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Myers TD, Ferguson C, Gliniak E, Homanics GE, Palladino MJ. Murine model of triosephosphate isomerase deficiency with anemia and severe neuromuscular dysfunction. Curr Res Neurobiol 2022; 3:100062. [PMID: 36405628 PMCID: PMC9673098 DOI: 10.1016/j.crneur.2022.100062] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2022] [Revised: 09/30/2022] [Accepted: 10/30/2022] [Indexed: 11/10/2022] Open
Abstract
Triosephosphate isomerase deficiency (TPI Df) is a rare, aggressive genetic disease that typically affects young children and currently has no established treatment. TPI Df is characterized by hemolytic anemia, progressive neuromuscular degeneration, and a markedly reduced lifespan. The disease has predominately been studied using invertebrate and in vitro models, which lack key aspects of the human disease. While other groups have generated mammalian Tpi1 mutant strains, specifically with the mouse mus musculus, these do not recapitulate key characteristic phenotypes of the human disease. Reported here is the generation of a novel murine model of TPI Df. CRISPR-Cas9 was utilized to engineer the most common human disease-causing mutation, Tpi1 E105D , and Tpi1 null mice were also isolated as a frame-shifting deletion. Tpi1 E105D/null mice experience a markedly shortened lifespan, postural abnormalities consistent with extensive neuromuscular dysfunction, hemolytic anemia, pathological changes in spleen, and decreased body weight. There is a ∼95% reduction in TPI protein levels in Tpi1 E105D/null animals compared to wild-type littermates, consistent with decreased TPI protein stability, a known cause of TPI Df. This work illustrates the capability of Tpi1 E105D/null mice to serve as a mammalian model of human TPI Df. This work will allow for advancement in the study of TPI Df within a model with physiology similar to humans. The development of the model reported here will enable mechanistic studies of disease pathogenesis and, importantly, efficacy testing in a mammalian system for emerging TPI Df treatments.
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Key Words
- CRISPR
- DHAP, Dihydroxyacetone phosphate
- G3P, Glyceraldehyde-3-phosphate
- Genetics
- Glycolysis
- Hct, Hematocrit
- Hgb, Hemoglobin
- Hsp70, Heat shock protein 70
- Hsp90, Heat shock protein 90
- MCV, Mean Corpuscular Volume
- Metabolism
- RNAi, RNA interference
- TPI Deficiency
- TPI Df, Triosephosphate Isomerase Deficiency
- TPI, Triosephosphate Isomerase
- Triosephosphate isomerase (TPI)
- UTR, Untranslated Region
- WT, Wild-type
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Affiliation(s)
- Tracey D. Myers
- Center for Neuroscience, University of Pittsburgh, Pittsburgh, PA, USA
- Department of Pharmacology and Chemical Biology, University of Pittsburgh, Pittsburgh, PA, USA
- Pittsburgh Institute for Neurodegenerative Diseases, University of Pittsburgh, Pittsburgh, PA, USA
| | - Carolyn Ferguson
- Department of Anesthesiology and Preoperative Medicine, University of Pittsburgh, Pittsburgh, PA, USA
| | - Eric Gliniak
- Department of Pharmacology and Chemical Biology, University of Pittsburgh, Pittsburgh, PA, USA
- Pittsburgh Institute for Neurodegenerative Diseases, University of Pittsburgh, Pittsburgh, PA, USA
| | - Gregg E. Homanics
- Center for Neuroscience, University of Pittsburgh, Pittsburgh, PA, USA
- Department of Pharmacology and Chemical Biology, University of Pittsburgh, Pittsburgh, PA, USA
- Department of Anesthesiology and Preoperative Medicine, University of Pittsburgh, Pittsburgh, PA, USA
- Department of Neurobiology, University of Pittsburgh, Pittsburgh, PA, USA
| | - Michael J. Palladino
- Center for Neuroscience, University of Pittsburgh, Pittsburgh, PA, USA
- Department of Pharmacology and Chemical Biology, University of Pittsburgh, Pittsburgh, PA, USA
- Pittsburgh Institute for Neurodegenerative Diseases, University of Pittsburgh, Pittsburgh, PA, USA
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Wang F, Jin S, Mayca Pozo F, Tian D, Tang X, Dai Y, Yao X, Tang J, Zhang Y. Chemical screen identifies shikonin as a broad DNA damage response inhibitor that enhances chemotherapy through inhibiting ATM and ATR. Acta Pharm Sin B 2022; 12:1339-1350. [PMID: 35530159 PMCID: PMC9072232 DOI: 10.1016/j.apsb.2021.08.025] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2021] [Revised: 07/26/2021] [Accepted: 07/30/2021] [Indexed: 12/25/2022] Open
Abstract
DNA damage response (DDR) is a highly conserved genome surveillance mechanism that preserves cell viability in the presence of chemotherapeutic drugs. Hence, small molecules that inhibit DDR are expected to enhance the anti-cancer effect of chemotherapy. Through a recent chemical library screen, we identified shikonin as an inhibitor that strongly suppressed DDR activated by various chemotherapeutic drugs in cancer cell lines derived from different origins. Mechanistically, shikonin inhibited the activation of ataxia telangiectasia mutated (ATM), and to a lesser degree ATM and RAD3-related (ATR), two master upstream regulators of the DDR signal, through inducing degradation of ATM and ATR-interacting protein (ATRIP), an obligate associating protein of ATR, respectively. As a result of DDR inhibition, shikonin enhanced the anti-cancer effect of chemotherapeutic drugs in both cell cultures and in mouse models. While degradation of ATRIP is proteasome dependent, that of ATM depends on caspase- and lysosome-, but not proteasome. Overexpression of ATM significantly mitigated DDR inhibition and cell death induced by shikonin and chemotherapeutic drugs. These novel findings reveal shikonin as a pan DDR inhibitor and identify ATM as a primary factor in determining the chemo sensitizing effect of shikonin. Our data may facilitate the development of shikonin and its derivatives as potential chemotherapy sensitizers through inducing ATM degradation.
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Key Words
- ATM
- ATM, ataxia telangiectasia mutated
- ATR
- ATR, ATM and RAD3-related
- ATRIP
- ATRIP, ATR-interacting protein
- BAF, bafilomycin A
- CHK1/2, checkpoint kinase 1/2
- CIS, cisplatin
- CPT, camptothecin
- Chemical screen
- Chemo sensitizing
- DDR, DNA damage response
- DNA damage Response
- ETO, etoposide
- GEM, gemcitabine
- KAP1, KRAB-associated protein 1
- Luc, Luciferase
- PARP, poly(ADP-ribose) polymerase
- PBS, phosphate buffered saline
- Protein degradation
- RNAi, RNA interference
- SKN, shikonin
- Shikonin
- ULK1, Unc-51-like kinase 1
- Z-VAD, Z-VAD-FMK
- qPCR, quantitative polymerase chain reaction
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Trushina E, Trushin S, Hasan MF. Mitochondrial complex I as a therapeutic target for Alzheimer's disease. Acta Pharm Sin B 2022; 12:483-495. [PMID: 35256930 PMCID: PMC8897152 DOI: 10.1016/j.apsb.2021.11.003] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2021] [Revised: 10/01/2021] [Accepted: 10/25/2021] [Indexed: 02/08/2023] Open
Abstract
Alzheimer's disease (AD), the most prominent form of dementia in the elderly, has no cure. Strategies focused on the reduction of amyloid beta or hyperphosphorylated Tau protein have largely failed in clinical trials. Novel therapeutic targets and strategies are urgently needed. Emerging data suggest that in response to environmental stress, mitochondria initiate an integrated stress response (ISR) shown to be beneficial for healthy aging and neuroprotection. Here, we review data that implicate mitochondrial electron transport complexes involved in oxidative phosphorylation as a hub for small molecule-targeted therapeutics that could induce beneficial mitochondrial ISR. Specifically, partial inhibition of mitochondrial complex I has been exploited as a novel strategy for multiple human conditions, including AD, with several small molecules being tested in clinical trials. We discuss current understanding of the molecular mechanisms involved in this counterintuitive approach. Since this strategy has also been shown to enhance health and life span, the development of safe and efficacious complex I inhibitors could promote healthy aging, delaying the onset of age-related neurodegenerative diseases.
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Key Words
- AD, Alzheimer's disease
- ADP, adenosine diphosphate
- AIDS, acquired immunodeficiency syndrome
- AMP, adenosine monophosphate
- AMPK, AMP-activated protein kinase
- APP/PS1, amyloid precursor protein/presenilin 1
- ATP, adenosine triphosphate
- Alzheimer's disease
- Aβ, amyloid beta
- BBB, blood‒brain barrier
- BDNF, brain-derived neurotrophic factor
- CP2, tricyclic pyrone compound two
- Complex I inhibitors
- ER, endoplasmic reticulum
- ETC, electron transport chain
- FADH2, flavin adenine dinucleotide
- FDG-PET, fluorodeoxyglucose-positron emission tomography
- GWAS, genome-wide association study
- HD, Huntington's disease
- HIF-1α, hypoxia induced factor 1 α
- Healthy aging
- ISR, integrated stress response
- Integrated stress response
- LTP, long term potentiation
- MCI, mild cognitive impairment
- MPTP, 1-methyl 4-phenyl-1,2,3,6-tetrahydropyridine
- Mitochondria
- Mitochondria signaling
- Mitochondria targeted therapeutics
- NAD+ and NADH, nicotinamide adenine dinucleotide
- NF-κB, nuclear factor kappa-light-chain-enhancer of activated B cells
- NRF2, nuclear factor E2-related factor 2
- Neuroprotection
- OXPHOS, oxidative phosphorylation
- PD, Parkinson's disease
- PGC1α, peroxisome proliferator-activated receptor gamma coactivator 1 alpha
- PMF, proton-motive force
- RNAi, RNA interference
- ROS, reactive oxygen species
- T2DM, type II diabetes mellitus
- TCA, the tricarboxylic acid cycle
- mtDNA, mitochondrial DNA
- mtUPR, mitochondrial unfolded protein response
- pTau, hyper-phosphorylated Tau protein
- ΔpH, proton gradient
- Δψm, mitochondrial membrane potential
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Zoulikha M, Xiao Q, Boafo GF, Sallam MA, Chen Z, He W. Pulmonary delivery of siRNA against acute lung injury/acute respiratory distress syndrome. Acta Pharm Sin B 2022; 12:600-620. [PMID: 34401226 PMCID: PMC8359643 DOI: 10.1016/j.apsb.2021.08.009] [Citation(s) in RCA: 93] [Impact Index Per Article: 46.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2021] [Revised: 06/14/2021] [Accepted: 07/02/2021] [Indexed: 02/08/2023] Open
Abstract
The use of small interfering RNAs (siRNAs) has been under investigation for the treatment of several unmet medical needs, including acute lung injury/acute respiratory distress syndrome (ALI/ARDS) wherein siRNA may be implemented to modify the expression of pro-inflammatory cytokines and chemokines at the mRNA level. The properties such as clear anatomy, accessibility, and relatively low enzyme activity make the lung a good target for local siRNA therapy. However, the translation of siRNA is restricted by the inefficient delivery of siRNA therapeutics to the target cells due to the properties of naked siRNA. Thus, this review will focus on the various delivery systems that can be used and the different barriers that need to be surmounted for the development of stable inhalable siRNA formulations for human use before siRNA therapeutics for ALI/ARDS become available in the clinic.
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Key Words
- AAV, adeno-associated virus
- ALI/ARDS
- ALI/ARDS, acute lung injury/acute respiratory distress syndrome
- AM, alveolar macrophage
- ATI, alveolar cell type I
- ATII, alveolar cell type II
- AV, adenovirus
- Ago-2, argonaute 2
- CFDA, China Food and Drug Administration
- COPD, chronic obstructive pulmonary disease
- CPP, cell-penetrating peptide
- CS, cigarette smoke
- CXCR4, C–X–C motif chemokine receptor type 4
- Cellular uptake
- DAMPs, danger-associated molecular patterns
- DC-Chol, 3β-(N-(N′,N′-dimethylethylenediamine)-carbamoyl) cholesterol
- DDAB, dimethyldioctadecylammonium bromide
- DODAP, 1,2-dioleyl-3-dimethylammonium-propane
- DODMA, 1,2-dioleyloxy-N,N-dimethyl-3-aminopropane
- DOGS, dioctadecyl amido glycin spermine
- DOPC, 1,2-dioleoyl-sn-glycero-3-phosphocholine
- DOPE, 1,2-dioleoyl-l-α-glycero-3-phosphatidylethanolamine
- DOSPA, 2,3-dioleyloxy-N-[2-(sperminecarboxamido)ethyl]-N,N-dimethyl-1-propanaminium
- DOTAP, 1,2-dioleoyl-3-trimethylammonium-propane
- DOTMA, N-[1-(2,3-dioleoyloxy)propyl]-N,N,N-trimethylammonium
- DPI, dry powder inhaler
- DPPC, 1,2-dipalmitoyl-sn-glycero-3-phosphocholine
- Drug delivery
- EC, endothelial cell
- EPC, egg phosphatidylcholine
- EXOs, exosomes
- Endosomal escape
- EpiC, epithelial cell
- FDA, US Food and Drug Administration
- HALI, hyperoxic acute lung injury
- HMGB1, high-mobility group box 1
- HMVEC, human primary microvascular endothelial cell
- HNPs, hybrid nanoparticles
- Hem-CLP, hemorrhagic shock followed by cecal ligation and puncture septic challenge
- ICAM-1, intercellular adhesion molecule-1
- IFN, interferons
- Inflammatory diseases
- LPS, lipopolysaccharides
- MEND, multifunctional envelope-type nano device
- MIF, macrophage migration inhibitory factor
- Myd88, myeloid differentiation primary response 88
- N/P ratio, nitrogen /phosphate ratio
- NETs, neutrophil extracellular traps
- NF-κB, nuclear factor kappa B
- NPs, nanoparticles
- Nanoparticles
- PAI-1, plasminogen activator inhibitor-1
- PAMAM, polyamidoamine
- PAMPs, pathogen-associated molecular patterns
- PD-L1, programmed death ligand-1
- PDGFRα, platelet-derived growth factor receptor-α
- PEEP, positive end-expiratory pressure
- PEG, polyethylene glycol
- PEI, polyethyleneimine
- PF, pulmonary fibrosis
- PFC, perfluorocarbon
- PLGA, poly(d,l-lactic-co-glycolic acid)
- PMs, polymeric micelles
- PRR, pattern recognition receptor
- PS, pulmonary surfactant
- Pulmonary administration
- RIP2, receptor-interacting protein 2
- RISC, RNA-induced silencing complex
- RNAi, RNA interference
- ROS, reactive oxygen species
- SLN, solid lipid nanoparticle
- SNALP, stable nucleic acid lipid particle
- TGF-β, transforming growth factor-β
- TLR, Toll-like receptor
- TNF-α, tumor necrosis factor-α
- VALI, ventilator-associated lung injury
- VILI, ventilator-induced lung injury
- dsDNA, double-stranded DNA
- dsRNA, double-stranded RNA
- eggPG, l-α-phosphatidylglycerol
- mRNA, messenger RNA
- miRNA, microRNA
- pDNA, plasmid DNA
- shRNA, short RNA
- siRNA
- siRNA, small interfering RNA
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Mai J, Liao L, Ling R, Guo X, Lin J, Mo B, Chen W, Yu Y. Study on RNAi-based herbicide for Mikania micrantha. Synth Syst Biotechnol 2021; 6:437-445. [PMID: 34901482 PMCID: PMC8637008 DOI: 10.1016/j.synbio.2021.11.005] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2021] [Revised: 10/10/2021] [Accepted: 11/09/2021] [Indexed: 01/26/2023] Open
Abstract
The invasive plant Mikania micrantha Kunth (M. micrantha) from South America poses a significant threat to the stability and biodiversity of ecosystems. However, an effective and economical method to control M. micrantha is still lacking. RNA interference (RNAi) has been widely studied and applied in agriculture for trait improvement. Spray-induced gene silencing (SIGS) can produce RNAi silencing effects without introducing heritable modifications to the plant genome and is becoming a novel nontransformation strategy for plant protection. In this study, the genes encoding chlorophyll a/b-binding proteins were selected as targets of RNAi, based on high-throughput sequencing of M. micrantha transcriptome and bioinformatic analyses of sequence specificity. Three types of RNAi molecules, double-stranded RNA, RNAi nanomicrosphere, and short hairpin RNA (shRNA), with their corresponding short interfering RNA sequences were designed and synthesized for SIGS vector construction, from which each RNAi molecule was transcribed and extracted to be sprayed on M. micrantha leaves. Whereas water-treated control leaves remained green, leaves treated with RNAi molecules turned yellow and eventually wilted. Quantitative real-time PCR showed that the expression levels of target genes were significantly reduced in the RNAi-treated groups compared with those of the control, suggesting that all three types of RNAi herbicides effectively silenced the endogenous target genes, which are essential for the growth of M. micrantha. We also found that shRNA showed better silencing efficiency than the other two molecules. Taken together, our study successfully designed three types of RNAi-based herbicides that specifically silenced endogenous target genes and controlled the growth of M. micrantha. Moreover, we identified a gene family encoding chlorophyll a/b-binding proteins that is important for the growth and development of M. micrantha and could serve as potential targets for controlling the spread of M. micrantha.
