600,350 results match your criteria nucleotides length


The level of secondary messengers and the redox state of NAD/NADH are associated with sperm quality in infertility.

J Reprod Immunol 2021 Sep 10;148:103383. Epub 2021 Sep 10.

I.M. Sechenov First Moscow State Medical University (Sechenov University), Moscow, Russia; Research Institute of Human Morphology, Moscow, Russia. Electronic address:

In order to explore the interrelation of Calcium, cAMP, and redox state of pyridine nucleotides in seminal plasma and ejaculate quality in cases of idiopathic infertility we conducted an evaluation of 170 infertile males and 46 fertile males aged 20-43 years. Sperm analysis was undertaken according to WHO protocol. The content of Calcium in the seminal plasma was detected using optical emission spectrometry, cAMP levels were determined via enzymatic immunoassay. Read More

View Article and Full-Text PDF
September 2021

Approaches to oocyte meiotic arrest in vitro and impact on oocyte developmental competence.

Biol Reprod 2021 Sep 17. Epub 2021 Sep 17.

Fertility & Research Centre, School of Women's & Children's Health, University of New South Wales Sydney, NSW 2052, Australia.

Oocytes are maintained in a state of meiotic arrest following the first meiotic division until ovulation is triggered. Within the antral follicle, meiotic arrest is actively suppressed in a process facilitated by the cyclic nucleotides cGMP and cAMP. If removed from this inhibitory follicular environment and cultured in vitro, mammalian oocytes undergo spontaneous meiotic resumption in the absence of the usual stimulatory follicular stimuli, leading to asynchronicity with oocyte cytoplasmic maturation and lower developmental competence. Read More

View Article and Full-Text PDF
September 2021

PiRNA pathway in the cardiovascular system: a novel regulator of cardiac differentiation, repair and regeneration.

J Mol Med (Berl) 2021 Sep 17. Epub 2021 Sep 17.

Xiamen Key Laboratory of Cardiovascular Disease, Xiamen Cardiovascular Hospital Xiamen University, Xiamen, China.

Piwi-interacting RNAs (piRNAs) are a novel group of small non-coding RNA molecules with lengths of 21-35 nucleotides, first identified from the germline. PiRNAs and their associated PIWI clade Argonaute proteins constitute a key part of the piRNA pathway, with the best-known biological function to silence transposable elements in germ cells. The piRNA pathway, in fact, is not exclusive to the germline. Read More

View Article and Full-Text PDF
September 2021

Complete chloroplast genome of a rare and endangered plant species : genomic features and phylogenetic relationship within Orchidaceae.

Mitochondrial DNA B Resour 2021 9;6(10):2872-2879. Epub 2021 Sep 9.

College of Life Sciences, Taizhou University, Taizhou, PR China.

is a rare and endangered plant species with extremely small populations. The complete chloroplast (cp) genome of was assembled, its structural organization was described and comparative genomic analyses was carried out. The cp genome of is 143,547 bp in length, with a GC content of 37. Read More

View Article and Full-Text PDF
September 2021

Immune Modulatory Short Noncoding RNAs Targeting the Glioblastoma Microenvironment.

Front Oncol 2021 31;11:682129. Epub 2021 Aug 31.

Department of Neurological Surgery, Feinberg School of Medicine, Northwestern University, Chicago, IL, United States.

Glioblastomas are heterogeneous and have a poor prognosis. Glioblastoma cells interact with their neighbors to form a tumor-permissive and immunosuppressive microenvironment. Short noncoding RNAs are relevant mediators of the dynamic crosstalk among cancer, stromal, and immune cells in establishing the glioblastoma microenvironment. Read More

View Article and Full-Text PDF

MicroRNAs in Woody Plants.

Front Plant Sci 2021 31;12:686831. Epub 2021 Aug 31.

College of Forestry, Henan Agricultural University, Zhengzhou, China.

