Abstract:In this paper, we reviewed the progress of target protein degradation methods, with special attention to the use of plant hormones to stimulate the degradation. Protein is the key player of many biological processes, interfering the protein level precisely is both important for basic research and clinical application. There are many ways to control the protein level artificially in different levels such as CRISPR-Cas9, RNAi and so on. These methods show different limitations, for example, CRISPR-Cas9 is irreversible, RNAi can cause off-target effect. Targeted protein degradation is one of the ways to regulate the protein level in a post-translational level, it can affect the protein level very fast and reversibly. To achieve targeted protein degradation, different methods have been developed such as small-molecule induced degradation, photo-induced degradation, auxin induced degradation and so on. The core principle is to degrade the target protein in a controllable manner.

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	1. Research progress of related methods for controlling targeted protein level
	MIn Gao,ChongSheng He
	Biology 10 August 2021
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	Abstract:In this paper, we reviewed the progress of target protein degradation methods, with special attention to the use of plant hormones to stimulate the degradation. Protein is the key player of many biological processes, interfering the protein level precisely is both important for basic research and clinical application. There are many ways to control the protein level artificially in different levels such as CRISPR-Cas9, RNAi and so on. These methods show different limitations, for example, CRISPR-Cas9 is irreversible, RNAi can cause off-target effect. Targeted protein degradation is one of the ways to regulate the protein level in a post-translational level, it can affect the protein level very fast and reversibly. To achieve targeted protein degradation, different methods have been developed such as small-molecule induced degradation, photo-induced degradation, auxin induced degradation and so on. The core principle is to degrade the target protein in a controllable manner.
	TO cite this article:MIn Gao,ChongSheng He. Research progress of related methods for controlling targeted protein level[OL].[10 August 2021] http://en.paper.edu.cn/en_releasepaper/content/4755399


	2. TH upstream-inhibited DCI subnetwork for learning in human left hemisphere\|Tonsil via nucleo to cytoplasm poly(A) RNA binding
	YANG Kaitong,WANG Lin,HUANG Juxiang
	Biology 24 December 2019
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	Abstract:High tyrosine hydroxylase (TH) upstream-inhibited enoyl-CoA delta isomerase 1 (DCI) molecular subnetwork was constructed, including upstream NCK adaptor protein 2 (NCK2), retinoblastoma binding protein 6 (RBBP6), sulfotransferase family 1A member 2 (SULT1A2); downstream chromosome 10 open reading frame 10 (C10orf10), forkhead box N3 (FOXN3_2), poly (rC) binding protein 2 (PCBP2_2) reported relation with learning in human left hemisphere. The common biology process of TH upstream-inhibited DCI subnetwork was identified by DAVID, containing upstream NCK2, upstream RBBP6, upstream SULT1A2, downstream FOXN3_2, downstream PCBP2_2, first-core TH as protein binding; upstream SULT1A2, second-core DCI, first-core TH as small molecule metabolic process; upstream RBBP6, downstream PCBP2_2 as poly(A) RNA binding; downstream PCBP2_2, first-core TH as enzyme binding; The common cellular component of upstream NCK2, upstream RBBP6, downstream PCBP2_2, first-core TH as cytoplasm; upstream NCK2, upstream SULT1A2, downstream PCBP2_2, first-core TH as cytosol; downstream C10orf10, second-core DCI, first-core TH as mitochondrion; downstream FOXN3_2, downstream PCBP2_2, first-core TH as nucleus; upstream RBBP6, downstream PCBP2_2 as nucleoplasm; downstream PCBP2_2, second-core DCI as extracellular exosome; The common tissue distributions as Tonsil_3rd maybe exist the same pattern with human left hemisphere. We propose and mutual positively verify tyrosine hydroxylase (TH) upstream-inhibited enoyl-CoA delta isomerase 1 (DCI) subnetwork for learning in human left hemisphere\|Tonsil via nucleo to cytoplasm poly(A) RNA binding.
	TO cite this article:YANG Kaitong,WANG Lin,HUANG Juxiang. TH upstream-inhibited DCI subnetwork for learning in human left hemisphere\|Tonsil via nucleo to cytoplasm poly(A) RNA binding[OL].[24 December 2019] http://en.paper.edu.cn/en_releasepaper/content/4750327

