1,733,271 results match your criteria dna g+c

Prognostic value of tumor mutational burden in patients with oral cavity squamous cell carcinoma treated with upfront surgery.

ESMO Open 2021 Jun 9;6(4):100178. Epub 2021 Jun 9.

Department of Drug Development and Innovation (D3i), Institut Curie, Paris and Saint-Cloud, France. Electronic address:

Background: Oral cavity is the most prevalent site of head and neck squamous cell carcinomas (HNSCCs). Most often diagnosed at a locally advanced stage, treatment is multimodal with surgery as the cornerstone. The aim of this study was to explore the molecular landscape of a homogenous cohort of oral cavity squamous cell carcinomas (OCSCCs), and to assess the prognostic value of tumor mutational burden (TMB), along with classical molecular and clinical parameters. Read More

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OXTR moderates adverse childhood experiences on depressive symptoms among incarcerated males.

J Psychiatr Res 2021 May 23;140:221-227. Epub 2021 May 23.

Psychology Program, School of Social Sciences, Nanyang Technological University, Singapore, Singapore; Lee Kong Chian School of Medicine, Nanyang Technological University, Singapore; Department of Psychology and Cognitive Science, University of Trento, Rovereto, Italy.

Objectives: This study examined the moderation of an oxytocin receptor (OXTR) gene in the link between childhood adversity and depressive symptoms among incarcerated males.

Methods: Questionnaires about adverse childhood experiences and depressive symptoms, as well as genomic DNA from blood were collected among 608 incarcerated males (M = 32.4 years, SD = 9. Read More

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Genome-wide DNA methylation patterns associated with general psychopathology in children.

J Psychiatr Res 2021 May 28;140:214-220. Epub 2021 May 28.

Department of Child and Adolescent Psychiatry/ Psychology, Erasmus MC University Medical Center Rotterdam, Rotterdam, the Netherlands; Department of Epidemiology, Erasmus MC University Medical Center Rotterdam, Rotterdam, the Netherlands; Molecular Epidemiology, Department of Biomedical Data Sciences, Leiden University Medical Center, Leiden, the Netherlands.

Psychiatric symptoms are interrelated and found to be largely captured by a general psychopathology factor (GPF). Although epigenetic mechanisms, such as DNA methylation (DNAm), have been linked to individual psychiatric outcomes, associations with GPF remain unclear. Using data from 440 children aged 10 years participating in the Generation R Study, we examined the associations of DNAm with both general and specific (internalizing, externalizing) factors of psychopathology. Read More

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Corrigendum to 'The nonalcoholic fatty liver disease-like phenotype and lowered serum VLDL are associated with decreased expression and DNA hypermethylation of hepatic ApoB in male offspring of ApoE deficient mothers fed a with Western diet' [Journal of Nutritional Biochemistry 77 (2020) 108319].

J Nutr Biochem 2021 Jun 9;96:108766. Epub 2021 Jun 9.

Department of Biochemical Science and Technology, National Taiwan University, Taipei, Taiwan; Research Center for Development Biology and Regenerative Medicine, National Taiwan University, Taipei, Taiwan. Electronic address:

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Loss of ATRX confers DNA repair defects and PARP inhibitor sensitivity.

Transl Oncol 2021 Jun 9;14(9):101147. Epub 2021 Jun 9.

Department of Therapeutic Radiology, Yale University School of Medicine, New Haven, CT 06511, USA. Electronic address:

Alpha Thalassemia/Mental Retardation Syndrome X-Linked (ATRX) is mutated frequently in gliomas and represents a potential target for cancer therapies. ATRX is known to function as a histone chaperone that helps incorporate histone variant, H3.3, into the genome. Read More

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Dysfunctional mitochondria as critical players in the inflammation of autoimmune diseases: Potential role in Sjögren's syndrome.

Autoimmun Rev 2021 Jun 9:102867. Epub 2021 Jun 9.