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Key Words
- Chlorophyll a/b-binding protein
- GMOs, genetically modified organisms
- HIGS, host-induced gene silencing
- Invasive plant
- LHCs, light-harvesting complexes
- Mikania micrantha
- Nucleic acid bioherbicide
- RNA interference
- RNAi, RNA interference
- RNP, RNAi nanomicrosphere
- SEM, scanning electron microscope
- SIGS, Spray-induced gene silencing
- Spray-induced gene silencing
- dsRNA, double-stranded RNA
- qRT-PCR, Quantitative real-time PCR
- shRNA, short hairpin RNA
- siRNA, short interfering RNA
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Affiliation(s)
- Jiantao Mai
- Guangdong Provincial Key Laboratory for Plant Epigenetics, Longhua Bioindustry and Innovation Research Institute, College of Life Sciences and Oceanography, Shenzhen University, 1066 Xueyuan Avenue, Shenzhen, 518000, PR China
| | - Lingling Liao
- Guangdong Provincial Key Laboratory for Plant Epigenetics, Longhua Bioindustry and Innovation Research Institute, College of Life Sciences and Oceanography, Shenzhen University, 1066 Xueyuan Avenue, Shenzhen, 518000, PR China
| | - Rongsong Ling
- Institute for Advanced Study, Shenzhen University, 3688 Nanhai Avenue, Shenzhen, 518000, PR China
| | - Xiaolong Guo
- College of Materials Science and Engineering, Shenzhen University, 1066 Xueyuan Avenue, Shenzhen, 518000, PR China
| | - Jingying Lin
- Guangdong Provincial Key Laboratory for Plant Epigenetics, Longhua Bioindustry and Innovation Research Institute, College of Life Sciences and Oceanography, Shenzhen University, 1066 Xueyuan Avenue, Shenzhen, 518000, PR China
| | - Beixin Mo
- Guangdong Provincial Key Laboratory for Plant Epigenetics, Longhua Bioindustry and Innovation Research Institute, College of Life Sciences and Oceanography, Shenzhen University, 1066 Xueyuan Avenue, Shenzhen, 518000, PR China
| | - Weizhao Chen
- Shenzhen Key Laboratory for Microbial Gene Engineering, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518060, PR China
| | - Yu Yu
- Guangdong Provincial Key Laboratory for Plant Epigenetics, Longhua Bioindustry and Innovation Research Institute, College of Life Sciences and Oceanography, Shenzhen University, 1066 Xueyuan Avenue, Shenzhen, 518000, PR China
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Khan MT, Dalvin S, Nilsen F, Male R. Two apolipoproteins in salmon louse ( Lepeophtheirus salmonis), apolipoprotein 1 knock down reduces reproductive capacity. Biochem Biophys Rep 2021; 28:101156. [PMID: 34729423 PMCID: PMC8545670 DOI: 10.1016/j.bbrep.2021.101156] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2021] [Revised: 10/07/2021] [Accepted: 10/17/2021] [Indexed: 11/19/2022] Open
Abstract
The salmon louse, Lepeophtheirus salmonis is an ectoparasite of salmonid fish in the Northern Hemisphere, causing large economical losses in the aquaculture industry and represent a threat to wild populations of salmonids. Like other oviparous animals, it is likely that female lice use lipoproteins for lipid transport to maturing oocytes and other organs of the body. As an important component of lipoproteins, apolipoproteins play a vital role in the transport of lipids through biosynthesis of lipoproteins. Apolipoproteins have been studied in detail in different organisms, but no studies have been done in salmon lice. Two apolipoprotein encoding genes (LsLp1 and LsLp2) were identified in the salmon lice genome. Transcriptional analysis revealed both genes to be expressed at all stages from larvae to adult with some variation, LsLp1 generally higher than LsLp2 and both at their highest levels in adult stages of the louse. In adult female louse, the LsLp1 and LsLp2 transcripts were found in the sub-epidermal tissue and the intestine. RNA interference-mediated knockdown of LsLp1 and LsLp2 in female lice resulted in reduced expression of both transcripts. LsLp1 knockdown female lice produced significantly less offspring than control lice, while knockdown of LsLp2 in female lice caused no reduction in the number of offspring. These results suggest that LsLp1 has an important role in reproduction in female salmon lice. Salmon lice are ectoparasites and a major threat to aquaculture industry and wild salmon. Two apolipoproteins in salmon louse (Lepeophtheirus salmonis). Expressed at all stages from larvae to adult, sub-epidermal tissue and the intestine . RNA interference-mediated knockdown of LsLp1 and LsLp2. LsLp1 knockdown female lice produced significantly less offspring than control lice.
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Key Words
- Apolipoproteins
- CP, clotting protein
- Crustacea
- DIG, Digoxigenin
- Ectoparasite
- Gene expression
- LDL, low density lipoprotein
- LLTP, large lipid transfer protein
- Lp, lipophorin
- Ls, Lepeophtheirus salmonis
- MTP, microsomal triglyceride transfer protein
- RNAi
- RNAi, RNA interference
- Reproduction
- Vit, vitellogenins
- apo B-100, apolipoprotein B-100
- apoCr, apolipocrustaceins
- apoLp-II/I, apolipophorin-II/I
- dLPs, large discoidal lipoproteins
- ef1α, elongation factor 1 alpha
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Affiliation(s)
- Muhammad Tanveer Khan
- Sea Lice Research Centre, Department of Biological Sciences, University of Bergen, Bergen, Norway
| | - Sussie Dalvin
- Sea Lice Research Centre, Institute of Marine Research, Bergen, Norway
| | - Frank Nilsen
- Sea Lice Research Centre, Department of Biological Sciences, University of Bergen, Bergen, Norway
| | - Rune Male
- Sea Lice Research Centre, Department of Biological Sciences, University of Bergen, Bergen, Norway
- Corresponding author. Department of Biological Sciences, University of Bergen, P.O. Box 7803, N-5020, Bergen, Norway.
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Shi Y, Lu A, Wang X, Belhadj Z, Wang J, Zhang Q. A review of existing strategies for designing long-acting parenteral formulations: Focus on underlying mechanisms, and future perspectives. Acta Pharm Sin B 2021; 11:2396-2415. [PMID: 34522592 PMCID: PMC8424287 DOI: 10.1016/j.apsb.2021.05.002] [Citation(s) in RCA: 43] [Impact Index Per Article: 14.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2021] [Revised: 03/03/2021] [Accepted: 03/12/2021] [Indexed: 12/14/2022] Open
Abstract
The need for long-term treatments of chronic diseases has motivated the widespread development of long-acting parenteral formulations (LAPFs) with the aim of improving drug pharmacokinetics and therapeutic efficacy. LAPFs have been proven to extend the half-life of therapeutics, as well as to improve patient adherence; consequently, this enhances the outcome of therapy positively. Over past decades, considerable progress has been made in designing effective LAPFs in both preclinical and clinical settings. Here we review the latest advances of LAPFs in preclinical and clinical stages, focusing on the strategies and underlying mechanisms for achieving long acting. Existing strategies are classified into manipulation of in vivo clearance and manipulation of drug release from delivery systems, respectively. And the current challenges and prospects of each strategy are discussed. In addition, we also briefly discuss the design principles of LAPFs and provide future perspectives of the rational design of more effective LAPFs for their further clinical translation.
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Key Words
- 2′-F, 2′-fluoro
- 2′-O-MOE, 2′-O-(2-methoxyethyl)
- 2′-OMe, 2′-O-methyl
- 3D, three-dimensional
- ART, antiretroviral therapy
- ASO, antisense oligonucleotide
- Biomimetic strategies
- Chemical modification
- DDS, drug delivery systems
- ECM, extracellular matrix
- ENA, ethylene-bridged nucleic acid
- ESC, enhanced stabilization chemistry
- EVA, ethylene vinyl acetate
- Fc/HSA fusion
- FcRn, Fc receptor
- GLP-1, glucagon like peptide-1
- GS, glycine–serine
- HA, hyaluronic acid
- HES, hydroxy-ethyl-starch
- HP, hypoparathyroidism
- HSA, human serum albumin
- Hydrogels
- ISFI, in situ forming implants
- IgG, immunoglobulin G
- Implantable systems
- LAFs, long-acting formulations
- LAPFs, long-acting parenteral formulations
- LNA, locked nucleic acid
- Long-acting
- MNs, microneedles
- Microneedles
- NDS, nanochannel delivery system
- NPs, nanoparticles
- Nanocrystal suspensions
- OA, osteoarthritis
- PCPP-SA, poly(1,3-bis(carboxyphenoxy)propane-co-sebacic-acid)
- PEG, polyethylene glycol
- PM, platelet membrane
- PMPC, poly(2-methyacryloyloxyethyl phosphorylcholine)
- PNAs, peptide nucleic acids
- PS, phase separation
- PSA, polysialic acid
- PTH, parathyroid hormone
- PVA, polyvinyl alcohol
- RBCs, red blood cells
- RES, reticuloendothelial system
- RNAi, RNA interference
- SAR, structure‒activity relationship
- SCID, severe combined immunodeficiency
- SE, solvent extraction
- STC, standard template chemistry
- TNFR2, tumor necrosis factor receptor 2
- hGH, human growth hormone
- im, intramuscular
- iv, intravenous
- mPEG, methoxypolyethylene glycol
- sc, subcutaneous
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Affiliation(s)
- Yujie Shi
- Beijing Key Laboratory of Molecular Pharmaceutics and New Drug Delivery Systems, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China
| | - An Lu
- Beijing Key Laboratory of Molecular Pharmaceutics and New Drug Delivery Systems, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China
| | - Xiangyu Wang
- Beijing Key Laboratory of Molecular Pharmaceutics and New Drug Delivery Systems, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China
| | - Zakia Belhadj
- Beijing Key Laboratory of Molecular Pharmaceutics and New Drug Delivery Systems, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China
| | - Jiancheng Wang
- Beijing Key Laboratory of Molecular Pharmaceutics and New Drug Delivery Systems, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China
- State Key Laboratory of Natural and Biomimetic Drugs, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China
| | - Qiang Zhang
- Beijing Key Laboratory of Molecular Pharmaceutics and New Drug Delivery Systems, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China
- State Key Laboratory of Natural and Biomimetic Drugs, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China
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Hou M, Wang R, Zhao S, Wang Z. Ginsenosides in Panax genus and their biosynthesis. Acta Pharm Sin B 2021; 11:1813-1834. [PMID: 34386322 PMCID: PMC8343117 DOI: 10.1016/j.apsb.2020.12.017] [Citation(s) in RCA: 93] [Impact Index Per Article: 31.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2020] [Revised: 12/03/2020] [Accepted: 12/11/2020] [Indexed: 12/12/2022] Open
Abstract
Ginsenosides are a series of glycosylated triterpenoids which belong to protopanaxadiol (PPD)-, protopanaxatriol (PPT)-, ocotillol (OCT)- and oleanane (OA)-type saponins known as active compounds of Panax genus. They are accumulated in plant roots, stems, leaves, and flowers. The content and composition of ginsenosides are varied in different ginseng species, and in different parts of a certain plant. In this review, we summarized the representative saponins structures, their distributions and the contents in nearly 20 Panax species, and updated the biosynthetic pathways of ginsenosides focusing on enzymes responsible for structural diversified ginsenoside biosynthesis. We also emphasized the transcription factors in ginsenoside biosynthesis and non-coding RNAs in the growth of Panax genus plants, and highlighted the current three major biotechnological applications for ginsenosides production. This review covered advances in the past four decades, providing more clues for chemical discrimination and assessment on certain ginseng plants, new perspectives for rational evaluation and utilization of ginseng resource, and potential strategies for production of specific ginsenosides.
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Key Words
- ABA, abscisic acid
- ADP, adenosine diphosphate
- AtCPR (ATR), Arabidopsis thaliana cytochrome P450 reductase
- BARS, baruol synthase
- Biosynthetic pathway
- Biotechnological approach
- CAS, cycloartenol synthase
- CDP, cytidine diphosphate
- CPQ, cucurbitadienol synthase
- CYP, cytochrome P450
- DDS, dammarenediol synthase
- DM, dammarenediol-II
- DMAPP, dimethylallyl diphosphate
- FPP, farnesyl pyrophosphate
- FPPS (FPS), farnesyl diphosphate synthase
- GDP, guanosine diphosphate
- Ginsenoside
- HEJA, 2-hydroxyethyl jasmonate
- HMGR, HMG-CoA reductase
- IPP, isopentenyl diphosphate
- ITS, internal transcribed spacer
- JA, jasmonic acid
- JA-Ile, (+)-7-iso-jasmonoyl-l-isoleucine
- JAR, JA-amino acid synthetase
- JAZ, jasmonate ZIM-domain
- KcMS, Kandelia candel multifunctional triterpene synthases
- LAS, lanosterol synthase
- LUP, lupeol synthase
- MEP, methylerythritol phosphate
- MVA, mevalonate
- MVD, mevalonate diphosphate decarboxylase
- MeJA, methyl jasmonate
- NDP, nucleotide diphosphate
- Non-coding RNAs
- OA, oleanane or oleanic acid
- OAS, oleanolic acid synthase
- OCT, ocotillol
- OSC, oxidosqualene cyclase
- PPD, protopanaxadiol
- PPDS, PPD synthase
- PPT, protopanaxatriol
- PPTS, PPT synthase
- Panax species
- RNAi, RNA interference
- SA, salicylic acid
- SE (SQE), squalene epoxidase
- SPL, squamosa promoter-binding protein-like
- SS (SQS), squalene synthase
- SUS, sucrose synthase
- TDP, thymine diphosphate
- Transcription factors
- UDP, uridine diphosphate
- UGPase, UDP-glucose pyrophosphosphprylase
- UGT, UDP-dependent glycosyltransferase
- WGD, whole genome duplication
- α-AS, α-amyrin synthase
- β-AS, β-amyrin synthase
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Affiliation(s)
- Maoqi Hou
- The SATCM Key Laboratory for New Resources & Quality Evaluation of Chinese Medicine, The MOE Key Laboratory for Standardization of Chinese Medicines and Shanghai Key Laboratory of Compound Chinese Medicines, Institute of Chinese Materia Medica, Shanghai University of Traditional Chinese Medicine, Shanghai 201203, China
| | - Rufeng Wang
- The SATCM Key Laboratory for New Resources & Quality Evaluation of Chinese Medicine, The MOE Key Laboratory for Standardization of Chinese Medicines and Shanghai Key Laboratory of Compound Chinese Medicines, Institute of Chinese Materia Medica, Shanghai University of Traditional Chinese Medicine, Shanghai 201203, China
| | - Shujuan Zhao
- The SATCM Key Laboratory for New Resources & Quality Evaluation of Chinese Medicine, The MOE Key Laboratory for Standardization of Chinese Medicines and Shanghai Key Laboratory of Compound Chinese Medicines, Institute of Chinese Materia Medica, Shanghai University of Traditional Chinese Medicine, Shanghai 201203, China
| | - Zhengtao Wang
- The SATCM Key Laboratory for New Resources & Quality Evaluation of Chinese Medicine, The MOE Key Laboratory for Standardization of Chinese Medicines and Shanghai Key Laboratory of Compound Chinese Medicines, Institute of Chinese Materia Medica, Shanghai University of Traditional Chinese Medicine, Shanghai 201203, China
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Hasan M, Ashik AI, Chowdhury MB, Tasnim AT, Nishat ZS, Hossain T, Ahmed S. Computational prediction of potential siRNA and human miRNA sequences to silence orf1ab associated genes for future therapeutics against SARS-CoV-2. Inform Med Unlocked 2021; 24:100569. [PMID: 33846694 PMCID: PMC8028608 DOI: 10.1016/j.imu.2021.100569] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2020] [Revised: 03/26/2021] [Accepted: 03/31/2021] [Indexed: 12/12/2022] Open
Abstract
The coronavirus disease 2019 (COVID-19) is an ongoing pandemic caused by an RNA virus termed as severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2). SARS-CoV-2 possesses an almost 30kbp long genome. The genome contains open-reading frame 1ab (ORF1ab) gene, the largest one of SARS-CoV-2, encoding polyprotein PP1ab and PP1a responsible for viral transcription and replication. Several vaccines have already been approved by the respective authorities over the world to develop herd immunity among the population. In consonance with this effort, RNA interference (RNAi) technology holds the possibility to strengthen the fight against this virus. Here, we have implemented a computational approach to predict potential short interfering RNAs including small interfering RNAs (siRNAs) and microRNAs (miRNAs), which are presumed to be intrinsically active against SARS-CoV-2. In doing so, we have screened miRNA library and siRNA library targeting the ORF1ab gene. We predicted the potential miRNA and siRNA candidate molecules utilizing an array of bioinformatic tools. By extending the analysis, out of 24 potential pre-miRNA hairpins and 131 siRNAs, 12 human miRNA and 10 siRNA molecules were sorted as potential therapeutic agents against SARS-CoV-2 based on their GC content, melting temperature (Tm), heat capacity (Cp), hybridization and minimal free energy (MFE) of hybridization. This computational study is focused on lessening the extensive time and labor needed in conventional trial and error based wet lab methods and it has the potential to act as a decent base for future researchers to develop a successful RNAi therapeutic.
