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Tag: ATCC
Domestic pigs are susceptible to experimental infection with non-human primate-derived Reston virus without the need for adaptation
Ethics and animal welfare statement All infectious work with RESTV, including sample inactivation, was performed in the Containment Level 4 laboratory (CL4) in accordance with the policies and protocols outlined by the Canadian Science Centre for Human and Animal Health Institutional Biosafety Committee. All animal work was performed in strict…
Frontiers Publishing Partnerships | Construction of recombinant adenovirus-5 vector to prevent replication-competent adenovirus occurrence
Introduction In recent years, recombinant adenoviral vectors have been used in different fields of biomedical sciences such as in vitro and in vivo gene transfer, vaccine development, and gene therapy (Russell, 2000; Mitani and Kubo, 2002). Multiple features of recombinant adenoviral vectors such as high packaging capacity for transgene insertion,…
Subtype HEK293 Medium Market Growth Factor, Size, Share, Opportunity, Business Trend, Strategy, By Type, Application, Key Players, Regions, and Demand Forecast to 2031
PRESS RELEASE Published December 14, 2023 Global “Subtype HEK293 Medium Market” Report offers a thorough examination of the worldwide Subtype HEK293 Medium market, encompassing critical insights into key trends, opportunities, recent developments, and challenges. This research report is a compilation of information and analysis obtained from various sources to assist…
Unraveling the genome of Bacillus velezensis MEP218, a strain producing fengycin homologs with broad antibacterial activity: comprehensive comparative genome analysis
Whole genome sequencing and analysis To understand the mechanisms underlying the biological control capability of bacterial pathogens, the complete genome of MEP218 was sequenced, assembled, and deposited in the GenBank database under the accession number CP042864.2. The genome of MEP218 consists of a single circular chromosome of 3,944,892 bp with a…
Mouse Embryonic Stem Cells | ATCC
Mouse embryonic stem cells (mESCs) were first isolated and propagated in culture in 1981. mESCs are typically isolated from blastocysts from the inner cell mass of 3.5-day-old embryos and have the potential to generate every cell type found in the body. They can be maintained in an undifferentiated, pluripotent state…
Phyloecology of nitrate ammonifiers and their importance relative to denitrifiers in global terrestrial biomes
Steffen, W. et al. Planetary boundaries: guiding human development on a changing planet. Science 347, 1259855 (2015). Article PubMed Google Scholar Kanter, D. R. et al. Nitrogen pollution policy beyond the farm. Nat. Food 1, 27–32 (2020). Article ADS Google Scholar Tian, H. et al. A comprehensive quantification of global…
An ncRNA transcriptomics-based approach to design siRNA molecules against SARS-CoV-2 double membrane vesicle formation and accessory genes | BMC Infectious Diseases
When compared to the genomes of other RNA viruses, coronaviruses have been found to possess largest genome sizes. They are capable of establishing reservoirs in both human and zoonotic populations, enabling their transmission and circulation among a range of animal hosts, including bats, pangolins, civets, cats, mice, pigs, whales, dogs,…
Genome sequence and characterization of a novel Pseudomonas putida phage, MiCath
Bacterial strains We used P. putida strains S12, DOT-T1E, F1 (kindly gifted by Grant Rybnicky), ATCC 12633 (purchased from ATCC), JUb85 (kindly provided by Samuel Buck), EM383 (kindly gifted by Huseyin Tas), p106 (kindly provided by Carey-Ann Burnham), and KT2440 (obtained from lab stocks). An overnight culture of each P….
Endometrial cancer PDX-derived organoids (PDXOs) and PDXs with FGFR2c isoform expression are sensitive to FGFR inhibition
Patients, tumour Implantation, PDX expansion and characterization The study was conducted according to the Declaration of Helsinki. Tumours were collected from EC patients following Human Research Ethics Committee (HREC) approval (HREC/15/MHS/127) and QUT HREC (#1500000169, 1500000323). All participants provided written informed consent that their excess tissue could be used for…
Phenotypic profiling of solute carriers characterizes serine transport in cancer
Cell culture All cell lines used in this study were cultured at 37 °C in 5% CO2 in a humidified incubator. Human cell lines were authenticated by STR profiling using Promega GenePrint 10 and tested for Mycoplasma using Mycoalert (Lonza). Other than HCT116 p21−/− (a gift of B. Vogelstein60) all cell…
Multi-omics analyses of gut microbiota via 16S rRNA gene sequencing, LC-MS/MS and diffusion tension imaging reveal aberrant microbiota-gut-brain axis in very low or extremely low birth weight infants with white matter injury | BMC Microbiology
Clinical features of WMI and nWMI groups From April 2022 to December 2022, the Affiliated Hospital of Guangdong Medical University enrolled a total of 83 subjects who met the inclusion criteria. The study finally included 71 cases after excluding 4 deaths, 6 patients who failed to complete MRI + DTI testing, 1…
Prime editing-mediated correction of the CFTR W1282X mutation in iPSCs and derived airway epithelial cells
Abstract A major unmet need in the cystic fibrosis (CF) therapeutic landscape is the lack of effective treatments for nonsense CFTR mutations, which affect approximately 10% of CF patients. Correction of nonsense CFTR mutations via genomic editing represents a promising therapeutic approach. In this study, we tested whether prime editing,…
Proteomics and metabolomics analyses of Streptococcus agalactiae isolates from human and animal sources
Shen, C.-H. Molecular diagnosis of infectious diseases in Diagnostic Molecular Biology Ch. 15, 387–411 (Academic Press, C 2019). Katholm, J., Bennedsgaard, T. W., Koskinen, M. T. & Rattenborg, E. Quality of bulk tank milk samples from Danish dairy herds based on real-time polymerase chain reaction identification of mastitis pathogens. J….