MicroRNAs (miRNAs) are small (∼21-nucleotides) non-coding RNAs found in plant and animals. MiRNAs function as critical post-transcriptional regulators of gene expression by binding to complementary sequences in their target mRNAs, leading to mRNA destabilization and translational inhibition. Plant miRNAs have some distinct characteristics compared to their animal counterparts, including greater evolutionary conservation and unique miRNA processing methods. Read More

View Article and Full-Text PDF

The medaka fish transposable element is in an early stage of decay: identification of a nonautonomous copy.

Genome 2021 Sep 16. Epub 2021 Sep 16.

Kyoto University, 12918, Primate Research Institute, Inuyama, Japan;

The majority of DNA-based transposable elements comprise autonomous and nonautonomous copies, or only nonautonomous copies, where the autonomous copy contains an intact gene for a transposase protein and the nonautonomous copy does not. Even if autonomous copies coexist, they are generally less frequent. The element of medaka fish is one of the few elements for which a nonautonomous copy has not yet been found. Read More

View Article and Full-Text PDF
September 2021

Long Non-Coding RNAs as Potential Diagnostic and Prognostic Biomarkers in Breast Cancer: Progress and Prospects.

Front Oncol 2021 30;11:710538. Epub 2021 Aug 30.

Department of Pharmacy, Shandong Provincial Hospital Affiliated to Shandong First Medical University, Jinan, China.

Breast cancer is the most common malignancy among women worldwide, excluding non-melanoma skin cancer. It is now well understood that breast cancer is a heterogeneous entity that exhibits distinctive histological and biological features, treatment responses and prognostic patterns. Therefore, the identification of novel ideal diagnostic and prognostic biomarkers is of utmost importance. Read More

View Article and Full-Text PDF

Identifying transcript 5' capped ends in .

PeerJ 2021 25;9:e11983. Epub 2021 Aug 25.

National Biobank of Thailand (NBT), National Science and Technology Development Agency (NSTDA), Pathum Thani, Thailand.

Background: The genome of the human malaria parasite is poorly annotated, in particular, the 5' capped ends of its mRNA transcripts. New approaches are needed to fully catalog transcripts for understanding gene function and regulation in this organism.

Methods: We developed a transcriptomic method based on next-generation sequencing of complementary DNA (cDNA) enriched for full-length fragments using eIF4E, a 5' cap-binding protein, and an unenriched control. Read More

View Article and Full-Text PDF

Nucleotide Metabolism Behind Epigenetics.

Front Endocrinol (Lausanne) 2021 30;12:731648. Epub 2021 Aug 30.

Workman Lab Stowers Institute for Medical Research, Kansas City, MO, United States.

The mechanisms of epigenetic gene regulation-histone modifications, chromatin remodeling, DNA methylation, and noncoding RNA-use metabolites as enzymatic cofactors and substrates in reactions that allow chromatin formation, nucleotide biogenesis, transcription, RNA processing, and translation. Gene expression responds to demands from cellular processes that use specific metabolites and alters or maintains cellular metabolic status. However, the roles of metabolites-particularly nucleotides-as regulatory molecules in epigenetic regulation and biological processes remain largely unknown. Read More

View Article and Full-Text PDF

Involvement of -Acting Elements in Molecular Regulation of JH-Mediated Vitellogenin Gene 2 of Female .

Front Physiol 2021 30;12:723072. Epub 2021 Aug 30.

Department of Agrobioscience, Graduate School of Agricultural Science, Kobe University, Hyogo, Japan.

Vitellogenins (Vgs) are yolk protein precursors that are regulated by juvenile hormone (JH) and/or 20-hydroxyecdysone (20E) in insects. JH acts as the principal gonadotropin that stimulates vitellogenesis in hemimetabolous insects. In this study, we cloned and characterized the () promoter. Read More

View Article and Full-Text PDF

Single-molecule kinetic locking allows fluorescence-free quantification of protein/nucleic-acid binding.

Commun Biol 2021 Sep 15;4(1):1083. Epub 2021 Sep 15.

Laboratoire de physique de l'Ecole Normale Supérieure (LPENS), ENS, Université PSL, CNRS, Sorbonne Université, Université de Paris, Paris, France.