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	3. Research progress of peptide durgs discovery
	Yin Xinong,Wu Lei
	Biology 18 November 2018
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	Abstract:Peptides are a kind of active substances composed of amino acids, which play an important role in various progress of life activities, including immune defense, cell proliferation/differentiation, tumor pathological changes and so on. Since the first synthetic bioactive peptide was born in 1953, more than 80 polypeptide drugs have been listed in the global market, including some "blockbuster" drugs with sales of more than $1 billion. A large number of peptide drugs have entered the clinical trial or declaring stage. There are many unique advantages of peptide drugs: remarkable effectivity and specificity, less toxicity, low probability to accumulate in the body tissues and a handful of interaction with other drugs. Thus, more and more peptide drugs are widely used in the prevention, diagnosis and treatment of diabetes, tumors, cardiovascular diseases and hepatitis. This article reviewed the current research progress of peptide drugs, and prospects the great development of peptide drugs in the future.
	TO cite this article:Yin Xinong,Wu Lei. Research progress of peptide durgs discovery[OL].[18 November 2018] http://en.paper.edu.cn/en_releasepaper/content/4746489


	4. GPSM2 Signal Transduction Computational Network Analysis in Human No-Tumor Hepatitis/Cirrhosis and Hepatocellular Carcinoma Transformation
	ZHUANG Jing,HUANG Juxiang,WANG Lin
	Biology 21 August 2018
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	Abstract:LGN protein (GPSM2) is involved in transcription or cell division presented in several papers. However, how the molecular network and interpretation concerning GPSM2 signal transduction between no-tumor hepatitis/cirrhosis and hepatocellular carcinoma (HCC) transformation remains to be elucidated. Here we constructed and analyzed significant higher expression gene GPSM2 activated & inhibited upstream and downstream signal transduction network from HCC vs no-tumor hepatitis/cirrhosis pateints (viral infection HCV or HBV) in GEO Dataset by using gene regulatory network inference method based on linear programming and decomposition procedure, under covering GPSM2 pathway and matching signal transduction enrichment analysis by the CapitalBio MAS 3.0 integrated of public databases including Gene Ontology, KEGG, BioCarta, GenMapp, Intact, UniGene, OMIM, etc. By compared the different activated & inhibited GPSM2 network with GO analysis between no-tumor hepatitis/cirrhosis and HCC transformation, our result showed GPSM2 signal transduction network: (1) more nucleus and cytoplasm but less extracellular space protein binding in no-tumor hepatitis/cirrhosis; (2) more growth factor activity but less cytoplasm enzyme activator activity in HCC; (3) less activation & more inhibition molecular numbers in no-tumor hepatitis/cirrhosis but more activation & less inhibition in HCC. Therefore, we inferred (4) GPSM2 signal transduction network stronger transcription but weaker cell differentiation as a result increasing cytoplasm protein translation in no-tumor hepatitis/cirrhosis; (5) stronger cell proliferation but weaker regulation of muscle contraction as a result inceasing nuclear cell division in HCC.
	TO cite this article:ZHUANG Jing,HUANG Juxiang,WANG Lin. GPSM2 Signal Transduction Computational Network Analysis in Human No-Tumor Hepatitis/Cirrhosis and Hepatocellular Carcinoma Transformation[OL].[21 August 2018] http://en.paper.edu.cn/en_releasepaper/content/4745835