Genome editing approaches with CRISPR/Cas9: the association of NOX4 expression in breast cancer patients and effectiveness evaluation of different strategies of CRISPR/Cas9 to knockout Nox4 in cancer cells | BMC Cancer
A. Bioinformatics analyzes Search strategy and study selection From April to June 2021, we read relevant and related publications in Medline, EMBASE, Web of Science, and Wanfang. The search term “NOX4” have been used. The articles that fit specified criteria were all added at once: (1) Participants were split into…
Sequence-Based Classification and Identification | SpringerLink
Adékambi T, Drancourt M, Raoult D (2009) The rpoB gene as a tool for clinical microbiologists. Trends Microbiol 17:37–45 CrossRef PubMed Google Scholar Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403–410 CrossRef CAS PubMed Google Scholar Arahal DR,…
Enhanced specificity of Bacillus metataxonomics using a tuf-targeted amplicon sequencing approach
Parte AC, Sardà Carbasse J, Meier-Kolthoff JP, Reimer LC, Göker M. List of Prokaryotic names with standing in nomenclature (LPSN) moves to the DSMZ. Int J Syst Evol Microbiol. 2020;70:5607–12. Article PubMed PubMed Central Google Scholar Saxena AK, Kumar M, Chakdar H, Anuroopa N, Bagyaraj DJ. Bacillus species in soil…
Genome mining reveals novel biosynthetic gene clusters in entomopathogenic bacteria
Katz, L. & Baltz, R. H. Natural product discovery: Past, present, and future. J. Ind. Microbiol. Biotechnol. 43, 155–176 (2016). Article CAS PubMed Google Scholar Newman, D. J. & Cragg, G. M. Natural products as sources of new drugs from 1981 to 2014. J. Nat. Prod. 79, 629–661 (2016). Article …
High-throughput screening of genetic and cellular drivers of syncytium formation induced by the spike protein of SARS-CoV-2
Plasmid construction All the constructs used in this study were generated with standard cloning strategies, including PCR, overlapping PCR, oligo annealing, digestion and ligation. Primers were purchased from Genewiz. The plasmid sequence was verified by Sanger sequencing. The pCAG-spike(D614G)-GFP11-mCherry plasmid was modified from Addgene plasmid 158761. Briefly, GFP11 and mCherry…
Decline of DNA damage response along with myogenic differentiation
Introduction Proper functioning of all living organisms depends on the faithful maintenance and transmission of genomic information stored in the molecule of DNA. However, DNA integrity is continuously challenged by a variety of endogenous and exogenous agents causing DNA lesions which have a critical impact on cellular activities and homeostasis….
Taxonomic and environmental distribution of bacterial amino acid auxotrophies
Tripp, H. J. et al. SAR11 marine bacteria require exogenous reduced sulphur for growth. Nature 452, 741–744 (2008). Article ADS CAS PubMed Google Scholar Yu, X. J., Walker, D. H., Liu, Y. & Zhang, L. Amino acid biosynthesis deficiency in bacteria associated with human and animal hosts. Infect. Genet. Evol….
Phenotypic drug-susceptibility profiles and genetic analysis based on whole-genome sequencing of Mycobacterium avium complex isolates in Thailand
Abstract Mycobacterium avium complex (MAC) infections are a significant clinical challenge. Determining drug-susceptibility profiles and the genetic basis of drug resistance is crucial for guiding effective treatment strategies. This study aimed to determine the drug-susceptibility profiles of MAC clinical isolates and to investigate the genetic basis conferring drug resistance using…
LncRNA INHEG promotes glioma stem cell maintenance and tumorigenicity through regulating rRNA 2’-O-methylation
Ethics statement All mice procedures in this study were performed under an animal protocol approved by the Institutional Animal Care and Use Committee guidelines of Westlake University. The procedures and protocols for glioma patients were approved by the institutional review board of Beijing Tiantan Hospital. Informed consent was obtained from…
Knockdown of GNL3L alleviates the progression of COPD
Introduction Chronic obstructive pulmonary disease (COPD) is a common chronic bronchitis disease characterized by persistent airflow limitation, which can be prevented and treated. COPD is the third leading cause of death in the world reported in 2020.1 With the progression of the disease, COPD will lead to respiratory failure, pulmonary…
GDF11 slows excitatory neuronal senescence and brain ageing by repressing p21
Experimental model and subject details Mice Male ICR mice (Laboratory Animal Center of Zhejiang Academy of Medical Sciences) at age of 3 months (M), 9 M and 36 M, male C57BL/B6 wild‐type (WT) mice (Shanghai Slac Laboratory) at age of 3 M and 10 M, male GDF11-flox mice (GDF11f/f, mice carrying the “floxed” GDF11…
Infant microbiome cultivation and metagenomic analysis reveal Bifidobacterium 2’-fucosyllactose utilization can be facilitated by coexisting species
Stewart, C. J. et al. Temporal development of the gut microbiome in early childhood from the TEDDY study. Nature 562, 583–588 (2018). Article CAS ADS PubMed PubMed Central Google Scholar Tamburini, S., Shen, N., Wu, H. C. & Clemente, J. C. The microbiome in early life: implications for health outcomes….