Programa de Biología Celular y Molecular, Instituto de Ciencias Biomédicas, Facultad de Medicina, Universidad de Chile, Santiago, Chile. Electronic address:

Relevant reviews highlight the association between dysfunctional mitochondria and inflammation, but few studies address the contribution of mitochondria and mitochondria-endoplasmic reticulum (ER) contact sites (MERCs) to cellular homeostasis and inflammatory signaling. The present review outlines the important role of mitochondria in cellular homeostasis and how dysfunctional mitochondrion can release and misplace mitochondrial components (cardiolipin, mitochondrial DNA (mtDNA), and mitochondrial formylated peptides) through multiple mechanisms. These components can act as damage-associated molecular patterns (DAMPs) and induce an inflammatory response via pattern recognition receptors (PRRs). Read More

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Correlation between the prognosis of chronic hepatitis B treated with interferon and the gene polymorphism of CGRP and its receptor.

Infect Genet Evol 2021 Jun 9:104968. Epub 2021 Jun 9.

Department of Epidemiology and Statistics, School of Public Health, Hebei Medical University, Hebei Key Laboratory of Environment and Human health, Shi Jiazhuang, PR China. Electronic address:

Objective: To investigate the relationship of the polymorphism of two gene loci (CGRP rs155209 and RAMP1 rs3754701) with the prognosis of interferon therapy for chronic hepatitis B (CHB) by case-control study.

Materials And Methods: 317 CHB patients using interferon for the first time alone were collected in northern China and peripheral blood samples were obtained, the single-nucleotide polymorphisms (SNPs) in CGRP rs155209 and RAMP1 rs3754701 were genotyped by MALDI-TOF-MS. Univariate and multivariate logistic regression methods were used to assess the correlation between the prognosis of CHB treated with interferon and the gene polymorphism of CGRP rs155209 and RAMP1 rs3754701. Read More

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Immunological abnormalities in patients with early-onset ataxia with ocular motor apraxia and hypoalbuminemia.

Clin Immunol 2021 Jun 9:108776. Epub 2021 Jun 9.

Department of Pediatrics, National Defense Medical College, Tokorozawa, Japan.

Early-onset ataxia with ocular motor apraxia and hypoalbuminemia (EAOH) is a neurodegenerative disorder caused by mutation in the aprataxin (APTX)-coding gene APTX, which is involved in DNA single-strand break repair (SSBR). The neurological abnormalities associated with EAOH are similar to those observed in patients with ataxia-telangiectasia. However, the immunological abnormalities in patients with EAOH have not been described. Read More

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HAART exacerbates testicular damage and impaired spermatogenesis in anti-Koch-treated rats via dysregulation of lactate transport and glutathione content.

Reprod Toxicol 2021 Jun 9;103:96-107. Epub 2021 Jun 9.

Reproductive Biology and Toxicology Research Laboratories, Oasis of Grace Hospital, Osogbo, Osun State, Nigeria; Department of Morbid Anatomy, Obafemi Awolowo University Teaching Hospital Complex (OAUTHC), Ile-Ife, Osun State, Nigeria.

Highly active anti-retroviral therapy (HAART) is an effective anti-retroviral cocktail. Similarly, anti-Koch is highly potent against Mycobacterium tuberculosis. However, these drugs have been shown to impair male fertility. Read More

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Engineering of single-domain antibodies for next generation snakebite antivenoms.

Int J Biol Macromol 2021 Jun 9. Epub 2021 Jun 9.

Plataforma Bi-Institucional de Medicina Translacional (Fiocruz-USP), Ribeirão Preto, São Paulo, Brazil.

Given the magnitude of the global snakebite crisis, strategies to ensure the quality of antivenom, as well as the availability and sustainability of its supply are under development by several research groups. Recombinant DNA technology has allowed the engineering of monoclonal antibodies and recombinant fragments as alternatives to conventional antivenoms. Besides higher therapeutic efficacy, with broad neutralization capacity against local and systemic toxicity, novel antivenoms have to ensure safety and cost-effectivity. Read More

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Time delay during the proton tunneling in the base pairs of the DNA double helix.