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Key Words
- ACE-2, Angiotensin-converting enzyme 2
- COVID-19
- COVID-19, coronavirus disease 2019
- Cp, heat capacity
- Gene silencing
- ORF, open reading frame
- Posttranscriptional regulation
- RNAi Therapeutics
- RNAi, RNA interference
- SARS-CoV-2
- SARS-CoV-2, severe acute respiratory syndrome coronavirus-2
- TMPRSS2, transmembrane protease serine 2
- Tm, melting temperature
- UTR, untranslated region
- hsa-miR, human microRNA
- miRNA
- miRNA, microRNA
- sgRNA, sub-genomic RNA
- siRNA
- siRNA, small interfering RNA
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Affiliation(s)
- Mahedi Hasan
- Department of Biochemistry and Molecular Biology, Shahjalal University of Science and Technology, Sylhet 3114, Bangladesh
| | - Arafat Islam Ashik
- Department of Biochemistry and Molecular Biology, Shahjalal University of Science and Technology, Sylhet 3114, Bangladesh
| | - Md Belal Chowdhury
- Department of Biochemistry and Molecular Biology, Shahjalal University of Science and Technology, Sylhet 3114, Bangladesh
| | - Atiya Tahira Tasnim
- Department of Biochemistry and Molecular Biology, Shahjalal University of Science and Technology, Sylhet 3114, Bangladesh
| | - Zakia Sultana Nishat
- Department of Biochemistry and Molecular Biology, Shahjalal University of Science and Technology, Sylhet 3114, Bangladesh
| | - Tanvir Hossain
- Department of Biochemistry and Molecular Biology, Shahjalal University of Science and Technology, Sylhet 3114, Bangladesh
| | - Shamim Ahmed
- Department of Biochemistry and Molecular Biology, Shahjalal University of Science and Technology, Sylhet 3114, Bangladesh
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Salcedo-Porras N, Noor S, Cai C, Oliveira PL, Lowenberger C. Rhodnius prolixus uses the peptidoglycan recognition receptor rpPGRP-LC/LA to detect Gram-negative bacteria and activate the IMD pathway. Curr Res Insect Sci 2021; 1:100006. [PMID: 36003603 PMCID: PMC9387487 DOI: 10.1016/j.cris.2020.100006] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/20/2020] [Revised: 12/09/2020] [Accepted: 12/09/2020] [Indexed: 05/05/2023]
Abstract
Insects rely on an innate immune system to recognize and eliminate pathogens. Key components of this system are highly conserved across all invertebrates. To detect pathogens, insects use Pattern recognition receptors (PRRs) that bind to signature motifs on the surface of pathogens called Pathogen Associated Molecular Patterns (PAMPs). In general, insects use peptidoglycan recognition proteins (PGRPs) in the Immune Deficiency (IMD) pathway to detect Gram-negative bacteria, and other PGRPs and Gram-negative binding proteins (GNBPs) in the Toll pathway to detect Gram-positive bacteria and fungi, although there is crosstalk and cooperation between these and other pathways. Once pathogens are recognized, these pathways activate the production of potent antimicrobial peptides (AMPs). Most PRRs in insects have been reported from genome sequencing initiatives but few have been characterized functionally. The initial studies on insect PRRs were done using established dipteran model organisms such as Drosophila melanogaster, but there are differences in the numbers and functional role of PRRs in different insects. Here we describe the genomic repertoire of PGRPs in Rhodnius prolixus, a hemimetabolous hemipteran vector of the parasite Trypanosoma cruzi that causes Chagas disease in humans. Using a de novo transcriptome from the fat body of immune activated insects, we found 5 genes encoding PGRPs. Phylogenetic analysis groups R. prolixus PGRPs with D. melanogaster PGRP-LA, which is involved in the IMD pathway in the respiratory tract. A single R. prolixus PGRP gene encodes isoforms that contain an intracellular region or motif (cryptic RIP Homotypic Interaction Motif-cRHIM) that is involved in the IMD signaling pathway in D. melanogaster. We characterized and silenced this gene using RNAi and show that the PGRPs that contain cRHIMs are involved in the recognition of Gram-negative bacteria, and activation of the IMD pathway in the fat body of R. prolixus, similar to the PGRP-LC of D. melanogaster. This is the first functional characterization of a PGRP containing a cRHIM motif that serves to activate the IMD pathway in a hemimetabolous insect.
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Key Words
- AMP, Antimicrobial Peptide
- Antimicrobial peptides
- GNBP, Gram-negative Binding Protein
- Gr+, Gram-positive
- Gr-, Gram-negative
- IMD pathway
- IMD, Immune Deficiency
- Innate immunity
- ML, Maximum Likelihood
- PAMP, Pathogen-Associated Molecular Pattern
- PGN, Peptidoglycan
- PGRP
- PGRP, Peptidoglycan Recognition Protein
- PRR, Pattern Recognition Receptor
- RHIM
- RNAi, RNA interference
- SMOC, Supramolecular Organizing Centres
- TPM, Transcripts Per Million
- Triatomines
- cRHIM, cryptic RIP Homotypic Interaction Motif
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Affiliation(s)
- Nicolas Salcedo-Porras
- Centre for Cell Biology, Development and Disease, Department of Biological Sciences, Simon Fraser University, Burnaby, BC V5A 1S6, Canada
- Corresponding author.
| | - Shireen Noor
- Centre for Cell Biology, Development and Disease, Department of Biological Sciences, Simon Fraser University, Burnaby, BC V5A 1S6, Canada
| | - Charley Cai
- Centre for Cell Biology, Development and Disease, Department of Biological Sciences, Simon Fraser University, Burnaby, BC V5A 1S6, Canada
| | - Pedro L. Oliveira
- Instituto de Bioquímica Médica, Universidade Federal do Rio de Janeiro, CCS, Ilha do Fundão, Rio de Janeiro, Brazil
| | - Carl Lowenberger
- Centre for Cell Biology, Development and Disease, Department of Biological Sciences, Simon Fraser University, Burnaby, BC V5A 1S6, Canada
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Charbe NB, Amnerkar ND, Ramesh B, Tambuwala MM, Bakshi HA, Aljabali AA, Khadse SC, Satheeshkumar R, Satija S, Metha M, Chellappan DK, Shrivastava G, Gupta G, Negi P, Dua K, Zacconi FC. Small interfering RNA for cancer treatment: overcoming hurdles in delivery. Acta Pharm Sin B 2020; 10:2075-2109. [PMID: 33304780 PMCID: PMC7714980 DOI: 10.1016/j.apsb.2020.10.005] [Citation(s) in RCA: 101] [Impact Index Per Article: 25.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2020] [Revised: 06/24/2020] [Accepted: 10/08/2020] [Indexed: 12/11/2022] Open
Abstract
In many ways, cancer cells are different from healthy cells. A lot of tactical nano-based drug delivery systems are based on the difference between cancer and healthy cells. Currently, nanotechnology-based delivery systems are the most promising tool to deliver DNA-based products to cancer cells. This review aims to highlight the latest development in the lipids and polymeric nanocarrier for siRNA delivery to the cancer cells. It also provides the necessary information about siRNA development and its mechanism of action. Overall, this review gives us a clear picture of lipid and polymer-based drug delivery systems, which in the future could form the base to translate the basic siRNA biology into siRNA-based cancer therapies.
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Key Words
- 1,3-propanediol, PEG-b-PDMAEMA-b-Ppy
- 2-propylacrylicacid, PAH-b-PDMAPMA-b-PAH
- APOB, apolipoprotein B
- AQP-5, aquaporin-5
- AZEMA, azidoethyl methacrylate
- Atufect01, β-l-arginyl-2,3-l-diaminopropionicacid-N-palmityl-N-oleyl-amide trihydrochloride
- AuNPs, gold nanoparticles
- B-PEI, branched polyethlenimine
- BMA, butyl methacrylate
- CFTR, cystic fibrosis transmembrane conductance regulator gene
- CHEMS, cholesteryl hemisuccinate
- CHOL, cholesterol
- CMC, critical micelles concentration
- Cancer
- DC-Chol, 3β-[N-(N′,N′-dimethylaminoethane)carbamoyl]cholesterol
- DMAEMA, 2-dimethylaminoethyl methacrylate
- DNA, deoxyribonucleic acid
- DOPC, dioleylphosphatidyl choline
- DOPE, dioleylphosphatidyl ethanolamine
- DOTAP, N-[1-(2,3-dioleoyloxy)propyl]-N,N,N-trimethylammonium methyl-sulfate
- DOTMA, N-[1-(2,3-dioleyloxy)propy]-N,N,N-trimethylammoniumchloride
- DOX, doxorubicin
- DSGLA, N,N-dis-tearyl-N-methyl-N-2[N′-(N2-guanidino-l-lysinyl)] aminoethylammonium chloride
- DSPC, 1,2-distearoyl-sn-glycero-3-phosphocholine
- DSPE, 1,2-distearoyl-sn-glycero-3-phosphorylethanolamine
- DSPE-MPEG, 1,2-distearoyl-sn-glycero-3-phosphoethanolamine-N-[methoxy(polyethylene glycol)-2000] (ammonium salt)
- DSPE-PEG-Mal: 1,2-distearoyl-sn-glycero-3-phosphoethanolamine-N-[maleimide(polyethylene glycol)-2000] (mmmonium salt), EPR
- Liposomes
- Micelles
- N-acetylgalactosamine, HIF-1α
- Nanomedicine
- PE-PCL-b-PNVCL, pentaerythritol polycaprolactone-block-poly(N-vinylcaprolactam)
- PLA, poly-l-arginine
- PLGA, poly lactic-co-glycolic acid
- PLK-1, polo-like kinase 1
- PLL, poly-l-lysine
- PPES-b-PEO-b-PPES, poly(4-(phenylethynyl)styrene)-block-PEO-block-poly(4-(phenylethynyl)styrene)
- PTX, paclitaxel
- PiRNA, piwi-interacting RNA
- Polymer
- RES, reticuloendothelial system
- RGD, Arg-Gly-Asp peptide
- RISC, RNA-induced silencing complex
- RNA, ribonucleic acid
- RNAi, RNA interference
- RNAse III, ribonuclease III enzyme
- SEM, scanning electron microscope
- SNALP, stable nucleic acid-lipid particles
- SiRNA, short interfering rNA
- Small interfering RNA (siRNA)
- S–Au, thio‒gold
- TCC, transitional cell carcinoma
- TEM, transmission electron microscopy
- Tf, transferrin
- Trka, tropomyosin receptor kinase A
- USPIO, ultra-small superparamagnetic iron oxide nanoparticles
- UV, ultraviolet
- VEGF, vascular endothelial growth factor
- ZEBOV, Zaire ebola virus
- enhanced permeability and retention, Galnac
- hypoxia-inducible factor-1α, KSP
- kinesin spindle protein, LDI
- lipid-protamine-DNA/hyaluronic acid, MDR
- lysine ethyl ester diisocyanate, LPD/LPH
- messenger RNA, MTX
- methotrexate, NIR
- methoxy polyethylene glycol-polycaprolactone, mRNA
- methoxypoly(ethylene glycol), MPEG-PCL
- micro RNA, MPEG
- multiple drug resistance, MiRNA
- nanoparticle, NRP-1
- near-infrared, NP
- neuropilin-1, PAA
- poly(N,N-dimethylacrylamide), PDO
- poly(N-isopropyl acrylamide), pentaerythritol polycaprolactone-block-poly(N-isopropylacrylamide)
- poly(acrylhydrazine)-block-poly(3-dimethylaminopropyl methacrylamide)-block-poly(acrylhydrazine), PCL
- poly(ethylene glycol)-block-poly(2-dimethylaminoethyl methacrylate)-block poly(pyrenylmethyl methacrylate), PEG-b-PLL
- poly(ethylene glycol)-block-poly(l-lysine), PEI
- poly(ethylene oxide)-block-poly(2-(diethylamino)ethyl methacrylate)-stat-poly(methoxyethyl methacrylate), PEO-b-PCL
- poly(ethylene oxide)-block-poly(Ε-caprolactone), PE-PCL-b-PNIPAM
- poly(Ε-caprolactone), PCL-PEG
- poly(Ε-caprolactone)-polyethyleneglycol-poly(l-histidine), PCL-PEI
- polycaprolactone-polyethyleneglycol, PCL-PEG-PHIS
- polycaprolactone-polyethylenimine, PDMA
- polyethylenimine, PEO-b-P(DEA-Stat-MEMA
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Affiliation(s)
- Nitin Bharat Charbe
- Departamento de Quimica Orgánica, Facultad de Química y de Farmacia, Pontificia Universidad Católica de Chile, Santiago 7820436, Chile
- Sri Adichunchunagiri College of Pharmacy, Sri Adichunchunagiri University, BG Nagar, Karnataka 571418, India
- Corresponding authors.
| | - Nikhil D. Amnerkar
- Adv V. R. Manohar Institute of Diploma in Pharmacy, Nagpur, Maharashtra 441110, India
| | - B. Ramesh
- Sri Adichunchunagiri College of Pharmacy, Sri Adichunchunagiri University, BG Nagar, Karnataka 571418, India
| | - Murtaza M. Tambuwala
- School of Pharmacy and Pharmaceutical Science, Ulster University, Coleraine, Northern Ireland BT52 1SA, UK
| | - Hamid A. Bakshi
- School of Pharmacy and Pharmaceutical Science, Ulster University, Coleraine, Northern Ireland BT52 1SA, UK
| | - Alaa A.A. Aljabali
- Faculty of Pharmacy, Department of Pharmaceutics and Pharmaceutical Technology, Yarmouk University, Irbid 21163, Jordan
| | - Saurabh C. Khadse
- Department of Pharmaceutical Chemistry, R.C. Patel Institute of Pharmaceutical Education and Research, Dist. Dhule, Maharashtra 425 405, India
| | - Rajendran Satheeshkumar
- Departamento de Quimica Orgánica, Facultad de Química y de Farmacia, Pontificia Universidad Católica de Chile, Santiago 7820436, Chile
| | - Saurabh Satija
- Discipline of Pharmacy, Graduate School of Health, University of Technology Sydney, NSW 2007, Australia
- School of Pharmaceutical Sciences, Lovely Professional University, Phagwara 144411 Punjab, India
| | - Meenu Metha
- Discipline of Pharmacy, Graduate School of Health, University of Technology Sydney, NSW 2007, Australia
- School of Pharmaceutical Sciences, Lovely Professional University, Phagwara 144411 Punjab, India
| | - Dinesh Kumar Chellappan
- Department of Life Sciences, School of Pharmacy, International Medical University, Bukit Jalil 57000, Kuala Lumpur, Malaysia
| | - Garima Shrivastava
- Department of Biochemical Engineering and Biotechnology, Indian Institute of Technology, Delhi, New Delhi 110016, India
| | - Gaurav Gupta
- School of Pharmacy, Suresh Gyan Vihar University, Jagatpura, Jaipur 302017, India
| | - Poonam Negi
- School of Pharmaceutical Sciences, Shoolini University of Biotechnology and Management Sciences, Solan 173229, India
| | - Kamal Dua
- Discipline of Pharmacy, Graduate School of Health, University of Technology Sydney, NSW 2007, Australia
- School of Pharmaceutical Sciences, Shoolini University of Biotechnology and Management Sciences, Solan 173229, India
- Priority Research Centre for Healthy Lungs, Hunter Medical Research Institute (HMRI) and School of Biomedical Sciences and Pharmacy, University of Newcastle, NSW 2308, Australia
| | - Flavia C. Zacconi
- Departamento de Quimica Orgánica, Facultad de Química y de Farmacia, Pontificia Universidad Católica de Chile, Santiago 7820436, Chile
- Institute for Biological and Medical Engineering, Schools of Engineering, Medicine and Biological Sciences, Pontificia Universidad Católica de Chile, Santiago 4860, Chile
- Corresponding authors.
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Chen W, Hu Y, Ju D. Gene therapy for neurodegenerative disorders: advances, insights and prospects. Acta Pharm Sin B 2020; 10:1347-1359. [PMID: 32963936 PMCID: PMC7488363 DOI: 10.1016/j.apsb.2020.01.015] [Citation(s) in RCA: 76] [Impact Index Per Article: 19.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2019] [Revised: 11/09/2019] [Accepted: 12/06/2019] [Indexed: 02/07/2023] Open
Abstract
Gene therapy is rapidly emerging as a powerful therapeutic strategy for a wide range of neurodegenerative disorders, including Alzheimer's disease (AD), Parkinson's disease (PD) and Huntington's disease (HD). Some early clinical trials have failed to achieve satisfactory therapeutic effects. Efforts to enhance effectiveness are now concentrating on three major fields: identification of new vectors, novel therapeutic targets, and reliable of delivery routes for transgenes. These approaches are being assessed closely in preclinical and clinical trials, which may ultimately provide powerful treatments for patients. Here, we discuss advances and challenges of gene therapy for neurodegenerative disorders, highlighting promising technologies, targets, and future prospects.