	5. Construction of Recombinant Lentivirus Vector Targeting Bovine LXRα mRNA and Its Silencing Effects on Bovine Muscle Satellite Cells
	Liu Yongfeng,Zhao Lu,Ku Ting,Yang Xingbin
	Biology 24 April 2017
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	Abstract:The liver X receptor α (LXRα) is a member of the nuclear hormone receptor superfamily which could regulate the transcription of the genes involved in cholesterol transportation. Recent studies showed that LXRα is considered as a critical regulator in cholesterol homeostasis in macrophages, which could regulate several genes involved in cholesterol transport, such as the ATP-binding cassette trans-porters (ABCs), ABCA1, ABCG1, apolipoprotein E (ApoE) and lipoprotein lipase (LPL). In our study, four pairs of inhibition shRNA were designed to exclusively target bovine LXRα mRNA. Lentiviral vector containing LXRα shRNAs were constructed through BP and LP recombination system, and used to obtained the corresponding lentiviruses in 293T cells. The titers of the Lenti-14MR0054-01, -2, -3 and -04 viruses were 3×108TU/ml, 2×108TU/ml, 2.5×108TU/ml, 3.5×108TU/ml, respectively. The knockdown efficiency of pLenti-03 targeting LXRα reached 88 % in bovine muscle satellite cells. Furthermore, the mRNA expression of RXRα was upregulated in bovine muscle satellite cells, whereas that of PPARα, PPARγ, ABCA1, LPL, ApoE were downregulated at 48 h post-pLenti-03 viruses infection. Therefore, the efficient lentivirus vector inhibiting bovine LXRα expression was obtained in the present study, providing basis for loss-of-function of LXRα in bovine muscle satellite cells
	TO cite this article:Liu Yongfeng,Zhao Lu,Ku Ting, et al. Construction of Recombinant Lentivirus Vector Targeting Bovine LXRα mRNA and Its Silencing Effects on Bovine Muscle Satellite Cells[OL].[24 April 2017] http://en.paper.edu.cn/en_releasepaper/content/4728945


	6. Development of Mutation Sensitive Switch Assays for Preeclampsia-associated AGT Polymorphism
	LIU jinying,XING,Chungen,LI Kai
	Biology 28 March 2016
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	Abstract:AGT (angiotensinogen) gene polymorphisms are associated with the development of hypertension and preeclampsia. Two main polymorphisms of AGT gene are T174M and M235T. The purpose of this study is to develop assays for detecting T174M and M235T by a nanoscale mutation-sensitive switch consisting of high fidelity polymerase and phosphorothioate-modified allele specific primers in order to meet the technical requirement in application for large scale genetic screening and for non-invasive genotyping of maternal circulating DNA. The developed assays showed sensitivities of as low as 10 copies and specificities of more than three log scales for matched over mismatched templates by routine PCR and real-time PCR. These assays are rapid, accurate, and cost-efficient in genotyping AGT gene for large population for the purpose of genetic screening.
	TO cite this article:LIU jinying,XING,Chungen,LI Kai. Development of Mutation Sensitive Switch Assays for Preeclampsia-associated AGT Polymorphism[OL].[28 March 2016] http://en.paper.edu.cn/en_releasepaper/content/4682189


	7. RhoGDIα negatively regulates the glioma stem cell maintenance through RhoA/ROCK1/FOXO1/Oct4 pathway
	Wu Fan,Han Wei,Hu Peishan,Li Dengke,Hu Yan,Qi Yingjiao,Yin Bin,Jiang Tao,Yuan Jiangang,Peng Xiaozhong
	Biology 15 July 2015
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	Abstract:Glioma stem cells (GSCs) are a subset of tumor cells that drive glioma initiation and progression. The molecular mechanisms underlying the maintenance of GSC are still poorly understood. Here we investigated the role of RhoGDIα in GSCs. Over-expression of RhoGDIα suppressed the self-renewal and promoted the differentiation of GSCs. Further data suggested RhoGDIα inhibited the transcription of Oct4 through RhoA/ROCK1/FOXO1 pathway. Moreover, inactivation of ROCK1 also decreased the self-renewal and Oct4 transcriptional activity, and rescued the effects caused by RhoGDIα knockdown. Our results indicate that RhoGDIα is involved in the maintenance of GSCs.
	TO cite this article:Wu Fan,Han Wei,Hu Peishan, et al. RhoGDIα negatively regulates the glioma stem cell maintenance through RhoA/ROCK1/FOXO1/Oct4 pathway[OL].[15 July 2015] http://en.paper.edu.cn/en_releasepaper/content/4650242


	8. Microarray data uncover the genome-wide response to heat in rice post-meiosis panicle
	ZHANG Xianwen,CHEN Xinbo
	Biology 15 August 2014
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	Abstract:To comprehend the gene expression profile in rice panicle under high temperature, Agilent 4×44K rice oligo microarray experiments were carried out using post-meiosis stage rice panicle treated at 40 centigrade degree for 0 min, 10 min, 20 min, 60 min, and 2 hr. The time course differentially expressed genes under heat stress were mainly involved in binding, catalysis, stress response, and cellular process. The significantly changed genes during heat treatment were mainly up-regulated. Among heat-responsive genes, the predominant transcription factor gene families were Hsf, NAC, AP2/ERF, WRKY, MYB, and C2H2. The MapMan analysis demonstrated that, under heat treatment, the HR genes were enriched in the pathways related to biotic and abiotic stress, cell cycle, development, ubiquitin-proteasome system, lipid and secondary metabolisms. These data revealed the great importance of cross-talk and protein homeostasis in response to heat stress in rice panicle at post-meiosis stage.
	TO cite this article:ZHANG Xianwen,CHEN Xinbo. Microarray data uncover the genome-wide response to heat in rice post-meiosis panicle[J].


