mu Bolei Cai Zhongning Liu Shiyu Liu Xin Chen | 2024 | Chinese Chemical Letters2024，35，1： | 0 |
| 15 | Genomic,transcriptomic,and epigenomic analysis of a medicinal snake,Bungarus multicinctus,to provides insights into the origin of Elapidae neurotoxins显示文摘The many-banded krait,Bungarus multicinctus,has been recorded as the animal resource of JinQianBaiHuaShe in the Chinese Pharmacopoeia.Characterization of its venoms classified chief phyla of modern animal neurotoxins.However,the evolutionary origin and diversification of its neurotoxins as well as biosynthesis of its active compounds remain largely unknown due to the lack of its high-quality genome.Here,we present the 1.58 Gbp genome of B.multicinctus assembled into 18 chromosomes with contig/scaffold N50 of 7.53 Mbp/149.8 Mbp.Major bungarotoxin-coding genes were clustered within genome by family and found to be associated with ancient local duplications.The truncation of glycosylphosphatidylinositol anchor in the 3'-terminal of a LY6E paralog released modern three-finger toxins(3FTxs)from membrane tethering before the Colubroidea divergence.Subsequent expansion and mutations diversified and recruited these 3FTxs.After the cobra/krait divergence,the modern unit-B ofβ-bungarotoxin emerged with an extra cysteine residue.A subsequent point substitution in unit-A enabled theβ-bungarotoxin covalent linkage.The B.multicinctus gene expression,chromatin topological organization,and histone modification characteristics were featured by transcriptome,proteome,chromatin conformation capture sequencing,and ChIP-seq.The results highlighted that venom production was under a sophisticated regulation.Our findings provide new insights into snake neurotoxin research,meanwhile will facilitate antivenom development,toxin-driven drug discovery and the quality control of JinQianBaiHuaShe. | Jiang Xu Shuai Guo Xianmei Yin Mingqian Li He Su Xuejiao Liao Qiushi Li Liang Le Shiyu Chen Baosheng Liao Haoyu Hu Juan Lei Yingjie Zhu Xiaohui Qiu Lu Luo Jun Chen Ruiyang Cheng Zhenzhan Chang Han Zhang Nicholas Chieh Wu Yiming Guo Dianyun Hou Jin Pei Jihai Gao Yan Hua Zhihai Huang Shilin Chen | 2023 | Acta Pharmaceutica Sinica B2023，13，5： | 0 |
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