Single-cell CRISPR screens in vivo map T cell fate regulomes in cancer
Mice The research conducted in this study complied with all of the relevant ethical regulations. The animal protocols were approved by and performed in accordance with the Institutional Animal Care and Use Committee of St. Jude Children’s Research Hospital. C57BL/6, OT-I50, pmel51 and Rosa26-Cas9 knock-in52 mice were purchased from The…
RhoA suppresses pseudorabies virus replication in vitro | Virology Journal
Materials The Cell Counting Kit-8 (CCK-8) was ordered from Yeasen BioTechnologies co, Ltd. (Shanghai, China). Anti-GAPDH was purchased from Proteintech Group, Inc. (Chicago, USA). Anti RhoA was purchased from Novus Biologicals (Colorado, USA). Antiserum against PRV glycoprotein gB was generated by immunization of mice with purified recombinant gB. Goat anti-Mouse…
Inhibition of providencia vermicola FabD
Introduction Microbial resistance has become a problem in the contemporary medical environment due to the inadequate development of new antibiotics and the asinine prescription of antibiotics in both developed and developing nations. Antimicrobial resistance (AMR), which affects wealthy and developing nations, is a global concern.1 AMR is a problem for…
Detection of Clostridium perfringens Using Novel Methods Based on Recombinase-Aided Amplification Assay-Assisted CRISPR/Cas12a System
Clostridium perfringens is a highly versatile pathogen of humans and animals. Rapid and sensitive detection methods for C. perfringens are urgently needed for the timely implementation of control. In this study, to provide novel promising methods for the detection of C. perfringens, two rapid, sensitive, and instrument-free C. perfringens detection…
A Cre-dependent massively parallel reporter assay allows for cell-type specific assessment of the functional effects of non-coding elements in vivo
Animal models All procedures involving animals were approved by the Institutional Animal Care and Use Committee (IACUC) at Washington University in St. Louis, MO. Veterinary care and housing was provided by the veterinarians and veterinary technicians of Washington University School of Medicine under Dougherty lab’s approved IACUC protocol. All protocols…
Rising Use of CHO Cells in the Genetic Study Drives the North America Chinese Hamster Ovary (CHO) Cells Market Growth
The increasing use of CHO cells in genetic studies reflects their unique advantages in the field of genetic research. CHO cells are renowned for their genetic stability. Researchers study specific genes or genetic modifications without the concern of unexpected genetic changes interfering with their experiments. This stability is particularly crucial…
Circular extrachromosomal DNA promotes tumor heterogeneity in high-risk medulloblastoma
Statistical methods Statistical tests, test statistics and P values are indicated where appropriate in the main text. Categorical associations were established using the chi-squared test of independence if n > 5 for all categories and Fisherʼs exact test otherwise. For both tests, the Python package scipy.stats v1.5.3 implementation was used64. Multiple hypothesis corrections…
The correlation between gut microbiome and atrial fibrillation: pathophysiology and therapeutic perspectives | Military Medical Research
Kim JE, Li B, Fei L, Horne R, Lee D, Loe AK, et al. Gut microbiota promotes stem cell differentiation through macrophage and mesenchymal niches in early postnatal development. Immunity. 2022;55(12):2300-17.e6. Article CAS PubMed Google Scholar Xiao W, Su J, Gao X, Yang H, Weng R, Ni W, et al….
Rapid in situ RNA imaging based on Cas12a thrusting strand displacement reaction | Nucleic Acids Research
Abstract RNA In situ imaging through DNA self-assembly is advantaged in illustrating its structures and functions with high-resolution, while the limited reaction efficiency and time-consuming operation hinder its clinical application. Here, we first proposed a new strand displacement reaction (SDR) model (Cas12a thrusting SDR, CtSDR), in which Cas12a could overcome…
An FcRn-targeted mucosal vaccine against SARS-CoV-2 infection and transmission
Mice and Golden Syrian hamsters All research experiments in this study comply with all relevant ethical regulations. The Institutional Animal Care and Use Committee approved the animal protocol at the University of Maryland (#R-APR-20-18 and #R-MAR-21-19). The animals were acclimatized at the animal facility for 4–6 days before initiating experiments….
The DNA-binding induced (de)AMPylation activity of a Coxiella burnetii Fic enzyme targets Histone H3
Statistics and reproducibility Anti-AMP IP for LC-MS/MS analysis was performed in three independent biological replicates (n = 3). TSA assay data represents technical triplicates. Time-resolved (de)AMPylation analyzed by LC-MS was performed as biological triplicates. CD measurements were performed in technical triplicates. Anisotropy data is shown as technical triplicates. Anisotropy measurements were repeated…
Recombinant Bacteroides thetaiotaomicron Probable rRNA maturation factor (BT_3283)
货号: CSB-YP804255BDU 规格: 来源: Yeast 其他: 货号: CSB-EP804255BDU 规格: 来源: E.coli 其他: 货号:…
Highly oxidized albumin is cleared by liver sinusoidal endothelial cells via the receptors stabilin-1 and -2
List of reagents Chloramine-T trihydrate (Merck, Darmstadt, Germany), Copper(II)Sulphate, Penicillin, Streptomycin, RPMI-1640 (Sigma-Aldrich, Burlington, MA, USA), RPMI-1640 (Euroclone, Pero, Italy), DMEM low glucose (Sigma-Aldrich), Trypsin–EDTA (Sigma-Aldrich), Blasticidin hydrochloride (Sigma-Aldrich), Trichloroacetic acid (Merck), Fetal Bovine Serum (Merck, Darmstadt, Germany), Iodine 125 Radionuclide (Perkin Elmer, Waltham, Mass., USA), Iodogen™ iodination reagent (Pierce,…
Both chimpanzee adenovirus-vectored and DNA vaccines induced long-term immunity against Nipah virus infection
Ethics statement The animal experiments were approved by the Animal Ethics Committee of the Wuhan Institute of Virology, Chinese Academy of Sciences (approval number: WIVA21202104). All animal experiments involving NiV were executed in the animal biosafety level 4 (ABSL-4) facility at the National Biosafety Laboratory (Wuhan), Chinese Academy of Sciences….