Fluorescence-free micro-manipulation of nucleic acids (NA) allows the functional characterization of DNA/RNA processing proteins, without the interference of labels, but currently fails to detect and quantify their binding. To overcome this limitation, we developed a method based on single-molecule force spectroscopy, called kinetic locking, that allows a direct in vitro visualization of protein binding while avoiding any kind of chemical disturbance of the protein's natural function. We validate kinetic locking by measuring accurately the hybridization energy of ultrashort nucleotides (5, 6, 7 bases) and use it to measure the dynamical interactions of Escherichia coli/E. Read More

View Article and Full-Text PDF
September 2021

Genome characterization of fig umbra-like virus.

Virus Genes 2021 Sep 15. Epub 2021 Sep 15.

Department of Plant and Environmental Protection Sciences, University of Hawaii, Honolulu, HI, USA.

The complete genome of a new umbra-like virus from edible fig (Ficus carica) was identified by high-throughput sequencing. Based on its similarity to umbra-like virus genome sequences available in GenBank, the proposed name of this new virus is "fig umbra-like virus" (FULV). The genome of full-length FULV-1 consists of 3049 nucleotides organized into three open reading frames (ORFs). Read More

View Article and Full-Text PDF
September 2021

Unveiling the Microscopic Mechanism of Current Variation in the Sensing Region of the MspA Nanopore for DNA Sequencing.

J Phys Chem Lett 2021 Sep 15:9132-9141. Epub 2021 Sep 15.

BGI-ShenZhen, Shenzhen 518103, China.

Different nucleotides generate specific ionic currents that discriminate between the nucleotides while they are passing through the nanopore constriction. MspA is a commonly used nanopore for DNA sequencing. However, the reasons of the current variation remain ambiguous. Read More

View Article and Full-Text PDF
September 2021

Electrical polarity-dependent gating and a unique subconductance of RyR2 induced by S-adenosyl methionine via the ATP binding site.

J Biochem 2021 Sep 15. Epub 2021 Sep 15.

School of Biological Sciences, Georgia Institute of Technology, Atlanta, Georgia 30332.

S-Adenosyl-l-methionine (SAM) was used to probe the functional effects exerted via the RyR2 adenine nucleotide binding site. Single channel experiments revealed that SAM applied to the cytoplasmic face of RyR2 had complex voltage dependent effects on channel gating and conductance. At positive transmembrane holding potentials, SAM caused a striking reduction in channel openings and a reduced channel conductance. Read More

View Article and Full-Text PDF
September 2021

Polymorphisms of F2 (G20210A), F5 (G1691A), F 7 (G10976A), F 13(G13T), FGB, ITGA2, ITGB3, PAI-I genes and its association with thrombotic complications in patients suffering from Takayasu aortoarteritis of Urals population.

Turk Kardiyol Dern Ars 2021 Sep;49(6):448-455

Department of internal medicine, Ural State Medical University.

Objective: Cardiovascular complications, especially thrombotic events, are characteristic for Takayasu arteritis (TA). These events significantly deteriorate the patients' quality of life and cause disability and preterm death. Coagulation factor II (F2, G20210A), coagulation factor V (F5, G1691A, Leiden), coagulation factor VII (F7, G10976A), coagulation factor XIII (F13, G13T), fibrinogen (FGB), platelet alpha subunit of transmembrane receptor for collagens and related proteins (ITGA2), platelet glycoprotein (ITGB3), and plasminogen activator inhibitor-1 (PAI-I) gene polymorphisms coexist with TA, and their pathophysiologic interaction needs to be studied. Read More

View Article and Full-Text PDF
September 2021

An electrochemiluminescence resonance energy transfer biosensor for the detection of circulating tumor DNA from blood plasma.

iScience 2021 Sep 21;24(9):103019. Epub 2021 Aug 21.

School of Chemistry, Chemical Engineering, and Life Science, Wuhan University of Technology, Wuhan 430070, PR China.

