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A co-delivery platform for synergistic promotion of angiogenesis based on biodegradable, therapeutic and self-reporting luminescent porous silicon microparticles.

Biomaterials 2021 Mar 26;272:120772. Epub 2021 Mar 26.

Institute of Analytical Chemistry, Department of Chemistry, Zhejiang University, Hangzhou, 310058, China. Electronic address:

Insufficient angiogenesis happened in body defects such as ulceration, coronary heart disease, and chronic wounds constitutes a major challenge in tissue regeneration engineering. Owing to the poor bioactivity and maintenance of pro-angiogenic cells and factors during transplantation, new bioactive materials to tackle the barrier are highly desirable. Herein, we demonstrate a co-delivery platform for synergistic promotion of angiogenesis based on biodegradable, therapeutic, and self-reporting luminescent porous silicon (PSi) microparticles. Read More

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The endemic Chamaecytisus albidus is nodulated by symbiovar genistearum of Bradyrhizobium in the Moroccan Maamora Forest.

Syst Appl Microbiol 2021 Mar 26;44(3):126197. Epub 2021 Mar 26.

Centre de Biotechnologies Végétale et Microbienne, Biodiversité et Environnement, Faculté des Sciences, Université Mohammed V de Rabat, 4, Avenue Ibn Battouta, Rabat, Morocco. Electronic address:

Out of 54 isolates from root nodules of the Moroccan-endemic Chamaecytisus albidus plants growing in soils from the Maamora cork oak forest, 44 isolates formed nodules when used to infect their original host plant. A phenotypic analysis showed the metabolic diversity of the strains that used different carbohydrates and amino acids as sole carbon and nitrogen sources. The isolates grew on media with pH values ranging from 6 to 8. Read More

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Development of multiplex real-time PCR assays for differential detection of capripoxvirus, parapoxvirus, and foot-and-mouth disease virus.

Transbound Emerg Dis 2021 Apr 10. Epub 2021 Apr 10.

Foreign Animal Disease Diagnostic Laboratory, NVSL, APHIS, USDA, Plum Island Animal Disease Center, Orient, NY, 11957, United States.

This study reports the development of multiplex real-time PCR assays for differential detection of capripoxvirus (CaPV), parapoxvirus (PaPV), and foot-and-mouth disease virus (FMDV) in sheep, goats and cattle. Three multiplex assays were developed, a capripox (CaP) rule-out assay for simultaneous detection and differentiation of CaPV and PaPV, a FMD rule-out assay for simultaneous detection and differentiation of FMDV and PaPV, and a FMD/CaP rule-out assay for simultaneous detection and differentiation of CaPV, PaPV and FMDV. All multiplex assays included β-actin gene ACTB as an internal positive control to monitor PCR inhibition and accuracy of nucleic acid extractions. Read More

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Silencing of SARS-CoV-2 with modified siRNA-peptide dendrimer formulation.

Allergy 2021 Apr 10. Epub 2021 Apr 10.

Federal Medico-biological Agency of Russia.

Background: First vaccines for prevention of Coronavirus disease 2019 (COVID-19) are becoming available but there is a huge and unmet need for specific forms of treatment. In this study we aimed to evaluate the anti-SARS-CoV-2 effect of siRNA both in vitro and in vivo.

Methods: To identify the mosteffective molecule out of a panel of 15 in silico designed siRNAs, an in vitro screening system based on vectors expressing SARS-CoV-2 genes fused with the firefly luciferase reporter gene and SARS-CoV-2-infected cells was used. Read More

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Biosensor-based multi-gene pathway optimization for enhancing the production of glycolate.

Appl Environ Microbiol 2021 Apr 9. Epub 2021 Apr 9.

National Engineering Laboratory for Cereal Fermentation Technology (NELCF), Jiangnan University, 1800 Lihu Road, Wuxi, Jiangsu 214122, China;

Glycolate is widely used in industry, especially in the fields of chemical cleaning, cosmetics, and medical materials, and has broad market prospects for the future. Recent advances in metabolic engineering and synthetic biology have significantly improved the titer and yield of glycolate. However, an expensive inducer was used in previous studies that is not feasible for use in large-scale industrial fermentations. Read More

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Characterization of a lysozyme-like effector TseP and secretion co-dependence of the type VI secretion system in SSU.