Survival analysis in R keeps censoring figure with no censored data.
I am following THIS guide on how to create a survival analysis in R. The instructions say, “Each row is a subject. An event (death) is indicated if the variable outcome is 1, in which case time indicates the time of death. An outcome of 0 refers to no event…
Epigenetic regulation during cancer transitions across 11 tumour types
Specimen data All samples for MM, OV, BRCA, PDAC, UCEC, CRC, CESC/AD, SKCM and HNSCC, as well as 2 NATs for GBM and 1 NAT for ccRCC were collected with informed consent in concordance with Institutional Review Board (IRB) approval at the School of Medicine at Washington University in St…
Mouse genome rewriting and tailoring of three important disease loci
BAC plasmids Human (CH17-203N23, CH17-449P15 and CH17-339H2) and mouse (RP23-51O13, RP23-75P20 and RP23-204E8) BACs were purchased from BACPAC Resources Center. Yeast–bacterium shuttle vector pLM1050 was modified by L. Mitchell based on a previous study28. pWZ699 was constructed by inserting a cassette containing pPGK-ΔTK-SV40pA transcription unit and the Actb gene into…
mRNA vaccine encoding Gn provides protection against severe fever with thrombocytopenia syndrome virus in mice
mRNA preparation The DNA template for the mRNA vaccine comprised a DNA fragment encoding the SFTSV Gn protein. The DNA templates were cloned into a plasmid vector with backbone sequence elements (T7 promoter, 5′- and 3′-UTR, 100 nucleotide poly(A) tail) interrupted by a linker (A50LA50, 20 nucleotides) to improve RNA…
BDQ resistance and molecular characterization of RR-TB
Enyu Tong,1,* Ying Zhou,1,* Zhengwei Liu,2 Yelei Zhu,2 Mingwu Zhang,2 Kunyang Wu,2 Junhang Pan,2 Jianmin Jiang1– 3 1School of Public Health, Hangzhou Normal University, Hangzhou, 311100, People’s Republic of China; 2Tuberculosis Control Department, Zhejiang Provincial Center for Disease Control and Prevention, Hangzhou, 310051, People’s Republic of China; 3Key Laboratory of…
Reduction of retinal ganglion cell death in mouse models of familial dysautonomia using AAV-mediated gene therapy and splicing modulators
Animals All mice were housed in the AALAC-accredited Animal Resource Center at Montana State University. All animal use protocols were approved by the Montana State University Institutional Animal Care and Use Committee (IACUC) (protocol No. 2020-15-IA; Bozeman, MT). The study fulfilled the ARRIVE guidelines, and all experiments complied with relevant…
Identification of CCZ1 as an essential lysosomal trafficking regulator in Marburg and Ebola virus infections
Cells and viruses Haploid mSCs AN3–12 are a feeder independent clonal derivative of HMSc2 isolated from mice oocyte and maintained at IMBA52. The AN3–12 library and knocked out cells used for the haploid screening was obtained from IMBA (Austria)14,52. AN3–12 cells were validated by STR analysis. Haploid mES cells were…
Structure of human TRPM8 channel
Reagents and chemicals pFastBac Dual His6 MBP N10 TEV LIC cloning vector (5 C) was purchased from Addgene (Addgene plasmid no. 30123; www.addgene.org/30123). All restriction enzymes, the pFastBac1 vector, and DH10Bac cells were purchased from Thermo Fisher Scientific. Sf9 cells were purchased from ATCC. Q5® High-Fidelity DNA Polymerase, the Monarch® DNA…
Chromatin compartmentalization regulates the response to DNA damage
Cell culture and treatments DIvA (AsiSI-ER-U2OS)19, AID-DIvA (AID-AsiSI-ER-U2OS)23 and 53BP1-GFP DIvA20 cells were developed in U2OS (ATCC HTB-96) cells and were previously described. Authentication of the U2OS cell line was performed by the provider ATCC, which uses morphology and short tandem repeat profiling to confirm the identity of human cell…
Inactive S. aureus Cas9 downregulates alpha-synuclein and reduces mtDNA damage and oxidative stress levels in human stem cell model of Parkinson’s disease
Cloning of CRISPR/sgRNA lentiviral constructs with fluorescent selection markers A tetracycline-inducible promoter (TRE3G) was used to control the expression of S. aureus dCas9 in a lentiviral vector. To facilitate selection of cells by FACS, pHR:TRE3G-SadCas9-2xKRAB-p2a-tdTomato (Addgene ID #209298) was subcloned from a pHR:TRE3G-SadCas9-2xKRAB-p2a-zeo (A gift from Professor Stanley Qi), where zeocin…
Genomic Characteristics of Carbapenem-Resistant Klebsiella pneumoniae
Introduction Klebsiella pneumoniae (K. pneumoniae), which belongs to the family Enterobacteriaceae, is a common nosocomial pathogen that causes a variety of human infections, including bloodstream infection, respiratory tract infection, urinary tract infection, and abdominal infection.1,2 Carbapenems are generally considered to be a last choice for the treatment of multi-drug resistant…
Interaction of Mesonivirus and Negevirus with arboviruses and the RNAi response in Culex tarsalis-derived cells | Parasites & Vectors
Cell lines Hsu and CT cells originally derived from Culex quinquefasciatus and Culex tarsalis, respectively, were used as experimental material (gifts from R. van Rij, Radboud University, Nijmegen, the Netherlands). These cell lines are known to harbor several MSV infections [7]. Aag2 and C6/36 cells were received from A. Kohl…
LINC01343 targets miR-526b-5p to facilitate the development of hepatocellular carcinoma by upregulating ROBO1
Tissue samples All the enrolled patients provided written informed consent. Patients who had undergone chemotherapy or radiotherapy before surgery were excluded from the study. Surgical procedures were performed to obtain 40 pairs of HCC tumor and adjacent non-tumor tissue specimens from patients admitted to the First Affiliated Hospital of Chengdu…