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Key Words
- AADC, aromatic-l-amino-acid
- AAVs, adeno-associated viruses
- AD, Alzheimer's disease
- ARSA, arylsulfatase A
- ASOs, antisense oligonucleotides
- ASPA, aspartoacylase
- Adeno-associated viruses
- Adv, adenovirus
- BBB, blood–brain barrier
- BCSFB, blood–cerebrospinal fluid barrier
- BRB, blood–retina barrier
- Bip, glucose regulated protein 78
- CHOP, CCAAT/enhancer binding homologous protein
- CLN6, ceroidlipofuscinosis neuronal protein 6
- CNS, central nervous system
- CSF, cerebrospinal fluid
- Central nervous system
- Delivery routes
- ER, endoplasmic reticulum
- FDA, U.S. Food and Drug Administration
- GAA, lysosomal acid α-glucosidase
- GAD, glutamic acid decarboxylase
- GDNF, glial derived neurotrophic factor
- Gene therapy
- HD, Huntington's disease
- HSPGs, heparin sulfate proteoglycans
- HTT, mutant huntingtin
- IDS, iduronate 2-sulfatase
- LVs, retrovirus/lentivirus
- Lamp2a, lysosomal-associated membrane protein 2a
- NGF, nerve growth factor
- Neurodegenerative disorders
- PD, Parkinson's disease
- PGRN, Progranulin
- PINK1, putative kinase 1
- PTEN, phosphatase and tensin homolog
- RGCs, retinal ganglion cells
- RNAi, RNA interference
- RPE, retinal pigmented epithelial
- SGSH, lysosomal heparan-N-sulfamidase gene
- SMN, survival motor neuron
- SOD, superoxide dismutase
- SUMF, sulfatase-modifying factor
- TFEB, transcription factor EB
- TPP1, tripeptidyl peptidase 1
- TREM2, triggering receptor expressed on myeloid cells 2
- UPR, unfolded protein response
- ZFPs, zinc finger proteins
- mTOR, mammalian target of rapamycin
- siRNA, small interfering RNA
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Affiliation(s)
- Wei Chen
- Department of Biological Medicines, Fudan University School of Pharmacy, Shanghai 201203, China
- Department of Ophthalmology, Stanford University School of Medicine, Palo Alto, CA 94304, USA
| | - Yang Hu
- Department of Ophthalmology, Stanford University School of Medicine, Palo Alto, CA 94304, USA
| | - Dianwen Ju
- Department of Biological Medicines, Fudan University School of Pharmacy, Shanghai 201203, China
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Campos TL, Korhonen PK, Sternberg PW, Gasser RB, Young ND. Predicting gene essentiality in Caenorhabditis elegans by feature engineering and machine-learning. Comput Struct Biotechnol J 2020; 18:1093-1102. [PMID: 32489524 PMCID: PMC7251299 DOI: 10.1016/j.csbj.2020.05.008] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2020] [Revised: 05/01/2020] [Accepted: 05/06/2020] [Indexed: 02/08/2023] Open
Abstract
Defining genes that are essential for life has major implications for understanding critical biological processes and mechanisms. Although essential genes have been identified and characterised experimentally using functional genomic tools, it is challenging to predict with confidence such genes from molecular and phenomic data sets using computational methods. Using extensive data sets available for the model organism Caenorhabditis elegans, we constructed here a machine-learning (ML)-based workflow for the prediction of essential genes on a genome-wide scale. We identified strong predictors for such genes and showed that trained ML models consistently achieve highly-accurate classifications. Complementary analyses revealed an association between essential genes and chromosomal location. Our findings reveal that essential genes in C. elegans tend to be located in or near the centre of autosomal chromosomes; are positively correlated with low single nucleotide polymorphim (SNP) densities and epigenetic markers in promoter regions; are involved in protein and nucleotide processing; are transcribed in most cells; are enriched in reproductive tissues or are targets for small RNAs bound to the argonaut CSR-1. Based on these results, we hypothesise an interplay between epigenetic markers and small RNA pathways in the germline, with transcription-based memory; this hypothesis warrants testing. From a technical perspective, further work is needed to evaluate whether the present ML-based approach will be applicable to other metazoans (including Drosophila melanogaster) for which comprehensive data sets (i.e. genomic, transcriptomic, proteomic, variomic, epigenetic and phenomic) are available.
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Key Words
- CDS, coding sequence
- CRISPR, Clustered Regularly Interspaced Short Palindromic Repeats
- Caenorhabditis elegans
- ES, Essentiality Score
- EST, expressed sequence tag
- Essential genes
- Essentiality predictions
- GBM, Gradient Boosting Method
- GFF, general feature format
- GLM, Generalised Linear Model
- GO, gene ontology
- ML, machine-learning
- Machine-learning
- NN, Artificial Neural Network
- PPI, protein-protein interaction
- PR-AUC, Area Under the Precision-Recall Curve
- RF, Random Forest
- RNAi, RNA interference
- ROC-AUC, Area Under the Receiver Operating Characteristic Curve
- SNP, single nucleotide polymorphism
- SPLS, Sparse Partial Least Squares
- SVM, Support-Vector Machine
- TEA, Tissue Enrichment Analysis tool (WormBase)
- TSS, transcription start site
- VCF, variant call file
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Affiliation(s)
- Tulio L Campos
- Department of Veterinary Biosciences, Melbourne Veterinary School, The University of Melbourne, Parkville, Victoria 3010, Australia.,Instituto Aggeu Magalhães, Fundação Oswaldo Cruz (IAM-Fiocruz), Recife, Pernambuco, Brazil
| | - Pasi K Korhonen
- Department of Veterinary Biosciences, Melbourne Veterinary School, The University of Melbourne, Parkville, Victoria 3010, Australia
| | - Paul W Sternberg
- Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, United States
| | - Robin B Gasser
- Department of Veterinary Biosciences, Melbourne Veterinary School, The University of Melbourne, Parkville, Victoria 3010, Australia
| | - Neil D Young
- Department of Veterinary Biosciences, Melbourne Veterinary School, The University of Melbourne, Parkville, Victoria 3010, Australia
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Balasubramanian S, Gunasekaran K, Sasidharan S, Jeyamanickavel Mathan V, Perumal E. MicroRNAs and Xenobiotic Toxicity: An Overview. Toxicol Rep 2020; 7:583-595. [PMID: 32426239 PMCID: PMC7225592 DOI: 10.1016/j.toxrep.2020.04.010] [Citation(s) in RCA: 24] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2020] [Revised: 04/13/2020] [Accepted: 04/19/2020] [Indexed: 12/27/2022] Open
Abstract
miRNAs are key regulators of gene expression at both transcription and translation. The role of miRNAs in xenobiotic toxicity and its potential as biomarkers are being explored. In spite of numerous studies, the complex mechanism of miRNA biogenesis and its regulation remains unclear.
The advent of new technologies has paved the rise of various chemicals that are being employed in industrial as well as consumer products. This leads to the accumulation of these xenobiotic compounds in the environment where they pose a serious threat to both target and non-target species. miRNAs are one of the key epigenetic mechanisms that have been associated with toxicity by modulating the gene expression post-transcriptionally. Here, we provide a comprehensive view on miRNA biogenesis, their mechanism of action and, their possible role in xenobiotic toxicity. Further, we review the recent in vitro and in vivo studies involved in xenobiotic exposure induced miRNA alterations and the mRNA-miRNA interactions. Finally, we address the challenges associated with the miRNAs in toxicological studies.
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Key Words
- ADAMTS9, A disintegrin and metalloproteinase with thrombospondin motifs 9
- AHR, Aryl Hydrocarbon Receptor
- AMPK, Adenosine Monophosphate-activated protein kinase
- ARRB1, Arrestin beta 1
- Ag, Silver
- Al2O3, Aluminium oxide
- Au, Gold
- Aβ, Amyloid Beta
- BCB, Blood-cerebrospinal fluid barrier
- BNIP3−3, BCL2/adenovirus E1B 19 kDa protein-interacting protein 3
- BaP, Benzo[a]pyrene
- Biomarkers
- CCNB1, Cyclin B1
- CDC25A, M-phase inducer phosphatase 1
- CDC25C, M-phase inducer phosphatase 3
- CDK, Cyclin-dependent Kinase
- CDK1, Cyclin-dependent kinase 1
- CDK6, Cyclin-dependent kinase 6
- CDKN1b, Cyclin-dependent kinase Inhibitor 1B
- CEC, Contaminants of Emerging Concern
- COPD, Chronic obstructive pulmonary disease
- COX2, Cyclooxygenase-2
- CTGF, Connective Tissue Growth Factor
- DGCR8, DiGeorge syndrome chromosomal [or critical] region 8
- DNA, Deoxy ribonucleic acid
- DON, Deoxynivalenol
- ER, Endoplasmic Reticulum
- Environment
- Epigenetics
- Fadd, Fas-associated protein with death domain
- GTP, Guanosine triphosphate
- Gene regulation
- Grp78/BIP, Binding immunoglobulin protein
- HSPA1A, Heat shock 70 kDa protein 1
- Hpf, Hours post fertilization
- IL-6, Interleukin 6
- IL1R1, Interleukin 1 receptor, type 1
- LIN28B, Lin-28 homolog B
- LRP-1-, Low density lipoprotein receptor-related protein 1
- MAPK, Mitogen Activated Protein Kinase
- MC-LR, Microcystin-Leucine Arginine
- MC-RR, Microcystin-Arginine Arginine
- MRE, MicroRNA Response Elements
- Mn, Manganese
- NASH, Non-alcoholic steatohepatitis
- NET1, Neuroepithelial Cell Transforming 1
- NF- ҡB, Nuclear Factor kappa-light-chain-enhancer of activated B cells
- NFKBAP, NFKB Activating protein-1
- NMDAR, N-methyl-d-aspartate receptor
- NPs, Nanoparticles
- Non-coding RNAs
- Nrf2, Nuclear factor erythroid 2-related factor 2
- PDCD4, Programmed cell death protein 4
- PFAS, Poly-fluoroalkyl substances
- PM2.5, Particulate Matter2.5
- RISC, RNA-induced silencing complex
- RNA, Ribonucleic acid
- RNAi, RNA interference
- RNase III, Ribonuclease III
- SEMA6D, Semaphorin-6D
- SOLiD, Sequencing by Oligonucleotide Ligation and Detection
- SPIONs, Superparamagnetic Iron Oxide Nanoparticles
- SiO2, Silicon dioxide
- TCDD, 2,3,7,8-Tetrachlorodibenzodioxin
- TNF-α, Tumor necrosis factor – alpha
- TP53, Tumor protein 53
- TRBP, Transactivation Response RNA Binding Protein
- Toxicity
- UTR, Untranslated region
- WHO, World Health Organization
- Wnt, Wingless-related integration site
- ZEA, Zearalanone
- Zn, Zinc
- bcl2l11, B-cell lymphoma-2-like protein 11
- ceRNA, Competing endogenous RNA
- lncRNAs, Long non-coding RNA
- mRNA, Messenger RNA
- miRNA, MicroRNA
- qRT-PCR, quantitative Real Time-Polymerase Chain Reaction
- ripk 1, Receptor-interacting serine/threonine-protein kinase 1
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15
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Maruelli S, Besio R, Rousseau J, Garibaldi N, Amiaud J, Brulin B, Layrolle P, Escriou V, Rossi A, Trichet V, Forlino A. Osteoblasts mineralization and collagen matrix are conserved upon specific Col1a2 silencing. Matrix Biol Plus 2020; 6-7:100028. [PMID: 33543025 PMCID: PMC7852305 DOI: 10.1016/j.mbplus.2020.100028] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2019] [Revised: 01/24/2020] [Accepted: 01/24/2020] [Indexed: 11/10/2022] Open
Abstract
Classical osteogenesis imperfecta (OI) is an inherited rare brittle bone disease caused by dominant mutations in the COL1A1 or COL1A2 genes, encoding for the α chains of collagen type I. The definitive cure for the disease will require a gene therapy approach, aimed to correct or suppress the mutant allele. Interestingly, individuals lacking α2(I) chain and synthetizing collagen α1(I)3 homotrimers do not show bone phenotype, making appealing a bone specific COL1A2 silencing approach for OI therapy. To this aim, three different Col1a2-silencing RNAs (siRNAs), −3554, −3825 and −4125, selected at the 3′-end of the murine Col1a2 transcript were tested in vitro and in vivo. In murine embryonic fibroblasts Col1a2-siRNA-3554 was able to efficiently and specifically target the Col1a2 mRNA and to strongly reduce α2(I) chain expression. Its efficiency and specificity were also demonstrated in primary murine osteoblasts, whose mineralization was preserved. The efficiency of Col1a2-siRNA-3554 was proved also in vivo. Biphasic calcium phosphate implants loaded with murine mesenchymal stem cells were intramuscularly transplanted in nude mice and injected with Col1a2-siRNA-3554 three times a week for three weeks. Collagen α2 silencing was demonstrated both at mRNA and protein level and Masson's Trichrome staining confirmed the presence of newly formed collagen matrix. Our data pave the way for further investigation of Col1a2 silencing and siRNA delivery to the bone tissue as a possible strategy for OI therapy. Identification of a specific and efficient Col1a2 siRNA Silencing of Col1a2 allows osteoblasts mineralization. Col1a2 silencing is not impairing matrix deposition in vivo.
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Key Words
- BCP, biphasic calcium phosphate
- Collagen
- D-MEM, Dulbecco-modified Eagle's medium
- EDS, Ehlers Danlos syndrome
- EGFP, enhanced green fluorescent protein
- FBS, fetal bovine serum
- Gene therapy
- MEF, murine embryonic fibroblast
- MSC, mesenchymal stem cell
- NMD, nonsense mediated RNA decay
- OI, osteogenesis imperfecta
- Osteogenesis imperfecta
- PBS, phosphate buffered saline
- RNAi, RNA interference
- SDS, sodium dodecyl sulphate
- Silencing
- TRAP, tartrate-resistant acid phosphatase
- shRNA, short hairpin RNA
- siRNA
- siRNA, small interfering RNA
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Affiliation(s)
- Silvia Maruelli
- Department of Molecular Medicine, Biochemistry Unit, University of Pavia, Pavia, Italy
| | - Roberta Besio
- Department of Molecular Medicine, Biochemistry Unit, University of Pavia, Pavia, Italy
| | - Julie Rousseau
- INSERM, Université de Nantes, UMR1238, Phy-Os, Bone sarcomas and remodeling of calcified tissues, Faculty of Medicine, University of Nantes, Nantes, France
| | - Nadia Garibaldi
- Department of Molecular Medicine, Biochemistry Unit, University of Pavia, Pavia, Italy
| | - Jérôme Amiaud
- INSERM, Université de Nantes, UMR1238, Phy-Os, Bone sarcomas and remodeling of calcified tissues, Faculty of Medicine, University of Nantes, Nantes, France
| | - Bénédicte Brulin
- INSERM, Université de Nantes, UMR1238, Phy-Os, Bone sarcomas and remodeling of calcified tissues, Faculty of Medicine, University of Nantes, Nantes, France
| | - Pierre Layrolle
- INSERM, Université de Nantes, UMR1238, Phy-Os, Bone sarcomas and remodeling of calcified tissues, Faculty of Medicine, University of Nantes, Nantes, France
| | | | - Antonio Rossi
- Department of Molecular Medicine, Biochemistry Unit, University of Pavia, Pavia, Italy
| | - Valerie Trichet
- INSERM, Université de Nantes, UMR1238, Phy-Os, Bone sarcomas and remodeling of calcified tissues, Faculty of Medicine, University of Nantes, Nantes, France
| | - Antonella Forlino
- Department of Molecular Medicine, Biochemistry Unit, University of Pavia, Pavia, Italy
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16
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Campos TL, Korhonen PK, Gasser RB, Young ND. An Evaluation of Machine Learning Approaches for the Prediction of Essential Genes in Eukaryotes Using Protein Sequence-Derived Features. Comput Struct Biotechnol J 2019; 17:785-96. [PMID: 31312416 DOI: 10.1016/j.csbj.2019.05.008] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2019] [Revised: 05/23/2019] [Accepted: 05/26/2019] [Indexed: 12/23/2022] Open
Abstract
The availability of whole-genome sequences and associated multi-omics data sets, combined with advances in gene knockout and knockdown methods, has enabled large-scale annotation and exploration of gene and protein functions in eukaryotes. Knowing which genes are essential for the survival of eukaryotic organisms is paramount for an understanding of the basic mechanisms of life, and could assist in identifying intervention targets in eukaryotic pathogens and cancer. Here, we studied essential gene orthologs among selected species of eukaryotes, and then employed a systematic machine-learning approach, using protein sequence-derived features and selection procedures, to investigate essential gene predictions within and among species. We showed that the numbers of essential gene orthologs comprise small fractions when compared with the total number of orthologs among the eukaryotic species studied. In addition, we demonstrated that machine-learning models trained with subsets of essentiality-related data performed better than random guessing of gene essentiality for a particular species. Consistent with our gene ortholog analysis, the predictions of essential genes among multiple (including distantly-related) species is possible, yet challenging, suggesting that most essential genes are unique to a species. The present work provides a foundation for the expansion of genome-wide essentiality investigations in eukaryotes using machine learning approaches.
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Key Words
- CRISPR, Clustered regularly interspaced short palindromic repeats
- Essential genes
- Essentiality prediction
- Eukaryotes
- GBM, Gradient boosting method
- GI, Genetic interaction
- GLM, Generalised linear model
- GO, Gene ontology
- ML, Machine-learning
- Machine-learning
- NN, Artificial neural network
- OGEE, Online GEne essentiality database
- PPI, Protein-protein interaction
- PR-AUC, Area under the precision-recall curve
- RF, Random Forest
- RNAi, RNA interference
- ROC-AUC, Area under the receiver operating characteristic curve
- SPLS, Sparse partial least squares
- SVM, Support-Vector machine
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17
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Janakiraman K, Krishnaswami V, Rajendran V, Natesan S, Kandasamy R. Novel nano therapeutic materials for the effective treatment of rheumatoid arthritis-recent insights. Mater Today Commun 2018; 17:200-213. [PMID: 32289062 PMCID: PMC7104012 DOI: 10.1016/j.mtcomm.2018.09.011] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/26/2018] [Revised: 09/11/2018] [Accepted: 09/13/2018] [Indexed: 05/02/2023]
Abstract
Rheumatoid arthritis (RA) is the most common complex multifactorial joint related autoimmune inflammatory disease with unknown etiology accomplished with increased cardiovascular risks. RA is characterized by the clinical findings of synovial inflammation, autoantibody production, and cartilage/bone destruction, cardiovascular, pulmonary and skeletal disorders. Pro-inflammatory cytokines such as IL-1, IL-6, IL-8, and IL-10 were responsible for the induction of inflammation in RA patients. Drawbacks such as poor efficacy, higher doses, frequent administration, low responsiveness, and higher cost and serious side effects were associated with the conventional dosage forms for RA treatment. Nanomedicines were recently gaining more interest towards the treatment of RA, and researchers were also focusing towards the development of various anti-inflammatory drug loaded nanoformulations with an aid to both actively/passively targeting the inflamed site to afford an effective treatment regimen for RA. Alterations in the surface area and nanoscale size of the nanoformulations elicit beneficial physical and chemical properties for better pharmacological activities. These drug loaded nanoformulations may enhances the solubility of poorly water soluble drugs, improves the bioavailability, affords targetability and may improve the therapeutic activity. In this regimen, the present review focus towards the novel nanoparticulate formulations (nanoparticles, nanoemulsions, solid lipid nanoparticles, nanomicelles, and nanocapsules) utilized for the treatment of RA. The recent advancements such as siRNA, peptide and targeted based nanoparticulate systems for RA treatment were also discussed. Special emphasis was provided regarding the pathophysiology, prevalence and symptoms towards the development of RA.
