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Now showing items 1 - 16 of 32

  • Identification of the potential key genes for adipogenesis from human mesenchymal stem cells by RNA‐Seq

    Yi, Xia   Wu, Ping   Liu, Jianyun   Gong, Ying   Xu, Xiaoyuan   Li, Weidong  

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  • Engineering wild-type robust Pediococcus acidilactici strain for high titer l- and d-lactic acid production from corn stover feedstock

    Yi, Xia   Zhang, Peng   Sun, Jiaoe   Tu, Yi   Gao, Qiuqiang   Zhang, Jian   Bao, Jie  

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    A surface topology map technique and apparatus are disclosed for determining calcaneus thickness for imaging quantitative ultrasound measurements; improving measurement accuracy, particularly in in vivo applications.
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  • Transcriptome analysis of Zymomonas mobilis ZM4 reveals mechanisms of tolerance and detoxification of phenolic aldehyde inhibitors from lignocellulose pretreatment

    Yi, Xia   Gu, Hanqi   Gao, Qiuqiang   Liu, Z. Lewis   Bao, Jie  

    Phenolic aldehydes generated from lignocellulose pretreatment exhibited severe toxic inhibitions on microbial growth and fermentation. Numerous tolerance studies against furfural, 5-hydroxymethyl-2-furaldehyde (HMF), acetate, and ethanol were reported, but studies on inhibition of phenolic aldehyde inhibitors are rare. For ethanologenic strains, Zymomonas mobilis ZM4 is high in ethanol productivity and genetic manipulation feasibility, but sensitive to phenolic aldehyde inhibitors. Molecular mechanisms of tolerance for Z. mobilis toward phenolic aldehydes are not known. We took the first insight into genomic response of Z. mobilis ZM4 to the phenolic aldehyde inhibitors derived from lignocellulose pretreatment. The results suggest that the toxicity to cells is caused by the functional group of phenolic aldehyde, similar to furfural and HMF, rather than aromatic groups or phenolic hydroxyl groups. Transcriptome response against 4-hydroxybenzaldehyde, syringaldehyde, and vanillin, representing phenolic groups H, S, and G, respectively, was investigated. The atlas of the important genes responsible for significantly enhanced and repressed genes at the genomic level was illustrated. 272 genes with twofold greater expressions than non-treated controls and 36 gene clusters in response to challenges of these phenolic aldehydes were identified. Several reductases encoded by ZMO1116, ZMO1696, and ZMO1885 were found to play the key roles in reducing phenolic aldehydes into the corresponding phenolic alcohols. Reduction of phenolic aldehydes by overexpression of ZMO1116, ZMO1696, and ZMO1885 in Z. mobilis ZM4 resulted in the increased inhibitor conversion and ethanol productivity, especially for 4-hydroxybenzaldehyde and vanillin. Several transporter genes such as ZMO0282, ZMO0283, ZMO0798, ZMO0799, and ZMO0800 was also displayed significantly increased expressions against the phenolic aldehydes. The genes encoding reductases are with potentials on phenolic aldehydes-tolerant genes contributing to the reduction of phenolic aldehydes into the corresponding phenolic alcohols forms for Z. mobilis ZM4. Overexpression of the key genes improved the conversion ratio and ethanol productivity of 4-hydroxybenzaldehyde and vanillin with high toxicity. New knowledge obtained from this research aids understanding the mechanisms of bacterial tolerance and the development of the next-generation biocatalysts for advanced biofuels production.
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  • Closure to “\r Static Equilibrium Bays: New Relationships\r ” by John R. C. Hsu, Richard Silvester and Yi‐Min Xia (May, 1989, Vol. 115, No. 3)

    Hsu, John R. C.   Silvester, Richard  

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  • Discussion of “\r Static Equilibrium Bays: New Relationships\r ” by John R. C. Hsu, Richard Silvester and Yi‐Min Xia (May, 1989, Vol. 115, No. 3)

    Tan, S. K.   Chiew, Y. M.  

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  • Application of the Kalman filter in the processing of VLBI data: Zheng Yong, Yi Zhao-hua & Xia Yi-fei department of Geodesy, Zhengzhou Institute of Surveying and Mapping, Zhengzhou 450052

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  • Yang Nianqun,Zaizao Bingren: Zhong Xi Yi Chongtu Xia De Kongjian Zhengzhi, 1832–1985[Remaking “Patients”: Politics of Space in the Conflicts between Traditional Chinese Medicine and Western Medicine, 1832–1985]

    Shang-Jen Li  

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  • Book review: <互动视野下的海外新移民研究:以浙江侨乡发展为例> Hudong shiye xia de haiwai xinyimin yanjiu: yi Zhejiang qiaoxiang fazhan weili (New Chinese Migrants from Zhejiang and the Development of Qiaoxiang: An Interactive Perspective), written by Xia Fengzhen

    Xialingzi   Jin  

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  • PAAT, a novel ATPase and trans-regulator of mitochondrial ABC transporters, is critically involved in the maintenance of mitochondrial homeostasis.