Genome Engineering Oxford (GEO) Facility
We also are actively involved in developing new gene editing methods and provide opportunities for collaborations on more extensive or challenging uses of CRISPR techniques such as development of new construct designs, application to whole organisms, development and use of pooled genome-wide CRISPR libraries. Services/Equipment available Engineered mammalian and bacterial…
Apoptotic stress causes mtDNA release during senescence and drives the SASP
Cell culture and treatments Human embryonic lung MRC5 fibroblasts (ATCC) and IMR90 fibroblasts (ATCC) were grown in Dulbecco’s modified Eagle’s medium (Sigma-Aldrich, D5796) supplemented with 10% heat-inactivated fetal bovine serum (FBS), 100 U ml−1 penicillin, 100 μg ml−1 streptomycin and 2 mM l-glutamine and maintained at 37 °C under 5% CO2. MRC5 fibroblasts were cultured in…
Immunoglobulin superfamily member 3 is required for the vagal neural crest cell migration and enteric neuronal network organization
Immunohistochemistry The tissue sections were processed using the TSA kit (Perkin Elmer) according to the manufacturer’s instructions. The deparaffinization of fixed tissues were performed by immersing the slides in tissue clear and rehydrated with graded ethanol (100–70%) and water. The heat-induced antigen retrieval was performed using citrate buffer (1.8 mM…
In planta expression of human polyQ-expanded huntingtin fragment reveals mechanisms to prevent disease-related protein aggregation
Plant material and constructs A. thaliana lines of Columbia-0 (Col-0) ecotype were employed, including WT, toc159 (refs. 58,59) and cct8-2 (ref. 60). Seeds underwent surface sterilization and germination on solid 0.5× Murashige and Skoog (M&S) medium with vitamins, lacking sucrose. Plants were incubated in a growth chamber at 22 °C under…
Expression of a recombinant endolysin from bacteriophage CAP 10-3 with lytic activity against Cutibacterium acnes
Dessinioti, C. & Katsambas, A. Propionibacterium acnes and antimicrobial resistance in acne. Clin. Dermatol. 35, 163–167. doi.org/10.1016/J.clindermatol.2016.10.008 (2017). Article PubMed Google Scholar Fitz-Gibbon, S. et al. Propionibacterium acnes strain populations in the human skin microbiome associated with acne. J. Invest. Dermatol. 133, 2152–2160. doi.org/10.1038/jid.2013.21 (2013). Article CAS PubMed PubMed Central …
Genomic insights into Bacillus subtilis MBB3B9 mediated aluminium stress mitigation for enhanced rice growth
Bian, M. et al. Development of gene-specific markers for acid soil/aluminium tolerance in barley (Hordeum vulgare L.). Mol. Breed. 32, 155–164 (2013). Article CAS Google Scholar Kochian, L. V., Piñeros, M. A., Liu, J. & Magalhaes, J. V. Plant adaptation to acid soils: The molecular basis for crop aluminum resistance….
Examining the genesis of CRISPR’s molecular scissors
Pervasive distribution of IS200/IS605-like elements in G. stearothermophilus. a, Schematic of a representative IS200/IS605 element. tnpA encodes a Y1-family tyrosine transposase that is responsible for DNA excision and integration; tnpB/iscB encodes RNA-guided nucleases whose biological roles are unknown. b, Bottom, schematic of a non-autonomous IS element encoding TnpB and its…
Genomic Analysis of CR-hvKP in a Chinese Tertiary Hospital
Introduction Klebsiella pneumoniae (KP) is a common opportunistic pathogen in clinical practice, capable of causing infectious diseases in the urinary tract, respiratory tract, blood, and soft tissues.1 Hypervirulent Klebsiella pneumoniae (hvKp) has a higher virulence than KP2 and can cause severe infectious diseases, including pyogenic liver abscess, endophthalmitis, and meningitis.3,4…
Comparative analysis of bioinformatics tools to characterize SARS-CoV-2 subgenomic RNAs
Introduction The coronavirus infectious diseases-2019 worldwide pandemic caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is currently ongoing after being emerged from Wuhan (China) in December 2019 (Ecdc, 2020; Zhu et al, 2020; Spiteri et al, 2020). Up to now, SARS-CoV-2 has infected more than 750 million people and…
Broad sialic acid usage amongst species D human adenovirus
Generation and purification of recombinant fiber knob proteins pQE expression plasmids (Qiagen, Manchester, UK) containing DNA encoding species D fiber knob proteins were produced by TWIST Biosciences (San Francisco, USA). The vectors were transformed by heat shock into competent SG13009 Escherichia coli (E.coli) bacteria containing a pREP4–4 plasmid. Heat shock…
Acquisition of fluoroquinolone resistance in E. coli
1Division of Clinical Infectious Diseases & Chemotherapy, Tohoku Medical and Pharmaceutical University, Sendai, Japan; 2Department of Pharmacy, Japan Labor Health and Welfare Organization Tohoku Rosai Hospital, Sendai, Japan Correspondence: Takumi Sato, Division of Clinical Infectious Diseases & Chemotherapy, Tohoku Medical and Pharmaceutical University, 4-4-1, Komatsushima, Aoba-ku, Sendai, 981-8558, Japan, Tel…
capTEs enables locus-specific dissection of transcriptional outputs from reference and nonreference transposable elements
Cell culture All cell lines were grown in 6 cm dishes at 37 °C in a 5% CO2 incubator. The K562, MDA-MB-231 and HCT 116 cell lines were cultured in high-glucose DMEM supplemented with 10% fetal bovine serum and 1% penicillin-streptomycin antibiotics (pen-strep). NCM460 cells were cultured in RPMI 1640 medium supplemented…
Rapid Detection of blaKPC in Carbapenem-Resistant Enterobacterales Based on CRISPR/Cas13a