	9. Enhancing fatty acid production in E.coli by overexpressing the reducing power generating enzymes
	Zhou Yongshuang,Zhang Huaiyuan,Chen Haiqin,Song Yuanda,Chen Yongquan,Zhang Hao,Chen Wei
	Biology 13 March 2013
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	Abstract:Reducing power is an essential factor for fatty acid biosynthesis. In this study, we investigated the effect of five reducing power generating enzymes (NAD-dependent malic enzyme (NAD-ME), NADP-dependent malic enzyme (NADP-ME), NADP-dependent isocitrate dehydrogenase (NADP-IDH), glucose 6-phosphate dehydrogenase (G6PD) and 6-phosphogluconate dehydrogenase (PGD)) on fatty acid biosynthesis in an engineered E. coli BL21 △fadE/pTE which has a fatty acid metabolic sink. Overexpression of NAD-ME, NADP-IDH and G6PD resulted in 2.15-, 1.6- and 1.16-fold increase in fatty acid yield respectively, while overexpression of PGD didn't lead to a significant increase of fatty acid production and overexpression of NADP-ME led to a 15% decline in fatty acid yield. This study provides a feasible strategy for enhancing fatty acid production in engineered E. coli strain by overexpressing the reducing power generating enzymes NAD-ME and G6PD.
	TO cite this article:Zhou Yongshuang,Zhang Huaiyuan,Chen Haiqin, et al. Enhancing fatty acid production in E.coli by overexpressing the reducing power generating enzymes[OL].[13 March 2013] http://en.paper.edu.cn/en_releasepaper/content/4529473


	10. Possible cooperation between eRF1 and suppressor tRNAs in stop codon reassigment in ciliates
	Chai Baofeng,Hao Yanrong,Xu Lijun,Li Cui,Shen Quan
	Biology 14 January 2013
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	Abstract:One factor involved in eukaryotic translation termination is Class 1 release factor in eukaryotes (eRF1), which functions to decode stop codons. Variant code species, such as ciliates, frequently exhibit altered stop codon recognition. Studies revealed that some class-specific residues in the eRF1 N-terminal domain are responsible for stop codon reassignment in ciliates. Here, we investigated the effects on stop codon recognition of chimeric eRF1s containing the N-terminal domain of Euplotes octocarinatus and Blepharisma japonicum eRF1 fused to Saccharomyces cerevisiae M and C domains using dual luciferase read-through assays. Mutation of class-specific residues in different eRF1 classes was also studied to identify key residues and motifs involved in stop codon decoding. As expected, our results demonstrate that three pockets within the eRF1 N-terminal domain were involved in decoding stop codon nucleotides. However, allocation of residues to each pocket was revalued. Our data suggest that hydrophobic and class-specific surface residues participate in different functions: modulation of pocket conformation and interaction with stop codon nucleotides, respectively. Residues conserved across all eRF1s determine the relative orientation of the three pockets according to stop codon nucleotides. However, quantitative analysis of variant ciliate and yeast eRF1 point mutants did not reveal any correlation between evolutionary conservation of class-specific residues and termination-related functional specificity, and was limited in elucidating a detailed mechanism for ciliate stop codon reassignment. Thus, based on isolation of suppressor tRNAs from Euplotes and Tetrahymena, we propose that stop codon reassignment in ciliates may be controlled by cooperation between eRF1 and suppressor transfer RNAs
	TO cite this article:Chai Baofeng,Hao Yanrong,Xu Lijun, et al. Possible cooperation between eRF1 and suppressor tRNAs in stop codon reassigment in ciliates[OL].[14 January 2013] http://en.paper.edu.cn/en_releasepaper/content/4511917

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