    Yang, Xiaohan   Yang, Jianguo   Li, Lei   Sun, Luyang   Yi, Xia   Han, Xiao   Si, Wenzhe   Yan, Ruorong   Chen, Zhe   Xie, Guojia   Li, Wanjin   Shang, Yongfeng   Liang, Jing  

    ATP-binding cassette (ABC) transporters are implicated in a diverse range of physiological and pathophysiological processes, such as cholesterol and lipid transportation and multidrug resistance. Despite the considerable efforts made in understanding of the cellular function of ABC proteins, the regulation mechanism of this type of protein is still poorly defined. Here we report the identification and functional characterization of a novel ATPase protein, protein associated with ABC transporters (PAAT), in humans. PAAT contains a nucleotide-binding domain (NBD)-like domain and a signal for intramitochondrial sorting. We showed that PAAT is localized in both the cytoplasm and the mitochondria and has an intrinsic ATPase activity. PAAT physically interacts with the 3 known mitochondrial inner membrane ABC proteins, ABCB7, ABCB8, and ABCB10, but not ABCB1, ABCB6, or ABCG2, and functionally regulates the transport of ferric nutrients and heme biosynthesis. Significantly, PAAT deficiency promotes cell death, reduces mitochondrial potential, and sensitizes mitochondria to oxidative stress-induced DNA damages. Our experiments revealed that PAAT is a novel ATPase and a trans-regulator of mitochondrial ABC transporters that plays an important role in the maintenance of mitochondrial homeostasis and cell survival. =C2=A9 FASEB.
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  • The whole transcriptional profiling of cellular metabolism during adipogenesis from hMSCs

    Yi, Xia   Liu, Jianyun   Wu, Ping   Gong, Ying   Xu, Xiaoyuan   Li, Weidong  

    Metabolism homeostasis plays an important role in progenitor-cell differentiation to adipocytes, but less is known about the whole transcriptional profiling of cellular metabolism during adipogenesis. We got the first insight into the whole transcriptional profiling of cellular metabolism during adipogenesis from human mesenchymal stem cells (hMSCs) by the RNA-Seq technique. There were 1,998, 2,629, 3,112, and 3,054 differentially expressed genes (DEGs) at Days 7, 14, 21, and 28, respectively, during adipogenesis. The most enriched phosphatidylinositol 3 ' kinase-serine/threonine kinase (PI3K-Akt) signaling pathway stimulated and directly regulated cellular metabolism by priming glucose aerobic glycolysis, arginine and proline metabolism, glutathione metabolism, and arachidonic acid metabolism during adipogenesis, targeting the potential key genes, such as fatty acid synthase (FABP4), phosphoenolpyruvate carboxykinase 1 (PKC1), stearoyl-CoA desaturase (SCD), and solute carrier family 2 member 1 of Gluts (SLC2A1). And it confirmed PCK1 as the key player for cellular metabolism by small interfering RNA. A comprehensive understanding of cellular metabolism and its regulatory axis of the signaling pathway during adipogenesis would reveal new study and therapy targets for fat metabolism disorders.
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  • Heterozygous diploid structure of Amorphotheca resinae ZN1 contributes efficient biodetoxification on solid pretreated corn stover

    Yi, Xia   Gao, Qiuqiang   Zhang, Lei   Wang, Xia   He, Yanqing   Hu, Fengxian   Zhang, Jian   Zou, Gen   Yang, Shihui   Zhou, Zhihua   Bao, Jie  

    Background: Fast, complete, and ultimate removal of inhibitory compounds derived from lignocellulose pretreatment is the prerequisite for efficient production of cellulosic ethanol and biochemicals. Biodetoxification is the most promising method for inhibitor removal by its unique advantages. The biodetoxification mechanisms of a unique diploid fungus responsible for highly efficient biodetoxification in solid-state culture was extensively investigated in the aspects of cellular structure, genome sequencing, transcriptome analysis, and practical biodetoxification. Results: The inborn heterozygous diploid structure of A. resinae ZN1 uniquely contributed to the enhancement of inhibitor tolerance and conversion. The co-expression of gene pairs contributed to the enhancement of the degradation of lignocellulose-derived model inhibitors. The ultimate inhibitors degradation pathways and sugar conservation were elucidated by microbial degradation experimentation as well as the genomic and transcriptomic sequencing analysis. Conclusions: The finding of the heterozygous diploid structure in A. resinae ZN1 on biodetoxification took the first insight into the global overview of biodetoxification mechanism of lignocellulose-derived inhibitors. This study provided a unique and practical biodetoxification biocatalyst of inhibitor compounds for lignocellulose biorefinery processing, as well as the synthetic biology tools on biodetoxification of biorefinery fermenting strains.
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  • ZNF516 suppresses EGFR by targeting the CtBP/LSD1/CoREST complex to chromatin