Prog Biophys Mol Biol 2021 Jun 9. Epub 2021 Jun 9.

Sabancı University, Faculty of Engineering and Natural Sciences, 34956 Tuzla, İstanbul, Turkey. Electronic address:

DNA undergoes spontaneous point mutations, which are believed to be central to the evolution of the organisms and which are thought to occur by tautomerization of the canonical Guanine-Cytosine (G-C) base pair into non-canonical G*-C* base pair via the double proton tunneling. In the present work, we close a gap in the literature by computing the time delay during the proton tunneling. Our results, based on the well-known dwell time and our model of the entropic time, range from femtoseconds to picoseconds, and completely agree with the time scales of the structural changes in molecules (mutation processes not the complete replication processes). Read More

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p53 regulated senescence mechanism and role of its modulators in age-related disorders.

Biochem Pharmacol 2021 Jun 9:114651. Epub 2021 Jun 9.

Department of Medicinal Chemistry, National Institute of Pharmaceutical Education and Research- Raebareli, New Transit Campus, Bijnor-Sisendi Road, Sarojini Nagar, Near CRPF Base Camp, Lucknow Uttar Pradesh, 226301, India. Electronic address:

Multiple co-morbidities are associated with age, and there is a need for the broad-spectrum drug to prevent multiple regimens that may cause an adverse effect in the geriatric population. Cellular senescence is a primary mechanism for ageing in various tissues. p53, a tumor suppressor protein, plays a significant role in forming DNA damage foci and post different stress responses. Read More

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Recombination efficiency measurement by real-time PCR: a strategy to evaluate ParA-mediated minicircle production.

Anal Biochem 2021 Jun 9:114285. Epub 2021 Jun 9.

iBB- Institute for Bioengineering and Biosciences, Department of Bioengineering, Instituto Superior Técnico, Universidade de Lisboa, Av. Rovisco Pais, 1049-001 Lisboa, Portugal. Electronic address:

Minicircles (MCs) are DNA molecules that are produced in Escherichia coli by replicating a parental plasmid (PP) and inducing its site-specific intramolecular recombination into miniplasmid (MP; containing the prokaryotic backbone) and MC molecules (comprised by the eukaryotic cassette). The determination of the recombination efficiency and the monitoring of PP, MC and MP species during processing and in the final product are critical aspects of MC manufacturing. This work describes a real-time PCR method for the specific identification of PP, MP or MC that uses sets of primers specific for each species. Read More

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Association between ocular toxoplasmosis and APEX1 and MYD88 polymorphism.

Acta Trop 2021 Jun 9:106006. Epub 2021 Jun 9.

Laboratory of Biology of Malaria and Toxoplasmosis, Department of Parasitology, Center for Biosciences, Federal University of Rio Grande do Norte, Natal, Rio Grande do Norte, Brazil. Electronic address:

Ocular toxoplasmosis (OT) is the most common form of posterior uveitis, and in some countries, it is the most frequent cause of visual impairment. Studies demonstrate that the polymorphism in genes involved with the immune response can be related both to the occurrence and to the recurrence of OT. Thus, the present study aimed to analyze the association between OT and the polymorphism of the APEX1 (rs1130409) and MyD88 (rs7744) genes. Read More

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Epigenetic clock and methylation studies in elephants.

Aging Cell 2021 Jun 12:e13414. Epub 2021 Jun 12.

Department of Biostatistics, Fielding School of Public Health, University of California, Los Angeles, CA, USA.