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Key Words
- A-SLN, actarit loaded solid lipid nanoparticles
- ACF-SLN, aceclofenac loaded solid lipid nanoparticles
- AIA, antigen-induced arthritis
- ALP, alkaline phosphate
- ALT, alanine aminotransferase
- AST, aspartate aminotransferase
- C-SLN, curcumin loaded solid lipid nanoparticles
- CEL-TS-LN, celecoxib loaded tristearin based lipidic nanoparticles
- CFA, complete freund’s adjuvant
- CHNP, chitosan nanoparticle
- CLSM, confocal laser scanning microscopy
- COX- 1, cyclooxygenase - 1
- COX- 2, cyclooxygenase - 2
- DEX, dexamethasone
- DEX-PMs, dexamethasone-loaded polymeric micelles
- DMARD, disease modifying antirheumatic drugs
- FA, folic acid
- FR-β, folate receptor-beta
- GC, glucocorticoid
- HA- AuNP/TCZ, hyaluronate gold nanoparticle/Tocilizumab
- HEKcells, human embryonic kidney cells
- HSA-NCs, human serum albumin nanocapsules
- HUVEC, human umbilical vein cells
- IL, interleukin
- IND-NMs, indomethacin loaded polymeric micelles
- Ig, immunoglobulin
- Ind-NCs, indomethacin-loaded nanocapsules
- Inflammation
- LDE, lipidic nanoemulsion
- LX-NMs, larnoxicam loaded nanomicelles
- MTX-LCNCs, methotrexate-loaded lipidic core nanocapsules
- NSAIDs, non steroidal anti-inflammatory drugs
- Nanoformulation
- Nanoparticles
- P-SLN, piperine loaded solid lipid nanoparticle
- PCL, polycaprolactone
- PCL-PEG, poly (ethylene glycol)-block-poly (ε-caprolactone)
- PSA, polysialic acid
- PSA-PCL-CyA-NMs, polysialic acid- polycaprolactone cyclosporine A nanomicelles
- Pir-SLN, piroxicam solid lipid nanoparticles
- RA, rheumatoid arthritis
- RGD, arginine-glycine aspartic acid
- RNAi, RNA interference
- Rheumatoid arthritis
- SLN, solid lipid nanoparticles
- TAC-HSA-NPs, tacrolimus human serum albumin nanoparticle
- TAC-LCNCs, tacrolimus loaded lipidic core nanocapsules
- TNF-α, tumour necrosis factor
- VCAM-1, vascular cell adhesion molecule-1
- VEGF, vascular endothelial growth factor
- VIP, vasoactive intestinal peptide
- mRNA, messenger RNA
- shRNA, short hairpin RNA
- siRNA, small interfering RNA
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Affiliation(s)
- Kumar Janakiraman
- National Facility for Drug Development for Academia, Pharmaceutical and Allied Industries (NFDD), Centre for Excellence in Nanobio Translational REsearch (CENTRE), Department of Pharmaceutical Technology, University College of Engineering, Anna University, BIT Campus, Tiruchirappalli 620 024, Tamil Nadu, India
| | - Venkateshwaran Krishnaswami
- National Facility for Drug Development for Academia, Pharmaceutical and Allied Industries (NFDD), Centre for Excellence in Nanobio Translational REsearch (CENTRE), Department of Pharmaceutical Technology, University College of Engineering, Anna University, BIT Campus, Tiruchirappalli 620 024, Tamil Nadu, India
| | - Vijaya Rajendran
- National Facility for Drug Development for Academia, Pharmaceutical and Allied Industries (NFDD), Centre for Excellence in Nanobio Translational REsearch (CENTRE), Department of Pharmaceutical Technology, University College of Engineering, Anna University, BIT Campus, Tiruchirappalli 620 024, Tamil Nadu, India
| | - Subramanian Natesan
- National Facility for Drug Development for Academia, Pharmaceutical and Allied Industries (NFDD), Centre for Excellence in Nanobio Translational REsearch (CENTRE), Department of Pharmaceutical Technology, University College of Engineering, Anna University, BIT Campus, Tiruchirappalli 620 024, Tamil Nadu, India
| | - Ruckmani Kandasamy
- National Facility for Drug Development for Academia, Pharmaceutical and Allied Industries (NFDD), Centre for Excellence in Nanobio Translational REsearch (CENTRE), Department of Pharmaceutical Technology, University College of Engineering, Anna University, BIT Campus, Tiruchirappalli 620 024, Tamil Nadu, India
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Abstract
"New Breeding Techniques" (NBTs) are a group of recent innovations in plant breeding using molecular biology tools. It is becoming evident that NBTs can introduce advantageous traits for agriculture that could be commercially available very soon However, there is still a need of clarifying its regulatory status, particularly in regards to worldwide regulations on Genetically Modified Organisms (GMOs). This article reviews the meaning of the NBTs concept, performs an overall regulatory analysis of these technologies and reports the first regulation in the world that is applied to these technologies, which was issued by the Argentine Government.
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Key Words
- CPB, Cartagena Protocol on Biosafety;
- DNA, Deoxyribonucleic acid;
- GMO regulation
- GMO, genetically modified organisms;
- LMO, Living modified organism;
- MNs, Mega Nucleases;
- NBTs
- NBTs, New Breeding Techniques;
- ODM, Oligonucleotide-Directed Mutation;
- RNA, Ribonucleic acid;
- RNAi, RNA interference
- RdDM, RNA-Dependent DNA Methylation;
- SDN, Site –Directed Nucleases;
- TALENs, TAL Effector Nucleases;
- ZFNs, Zinc Finger Nucleases;
- agriculture
- biosafety
- gene editing
- gene targeting
- genetic modification
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Affiliation(s)
- Agustina I Whelan
- a Biotechnology Directorate; Secretariat of Agriculture; Livestock and Fisheries ; Buenos Aires , Argentina.,b National University of Quilmes ; Bernal , Argentina
| | - Martin A Lema
- a Biotechnology Directorate; Secretariat of Agriculture; Livestock and Fisheries ; Buenos Aires , Argentina.,b National University of Quilmes ; Bernal , Argentina
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19
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Abstract
Amphetamine and methamphetamine addiction is described by specific behavioral alterations, suggesting long-lasting changes in gene and protein expression within specific brain subregions involved in the reward circuitry. Given the persistence of the addiction phenotype at both behavioral and transcriptional levels, several studies have been conducted to elucidate the epigenetic landscape associated with persistent effects of drug use on the mammalian brain. This review discusses recent advances in our comprehension of epigenetic mechanisms underlying amphetamine- or methamphetamine-induced behavioral, transcriptional, and synaptic plasticity. Accumulating evidence demonstrated that drug exposure induces major epigenetic modifications-histone acetylation and methylation, DNA methylation-in a very complex manner. In rare instances, however, the regulation of a specific target gene can be correlated to both epigenetic alterations and behavioral abnormalities. Work is now needed to clarify and validate an epigenetic model of addiction to amphetamines. Investigations that include genome-wide approaches will accelerate the speed of discovery in the field of addiction.
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Key Words
- AMPA, α-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid
- AMPH, amphetamine
- AP1, activator protein 1
- ATF2, activating transcription factor 2
- BASP1, brain abundant signal protein 1
- BDNF, brain derived neurotrophic factor
- CCR2, C‒C chemokine receptor 2
- CPP, conditioned place preference
- CREB, cAMP response element binding protein
- ChIP, chromatin immunoprecipitation
- CoREST, restrictive element 1 silencing transcription factor corepressor
- Cp60, compound 60
- DNA methylation
- DNMT, DNA methyltransferase
- FOS, Finkel–Biskis–Jinkins murine osteosarcoma viral oncogene
- GABA, γ-aminobutyric acid
- GLUA1, glutamate receptor subunit A1
- GLUA2, glutamate receptor subunit A2
- GLUN1, glutamate receptor subunit N1
- H2Bac, pan-acetylation of histone 2B
- H3, histone 3
- H3K14Ac, acetylation of histone 3 at lysine 14
- H3K18, lysine 18 of histone 3
- H3K4, lysine 4 of histone 3
- H3K4me3, trimethylation of histone 3 at lysine 4
- H3K9, lysine 9 of histone 3
- H3K9Ac, acetylation of histone 3 at lysine 9
- H3K9me3, trimethylation of histone 3 at lysine 9
- H4, histone 4
- H4Ac, pan-acetylation of histone 4
- H4K12Ac, acetylation of histone 4 at lysine 12
- H4K16, lysine 16 of histone 4
- H4K5, lysine 5 of histone 4
- H4K8, lysine 8 of histone 4
- HAT, histone acetyltransferase
- HDAC, histone deacetylase
- HDM, histone demethylase
- HMT, histone methyltransferase
- IP, intra-peritoneal
- JUN, jun proto-oncogene
- KDM, lysine demethylase
- KLF10, Kruppel-like factor 10
- KMT, lysine methyltransferase
- METH, methamphetamine
- MeCP2, methyl-CpG binding protein 2
- NAc, nucleus accumbens
- NMDA, N-methyl-D-aspartate
- NaB, sodium butyrate
- OfC, orbitofrontal cortex
- PfC, prefrontal cortex
- REST, restrictive element 1 silencing transcription factor
- RNAi, RNA interference
- Ser241, serine 241
- Sin3A, SIN3 transcription regulator family member A
- TSS, transcription start site
- VPA, valproic acid
- WT1, Wilms tumor protein 1.
- amphetamine
- histone acetylation
- histone methylation
- methamphetamine
- siRNA, silencing RNA
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Affiliation(s)
- Arthur Godino
- a Département de Biologie; École Normale Supérieure de Lyon ; Lyon , France
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20
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Guo S, Liang Y, Murphy SF, Huang A, Shen H, Kelly DF, Sobrado P, Sheng Z. A rapid and high content assay that measures cyto-ID-stained autophagic compartments and estimates autophagy flux with potential clinical applications. Autophagy 2016; 11:560-72. [PMID: 25714620 PMCID: PMC4502761 DOI: 10.1080/15548627.2015.1017181] [Citation(s) in RCA: 103] [Impact Index Per Article: 12.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022] Open
Abstract
The lack of a rapid and quantitative autophagy assay has substantially hindered the development and implementation of autophagy-targeting therapies for a variety of human diseases. To address this critical issue, we developed a novel autophagy assay using the newly developed Cyto-ID fluorescence dye. We first verified that the Cyto-ID dye specifically labels autophagic compartments with minimal staining of lysosomes and endosomes. We then developed a new Cyto-ID fluorescence spectrophotometric assay that makes it possible to estimate autophagy flux based on measurements of the Cyto-ID-stained autophagic compartments. By comparing to traditional autophagy approaches, we found that this assay yielded a more sensitive, yet less variable, quantification of the stained autophagic compartments and the estimate of autophagy flux. Furthermore, we tested the potential application of this autophagy assay in high throughput research by integrating it into an RNA interference (RNAi) screen and a small molecule screen. The RNAi screen revealed WNK2 and MAP3K6 as autophagy-modulating genes, both of which inhibited the MTOR pathway. Similarly, the small molecule screen identified sanguinarine and actinomycin D as potent autophagy inducers in leukemic cells. Moreover, we successfully detected autophagy responses to kinase inhibitors and chloroquine in normal or leukemic mice using this assay. Collectively, this new Cyto-ID fluorescence spectrophotometric assay provides a rapid, reliable quantification of autophagic compartments and estimation of autophagy flux with potential applications in developing autophagy-related therapies and as a test to monitor autophagy responses in patients being treated with autophagy-modulating drugs.
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Key Words
- 3-MA, 3-methyladenine
- Cyto-ID
- FBS, fetal bovine serum
- GFP, green fluorescent protein
- LAMP1, lysosomal-associated membrane protein 1
- MAP1LC3B/LC3B, microtubule-associated protein 1 light chain 3 beta
- MAP3K6, mitogen-activated protein kinase kinase kinase 6
- MDC, monodansylcadaverine
- MTOR, mechanistic target of rapamycin
- NS, nonsilencing
- RAB5A, member RAS oncogene family
- RNA interference screen
- RNAi, RNA interference
- SQSTM1, sequestosome 1
- WNK2, WNK lysine deficient protein kinase 2
- autophagy
- autophagy flux
- autophagy response
- mRFP, monomeric red fluorescent protein
- shRNA, short-hairpin RNA
- small molecule screen
- spectrophotometric assay
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Affiliation(s)
- Sujuan Guo
- a Virginia Tech Carilion Research Institute ; Roanoke , VA USA
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21
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Hu B, Zhang Y, Jia L, Wu H, Fan C, Sun Y, Ye C, Liao M, Zhou J. Binding of the pathogen receptor HSP90AA1 to avibirnavirus VP2 induces autophagy by inactivating the AKT-MTOR pathway. Autophagy 2016; 11:503-15. [PMID: 25714412 PMCID: PMC4502722 DOI: 10.1080/15548627.2015.1017184] [Citation(s) in RCA: 89] [Impact Index Per Article: 11.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022] Open
Abstract
Autophagy is an essential component of host innate and adaptive immunity. Viruses have developed diverse strategies for evading or utilizing autophagy for survival. The response of the autophagy pathways to virus invasion is poorly documented. Here, we report on the induction of autophagy initiated by the pathogen receptor HSP90AA1 (heat shock protein 90 kDa α [cytosolic], class A member 1) via the AKT-MTOR (mechanistic target of rapamycin)-dependent pathway. Transmission electron microscopy and confocal microscopy revealed that intracellular autolysosomes packaged avibirnavirus particles. Autophagy detection showed that early avibirnavirus infection not only increased the amount of light chain 3 (LC3)-II, but also upregulated AKT-MTOR dephosphorylation. HSP90AA1-AKT-MTOR knockdown by RNA interference resulted in inhibition of autophagy during avibirnavirus infection. Virus titer assays further verified that autophagy inhibition, but not induction, enhanced avibirnavirus replication. Subsequently, we found that HSP90AA1 binding to the viral protein VP2 resulted in induction of autophagy and AKT-MTOR pathway inactivation. Collectively, our findings suggest that the cell surface protein HSP90AA1, an avibirnavirus-binding receptor, induces autophagy through the HSP90AA1-AKT-MTOR pathway in early infection. We reveal that upon viral recognition, a direct connection between HSP90AA1 and the AKT-MTOR pathway trigger autophagy, a critical step for controlling infection.
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Key Words
- AKT-MTOR pathway
- ANOVA, analysis of variance
- ATG5, autophagy-related 5
- BCA, bicinchoninic acid
- BECN1, Beclin 1, autophagy-related
- CoIP, coimmunoprecipitation
- DMEM, Dulbecco's modified Eagle's medium
- EBSS, Earle's balanced salt solution
- EIF2AK2, eukaryotic translation initiation factor 2-alpha kinase 2
- EIF2S1, eukaryotic translation initiation factor 2, subunit 1 alpha
- ER, endoplasmic reticulum
- GAPDH, glyceraldehyde-3-phosphate dehydrogenase
- GOPC, golgi-associated PDZ and coiled-coil motif containing
- GST, glutathione S-transferase
- Gg, Gallus gallus (chicken)
- HE-IBDV, heat-inactivated IBDV
- HSP90AA1
- HSP90AA1, heat shock protein 90 kDa alpha (cytosolic), class A member 1
- HSV-1, herpes simplex virus 1
- Hs, Homo sapiens (human)
- IBDV, infectious bursal disease virus
- IgG, immunoglobulin G
- LPS, lipopolysaccharide
- MAP1LC3/LC3, microtubule-associated protein 1 light chain 3
- MOI, multiplicity of infection
- MTOR, mechanistic target of rapamycin (serine/threonine kinase)
- Ni-NTA, nickel-nitrilotriacetic acid
- PAMP, pathogen-associated molecular patterns
- PBS, phosphate-buffered saline
- PI3K, phosphoinositide 3-kinase
- PRR, pattern recognition receptors
- RNAi, RNA interference
- SDS, sodium dodecyl sulfate
- SQSTM1, sequestosome 1
- SVP, subviral particle
- TCID50, 50% tissue culture infectious doses
- TLR, toll-like receptors
- TSC, tuberous sclerosis complex
- VP, viral protein
- autophagy
- avibirnavirus
- cDNA, complementary DNA
- dsRNA, double-stranded RNA
- eGFP, enhanced green fluorescent protein
- hpi, hours post-infection
- mAb, monoclonal antibody
- shRNA, short hairpin RNA
- siRNA, small interfering RNA
- viral protein VP2
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Affiliation(s)
- Boli Hu
- a Key Laboratory of Animal Virology of Ministry of Agriculture ; Zhejiang University ; Hangzhou , China
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22
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Daniels SM, Sinck L, Ward NJ, Melendez-Peña CE, Scarborough RJ, Azar I, Rance E, Daher A, Pang KM, Rossi JJ, Gatignol A. HIV-1 RRE RNA acts as an RNA silencing suppressor by competing with TRBP-bound siRNAs. RNA Biol 2015; 12:123-35. [PMID: 25668122 DOI: 10.1080/15476286.2015.1014759] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022] Open
Abstract
Several proteins and RNAs expressed by mammalian viruses have been reported to interfere with RNA interference (RNAi) activity. We investigated the ability of the HIV-1-encoded RNA elements Trans-Activation Response (TAR) and Rev-Response Element (RRE) to alter RNAi. MicroRNA let7-based assays showed that RRE is a potent suppressor of RNAi activity, while TAR displayed moderate RNAi suppression. We demonstrate that RRE binds to TAR-RNA Binding Protein (TRBP), an essential component of the RNA Induced Silencing Complex (RISC). The binding of TAR and RRE to TRBP displaces small interfering (si)RNAs from binding to TRBP. Several stem-deleted RRE mutants lost their ability to suppress RNAi activity, which correlated with a reduced ability to compete with siRNA-TRBP binding. A lentiviral vector expressing TAR and RRE restricted RNAi, but RNAi was restored when Rev or GagPol were coexpressed. Adenoviruses are restricted by RNAi and encode their own suppressors of RNAi, the Virus-Associated (VA) RNA elements. RRE enhanced the replication of wild-type and VA-deficient adenovirus. Our work describes RRE as a novel suppressor of RNAi that acts by competing with siRNAs rather than by disrupting the RISC. This function is masked in lentiviral vectors co-expressed with viral proteins and thus will not affect their use in gene therapy. The potent RNAi suppressive effects of RRE identified in this study could be used to enhance the expression of RNAi restricted viruses used in oncolysis such as adenoviruses.