Appl Environ Microbiol 2021 Apr 9. Epub 2021 Apr 9.

State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic & Developmental Sciences, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, 200240, China

The type VI secretion system (T6SS) is a widespread weapon employed by gram-negative bacteria for interspecies interaction in complex communities. Analogous to a contractile phage tail, the double-tubular T6SS injects toxic effectors into prokaryotic and eukaryotic neighboring cells. Although effectors dictate T6SS functions, their identities remain elusive in many pathogens. Read More

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Proteolytic maturation of the Outer Membrane -type cytochrome OmcZ by Subtilisin-like Serine Protease is Essential for Optimal Current Production by .

Appl Environ Microbiol 2021 Apr 9. Epub 2021 Apr 9.

Department of Biochemistry and Applied Biosciences, Faculty of Agriculture, University of Miyazaki

An outer membrane -type cytochrome (OmcZ) in is essential for optimal current production in microbial fuel cells. OmcZ exists in two forms, small and large, designated as OmcZ and OmcZ, respectively. However, it is still not known how these two structures are formed. Read More

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Magnetoliposomes: recent advances in the field of controlled drug delivery.

Expert Opin Drug Deliv 2021 Apr 9. Epub 2021 Apr 9.

Physics Center of Minho and Porto Universities (CF-UM-UP), University of Minho, Campus de Gualtar, 4710-057 Braga, Portugal.

Introduction: Magnetoliposomes have gained increasing attention as delivery systems, as they surpass many limitations associated with liposomes. The combination with magnetic nanoparticles provides a means for development of multimodal and multifunctional theranostic agents that enable on-demand drug release and real-time monitoring of therapy.

Areas Covered: Recently, several magnetoliposome structures have been reported to ensure efficient transport and delivery of therapeutics, while improving magnetic properties. Read More

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Systemic delivery of CRISPR/Cas9 to hepatic tumors for cancer treatment using altered tropism of lentiviral vector.

Biomaterials 2021 Apr 1;272:120793. Epub 2021 Apr 1.

Center for Theragnosis, Biomedical Research Institute, Korea Institute of Science and Technology, Seoul, South Korea. Electronic address:

Therapeutic application of CRISPR/Cas9 nucleases remains a challenge due to the lack of efficient in vivo delivery carriers. Here, we examine the ability of lentiviral vectors pseudotyped with hepatitis C virus (HCV)/E1E2 envelope glycoproteins to systemically deliver CRISPR/Cas9 to hepatic tumors in vivo. We demonstrated that systemic administration of E1E2-pseudotyped lentiviral vectors can selectively deliver Cas9 and sgRNA specific for kinesin spindle protein (KSP) to Huh7 tumors in the orthotopic Huh7 mice due to the specific interactions between E1E2 and their cellular receptors. Read More

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DNA molecular combing-based replication fork directionality profiling.

Nucleic Acids Res 2021 Apr 9. Epub 2021 Apr 9.

Institut de Biologie de l'Ecole Normale Supérieure (IBENS), Ecole Normale Supérieure, CNRS, INSERM, Université PSL, 46 rue d'Ulm, F-75005 Paris, France.

The replication strategy of metazoan genomes is still unclear, mainly because definitive maps of replication origins are missing. High-throughput methods are based on population average and thus may exclusively identify efficient initiation sites, whereas inefficient origins go undetected. Single-molecule analyses of specific loci can detect both common and rare initiation events along the targeted regions. Read More

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The unicellular red alga Cyanidioschyzon merolae - the simplest model of a photosynthetic eukaryote.

Plant Cell Physiol 2021 Apr 9. Epub 2021 Apr 9.

Institute of Innovative Research, Tokyo Institute of Technology, Yokohama, Kanagawa 226-8503, Japan.

Several species of unicellular eukaryotic algae exhibit relatively simple genomic and cellular architecture. Laboratory cultures of these algae grow faster than plants and often provide homogeneous cellular populations exposed to an almost equal environment. These characteristics are ideal for conducting experiments at the cellular and subcellular levels. Read More

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RNA Interference in Aquaculture: A Small Tool for Big Potential.

J Agric Food Chem 2021 Apr 9. Epub 2021 Apr 9.

Genetics and Biotechnology, Department of Aquaculture, Faculty of Fish Resources, Suez University, Suez 43518, Egypt.