A liquid biopsy is a noninvasive approach for detecting double-stranded circulating tumor DNA (ctDNA) of 90-320 nucleotides in blood plasma from patients with cancer. Most techniques employed for ctDNA detection are time consuming and require expensive DNA purification kits. Electrochemiluminescence resonance energy transfer (ECL-RET) biosensors exhibit high sensitivity, a wide response range, and are promising for straightforward sensing applications. Read More

View Article and Full-Text PDF
September 2021

Sulfuretin exerts diversified functions in the processing of amyloid precursor protein.

Genes Dis 2021 Nov 21;8(6):867-881. Epub 2020 Nov 21.

Department of Neurology, The First Affiliated Hospital of Chongqing Medical University, Chongqing Key Laboratory of Neurology, 1 Youyi Road, Chongqing, 400016, PR China.

Sulfuretin is a flavonoid that protects cell from damage induced by reactive oxygen species and inflammation. In this study, we investigated the role of sulfuretin in the processing of amyloid precursor protein (APP), in association with the two catalytic enzymes the α-secretase a disintegrin and metalloproteinase (ADAM10), and the beta-site APP cleaving enzyme 1 (BACE1) that play important roles in the generation of β amyloid protein (Aβ) in Alzheimer's disease (AD). We found that sulfuretin increased the levels of the immature but not the mature form of ADAM10 protein. Read More

View Article and Full-Text PDF
November 2021

Effective tools for RNA-derived therapeutics: siRNA interference or miRNA mimicry.

Theranostics 2021 11;11(18):8771-8796. Epub 2021 Aug 11.

Cardiovascular Research Institute, Yong Loo Lin School of Medicine, National University of Singapore, 117599 Singapore.

The approval of the first small interfering RNA (siRNA) drug Patisiran by FDA in 2018 marks a new era of RNA interference (RNAi) therapeutics. MicroRNAs (miRNA), an important post-transcriptional gene regulator, are also the subject of both basic research and clinical trials. Both siRNA and miRNA mimics are ~21 nucleotides RNA duplexes inducing mRNA silencing. Read More

View Article and Full-Text PDF

Novel cryo-EM structure of an ADP-bound GroEL-GroES complex.

Sci Rep 2021 Sep 14;11(1):18241. Epub 2021 Sep 14.

Faculty of Biology, Lomonosov Moscow State University, Moscow, Russia.

The GroEL-GroES chaperonin complex is a bacterial protein folding system, functioning in an ATP-dependent manner. Upon ATP binding and hydrolysis, it undergoes multiple stages linked to substrate protein binding, folding and release. Structural methods helped to reveal several conformational states and provide more information about the chaperonin functional cycle. Read More

View Article and Full-Text PDF
September 2021

Synthesis, structural, pharmacological and molecular docking simulations studies of Schiff base transition metal complexes procured from acetylacetonyl-4-iminoantipyrine and tyrosine.

Nucleosides Nucleotides Nucleic Acids 2021 Sep 14:1-25. Epub 2021 Sep 14.

Department of Chemistry, S. F. R. College for women, Sivakasi, Tamilnadu, India.

Schiff base complexes of Cu(II), Ni(II), Co(II), VO(II) and Zn(II) ions have been synthesized by condensation of acetylaceto-4-iminoantipyrine and tyrosine. The structural characterization of compounds has been investigated using elemental analysis, molar conductance and magnetic susceptibility measurements, UV-Vis., FT-IR, ESI-mass, H-NMR, C-NMR, ESR spectroscopy, cyclic voltammetry, XRD and SEM techniques. Read More

View Article and Full-Text PDF
September 2021

Long non-coding RNAs as new players in bladder cancer: Lessons from pre-clinical and clinical studies.

Life Sci 2021 Sep 11:119948. Epub 2021 Sep 11.

Department of Food Hygiene and Quality Control, Division of Epidemiology, Faculty of Veterinary Medicine, University of Tehran, Tehran, Iran.