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Key Words
- Ago2, Argonaute-2
- EGFP, enhanced green fluorescent protein
- EMSA, electrophoresis mobility shift assay
- FL, firefly luciferase
- GAPDH, glyceraldehyde-3-phosphate dehydrogenase
- HIV, human immunodeficiency virus
- HIV-1
- IP, immunoprecipitation
- NC, nucleocapsid
- PAGE, polyacrylamide gel electrophoresis
- RISC, RNA-Induced Silencing Complex
- RL, Renilla luciferase
- RNA interference
- RNA silencing suppressor
- RNAi, RNA interference
- RRE, Rev Response Element
- RSS, RNA silencing suppressor
- RT, reverse transcription
- Rev-Response Element RNA
- TAR RNA Binding Protein (TRBP)
- TAR, trans-activation responsive element
- TRBP, TAR RNA Binding Protein
- Trans-Activation Response Element
- UTR, untranslated region
- VA, virus-associated
- WT, wild-type
- adenovirus
- ds, double-stranded
- lentiviral vectors
- miRNA, micro RNA
- pre-miRNA, precursor miRNA
- siRNA, small interfering RNA
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Affiliation(s)
- Sylvanne M Daniels
- a Virus-Cell Interactions Laboratory ; Lady Davis Institute for Medical Research ; Montréal , Québec , Canada
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23
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Abstract
The therapeutic potential of dendritic cell (DC) cancer vaccines has gained momentum in recent years. However, clinical data indicate that antitumor immune responses generally fail to translate into measurable tumor regression. This has been ascribed to a variety of tolerance mechanisms, one of which is the expression of immunosuppressive factors by DCs and T cells. With respect to cancer immunotherapies, these factors antagonise the ability to induce robust and sustained immunity required for tumor cell eradication. Gene silencing of immunosuppressive factors in either DCs or adoptive transferred T cells enhanced anti-tumor immune responses and significantly inhibited tumor growth. Therefore, engineered next generation of DC vaccines or adoptive T-cell therapy should include immunomodulatory siRNAs to release the "brakes" imposed by the immune system. Moreover, the combination of gene silencing, antigen targeting to DCs and cytoplasmic cargo delivery will improve clinical benefits.
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Key Words
- AML, acute myeloid leukemia
- CMV, human cytomegalovirus
- CTLA4, T-lymphocyte-associated antigen 4
- DC, Dendritic cells
- Gal, galectin hTERT, human telomerase reverse transcriptase
- IDO, indoleamine 2,3-dioxygenase
- IL, interleukin
- INF, interferon
- NK, natural killer
- PD1, programmed cell death
- RNA interference
- RNAi, RNA interference
- SOCS1, suppressor of cytokine signaling
- STAT, Signal transducer and activator of transcription
- T-cell therapy
- TCR, T cell receptor
- TLR, toll like receptor
- Treg, Regulatory T
- cancer vaccine
- gene silencing
- immunotherapy
- siRNA, small interfering RNA
- targeted therapies
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Affiliation(s)
- Mouldy Sioud
- a Department of Immunology; Institute for Cancer Research ; Oslo University Hospital ; Montebello , Norway
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24
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Abstract
Small RNA programmed Argonautes are sophisticated cellular effector platforms known to be involved in a diverse array of functions ranging from mRNA cleavage, translational inhibition, DNA elimination, epigenetic silencing, alternative splicing and even gene activation. First observed in human cells, small RNA-induced gene activation, also known as RNAa, involves the targeted recruitment of Argonaute proteins to specific promoter sequences followed by induction of stable epigenetic changes which promote transcription. The existence of RNAa remains contentious due to its elusive mechanism. A string of recent studies in C. elegans provides unequivocal evidence for RNAa's fundamental role in sculpting the epigenetic landscape and maintaining active transcription of endogenous genes and supports the presence of a functionally sophisticated network of small RNA-Argonaute pathways consisting of opposite yet complementary "yin and yang" regulatory elements. In this review, we summarize key findings from recent studies of endogenous RNAa in C. elegans, with an emphasis on the Argonaute protein CSR-1.
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Key Words
- Argonaute
- LCE, lin-4 complementary element
- RDRP, RNA-dependent RNA polymerase
- RISC, RNA induced silencing complex
- RNAa
- RNAa, RNA activation
- RNAe
- RNAe, RNA-induced epigenetic silencing
- RNAi, RNA interference
- TSS, transcription start site
- WAGO, worm-specific AGO
- epigenetic memory
- gene expression
- miRNAa, miRNA induced RNAa
- piRNA, Piwi-interacting RNA
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Affiliation(s)
- Dan Guo
- a Laboratory of Molecular Medicine; Peking Union Medical College Hospital; Chinese Academy of Medical Sciences and Peking Union Medical College ; Beijing , China
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25
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Yu R, Albarenque SM, Cool RH, Quax WJ, Mohr A, Zwacka RM. DR4 specific TRAIL variants are more efficacious than wild-type TRAIL in pancreatic cancer. Cancer Biol Ther 2015; 15:1658-66. [PMID: 25482930 DOI: 10.4161/15384047.2014.972183] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023] Open
Abstract
Current treatment modalities for pancreatic carcinoma afford only modest survival benefits. TRAIL, as a potent and specific inducer of apoptosis in cancer cells, would be a promising new treatment option. However, since not all pancreatic cancer cells respond to TRAIL, further improvements and optimizations are still needed. One strategy to improve the effectiveness of TRAIL-based therapies is to specifically target one of the 2 cell death inducing TRAIL-receptors, TRAIL-R1 or TRAIL-R2 to overcome resistance. To this end, we designed constructs expressing soluble TRAIL (sTRAIL) variants that were rendered specific for either TRAIL-R1 or TRAIL-R2 by amino acid changes in the TRAIL ectodomain. When we expressed these constructs, including wild-type sTRAIL (sTRAIL(wt)), TRAIL-R1 (sTRAIL(DR4)) and TRAIL-R2 (sTRAIL(DR5)) specific variants, in 293 producer cells we found all to be readily expressed and secreted into the supernatant. These supernatants were subsequently transferred onto target cancer cells and apoptosis measured. We found that the TRAIL-R1 specific variant had higher apoptosis-inducing activity in human pancreatic carcinoma Colo357 cells as well as PancTu1 cells that were additionally sensitized by targeting of XIAP. Finally, we tested TRAIL-R1 specific recombinant TRAIL protein (rTRAIL(DR4)) on Colo357 xenografts in nude mice and found them to be more efficacious than rTRAIL(wt). Our results demonstrate the benefits of synthetic biological approaches and show that TRAIL-R1 specific variants can potentially enhance the therapeutic efficacy of TRAIL-based therapies in pancreatic cancer, suggesting that they can possibly become part of individualized and tumor specific combination treatments in the future.
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Key Words
- AML, Acute myeloid leukemia
- ANOVA, Analysis of variance between groups
- Apoptosis
- BSA, Bovine Serum Albumin
- Bcl-xL, B-cell lymphoma-extra large
- CMV, Cytomegalie virus
- CuZnSOD, Copper-Zinc Superoxide Dismutase
- DMEM, Dulbecco's modified Eagle's medium
- DNA, Deoxyribonucleic acid
- DR4 specific TRAIL variant
- EGFP, Enhanced green fluorescent protein
- ELISA, Enzyme-linked immunosorbent assay
- FACS, Fluorescence-activated cell sorting
- FADD, Fas-associated protein with death domain
- FBS, Fetal bovine serum
- FIB, Fibrillin
- FLIP, FLICE-like inhibitory protein
- Furin CS, Furin cleavage site
- IFN-g, Interferon-gamma
- ILZ, Isoleucine zipper
- MSC, Mesenchymal stem cell
- NF-κB, Nuclear factor kappa-light-chain-enhancer of activated B cells
- OPG, Osteoprogerin
- PBS, Phosphate buffered saline
- PCR, Polymerase chain reaction
- RANKL, Receptor activator of nuclear factor kappa-B ligand
- RNAi, RNA interference
- RPMI 1640 medium, Roswell Park Memorial Institute 1640 medium
- SDS, Sodium dodecyl sulphate
- SDS-PAGE, SDS-Polyacrylamide gel electrophoresis
- SEM, Standard error of the mean
- TNF, Tumor necrosis factor
- TRAIL
- TRAIL receptor
- TRAIL, TNF-related apoptosis-inducing ligand
- TRAIL-R1/DR4, TRAIL-receptor 1/Death – receptor 4
- TRAIL-R2/DR5, TRAIL-receptor 2/ Death – receptor 5
- TRAIL-R3/DcR1, TRAIL-receptor 3/Decoy-receptor 1
- TRAIL-R4/DcR2, TRAIL-receptor 4/Decoy-receptor 2
- XIAP
- XIAP, X-linked Inhibitor of apoptosis protein
- pancreatic cancer
- rTRAIL, recombinant TNF-related apoptosis-inducing ligand
- sTRAIL, soluble TNF-related apoptosis-inducing ligand
- sh-sequence, short-hairpin sequence
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Affiliation(s)
- Rui Yu
- a National University of Ireland; Galway; National Centre for Biomedical Engineering Science and Apoptosis Research Centre; Molecular Therapeutics Group ; Galway , Ireland
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26
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Abstract
Lysosomes play important roles in autophagy, not only in autophagosome degradation, but also in autophagy initiation. In Trypanosoma brucei, an early divergent protozoan parasite, we discovered a previously unappreciated function of the acidocalcisome, a lysosome-related organelle characterized by acidic pH and large content of Ca(2+) and polyphosphates, in autophagy regulation. Starvation- and chemical-induced autophagy is accompanied with acidocalcisome acidification, and blocking the acidification completely inhibits autophagosome formation. Blocking acidocalcisome biogenesis by depleting the adaptor protein-3 complex, which does not affect lysosome biogenesis or function, also inhibits autophagy. Overall, our results support the role of the acidocalcisome, a conserved organelle from bacteria to human, as a relevant regulator in autophagy.
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Key Words
- AO, acridine orange
- AP-3, adaptor protein-3
- ATG, autophagy-related
- BODIPY-CQ, BODIPY-chloroquine
- BafA1, bafilomycin A1
- CQ, chloroquine
- DAPI, 4′, 6-diamidino-2-phenylindole
- MTORC1, mechanistic target of rapamycin complex 1
- PPi, pyrophosphate
- PtdIns3K, phosphatidylinositol 3-kinase
- PtdIns3P, phosphatidylinositol 3-phosphate
- RNAi, RNA interference
- T. brucei, Trypanosoma brucei
- TOR, target of rapamycin
- TbVMA1, the subunit A of V-H+-ATPase in Trypanosoma brucei
- TbVP1, vacuolar pyrophosphatase in Trypanosoma brucei
- TbVPH1, the α, subunit of V-H+-ATPase in Trypanosoma brucei
- Tbβ3, the β3 subunit of adaptor protein-3 complex in Trypanosoma brucei
- Tbδ, the δ, subunit of adaptor protein-3 complex in Trypanosoma brucei
- Trypanosoma brucei
- V-H+-ATPase, vacuolar-type H+-ATPase
- V-PPase, vacuolar pyrophophatase
- acidity
- acidocalcisome
- autophagy
- coumarin-CQ, coumarin-chloroquine
- lysosome-related organelle
- polyP, polyphosphate
- protozoan parasite
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Affiliation(s)
- Feng-Jun Li
- a Department of Biological Sciences ; National University of Singapore ; Singapore
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27
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Hrle A, Maier LK, Sharma K, Ebert J, Basquin C, Urlaub H, Marchfelder A, Conti E. Structural analyses of the CRISPR protein Csc2 reveal the RNA-binding interface of the type I-D Cas7 family. RNA Biol 2015; 11:1072-82. [PMID: 25483036 PMCID: PMC4615900 DOI: 10.4161/rna.29893] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022] Open
Abstract
Upon pathogen invasion, bacteria and archaea activate an RNA-interference-like mechanism termed CRISPR (clustered regularly interspaced short palindromic repeats). A large family of Cas (CRISPR-associated) proteins mediates the different stages of this sophisticated immune response. Bioinformatic studies have classified the Cas proteins into families, according to their sequences and respective functions. These range from the insertion of the foreign genetic elements into the host genome to the activation of the interference machinery as well as target degradation upon attack. Cas7 family proteins are central to the type I and type III interference machineries as they constitute the backbone of the large interference complexes. Here we report the crystal structure of Thermofilum pendens Csc2, a Cas7 family protein of type I-D. We found that Csc2 forms a core RRM-like domain, flanked by three peripheral insertion domains: a lid domain, a Zinc-binding domain and a helical domain. Comparison with other Cas7 family proteins reveals a set of similar structural features both in the core and in the peripheral domains, despite the absence of significant sequence similarity. T. pendens Csc2 binds single-stranded RNA in vitro in a sequence-independent manner. Using a crosslinking - mass-spectrometry approach, we mapped the RNA-binding surface to a positively charged surface patch on T. pendens Csc2. Thus our analysis of the key structural and functional features of T. pendens Csc2 highlights recurring themes and evolutionary relationships in type I and type III Cas proteins.
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Key Words
- CRISPR
- CRISPR, Clustered regulatory short interspaced palindromic repeats
- Cas, CRISPR-associated
- Cas7
- H1 and H2 and H1-2, β-hairpins of insertion domain 1 (or lid domain)
- Mk, Methanopyrus kandleri
- RAMP, Repeat associated mysterious protein
- RNA binding
- RNAi, RNA interference
- RRM domain
- RRM, RNA recognition motif
- Rmsd, Root mean square deviation
- SAD, Single-wavelength anomalous dispersion
- Ss, Sulfolobus solfataricus
- Tp, Thermofilum pendens
- crRNA, CRISPR RNA
- dCASCADE, interference complex subtype I-D
- eCASCADE, interference complex subtype I-E
- prokaryotic immune system
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Affiliation(s)
- Ajla Hrle
- a Structural Cell Biology Department; Max Planck Institute of Biochemistry ; Martinsried , Germany
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28
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Abstract
Fragile histidine triad (FHIT) gene deletions are among the earliest and most frequent events in carcinogenesis, particularly in carcinogen-exposed tissues. Though FHIT has been established as an authentic tumor suppressor, the mechanism underlying tumor suppression remains opaque. Most experiments designed to clarify FHIT function have analyzed the consequence of re-expressing FHIT in FHIT-negative cells. However, carcinogenesis occurs in cells that transition from FHIT-positive to FHIT-negative. To better understand cancer development, we induced FHIT loss in human bronchial epithelial cells with RNA interference. Because FHIT is a demonstrated target of carcinogens in cigarette smoke, we combined FHIT silencing with cigarette smoke extract (CSE) exposure and measured gene expression consequences by RNA microarray. The data indicate that FHIT loss enhances the expression of a set of oxidative stress response genes after exposure to CSE, including the cytoprotective enzyme heme oxygenase 1 (HMOX1) at the RNA and protein levels. Data are consistent with a mechanism in which Fhit protein is required for accumulation of the transcriptional repressor of HMOX1, Bach1 protein. We posit that by allowing superinduction of oxidative stress response genes, loss of FHIT creates a survival advantage that promotes carcinogenesis.