Materials and Instruments Clinical Strains and Sputum Samples Collection A total of 117 bacterial strains were isolated and collected from sputum samples of individual patients with suspected intestinal infection treated at our hospital during the first half of 2021. Carbapenemase production was confirmed by the Modified Carbapenem Inactivation Method (mCIM)…
Ecophysiology and interactions of a taurine-respiring bacterium in the mouse gut
A taurine-respiring bacterium isolated from the murine gut represents a new genus of the family Desulfovibrionaceae Strain LT0009 was enriched from mouse cecum and colon using an anoxic, non-reducing, modified Desulfovibrio medium with L-lactate and pyruvate as electron donors (and carbon source) and taurine as the sulfite donor for sulfite…
Viruses | Free Full-Text | Optimizing the Conditions for Whole-Genome Sequencing of Avian Reoviruses
1. Introduction Avian orthoreoviruses (avian reoviruses, ARVs) are a persistent challenge to poultry producers in the United States and globally. Infection with ARVs has been associated with a variety of symptoms and syndromes in commercial poultry, including tenosynovitis/viral arthritis, enteric symptoms such as watery diarrhea, respiratory symptoms, myocarditis, viral hepatitis,…
A new fluorescence-based approach for direct visualization of coat formation during sporulation in Bacillus cereus
TMR-star and MTG bind to the forespore surface and their signal localization reflects the pattern of coat deposition We previously used the self-labelling SNAP-tag to determine the localization of early assembling exosporium proteins during B. cereus sporulation17. Indeed, SNAP-protein fusions can be localized by fluorescence microscopy upon addition of a…
Temas para TCC Resistance to Linezolid: Characterization of Mutations in rRNA and Comparison of Their Occurrences in Vancomycin-Resistant Enterococci
Resistance to Linezolid: Characterization of Mutations in rRNA and Comparison of Their Occurrences in Vancomycin-Resistant Enterococci AUTOR(ES) Prystowsky, Jason FONTE American Society for Microbiology RESUMO To assess the potential for emergence of resistance during the use of linezolid, we tested 10 clinical isolates of vancomycin-resistant enterococci (VRE) (four Enterococcus faecalis,…
Morphological and physiological adaptations of psychrophilic Pseudarthrobacter psychrotolerans YJ56 under temperature stress
Bacterial isolation from Antarctic soil Soil samples were collected from the Cape Burk area (1: 74° 45′ 19.6″ S, 136° 48′ 44.6″ W)51. The soil (1 g) was inoculated in a Reasoner’s 2A (R2A) liquid (composed of 0.5% proteose peptone, 0.05% casamino acid, 0.05% yeast extract, 0.05% dextrose, 0.05% soluble starch,…
The Chromosomal Virulence D | IDR
Introduction The clinical symptoms and signs of pulmonary disease caused by nontuberculous mycobacteria (NTM) are very similar to tuberculosis, so differentiating the two becomes extremely challenging. Both diseases manifest cough, expectoration, hemoptysis, chest pain, and other respiratory symptoms, as well as systemic symptoms, such as fatigue and anorexia.1–3 Furthermore, NTM…
One high quality genome and two transcriptome datasets for new species of Mantamonas, a deep-branching eukaryote clade
Isolation and microscopy of Mantamonas sphyraenae sp. nov Mantamonas sphyraenae SRT-306 was collected on 26 Sep. 2013 from the surface of a barracuda caught in a lagoon on Iriomote Island, Taketomi, Okinawa Prefecture, Japan (24° 23′ 36.762″ N, 123° 45′ 22.572″ E). It was isolated manually from the rough sample…
Conjugation of microbial-derived gold nanoparticles to different types of nucleic acids: evaluation of transfection efficiency
AuNP production Fusarium oxysporum was used for the extracellular production of AuNP. The fungus was acquired from the Culture Collection of Fungi of the Charles University (CCF 3732, Czech Republic). After cultivation in Sabouraud Dextrose Broth (SDB, Sigma Aldrich, Prague, Czech Republic) at 30 °C and 150 rpm for 4 days, the supernatant…
CRISPR imaging reveals chromatin fluctuation at the centromere region related to cellular senescence
Plasmid construction For CRISPR imaging, an sgRNA expression vector, pLH-spsgRNA 2 plasmid (Addgene, Watertown, MA, USA), was amplified, and the oligonucleotides targeting α-satellite DNA repeats (sgRNA1-5)33,49 and 5S rDNA34 were inserted into the BbsI site as previously described16. The sgRNA sequences were as follows: sgRNA1: 5′-CTTTTTGTGGAATTTGCAAG-3′ sgRNA2: 5′-GACTTGAAACACTCTTTTTG-3′ sgRNA3: 5′-TGGAGATTTCAGCCGCTTTG-3′…
SUMOylation of SMAD4 by PIAS1 in Conjunction with Vimentin Upregulation Promotes Migration Potential in Non-Small Cell Lung Cancer
1. Introduction Lung cancer is the most common cancer globally, with 2.21 million cases in 2020 and over 1.8 million deaths from lung cancer, making it the most common cause of cancer-related deaths [1]. In China, the estimated age-standardized incidence rate of lung cancer is as high as 34.8 per…
Gut microbial carbohydrate metabolism contributes to insulin resistance
Study participants and data collection The study participants were recruited from 2014 to 2016 during their annual health check-ups at the University of Tokyo Hospital. The individuals included both male and female Japanese individuals aged from 20 to 75 years. The exclusion criteria were as follows: established diagnosis of diabetes,…
Emergence of ST248Pasteur-ST1068Oxford | IDR
Acinetobacter pittii is a crucial pathogen that mainly causes healthcare-associated infections, including pneumonia, bloodstream infections (BSIs) and urinary tract infections (UTIs).1 Carbapenem-resistant A. pittii (CRAP) poses a huge challenge in clinical settings. CRAP is increasingly recognized as a significant pathogen of hospital-acquired infections in the hospital.2 Carbapenem resistance in A….