Age-associated DNA-methylation profiles have been used successfully to develop highly accurate biomarkers of age ("epigenetic clocks") in humans, mice, dogs, and other species. Here we present epigenetic clocks for African and Asian elephants. These clocks were developed using novel DNA methylation profiles of 140 elephant blood samples of known age, at loci that are highly conserved between mammalian species, using a custom Infinium array (HorvathMammalMethylChip40). Read More

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mTRIP, an Imaging Tool to Investigate Mitochondrial DNA Dynamics in Physiology and Disease at the Single-Cell Resolution.

Methods Mol Biol 2021 ;2275:247-263

Institut Pasteur, Stem Cells and Development, Department of Developmental and Stem Cell Biology, CNRS UMR3738 Team "Stability of Nuclear and Mitochondrial DNA", Paris, France.

Mitochondrial physiology and metabolism are closely linked to replication and transcription of mitochondrial DNA (mtDNA). However, the characterization of mtDNA processing is poorly defined at the single-cell level. We developed mTRIP (mitochondrial Transcription and Replication Imaging Protocol), an imaging approach based on modified fluorescence in situ hybridization (FISH), which simultaneously reveals mitochondrial structures committed to mtDNA initiation of replication as well as the mitochondrial RNA (mtRNA) content at the single-cell level in human cells. Read More

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January 2021

Targeting the Mitochondrial Genome Via a MITO-Porter : Evaluation of mtDNA and mtRNA Levels and Mitochondrial Function.

Methods Mol Biol 2021 ;2275:227-245

Laboratory for Molecular Design of Pharmaceutics, Faculty of Pharmaceutical Sciences, Hokkaido University, Sapporo, Japan.

Genetic mutations and defects in mitochondrial DNA (mtDNA) are associated with certain types of mitochondrial dysfunctions, ultimately resulting in the emergence of a variety of human diseases. To achieve an effective mitochondrial gene therapy, it will be necessary to deliver therapeutic agents to the innermost mitochondrial space (the mitochondrial matrix), which contains the mtDNA pool. We recently developed a MITO-Porter, a liposome-based nanocarrier that delivers cargo to mitochondria via a membrane-fusion mechanism. Read More

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January 2021

Sequence-Specific Control of Mitochondrial Gene Transcription Using Programmable Synthetic Gene Switches Called MITO-PIPs.

Methods Mol Biol 2021 ;2275:217-225

Institute of Integrated Cell Material Sciences (WPI-iCeMS), Kyoto University Institute for Advanced Study, Kyoto, Japan.

Mitochondria possess multiple copies of mitochondrial DNA (mtDNA) that encode 37 genes and their transcription and replication get controlled by unique molecular codes different from that in the nuclear DNA. The mtDNA has been gaining increased attention as one of the critical therapeutic targets as mutations in them impair the function of mitochondria and cause mitochondrial diseases like MELAS. In this chapter, we describe artificial control of mitochondrial transcription based on mtDNA sequence information with a new type of compounds termed MITO-PIPs, which encompasses two domains: pyrrole-imidazole polyamide as DNA recognition domain and mitochondrial penetrating peptide as the mitochondria-targeting domain. Read More

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January 2021

DQAsomes as the Prototype of Mitochondria-Targeted Pharmaceutical Nanocarriers : An Update.

Methods Mol Biol 2021 ;2275:13-25

Massachusetts College of Pharmacy and Health Sciences, Boston, MA, USA.

DQAsomes (dequalinium-based liposome-like vesicles) are the prototype for all mitochondria-targeted vesicular pharmaceutical nanocarrier systems. First described in 1998 in a paper which has been cited as of May 2020 over 150 times, DQAsomes have been successfully explored for the delivery of DNA and low-molecular weight molecules to mitochondria within living mammalian cells. Moreover, they also appear to have triggered the design and development of a large variety of similar mitochondria-targeted nanocarriers . Read More

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January 2021

Description of the Metacercaria of Cardiocephaloides sp. (Digenea, Diplostomoidea), Newly Recorded from the Brain of Gangetic Leaffish (Nandus nandus) and Its Genetic Characterization in India.