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Key Words
- ARE, antioxidant response element
- ApppA, diadenosine triphosphate
- BACH1
- BACH1, BTB and CNC homology 1 gene
- BMC, bone marrow cell
- CPT, camptothecin
- CSE, cigarette smoke extract
- Cigarette smoke
- FHIT
- FHIT, fragile histidine triad gene
- HMOX1
- HMOX1, heme oxygenase 1 gene
- MMC, mitomycin C
- NRF2
- Nrf2, nuclear factor erythroid derived 2-like 2 protein
- Oxidative Stress
- RNAi, RNA interference
- ROS, reactive oxygen species
- qRT-PCR, quantitative real time PCR
- siRNA, short interfering RNA
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Affiliation(s)
- Jennifer A Boylston
- a Department of Biochemistry and Program in Molecular and Cellular Biology; Carver College of Medicine ; University of Iowa ; Iowa City , IA USA
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29
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Peng X, Luo Z, Kang Q, Deng D, Wang Q, Peng H, Wang S, Wei Z. FOXQ1 mediates the crosstalk between TGF-β and Wnt signaling pathways in the progression of colorectal cancer. Cancer Biol Ther 2015; 16:1099-109. [PMID: 25955104 DOI: 10.1080/15384047.2015.1047568] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022] Open
Abstract
A wide variety of signaling transduction pathways contribute to tumorigenesis. Forkhead box Q1 (FOXQ1) is a member of the forkhead transcription factor family and its upregulation is closely correlated with tumor progression and prognosis of multiple cancer types, including colorectal cancer. However, the molecular mechanisms by which FOXQ1 promotes tumorigenesis, especially cancer cell invasion and metastasis in colorectal cancer, have not been fully elucidated. In the present study, we demonstrate that FOXQ1 is overexpressed in colorectal tumor tissues and its expression level is closely correlated with the stage and lymph node metastasis of colorectal cancer. In in vitro cultured SW480 colorectal cancer cells, knockdown of FOXQ1 expression by small interfering RNA greatly diminished the aggressive tumor behaviors of SW480 cells, including angiogenesis, invasion, epithelial-mesenchymal transition, and resistance to chemotherapy drug-induced apoptosis. Further mechanistic investigation showed that FOXQ1 silencing prevents the nuclear translocation of β-catenin, thus reducing the activity of Wnt signaling. Moreover, TGF-β1 induced the expression of FOXQ1 as well as the migration and invasion of SW480 cells, which was partially prevented following knockdown of FOXQ1. Our results demonstrate that FOXQ1 plays a critical role during the tumorigenesis of colorectal cancer and is a mediator of the crosstalk between Wnt and TGF-β signaling pathways. Our findings provide further insight into the cancer biology of colorectal cancer and suggest that FOXQ1 is a potential therapeutic target for the development of therapies for colorectal cancer.
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Key Words
- 5-FU, 5-fluorouracil
- 7-AAD, 7-aminoactinomycin D
- DAPI, 4′,6-diamidino-2-phenylindole
- DEPC, Diethy pyrocarbonate
- DMSO, Dimethyl sulfoxide
- EMT, Epithelial-Mesenchymal transition
- FOXQ1
- FOXQ1, Forkhead Box Q1
- L-OHP, Oxaliplatin
- MMP2, Matrix metalloproteinase-2
- MiRNA, MicroRNA
- NC-shRNA, Negative Control-shRNA
- PBS, Phosphate buffer solution
- PBS, phosphate buffered saline
- PKA, proteinkinase A
- PVDF, Polyvinylidene fluoride
- RNAi, RNA interference
- SDS, Sodium dodecyl sulfonate
- TBS, Tris-buffered saline
- TEMED, Tetra methyl ethylene diamine
- TGF-β, Transformin growth β
- TGF-β1
- Tris, Trihydroxymethyl minomethane
- VEGF-A, Vascular endothelial growth factor-A
- Wnt signaling
- aggressive tumor behavior
- cDNA, Complementary DNA
- colorectal cancer
- ddH2O, double distilled H2O
- epithelial-mesenchymal transition
- qRT-PCR, Quantitative real-time PCR
- shRNA, Short hairpin RNA
- μg, Microgramme
- μl, Microliter
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Affiliation(s)
- Xudong Peng
- a Gastrointestinal Surgical Unit; The First Affiliated Hospital of Chongqing Medical University ; Chongqing , China
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30
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Kang L, Gao Z, Huang W, Jin M, Wang Q. Nanocarrier-mediated co-delivery of chemotherapeutic drugs and gene agents for cancer treatment. Acta Pharm Sin B 2015; 5:169-75. [PMID: 26579443 PMCID: PMC4629232 DOI: 10.1016/j.apsb.2015.03.001] [Citation(s) in RCA: 134] [Impact Index Per Article: 14.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2014] [Revised: 12/17/2014] [Accepted: 01/16/2015] [Indexed: 02/04/2023] Open
Abstract
The efficacy of chemotherapeutic drug in cancer treatment is often hampered by drug resistance of tumor cells, which is usually caused by abnormal gene expression. RNA interference mediated by siRNA and miRNA can selectively knock down the carcinogenic genes by targeting specific mRNAs. Therefore, combining chemotherapeutic drugs with gene agents could be a promising strategy for cancer therapy. Due to poor stability and solubility associated with gene agents and drugs, suitable protective carriers are needed and have been widely researched for the co-delivery. In this review, we summarize the most commonly used nanocarriers for co-delivery of chemotherapeutic drugs and gene agents, as well as the advances in co-delivery systems.
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Key Words
- ANG-CLP, angiopep-2 modified cationic liposome
- CMC, critical micelle concentration
- CPLA, cationic polylactide
- Chemotherapeutic drug
- Co-delivery
- DOTAP, 1,2-dioleoyl-3-trimethylammonium-propane
- Dendrimer
- FA, folic acid
- FCAP, ferrocenium capped amphiphilic pillar[5]arene
- GSH, glutathione
- Gene
- Liposome
- Micelle
- Nanocarrier
- OEI, oligoethylenimine
- PAMAM, poly(amido amine)
- PAsp(AED), poly(N-(2,2ʹ-dithiobis(ethylamine))aspartamide)
- PCL, poly(ε-caprolactone)
- PDMAEMA, polydimethylaminoethyl methacrylate
- PDPA, poly(2-(diisopropyl amino)ethyl methacrylate)
- PEG, polyethyleneglycol
- PEI, poly(ethyleneimine)
- PEI-Fc, ferrocene modified poly(ethyleneimine)
- PEI-PCHLG, poly(ethylene imine)-poly(γ-cholesterol-l-glutamate)
- PEI-PCL, poly(ethyleneimine) and poly(ε-caprolactone)
- PLA, polylactic acid (or polylactide)
- PLGA, poly(lactic-co-glycolic acid)
- PPEEA, poly(2-aminoethyl ethylene phosphate)
- PnBA, poly(n-butyl acrylate)
- RNAi, RNA interference
- SNPs, supramolecular nanoparticles
- SSTRs, somatostatin receptors poly(N-(2,2′-dithiobis(ethylamine))aspartamide)
- Supramolecular system
- miRNA, micro-RNA
- siRNA, small interfering RNA
- siVEGF, VEGF-targeted siRNA
- γ-CD, γ-cyclodextrin
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31
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Abstract
The proper formation of dendritic arbors is a critical step in neural circuit formation, and as such defects in arborization are associated with a variety of neurodevelopmental disorders. Among the best gene candidates are those encoding cell adhesion molecules, including members of the diverse cadherin superfamily characterized by distinctive, repeated adhesive domains in their extracellular regions. Protocadherins (Pcdhs) make up the largest group within this superfamily, encompassing over 80 genes, including the ∼60 genes of the α-, β-, and γ-Pcdh gene clusters and the non-clustered δ-Pcdh genes. An additional group includes the atypical cadherin genes encoding the giant Fat and Dachsous proteins and the 7-transmembrane cadherins. In this review we highlight the many roles that Pcdhs and atypical cadherins have been demonstrated to play in dendritogenesis, dendrite arborization, and dendritic spine regulation. Together, the published studies we discuss implicate these members of the cadherin superfamily as key regulators of dendrite development and function, and as potential therapeutic targets for future interventions in neurodevelopmental disorders.
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Key Words
- CNR, Cadherin related neuronal receptor
- CTCF, CCCTC-binding factor
- CaMKII, Ca2+/calmodulin-dependent protein kinase II.
- Celsr, Cadherin EGF LAG 7-pass G-type receptor 1
- DSCAM, Down syndrome cell adhesion molecule
- Dnmt3b, DNA (cytosine-5-)-methyltransferase 3 β
- Ds, Dachsous
- EC, extracellular cadherin
- EGF, Epidermal growth factor
- FAK, Focal adhesion kinase
- FMRP, Fragile X mental retardation protein
- Fj, Four jointed
- Fjx1, Four jointed box 1
- GPCR, G-protein-coupled receptor
- Gogo, Golden Goal
- LIM domain, Lin11, Isl-1 & Mec-3 domain
- MARCKS, Myristoylated alanine-rich C-kinase substrate
- MEF2, Myocyte enhancer factor 2
- MEK3, Mitogen-activated protein kinase kinase 3
- PCP, planar cell polarity
- PKC, Protein kinase C
- PSD, Post-synaptic density
- PYK2, Protein tyrosine kinase 2
- Pcdh
- Pcdh, Protocadherin
- RGC, Retinal ganglion cell
- RNAi, RNA interference
- Rac1, Ras-related C3 botulinum toxin substrate 1
- S2 cells, Schneider 2 cells
- SAC, starburst amacrine cell
- TAF1, Template-activating factor 1
- TAO2β, Thousand and one amino acid protein kinase 2 β
- TM, transmembrane
- arborization
- atypical cadherin
- branching
- cadherin superfamily
- cell adhesion
- da neuron, dendritic arborization neuron
- dendritic
- dendritic spine
- dendritogenesis
- fmi, Flamingo
- md neuron, multiple dendrite neuron
- neural circuit formation
- p38 MAPK, p38 mitogen-activated protein kinase
- self avoidance
- synaptogenesis
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Affiliation(s)
- Austin B Keeler
- a Department of Biology ; Neuroscience Graduate Program; University of Iowa ; Iowa City , IA USA
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32
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Abstract
The fruit fly Drosophila melanogaster is a poikilothermic organism that must detect and respond to both fine and coarse changes in environmental temperature in order maintain optimal body temperature, synchronize behavior to daily temperature fluctuations, and to avoid potentially injurious environmental hazards. Members of the Transient Receptor Potential (TRP) family of cation channels are well known for their activation by changes in temperature and their essential roles in sensory transduction in both invertebrates and vertebrates. The Drosophila genome encodes 13 TRP channels, and several of these have key sensory transduction and modulatory functions in allowing larval and adult flies to make fine temperature discriminations to attain optimal body temperature, detect and avoid large environmental temperature fluctuations, and make rapid escape responses to acutely noxious stimuli. Drosophila use multiple, redundant signaling pathways and neural circuits to execute these behaviors in response to both increases and decreases in temperature of varying magnitudes and time scales. A plethora of powerful molecular and genetic tools and the fly's simple, well-characterized nervous system have given Drosophila neurobiologists a powerful platform to study the cellular and molecular mechanisms of TRP channel function and how these mechanisms are conserved in vertebrates, as well as how these channels function within sensorimotor circuits to generate both simple and complex thermosensory behaviors.
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Key Words
- A1, 1st Antennal Segment
- A2, 2nd Antennal Segment
- A3, 3rd Antennal Segment
- AC, Anterior Cell
- AL, Antennal Lobe
- AR, Arista
- Clk, Clock protein
- Cry, Cryptochrome
- Cyc, Cycle protein
- DN1, DN2, DN3, Dorsal Neuron group 1, 2, 3
- Dbt, Double Time protein
- Drosophila melanogaster
- GFP, Green Fluorescent Protein
- GPCR, G Protein-Coupled Receptor
- LN, Lateral Neuron
- LNd, Dorsal Lateral Neuron
- LNv, Ventral Lateral Neuron
- LPN, Lateral Posterior Neuron
- NEL, Nocifensive Escape Locomotion
- PAP, Proximal Antennal Protocerebrum
- PDF, Pigment Dispersing Factor
- PKD1, Polycistic Kidney Disease 1
- PLC, Phospholipase C
- Per, Period protein
- RNAi, RNA interference
- SAC, Sacculus
- SLPR, Superior Lateral Protocerebrum
- SOG, Suboesophageal Ganglion
- TRP channels
- TRP, Transient Receptor Potential
- TRPA, Transient Receptor Potential, group A (ankyrin repeat)
- TRPA1
- TRPC, Transient Receptor Potential, group C (canonical)
- TRPL, TRP-Like
- TRPM, Transient Receptor Potential, group M (melastatin)
- TRPP, Transient Receptor Potential, group P (polycystic)
- TRPV, Transient Receptor Potential, group V (vanilloid)
- Tim, Timeless protein
- VFP, Venus Fluorescent Protein
- circadian rhythms
- lLNv, Ventral Lateral Neuron, large cell body
- mdIV, Multidendritic Neuron, class IV
- nociception
- sLNv, Ventral Lateral Neuron, small cell body
- thermoTRP, thermosensitive TRP channel
- thermosensation
- thermotaxis
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Affiliation(s)
- Andrew Bellemer
- Department of Biology; Appalachian State University ; Boone, NC, USA
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Pant SR, Krishnavajhala A, McNeece BT, Lawrence GW, Klink VP. The syntaxin 31-induced gene, LESION SIMULATING DISEASE1 (LSD1), functions in Glycine max defense to the root parasite Heterodera glycines. Plant Signal Behav 2015; 10:e977737. [PMID: 25530246 PMCID: PMC4622666 DOI: 10.4161/15592324.2014.977737] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2014] [Revised: 09/09/2014] [Accepted: 09/10/2014] [Indexed: 05/19/2023]
Abstract
Experiments show the membrane fusion genes α soluble NSF attachment protein (α-SNAP) and syntaxin 31 (Gm-SYP38) contribute to the ability of Glycine max to defend itself from infection by the plant parasitic nematode Heterodera glycines. Accompanying their expression is the transcriptional activation of the defense genes ENHANCED DISEASE SUSCEPTIBILITY1 (EDS1) and NONEXPRESSOR OF PR1 (NPR1) that function in salicylic acid (SA) signaling. These results implicate the added involvement of the antiapoptotic, environmental response gene LESION SIMULATING DISEASE1 (LSD1) in defense. Roots engineered to overexpress the G. max defense genes Gm-α-SNAP, SYP38, EDS1, NPR1, BOTRYTIS INDUCED KINASE1 (BIK1) and xyloglucan endotransglycosylase/hydrolase (XTH) in the susceptible genotype G. max[Williams 82/PI 518671] have induced Gm-LSD1 (Gm-LSD1-2) transcriptional activity. In reciprocal experiments, roots engineered to overexpress Gm-LSD1-2 in the susceptible genotype G. max[Williams 82/PI 518671] have induced levels of SYP38, EDS1, NPR1, BIK1 and XTH, but not α-SNAP prior to infection. In tests examining the role of Gm-LSD1-2 in defense, its overexpression results in ∼52 to 68% reduction in nematode parasitism. In contrast, RNA interference (RNAi) of Gm-LSD1-2 in the resistant genotype G. max[Peking/PI 548402] results in an 3.24-10.42 fold increased ability of H. glycines to parasitize. The results identify that Gm-LSD1-2 functions in the defense response of G. max to H. glycines parasitism. It is proposed that LSD1, as an antiapoptotic protein, may establish an environment whereby the protected, living plant cell could secrete materials in the vicinity of the parasitizing nematode to disarm it. After the targeted incapacitation of the nematode the parasitized cell succumbs to its targeted demise as the infected root region is becoming fortified.
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Key Words
- BIK1, botrytis induced kinase1
- CuSOD, copper superoxide dismutase
- EDS1, enhanced disease susceptibility1
- ER, endoplasmic reticulum
- GOI, gene of interest
- Golgi
- INA, 2,6-dichloroisonicotinic acid
- JA, jasmonic acid
- LESION SIMULATING DISEASE1 (LSD1)
- LOL1, LSD1-like
- LSD1, lesion simulating disease1
- MATE, multidrug and toxin extrusion
- NPR1, nonexpressor of PR1
- O2−, superoxide
- PAD4, phytoalexin deficient 4
- PCD, programmed cell death
- PR1, pathogenesis-related 1
- RNAi, RNA interference
- ROI, reactive oxygen intermediates
- SA, salicylic acid
- SAR, systemic acquired resistance
- SHMT, serine hydroxymethyltransferase
- SID2, salicylic-acid-induction deficient2
- Sed5p, suppressors of the erd2-deletion 5
- XTH, xyloglucan endotransglycosylase/hydrolase
- membrane fusion
- pathogen resistance
- qPCR, quantitative polymerase chain reaction
- salicylic acid
- sec, secretion
- signaling
- syntaxin 31
- vesicle
- α-SNAP, alpha soluble N-ethylmaleimide-sensitive factor attachment protein
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Affiliation(s)
- Shankar R Pant
- Department of Biological Sciences; Mississippi State University; Starkville, MS USA
| | - Aparna Krishnavajhala
- Department of Biological Sciences; Mississippi State University; Starkville, MS USA
- Department of Biochemistry; Molecular Biology; Entomology and Plant Pathology; Mississippi State University; Starkville, MS USA
| | - Brant T McNeece
- Department of Biological Sciences; Mississippi State University; Starkville, MS USA
| | - Gary W Lawrence
- Department of Biochemistry; Molecular Biology; Entomology and Plant Pathology; Mississippi State University; Starkville, MS USA
| | - Vincent P Klink
- Department of Biological Sciences; Mississippi State University; Starkville, MS USA
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Benada J, Burdová K, Lidak T, von Morgen P, Macurek L. Polo-like kinase 1 inhibits DNA damage response during mitosis. Cell Cycle 2015; 14:219-31. [PMID: 25607646 PMCID: PMC4613155 DOI: 10.4161/15384101.2014.977067] [Citation(s) in RCA: 56] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2014] [Revised: 10/06/2014] [Accepted: 10/12/2014] [Indexed: 11/19/2022] Open
Abstract
In response to genotoxic stress, cells protect their genome integrity by activation of a conserved DNA damage response (DDR) pathway that coordinates DNA repair and progression through the cell cycle. Extensive modification of the chromatin flanking the DNA lesion by ATM kinase and RNF8/RNF168 ubiquitin ligases enables recruitment of various repair factors. Among them BRCA1 and 53BP1 are required for homologous recombination and non-homologous end joining, respectively. Whereas mechanisms of DDR are relatively well understood in interphase cells, comparatively less is known about organization of DDR during mitosis. Although ATM can be activated in mitotic cells, 53BP1 is not recruited to the chromatin until cells exit mitosis. Here we report mitotic phosphorylation of 53BP1 by Plk1 and Cdk1 that impairs the ability of 53BP1 to bind the ubiquitinated H2A and to properly localize to the sites of DNA damage. Phosphorylation of 53BP1 at S1618 occurs at kinetochores and in cytosol and is restricted to mitotic cells. Interaction between 53BP1 and Plk1 depends on the activity of Cdk1. We propose that activity of Cdk1 and Plk1 allows spatiotemporally controlled suppression of 53BP1 function during mitosis.