The Biostar Herald for Monday, August 28, 2023
The Biostar Herald publishes user submitted links of bioinformatics relevance. It aims to provide a summary of interesting and relevant information you may have missed. You too can submit links here. This edition of the Herald was brought to you by contribution from Istvan Albert, and was edited by Istvan…
CHO cell CRISPR Engineering for enhancing HIV-1 vaccine efficacy
Sponsored Content by MaxCyte, Inc.Aug 24 2023Reviewed by Maria Osipova The first trial to show that vaccination could confer HIV protection was the RV144 HIV vaccine trial. This trial reported an efficacy of 31%. A key element of the RV144 trial was gp120, generated in Chinese Hamster Ovary (CHO) cells…
Recombinant Methanothermobacter thermautotrophicus Fibrillarin-like rRNA/tRNA 2′-O-methyltransferase(flpA)
货号: CSB-YP515979MSR 规格: 来源: Yeast 其他: 货号: CSB-EP515979MSR 规格: 来源: E.coli 其他: 货号:…
Recombinant Meyerozyma guilliermondii Pre-rRNA-processing protein IPI1(IPI1)
货号: CSB-YP398517MTM 规格: 来源: Yeast 其他: 货号: CSB-EP398517MTM 规格: 来源: E.coli 其他: 货号:…
Scalp infection caused by Mycobacterium abscessus
1School of Clinical Medicine, Weifang Medical University, Weifang, People’s Republic of China; 2Laboratory of Medical Mycology, Jining No. 1 People’s Hospital, Jining, People’s Republic of China; 3Department of Microbiology & Immunology, Georgetown University Medical Center, Washington, DC, USA; 4Department of Medical Cosmetology, Jining No. 1 People’s Hospital, Jining, People’s Republic…
Cancers | Free Full-Text | High G9a Expression in DLBCL and Its Inhibition by Niclosamide to Induce Autophagy as a Therapeutic Approach
1. Introduction Diffuse large B-cell lymphoma (DLBCL) is an aggressive malignant lymphoid neoplasm, which accounts for 40% of all malignant lymphoid neoplasms and includes morphologically and molecularly heterogeneous disease subtypes [1,2]. According to gene expression profiling, different forms of DLBCL are subdivided into germinal center B-cell-like (GCB-DLBCL) and activated B-cell-like…
MenT nucleotidyltransferase toxins extend tRNA acceptor stems and can be inhibited by asymmetrical antitoxin binding
MenAT1 sequence analysis Analysis of gene neighbourhoods for rv0078B (menA1) was performed using default settings in FlaGs (www.webflags.se/). Output sequences for MenA1 and cognate MenT1 homologues were then used to perform sequence alignments using MUSCLE (www.ebi.ac.uk/Tools/msa/muscle/), then formatted in Jalview (www.jalview.org/), sorting by pairwise alignment. Residues of interest were then…
AAV-mediated base-editing therapy ameliorates the disease phenotypes in a mouse model of retinitis pigmentosa
Ethics statement This study did not involve human data. All animal procedures were approved by the Institutional Review Board of Shanghai Jiao Tong University and were conducted in accordance with the Association for Research in Vision and Ophthalmology Statement for the Use of Animals in Ophthalmic and Visual Research. Animals…
Multidrug-resistant Providencia rettgeri strain YQ150713.