For decades, the tight regulatory functions of DNA and RNA have been the focus of extensive research with the goal of harnessing RNA molecules (e.g., microRNA and small interfering RNA) to control gene expression and to study biological functions. Read More

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Automated 3D scoring of fluorescence in situ hybridization (FISH) using a confocal whole slide imaging scanner.

Appl Microsc 2021 Apr 9;51(1). Epub 2021 Apr 9.

Department of Pathology, Memorial Sloan Kettering Cancer Center, New York, NY, 10065, USA.

Fluorescence in situ hybridization (FISH) is a technique to visualize specific DNA/RNA sequences within the cell nuclei and provide the presence, location and structural integrity of genes on chromosomes. A confocal Whole Slide Imaging (WSI) scanner technology has superior depth resolution compared to wide-field fluorescence imaging. Confocal WSI has the ability to perform serial optical sections with specimen imaging, which is critical for 3D tissue reconstruction for volumetric spatial analysis. Read More

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Designing and determining immunogenicity of a recombinant protein due to producing a new vaccine against Enterotoxigenic Escherichia coli containing CfaE and CotD subunits.

J Immunoassay Immunochem 2021 Apr 9:1-18. Epub 2021 Apr 9.

Applied Microbiology Research Center, Systems Biology and Poisonings Institute, Baqiyatallah University of Medical Sciences, Tehran, Iran.

Enterotoxigenic (ETEC) is one of the most common bacterial causes of mortalities in developing countries due to diarrhea. Since mucosal immune responses to CFs can prevent the disease, a chimeric protein containing ETEC's CFA/I (CfaE) tip subunits and CS2 (CotD) sub-structural units is developed to produce effective vaccine. Using bioinformatics tools, the chimeric construct was analyzed and then the optimized gene was synthesized and expressed in . Read More

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i6mA-VC: A Multi-Classifier Voting Method for the Computational Identification of DNA N6-methyladenine Sites.

Interdiscip Sci 2021 Apr 8. Epub 2021 Apr 8.

School of Mathematics and Statistics, Xidian University, Xi'an, 710071, People's Republic of China.

DNA N6-methyladenine (6 mA), as an essential component of epigenetic modification, cannot be neglected in genetic regulation mechanism. The efficient and accurate prediction of 6 mA sites is beneficial to the development of biological genetics. Biochemical experimental methods are considered to be time-consuming and laborious. Read More

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Inference of dynamic spatial GRN models with multi-GPU evolutionary computation.

Brief Bioinform 2021 Apr 8. Epub 2021 Apr 8.

Department of Biological Sciences at the University of Maryland, Baltimore, MD 21250, USA.

Reverse engineering mechanistic gene regulatory network (GRN) models with a specific dynamic spatial behavior is an inverse problem without analytical solutions in general. Instead, heuristic machine learning algorithms have been proposed to infer the structure and parameters of a system of equations able to recapitulate a given gene expression pattern. However, these algorithms are computationally intensive as they need to simulate millions of candidate models, which limits their applicability and requires high computational resources. Read More

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A hybrid multi-objective whale optimization algorithm for analyzing microarray data based on Apache Spark.

PeerJ Comput Sci 2021 25;7:e416. Epub 2021 Mar 25.

Faculty of Computers and Information, Assiut University, Egypt.

A microarray is a revolutionary tool that generates vast volumes of data that describe the expression profiles of genes under investigation that can be qualified as Big Data. Hadoop and Spark are efficient frameworks, developed to store and analyze Big Data. Analyzing microarray data helps researchers to identify correlated genes. Read More

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Metagenomic Data Assembly - The Way of Decoding Unknown Microorganisms.

Front Microbiol 2021 23;12:613791. Epub 2021 Mar 23.

Center for Algorithmic Biotechnology, St. Petersburg State University, Saint Petersburg, Russia.

Metagenomics is a segment of conventional microbial genomics dedicated to the sequencing and analysis of combined genomic DNA of entire environmental samples. The most critical step of the metagenomic data analysis is the reconstruction of individual genes and genomes of the microorganisms in the communities using metagenomic assemblers - computational programs that put together small fragments of sequenced DNA generated by sequencing instruments. Here, we describe the challenges of metagenomic assembly, a wide spectrum of applications in which metagenomic assemblies were used to better understand the ecology and evolution of microbial ecosystems, and present one of the most efficient microbial assemblers, SPAdes that was upgraded to become applicable for metagenomics. Read More

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Nucleolin-Targeting AS1411 Aptamer-Modified Micelle for the Co-Delivery of Doxorubicin and miR-519c to Improve the Therapeutic Efficacy in Hepatocellular Carcinoma Treatment.