    Li, Lifang   Liu, Xinhua   He, Lin   Yang, Jianguo   Pei, Fei   Li, Wanjin   Liu, Shumeng   Chen, Zhe   Xie, Guojia   Xu, Bosen   Ting, Xia   Zhang, Zihan   Jin, Tong   Liu, Xujun   Zhang, Wenting   Yuan, Shuai   Yang, Ziran   Wu, Chongyang   Zhang, Yu   Yang, Xiaohan   Yi, Xia   Liang, Jing   Shang, Yongfeng   Sun, Luyang  

    EGFR is required for animal development, and dysregulation of EGFR is critically implicated in malignant transformation. However, the molecular mechanism underlying the regulation of EGFR expression remains poorly explored. Here we report that the zinc-finger protein ZNF516 is a transcription repressor. ZNF516 is physically associated with the CtBP/LSD1/CoREST complex and transcriptionally represses a cohort of genes including EGFR that are critically involved in cell proliferation and motility. We demonstrate that the ZNF516-CtBP/LSD1/CoREST complex inhibits the proliferation and invasion of breast cancer cells in vitro and suppresses breast cancer growth and metastasis in vivo. Significantly, low expression of ZNF516 is positively associated with advanced pathological staging and poor survival of breast carcinomas. Our data indicate that ZNF516 is a transcription repressor and a potential suppressor of EGFR, adding to the understanding of EGFR-related breast carcinogenesis and supporting the pursuit of ZNF516 as a potential therapeutic target for breast cancer.
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  • The key microRNA on lipid droplet formation during adipogenesis from human mesenchymal stem cells

    Yi, Xia   Liu, Jianyun   Wu, Ping   Gong, Ying   Xu, Xiaoyuan   Li, Weidong  

    MicroRNAs (miRNAs), the potential regulator of adipogenesis, markedly characterized by lipid droplet (LD) formation, play an important role in progenitor-cell differentiation into adipocytes. In recent years, it has excited interests in regulation of miRNAs in adipogenesis. However, no study is available, to our knowledge, regarding the expression of miRNAs on LD formation. Our study provides the first insight into the expression profiling of the miRNA targeting messenger RNAs (mRNAs) involving with LD formation during adipogenesis from human mesenchymal stem cells by RNA-Seq transcriptome technique. It showed that 39, 105, 194, and 112 differentially expressed miRNA appeared at 7, 14, 21, and 28 days, respectively, for LD formation during adipogenesis. Nineteen miRNAs targeted 35 mRNA associated with LDs formation. Except for the known miRNA hsa-miR-1908 regulating adipogenesis, five miRNAs, including hsa-miR-146a-3p, hsa-miR-4495, hsa-miR-4663, hsa-miR-6069, and hsa-miR-675-3p are the latest potential biomarkers for LD formation, targeting ACSL1, APOB, METTL7A, PLIN1, and PLIN4. A comprehensive transcriptome profiling of miRNA reveals the regulatory relationship between miRNA and mRNA relating to LD formation during adipogenesis. Such candidates may represent biomarkers and therapeutic targets for metabolic syndromes like obesity, type-2 diabetes, steatosis, atherosclerosis, and osteoporosis.
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  • HAT4, a Golgi Apparatus-Anchored B-Type Histone Acetyltransferase, Acetylates Free Histone H4 and Facilitates Chromatin Assembly

    Yang, Xiaohan   Yu, Wenhua   Shi, Lei   Sun, Luyang   Liang, Jing   Yi, Xia   Li, Qian   Zhang, Yu   Yang, Fen   Han, Xiao   Zhang, Di   Yang, Jie   Yao, Zhi   Shang, Yongfeng  

    Histone acetyltransferases (HATs) are an essential regulatory component in chromatin biology. Unlike A-type HATs, which are found in the nucleus and utilize nucleosomal histones as substrates and thus primarily function in transcriptional regulation, B-type HATs have been characterized as cytoplasmic enzymes that catalyze the acetylation of free histones. Here, we report on a member of the GCN5-related N-acetyltransferase superfamily and another B-type HAT, HAT4. Interestingly, HAT4 is localized in the Golgi apparatus and displays a substrate preference for lysine residues of free histone H4, including H4K79 and H4K91, that reside in the globular domain of H4. Significantly, HAT4 depletion impaired nucleosome assembly, inhibited cell proliferation, sensitized cells to DNA damage, and induced cell apoptosis. Our data indicate that HAT4 is an important player in the organization and function of the genome and may contribute to the diversity and complexity of higher eukaryotic organisms.
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  • Application of the Kalman filter in the processing of VLBI data: Zheng Yong, Yi Zhao-hua & Xia Yi-fei department of Geodesy, Zhengzhou Institute of Surveying and Mapping, Zhengzhou 450052

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