Introduction Providencia rettgeri is a Gram-negative opportunistic human pathogenic bacterium that belongs to the Proteae bacteria. It is a pathogen commonly found in the hospitals that mainly cause urinary tract infections, pneumonia, bacteremia, neonatal sepsis, eye infections, meningitis, endocarditis, and diarrhea.1–3 The pathogen Providencia rettgeri demonstrates inherent resistance to numerous…
Recombinant Lactobacillus brevis Probable rRNA maturation factor (LVIS_0749)
货号: CSB-YP312854LAL 规格: 来源: Yeast 其他: 货号: CSB-EP312854LAL 规格: 来源: E.coli 其他: 货号:…
Imaging-based study demonstrates how the DEK nanoscale distribution differentially correlates with epigenetic marks in a breast cancer model
Cell culture Mammary epithelial, non-transformed MCF10A cells (ATCC CRL-10317) were grown in DMEM:F-12 (Dulbecco’s Modified Eagle Medium:Nutrient Mixture F-12) (1:1) medium (Gibco, 11330057) supplemented with 5% Horse Serum (HS), 2 mM l-glutamine and 1% penicillin/streptomycin (Sigma-Aldrich, G6784), 10 µg/ml insulin (Sigma-Aldrich, I9278) and 0.5 µg/ml hydrocortisone (Sigma-Aldrich, H0888). Human Epidermal Growth Factor (hEGF,…
Recombinant Gibberella zeae ATP-dependent rRNA helicase RRP3(RRP3)
货号: CSB-YP670139GGB 规格: 来源: Yeast 其他: 货号: CSB-EP670139GGB 规格: 来源: E.coli 其他: 货号:…
Recombinant Methanococcus maripaludis Fibrillarin-like rRNA/tRNA 2′-O-methyltransferase(flpA)
货号: CSB-YP434290MNQ 规格: 来源: Yeast 其他: 货号: CSB-EP434290MNQ 规格: 来源: E.coli 其他: 货号:…
Whole genomic analysis of Mycobacterium tuberculosis
Introduction Tuberculosis (TB), caused by etiological Mycobacterium tuberculosis (Mtb), remains a public health worldwide and the leading cause of death from a single infectious agent until the COVID-19 pandemic.1 Previous studies revealed that M. tuberculosis originated in Africa and spread with human migration worldwide, it developed to a contemporary phylogeny…
Proteogenomic analysis reveals RNA as a source for tumor-agnostic neoantigen identification
Human study The study was approved by the institutional review boards (Ethics Commission of the Medical Faculty of Technical University Munich (protocol 193/17S) and Ethics Committee of the Medical Faculty of Heidelberg University (protocol S-206/2011)) and all patients provided written informed consent under these protocols. The study was conducted in…
An electrogenetic interface to program mammalian gene expression by direct current
Key plasmids used in this study Construction details for all vectors are provided in Supplementary Table 1. Key plasmids included (1) a constitutive KEAP1 expression vector (pJH1004, PhCMV-KEAP1-pA) and the corresponding vector containing inverted terminal repeats (ITRs) of Sleeping Beauty (SB) transposase (pJH1054, ITR-PhCMV-KEAP1-P2A-BlastR-pA-ITR) for stable cell line generation; (2)…
Antiviral HIV-1 SERINC restriction factors disrupt virus membrane asymmetry
Constructs and expression of human SERINC proteins SERINC3 The gene that encodes human SERINC3 (Genscript-OHu02717D) was inserted upstream of a thrombin protease cleavable linker (LVPRGS) and Strep II epitope (WSHPQFEK) in a modified pFastBac vector by In-Fusion cloning (Clontech). Mutagenesis using the QuikChange Site-Directed Mutagenesis kit (Agilent) was performed to…
Cancers | Free Full-Text | A Novel Bispecific Antibody for EpCAM-Directed Inhibition of the CD73/Adenosine Immune Checkpoint in Ovarian Cancer
1. Introduction Typically, tumors in patients with ovarian cancer (OC) are often diagnosed at an advanced stage [1]. Currently, cytoreductive therapy with platinum-based chemotherapy is the mainstay of disease management, to which the majority of patients with OC initially respond. Unfortunately, 70% of these patients eventually develop refractory recurrences [2]….
HIV-1 promotes ubiquitination of the amyloidogenic C-terminal fragment of APP to support viral replication
Ethics Statement LifeSource Buffy Coat blood obtained from New York blood center was used for isolation of peripheral blood mononuclear cells using Ficoll-Plaque (GE). Ethical approval for the study was obtained from the Institutional Review Board of Northwestern University and all donors provided their written, informed consent. Cell cultures HEK293T…
Roving methyltransferases generate a mosaic epigenetic landscape and influence evolution in Bacteroides fragilis group
Isolate storage, growth, and identification Historical BFG isolates originally cultured from clinical material between 1973 and 2018 were stored either lyophilized or frozen in skim milk media at the National Institutes of Health Clinical Center Department of Laboratory Medicine (Bethesda, MD). Isolates were de-identified and metadata including year and source/site…
Influence of mobile genetic elements and insertion sequences in long- and short-term adaptive processes of Acidithiobacillus ferrooxidans strains
Moya-Beltrán, A. et al. Genomic evolution of the class Acidithiobacillia: Deep-branching Proteobacteria living in extreme acidic conditions. ISME J. 15, 3221–3238 (2021). Article PubMed PubMed Central Google Scholar Nuñez, H. et al. Molecular systematics of the genus Acidithiobacillus: Insights into the phylogenetic structure and diversification of the taxon. Front. Microbiol….
Global Bioinformatics Market is expected to grow at a healthy
Bioinformatics is an interdisciplinary segment that connects computer technology, mathematics, physics, and biology. It is a segment of science that develops software tools and methods to manage and analyze data for modern biology and medicine. It aids researchers to analyze & extract valuable information from vast amounts of medical data…
Mitochondrial DNA is a target of HBV integration
Patients Tumour tissues from seven HBsAg-positive patients (6 men, 1 woman; mean age 66.7 ± 8 years) with HBV-related HCC and paired adjacent non-tumour tissues from six of them were studied. The clinical, histological, and virologic characteristics of the patients are summarised in Table 1. Two normal liver samples from HBV-negative patients who…