Acta Parasitol 2021 Jun 12. Epub 2021 Jun 12.

Molecular Taxonomy Laboratory, Department of Zoology, Chaudhary Charan Singh University, Meerut, 250004, UP, India.

Purpose: Cardiocephaloides comprises strigeid trematodes that represent a small genus. In this study, metacercaria identified as Cardiocephaloides sp. was collected from the Gangetic leaffish Nandus nandus from the Ganga River at Bairaj, Bijnor (29º01'N, 77º45'E) in the state of Uttar Pradesh (U. Read More

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Mitochondrial DNA Heteroplasmy as an Informational Reservoir Dynamically Linked to Metabolic and Immunological Processes Associated with COVID-19 Neurological Disorders.

Cell Mol Neurobiol 2021 Jun 12. Epub 2021 Jun 12.

Center for Cognitive and Molecular Neuroscience, First Faculty of Medicine, Charles University in Prague, Prague, Czech Republic.

Mitochondrial DNA (mtDNA) heteroplasmy is the dynamically determined co-expression of wild type (WT) inherited polymorphisms and collective time-dependent somatic mutations within individual mtDNA genomes. The temporal expression and distribution of cell-specific and tissue-specific mtDNA heteroplasmy in healthy individuals may be functionally associated with intracellular mitochondrial signaling pathways and nuclear DNA gene expression. The maintenance of endogenously regulated tissue-specific copy numbers of heteroplasmic mtDNA may represent a sensitive biomarker of homeostasis of mitochondrial dynamics, metabolic integrity, and immune competence. Read More

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Ecophysiological differentiation between life stages in filmy ferns (Hymenophyllaceae).

J Plant Res 2021 Jun 12. Epub 2021 Jun 12.

Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA, 02138, USA.

Desiccation tolerance was a key trait that allowed plants to colonize land. However, little is known about the transition from desiccation tolerant non-vascular plants to desiccation sensitive vascular ones. Filmy ferns (Hymenophyllaceae) represent a useful system to investigate how water-stress strategies differ between non-vascular and vascular stages within a single organism because they have vascularized sporophytes and nonvascular gametophytes that are each capable of varying degrees of desiccation tolerance. Read More

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The prognostic significance of Flap Endonuclease 1 (FEN1) in breast ductal carcinoma in situ.

Breast Cancer Res Treat 2021 Jun 12. Epub 2021 Jun 12.

Nottingham Breast Cancer Research Centre, Division of Cancer and Stem Cells, School of Medicine, The University of Nottingham, Nottingham, UK.

Background: Impaired DNA repair mechanism is one of the cancer hallmarks. Flap Endonuclease 1 (FEN1) is essential for genomic integrity. FEN1 has key roles during base excision repair (BER) and replication. Read More

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Multiplex CRISPR-Cas9 editing of DNA methyltransferases in rice uncovers a class of non-CG methylation specific for GC-rich regions.

Plant Cell 2021 Jun 12. Epub 2021 Jun 12.

School of Life Sciences & Institute of Plant and Food Science & Key Laboratory of Molecular Design for Plant Cell Factory of Guangdong Higher Education Institutes, Southern University of Science and Technology, Shenzhen, Guangdong 518055, China.

DNA methylation in the non-CG context is widespread in the plant kingdom and abundant in mammalian tissues such as the brain and pluripotent cells. Non-CG methylation in Arabidopsis thaliana is coordinately regulated by DOMAINS REARRANGED METHYLTRANSFERASE (DRM) and CHROMOMETHYLASE (CMT) proteins but has yet to be systematically studied in major crops due to difficulties in obtaining genetic materials. Here, utilizing the highly efficient multiplex CRISPR-Cas9 genome-editing system, we created single- and multiple-knockout mutants for all nine DNA methyltransferases in rice (Oryza sativa) and profiled their whole-genome methylation status at single-nucleotide resolution. Read More

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Methylation-eQTL Analysis in Cancer Research.