Int J Nanomedicine 2021 30;16:2569-2584. Epub 2021 Mar 30.

Key Laboratory for Molecular Enzymology and Engineering of Ministry of Education, School of Life Sciences, Jilin University, Changchun, 130012, People's Republic of China.

Background: Multidrug resistance (MDR) has emerged to be a major hindrance in cancer therapy, which contributes to the reduced sensitivity of cancer cells toward chemotherapeutic drugs mainly owing to the over-expression of drug efflux transporters. The combination of gene therapy and chemotherapy has been considered as a potential approach to improve the anti-cancer efficacy by reversing the MDR effect.

Materials And Methods: The AS1411 aptamer-functionalized micelles were constructed through an emulsion/solvent evaporation strategy for the simultaneous co-delivery of doxorubicin and miR-519c. Read More

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Anti-CLL1 chimeric antigen receptor T cell therapy in children with relapsed/refractory acute myeloid leukemia.

Clin Cancer Res 2021 Apr 8. Epub 2021 Apr 8.

Guangzhou Medical University.

Purpose: The survival rate of children with refractory/relapsed acute myeloid leukemia (R/R-AML) by salvage chemotherapy is minimal. Treatment with chimeric antigen receptor T cells (CAR-T) has emerged as a novel therapy to improve malignancies treatment. C-type lectin-like molecule 1 (CLL1) is highly expressed on AML leukemia stem cells, blast cells, and monocytes, but not on normal hematopoietic stem cells, indicating the therapeutic potential of anti-CLL1 CAR-T in AML treatment. Read More

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Rational engineering of xylanase hyper-producing system in Trichoderma reesei for efficient biomass degradation.

Biotechnol Biofuels 2021 Apr 8;14(1):90. Epub 2021 Apr 8.

Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, 214122, People's Republic of China.

Background: Filamentous fungus Trichoderma reesei has been widely used as a workhorse for cellulase and xylanase productions. Xylanase has been reported as the crucial accessory enzyme in the degradation of lignocellulose for higher accessibility of cellulase. In addition, the efficient hydrolysis of xylan needs the co-work of multiple xylanolytic enzymes, which rise an increasing demand for the high yield of xylanase for efficient biomass degradation. Read More

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Uncovering salt tolerance mechanisms in pepper plants: a physiological and transcriptomic approach.

BMC Plant Biol 2021 Apr 8;21(1):169. Epub 2021 Apr 8.

Instituto de Biología Molecular y Celular de Plantas, Universidad Politécnica de Valencia-C.S.I.C, Camino de Vera s/n, 46022, Valencia, Spain.

Background: Pepper is one of the most cultivated crops worldwide, but is sensitive to salinity. This sensitivity is dependent on varieties and our knowledge about how they can face such stress is limited, mainly according to a molecular point of view. This is the main reason why we decided to develop this transcriptomic analysis. Read More

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Deciphering the black box of microbial community of common effluent treatment plant through integrated metagenomics: Tackling industrial effluent.

J Environ Manage 2021 Apr 5;289:112448. Epub 2021 Apr 5.

Gujarat Biotechnology Research Centre (GBRC), Department of Science and Technology (DST), 6th Floor, MS Building, Gandhinagar, Gujarat, 382011, India. Electronic address:

Identifying the microbial community and their functional potential from different stages of common effluent treatment plants (CETP) can enhance the efficiency of wastewater treatment systems. In this study, wastewater metagenomes from 8 stages of CETP were screened for microbial diversity and gene profiling along with their corresponding degradation activities. The microbial community displayed 98. Read More

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Engineering Strategies to Boost Crop Productivity by Cutting Respiratory Carbon Loss.

Plant Cell 2019 Mar;31(2):297-314

ARC Centre of Excellence in Plant Energy Biology, Department of Plant Science, School of Agriculture, Food, and Wine, Waite Research Institute, University of Adelaide, Glen Osmond SA 5064, Australia.