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Key Words
- 53BP1
- 53BP1, p53 binding protein 1
- ATM, ataxia telangiectasia mutated kinase
- BRCA1, breast cancer type 1 susceptibility protein
- Cdk, cyclin dependent kinase
- DDR, DNA damage response
- DNA damage response
- H2AX, histone variant H2AX
- IR – ionizing radiation
- MDC1, mediator of DNA damage checkpoint protein 1
- NCS – neocarzinostatin
- NZ – nocodazole
- PTIP, PAX transactivation activation domain-interacting protein
- Plk1, Polo-like kinase 1
- Polo like kinase 1
- RIF1, Rap1-interacting factor 1 homolog
- RNAi, RNA interference
- RNF168, RING finger protein 168
- RNF8, RING finger protein 8
- mitosis
- phosphorylation
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Affiliation(s)
- Jan Benada
- Department of Cancer Cell Biology; Institute of Molecular Genetics; Academy of Sciences of the Czech Republic; Prague, Czech Republic
| | - Kamila Burdová
- Department of Cancer Cell Biology; Institute of Molecular Genetics; Academy of Sciences of the Czech Republic; Prague, Czech Republic
| | - Tomáš Lidak
- Department of Cancer Cell Biology; Institute of Molecular Genetics; Academy of Sciences of the Czech Republic; Prague, Czech Republic
| | - Patrick von Morgen
- Department of Cancer Cell Biology; Institute of Molecular Genetics; Academy of Sciences of the Czech Republic; Prague, Czech Republic
| | - Libor Macurek
- Department of Cancer Cell Biology; Institute of Molecular Genetics; Academy of Sciences of the Czech Republic; Prague, Czech Republic
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35
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Haller M, Hock AK, Giampazolias E, Oberst A, Green DR, Debnath J, Ryan KM, Vousden KH, Tait SWG. Ubiquitination and proteasomal degradation of ATG12 regulates its proapoptotic activity. Autophagy 2014; 10:2269-78. [PMID: 25629932 PMCID: PMC4502749 DOI: 10.4161/15548627.2014.981914] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2014] [Revised: 07/03/2014] [Accepted: 10/01/2014] [Indexed: 11/19/2022] Open
Abstract
During macroautophagy, conjugation of ATG12 to ATG5 is essential for LC3 lipidation and autophagosome formation. Additionally, ATG12 has ATG5-independent functions in diverse processes including mitochondrial fusion and mitochondrial-dependent apoptosis. In this study, we investigated the regulation of free ATG12. In stark contrast to the stable ATG12-ATG5 conjugate, we find that free ATG12 is highly unstable and rapidly degraded in a proteasome-dependent manner. Surprisingly, ATG12, itself a ubiquitin-like protein, is directly ubiquitinated and this promotes its proteasomal degradation. As a functional consequence of its turnover, accumulation of free ATG12 contributes to proteasome inhibitor-mediated apoptosis, a finding that may be clinically important given the use of proteasome inhibitors as anticancer agents. Collectively, our results reveal a novel interconnection between autophagy, proteasome activity, and cell death mediated by the ubiquitin-like properties of ATG12.
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Key Words
- ATG, autophagy-related
- ATG12
- Act D, actinomycin D
- BCL2L1, BCL2-like 1
- BH3, BCL2 homology domain 3
- CHX, cycloheximide
- HBSS, Hank's balanced salt solution
- LC3/MAP1LC3, microtubule-associated protein 1 light chain 3
- MEF, mouse embryonic fibroblast
- RNAi, RNA interference
- UB, ubiquitin
- UBL, ubiquitin-like protein
- apoptosis
- proteasomal degradation
- ubiquitin-like protein
- ubiquitination
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Affiliation(s)
- Martina Haller
- Cancer Research UK Beatson Institute; Glasgow, UK
- Institute of Cancer Sciences; University of Glasgow; Glasgow, UK
| | | | - Evangelos Giampazolias
- Cancer Research UK Beatson Institute; Glasgow, UK
- Institute of Cancer Sciences; University of Glasgow; Glasgow, UK
| | - Andrew Oberst
- Department of Immunology; University of Washington; Seattle, WA USA
| | - Douglas R Green
- Department of Immunology; St. Jude Children's Research Hospital; Memphis, TN USA
| | - Jayanta Debnath
- Department of Pathology and Helen Diller Family Comprehensive Cancer Center; University of California, San Francisco; San Francisco, CA USA
| | - Kevin M Ryan
- Cancer Research UK Beatson Institute; Glasgow, UK
| | | | - Stephen W G Tait
- Cancer Research UK Beatson Institute; Glasgow, UK
- Institute of Cancer Sciences; University of Glasgow; Glasgow, UK
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36
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Vigueira PA, Ray SS, Martin BA, Ligon MM, Paul KS. Effects of the green tea catechin (-)-epigallocatechin gallate on Trypanosoma brucei. Int J Parasitol Drugs Drug Resist 2012; 2:225-9. [PMID: 24533284 DOI: 10.1016/j.ijpddr.2012.09.001] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/18/2012] [Revised: 09/11/2012] [Accepted: 09/13/2012] [Indexed: 12/11/2022]
Abstract
The current pharmacopeia to treat the lethal human and animal diseases caused by the protozoan parasite Trypanosoma brucei remains limited. The parasite's ability to undergo antigenic variation represents a considerable barrier to vaccine development, making the identification of new drug targets extremely important. Recent studies have demonstrated that fatty acid synthesis is important for growth and virulence of Trypanosoma brucei brucei, suggesting this pathway may have therapeutic potential. The first committed step of fatty acid synthesis is catalyzed by acetyl-CoA carboxylase (ACC), which is a known target of (-)-epigallocatechin-3-gallate (EGCG), an active polyphenol compound found in green tea. EGCG exerts its effects on ACC through activation of AMP-dependent protein kinase, which phosphorylates and inhibits ACC. We found that EGCG inhibited TbACC activity with an EC50 of 37 μM and 55 μM for bloodstream form and procyclic form lysates, respectively. Treatment with 100 μM EGCG induced a 4.7- and 1.7- fold increase in TbACC phosphorylation in bloodstream form and procyclic lysates. EGCG also inhibited the growth of bloodstream and procyclic parasites in culture, with a 48 h EC50 of 33 μM and 27 μM, respectively, which is greater than the EGCG plasma levels typically achievable in humans through oral dosing. Daily intraperitoneal administration of EGCG did not reduce the virulence of an acute mouse model of T. b. brucei infection. These data suggest a reduced potential for EGCG to treat T. brucei infections, but suggest that EGCG may prove to be useful as a tool to probe ACC regulation.
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Affiliation(s)
- Patrick A Vigueira
- Department of Biological Sciences, Clemson University, Clemson, SC 29634, USA
| | - Sunayan S Ray
- Department of Genetics & Biochemistry, Clemson University, Clemson, SC 29634, USA
| | - Ben A Martin
- Department of Biological Sciences, Clemson University, Clemson, SC 29634, USA
| | - Marianne M Ligon
- Department of Genetics & Biochemistry, Clemson University, Clemson, SC 29634, USA
| | - Kimberly S Paul
- Department of Genetics & Biochemistry, Clemson University, Clemson, SC 29634, USA
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Yokoi K, Koyama H, Minakuchi C, Tanaka T, Miura K. Antimicrobial peptide gene induction, involvement of Toll and IMD pathways and defense against bacteria in the red flour beetle, Tribolium castaneum. Results Immunol 2012; 2:72-82. [PMID: 24371569 DOI: 10.1016/j.rinim.2012.03.002] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2012] [Revised: 03/20/2012] [Accepted: 03/22/2012] [Indexed: 11/25/2022]
Abstract
Using Tribolium castaneum, we quantitatively investigated the induction of nine antimicrobial peptide (AMP) genes by live gram-negative bacteria (Escherichia coli and Enterobacter cloacae), gram-positive bacteria (Micrococcus luteus and Bacillus subtilis) and the budding yeast (Saccharomyces cerevisiae). Then, five representative AMP genes were selected, and the involvement of the Toll and IMD pathways in their induction by E. coli, M. luteus and S. cerevisiae was examined by utilizing RNA interference of either MyD88 or IMD. Results indicated: Robust and acute induction of three genes by the two bacterial species was mediated mainly by the IMD pathway; slow and sustained induction of one gene by the two bacteria was mediated mainly by the Toll pathway; induction of the remaining one gene by the two bacteria was mediated by both pathways; induction of the five genes by the yeast was mediated by the Toll and/or IMD pathways depending on respective genes. These results suggest that more promiscuous activation and usage of the two pathways may occur in T. castaneum than in Drosophila melanogaster. In addition, the IMD pathway was revealed to dominantly contribute to defense against two bacterial species, gram-negative E. cloacae and gram-positive B. subtilis that possesses DAP-type peptidoglycan.
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Key Words
- AMP, antimicrobial peptide
- Antimicrobial peptide
- Att1, Attacin1
- Att2, Attacin2
- Att3, Attacin3
- Bs, Bacillus subtilis
- Cec2, Cecropin2
- Cec3, Cecropin3
- Col1, Coleoptericin1
- Def1, Defensin1
- Def2, Defensin2
- Def3, Defensin3
- Ec, Escherichia coli
- Ecl, Enterobacter cloacae
- FADD, Fas-associated death domain containing protein
- GNBP, gram-negative binding protein
- IMD pathway
- Innate immunity
- Ml, Micrococcus luteus
- PAMP, pathogen-associated molecular pattern
- PG, peptidoglycan
- PGRP, peptidoglycan recognition protein
- PRR, pattern recognition receptor
- RNAi, RNA interference
- RPL32, ribosomal protein L32
- RT-PCR, reverse transcription-PCR
- Sc, Saccharomyces cerevisiae
- Toll pathway
- Tribolium castaneum
- dsRNA, double strand RNA
- malE, maltose binding protein E
- qRT-PCR, real-time quantitative RT-PCR
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Affiliation(s)
- Kakeru Yokoi
- Applied Entomology Laboratory, Graduate School of Bioagricultural Sciences, Nagoya University, Furo-cho, Chikusa, Nagoya 464-8601, Japan
| | - Hiroaki Koyama
- Applied Entomology Laboratory, Graduate School of Bioagricultural Sciences, Nagoya University, Furo-cho, Chikusa, Nagoya 464-8601, Japan
| | - Chieka Minakuchi
- Applied Entomology Laboratory, Graduate School of Bioagricultural Sciences, Nagoya University, Furo-cho, Chikusa, Nagoya 464-8601, Japan
| | - Toshiharu Tanaka
- Applied Entomology Laboratory, Graduate School of Bioagricultural Sciences, Nagoya University, Furo-cho, Chikusa, Nagoya 464-8601, Japan
| | - Ken Miura
- Applied Entomology Laboratory, Graduate School of Bioagricultural Sciences, Nagoya University, Furo-cho, Chikusa, Nagoya 464-8601, Japan
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Kamaci N, Emnacar T, Karakas N, Arikan G, Tsutsui K, Isik S. Selective silencing of DNA topoisomerase IIβ in human mesenchymal stem cells by siRNAs (small interfering RNAs). Cell Biol Int Rep (2010) 2011; 18:e00010. [PMID: 23119146 DOI: 10.1042/CBR20110003] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/22/2011] [Accepted: 03/22/2011] [Indexed: 01/16/2023]
Abstract
hMSCs (human mesenchymal stem cells) express two isoforms of DNA topo II (topoisomerase II). Although both isoforms have the same catalytic activity, they are specialized for different functions in the cell: while topo IIα is essential for chromosome segregation in mitotic cells, topo IIβ is involved in more specific cellular functions. A number of inhibitors are available that inhibit the catalytic activity of both topo II isoforms. However, in order to investigate the isoform-specific inhibition of these two enzymes, it is necessary to use other techniques such as siRNA (small interfering RNA) interference to selectively silence either one of the isoforms individually. Depending on the lipid charge densities and protein varieties of the cell membrane, previous studies have demonstrated that transfection efficiencies of siRNAs to hMSCs are very low. In the study reported here, we demonstrate the use of Lipofectamine RNAiMAX as an efficient transfection reagent to introduce siRNAs into human mesenchymal stem cells with significantly great efficiency to silence topo IIβ selectively. A high level of transfection efficiency (80%) was achieved by using unlabelled topo IIβ-specific siRNA oligos. Specifically, it was confirmed repeatedly that green labelled siRNAs interfere with the transfection of siRNAs. The reagent induced minimal cytotoxicity (3.5–4.5%), and cell viability of the transfected hMSCs decreased 20–30% compared with untreated cells, depending on the concentration of the reagent.
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Key Words
- DMEM, Dulbecco's modified Eagle's medium
- DNA topoisomerase IIβ
- GFP, green fluorescent protein
- HEK, human embryonic kidney
- LDH, lactate dehydrogenase
- MSC, mesenchymal stem cell
- MSC-FBS, MSC-qualified fetal bovine serum
- PE, phycoerythrin
- RNAi, RNA interference
- RNAiMAX
- hMSC, human mesenchymal stem cell
- human mesenchymal stem cell
- siRNA transfection
- siRNA, small interfering RNA
- topo II, topoisomerase II
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Veldhoen S, Laufer SD, Restle T. Recent developments in peptide-based nucleic acid delivery. Int J Mol Sci 2008; 9:1276-1320. [PMID: 19325804 PMCID: PMC2635728 DOI: 10.3390/ijms9071276] [Citation(s) in RCA: 57] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2008] [Revised: 06/04/2008] [Accepted: 07/14/2008] [Indexed: 12/20/2022] Open
Abstract
Despite the fact that non-viral nucleic acid delivery systems are generally considered to be less efficient than viral vectors, they have gained much interest in recent years due to their superior safety profile compared to their viral counterpart. Among these synthetic vectors are cationic polymers, branched dendrimers, cationic liposomes and cell-penetrating peptides (CPPs). The latter represent an assortment of fairly unrelated sequences essentially characterised by a high content of basic amino acids and a length of 10–30 residues. CPPs are capable of mediating the cellular uptake of hydrophilic macromolecules like peptides and nucleic acids (e.g. siRNAs, aptamers and antisense-oligonucleotides), which are internalised by cells at a very low rate when applied alone. Up to now, numerous sequences have been reported to show cell-penetrating properties and many of them have been used to successfully transport a variety of different cargos into mammalian cells. In recent years, it has become apparent that endocytosis is a major route of internalisation even though the mechanisms underlying the cellular translocation of CPPs are poorly understood and still subject to controversial discussions. In this review, we will summarise the latest developments in peptide-based cellular delivery of nucleic acid cargos. We will discuss different mechanisms of entry, the intracellular fate of the cargo, correlation studies of uptake versus biological activity of the cargo as well as technical problems and pitfalls.
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Key Words
- CLSM, confocal laser scanning microscopy
- CPP, cell-penetrating peptide
- EIPA, ethylisopropylamiloride
- FCS, fetal calf serum
- GFP, green fluorescent protein
- HEPES, 4-(2-hydroxyethyl)-1-piperazineethanesulfonic acid
- HIV, human immunodeficiency virus
- IFN, interferon
- IL, interleukin
- LF, Lipofectamine™
- LF2000, Lipofectamine™ 2000
- MAP, model amphipathic peptide
- MEND, multifunctional envelope-type nano device
- NLS, nuclear localisation sequence
- OMe, O-methyl
- PAMAM, polyamidoamine
- PEG, polyethylene glycol
- PEI, polyethyleneimine
- PMO, phosphorodiamidate morpholino oligomer
- PNA, peptide nucleic acid
- PTD, protein transduction domains
- RNAi, RNA interference
- SAP, Sweet Arrow Peptide
- STR-R8, stearyl-R8
- TAR, transactivator responsive region
- TFO, triplex forming oligonucleotide
- TLR9, toll-like receptor 9
- TNF, tumour necrosis factor
- TP10, transportan 10
- bPrPp, bovine prion protein derived peptide
- cell-penetrating peptides
- endocytosis
- hCT, human calcitonin
- mPrPp, murine prion protein derived peptide
- miRNA, microRNA
- nucleic acid delivery
- nucleic acid drugs
- siRNA, small inhibitory RNA
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Affiliation(s)
- Sandra Veldhoen
- Department of Metabolomics, ISAS - Institute for Analytical Sciences, Bunsen-Kirchhoff-Str. 11, 44139 Dortmund, Germany
- Author to whom correspondence should be addressed; E-mail:
| | - Sandra D. Laufer
- Institut für Molekulare Medizin, Universitätsklinikum Schleswig-Holstein, Universität zu Lübeck, Ratzeburger Allee 160, 23538 Lübeck, Germany
| | - Tobias Restle
- Institut für Molekulare Medizin, Universitätsklinikum Schleswig-Holstein, Universität zu Lübeck, Ratzeburger Allee 160, 23538 Lübeck, Germany
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