Bioinformatics 2021 Jun 12. Epub 2021 Jun 12.

Department of Biostatistics, Epidemiology and Informatics, The University of Pennsylvania, Philadelphia, PA 19104-6021, USA.

Motivation: DNA methylation is a key epigenetic factor regulating gene expression. While promoter methylation has been well studied, recent publications have revealed that functionally important methylation also occurs in intergenic and distal regions, and varies across genes and tissue types. Given the growing importance of inter-platform integrative genomic analyses, there is an urgent need to develop methods to discover and characterize gene-level relationships between methylation and expression. Read More

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Research advances on epigenetics and cancer metabolism.

Zhejiang Da Xue Xue Bao Yi Xue Ban 2021 Feb;50(1):1-16

School of Medicine,Tsinghua University,Beijing 100084,China.

Epigenetics concerns gene regulatory mechanisms beyond DNA sequence,such as DNA methylation,histone modification,chromatin remodeling,and non-coding RNA. Epigenetic mechanisms play a key role in development,cell fate decision and tumorigenesis. Chromatin modifications and its high order structure across our genome are major forms of epigenetic information,and its establishment and maintenance are closely related to cell metabolism. Read More

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February 2021

Advances on molecular mechanism of hepatitis B virus-induced hepatocellular carcinoma.

Zhejiang Da Xue Xue Bao Yi Xue Ban 2021 Feb;50(1):113-122

College of Pharmaceutical Sciences,Inner Mongolia Medical University,Hohhot 010000,China; 2. School of Medicine,Zhejiang University,Hangzhou 310058,China.

The pathogenesis of hepatitis B virus (HBV)-associated hepatocellular carcinoma (HCC) is complicated with the crosstalk of multiple factors and the multi-step processes. The main mechanisms underlying the HBV-induced HCC include:①integration of HBV DNA into the host hepatocyte genome to alter gene function at the insertion site,resulting in host genome instability and expression of carcinogenic truncated proteins;②HBV gene mutations at S,C,and X coding regions in the genome;③HBV X gene-encoded HBx protein activates proto-oncogenes and inhibits tumor suppressor genes,leading to the HCC occurrence. In this article,the recent research progress on the molecular mechanism of HBV-induced HCC is comprehensively reviewed,so as to provide insights into the prevention,early prediction and postoperative adjuvant therapy of HCC. Read More

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February 2021

Spatially Selective Imaging of Mitochondrial MicroRNAs via Optically Programmable Strand Displacement Reactions.

Angew Chem Int Ed Engl 2021 Jun 12. Epub 2021 Jun 12.

National Center for Nanoscience and Technology, CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, 11 ZhongGuanCun BeiYiTiao, Haidian District, 100190, Beijing, CHINA.

MicroRNA (miRNA) functions are tightly regulated by their sub-compartmental location in living cells, and the ability to imaging of mitochondrial miRNAs (mitomiRs) is essential for understanding of the related pathological processes. However, most existing DNA-based methods could not be used for this purpose. Here, we report the development of a DNA nanoreporter technology for imaging of mitomiRs in living cells through near-infrared (NIR) light-controlled DNA strand displacement reactions. Read More

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The Dryas iulia genome supports multiple gains of a W chromosome from a B chromosome in butterflies.

Genome Biol Evol 2021 Jun 12. Epub 2021 Jun 12.

School of Biological Sciences, University of Bristol, Bristol, UK.

In butterflies and moths, which exhibit highly variable sex determination mechanisms, the homogametic Z chromosome is deeply conserved and is featured in many genome assemblies. The evolution and origin of the female W sex chromosome, however, remains mostly unknown. Previous studies have proposed that a ZZ/Z0 sex determination system is ancestral to Lepidoptera, and that W chromosomes may originate from sex-linked B chromosomes. Read More

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