Roughly half the carbon that crop plants fix by photosynthesis is subsequently lost by respiration. Nonessential respiratory activity leading to unnecessary CO2 release is unlikely to have been minimized by natural selection or crop breeding, and cutting this large loss could complement and reinforce the currently dominant yield-enhancement strategy of increasing carbon fixation. Until now, however, respiratory carbon losses have generally been overlooked by metabolic engineers and synthetic biologists because specific target genes have been elusive. Read More

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CaBagE: A Cas9-based Background Elimination strategy for targeted, long-read DNA sequencing.

PLoS One 2021 8;16(4):e0241253. Epub 2021 Apr 8.

Department of Human Genetics, School of Medicine, University of Utah, Salt Lake City, Utah, United States of America.

A substantial fraction of the human genome is difficult to interrogate with short-read DNA sequencing technologies due to paralogy, complex haplotype structures, or tandem repeats. Long-read sequencing technologies, such as Oxford Nanopore's MinION, enable direct measurement of complex loci without introducing many of the biases inherent to short-read methods, though they suffer from relatively lower throughput. This limitation has motivated recent efforts to develop amplification-free strategies to target and enrich loci of interest for subsequent sequencing with long reads. Read More

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Gene Editing in Human Induced Pluripotent Stem Cells Using Doxycycline-Inducible CRISPR-Cas9 System.

Methods Mol Biol 2021 Apr 9. Epub 2021 Apr 9.

Centre for Stem Cell Research (A Unit of inStem, Bengaluru), Christian Medical College, Vellore, India.

Induced pluripotent stem cells (iPSCs) generated from patients are a valuable tool for disease modelling, drug screening, and studying the functions of cell/tissue-specific genes. However, for this research, isogenic iPSC lines are important for comparison of phenotypes in the wild type and mutant differentiated cells generated from the iPSCs. The advent of gene editing technologies to correct or generate mutations helps in the generation of isogenic iPSC lines with the same genetic background. Read More

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MicroRNAs and Their Roles in Breast Cancer Bone Metastasis.

Curr Osteoporos Rep 2021 Apr 8. Epub 2021 Apr 8.

Oncology and Metabolism Department (OMD), Medical School, University of Sheffield, Sheffield, UK.

Bone metastasis occurs in advanced stages of breast cancer, worsening the quality of life and increasing the mortality of patients. Current treatments for bone metastasis are only palliative, and efficient therapeutic targets need to be still identified. MicroRNAs (miRNAs) are a large class of small non-coding RNAs that regulate gene expression within cells. Read More

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Efficient strategies to enhance plasmid stability for fermentation of recombinant Escherichia coli harboring tyrosine phenol lyase.

Biotechnol Lett 2021 Apr 8. Epub 2021 Apr 8.

Key Laboratory of Bioorganic Synthesis of Zhejiang Province, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, 310014, People's Republic of China.

Objective: To solve the bottleneck of plasmid instability during microbial fermentation of L-DOPA with recombinant Escherichia coli expressing heterologous tyrosine phenol lyase.

Results: The tyrosine phenol lyase from Fusobacterium nucleatum was constitutively expressed in E. coli and a fed-batch fermentation process with temperature down-shift cultivation was performed. Read More

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A second riboflavin import system is present in flavinogenic Streptomyces davaonensis and supports roseoflavin biosynthesis.

Mol Microbiol 2021 Apr 7. Epub 2021 Apr 7.

Institute for Technical Microbiology, Department of Biotechnology, Mannheim University of Applied Sciences, 68163, Mannheim, Germany.

The antibiotic roseoflavin is produced by Streptomyces davaonensis in the stationary phase of growth. To support biosynthesis of the secondary metabolite roseoflavin, S. davaonensis underwent several genetic adaptations with regard to metabolism of the roseoflavin precursor and primary metabolite riboflavin. Read More

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Integration of metabolic pathway manipulation and promoter engineering for the fine-tuned biosynthesis of malic acid in Bacillus coagulans.

Biotechnol Bioeng 2021 Apr 7. Epub 2021 Apr 7.

School of Bioengineering, Dalian University of Technology, Dalian, Liaoning, China, 116024.

Bacillus coagulans, a thermophilic facultative anaerobe, is a favorable chassis strain for the biosynthesis of desired products. In this study, B. coagulans was converted into an efficient malic acid producer by metabolic engineering and promoter engineering. Read More

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