The clinical management of bladder cancer (BC) has become an increasing challenge due to high incidence rate of BC, malignant behavior of cancer cells and drug resistance. The non-coding RNAs are considered as key factors involved in BC progression. The long non-coding RNAs (lncRNAs) are RNA molecules and do not encode proteins. Read More

View Article and Full-Text PDF
September 2021

Complete genome sequence of a novel varicosavirus infecting tall morning glory (Ipomoea purpurea).

Arch Virol 2021 Sep 14. Epub 2021 Sep 14.

Institute of Plant Protection, Henan Academy of Agricultural Sciences, Zhengzhou, 450002, China.

A novel varicosa-like virus was identified in a tall morning glory (Ipomoea purpurea) plant by high-throughput sequencing and tentatively named "morning glory varicosavirus" (MGVV). The complete genome of MGVV contains two segments of negative-sense single-stranded RNA of 6409 (RNA1) and 5288 (RNA2) nucleotides. RNA1 encodes a 224. Read More

View Article and Full-Text PDF
September 2021

Transcriptome-based identification of molecular markers related to the development and prognosis of Colon cancer.

Nucleosides Nucleotides Nucleic Acids 2021 Sep 14:1-11. Epub 2021 Sep 14.

Laboratory Department, Longyan people's Hospital, Fujian, China.

Colon cancer is one of the most common malignant tumors of the digestive system that seriously threaten human health and whose pathogenesis has not been completely elucidated. The purpose of this study was to investigate genes related to colon cancer and explore their potential values in colon cancer prognosis. Clinical information and transcriptome data of patients with colon cancer were obtained from UCSC Xena. Read More

View Article and Full-Text PDF
September 2021

Mass spectrometric analysis of mRNA 5' terminal modifications.

Methods Enzymol 2021 12;658:407-418. Epub 2021 Jul 12.

Department of Chemistry and Biotechnology, Graduate School of Engineering, The University of Tokyo, Tokyo, Japan. Electronic address:

The 7-methylguanosine (mG) cap structure, an essential epitranscriptomic mark at the 5' terminus of eukaryotic mRNAs, plays critical roles in mRNA stability, export, and translation. Following the cap structure, the first and second nucleotides at the 5' ends of mRNAs are frequently methylated to give more diverse modifications, especially in vertebrates. To understand the biological roles of the cap structures, precise analyses of the 5' terminal modifications are necessary. Read More

View Article and Full-Text PDF

Transient kinetic analysis for studying ionizations in RNA modification enzyme mechanisms.

Methods Enzymol 2021 3;658:251-275. Epub 2021 Aug 3.

Ohio State Biochemistry Program, Center for RNA Biology and Department of Chemistry and Biochemistry, The Ohio State University, Columbus, OH, United States. Electronic address:

The application of in vitro kinetic tools has the potential to provide important insight into the molecular mechanisms of RNA modification enzymes. Utilizing quantitative biochemical approaches can reveal information about enzyme preferences for specific substrates that are relevant for understanding modification reactions in their biological contexts. Moreover, kinetic tools have been powerfully applied to identify and characterize roles for specific amino acid residues in catalysis, which can be essential information for understanding the molecular basis for human disease, as well as for targeting these enzymes for potential therapeutic interventions. Read More

View Article and Full-Text PDF

Mapping of 7-methylguanosine (mG), 3-methylcytidine (mC), dihydrouridine (D) and 5-hydroxycytidine (hoC) RNA modifications by AlkAniline-Seq.

Methods Enzymol 2021 12;658:25-47. Epub 2021 Jul 12.

Université de Lorraine, CNRS, INSERM, UMS2008/US40 IBSLor, EpiRNA-Seq Core facility, Nancy, France; Université de Lorraine, CNRS, UMR7365 IMoPA, Nancy, France. Electronic address:

Precise and reliable mapping of modified nucleotides in RNA is a challenging task in epitranscriptomics analysis. Only deep sequencing-based methods are able to provide both, a single-nucleotide resolution and sufficient selectivity and sensitivity. A number of protocols employing specific chemical reagents to distinguish modified RNA nucleotides from canonical parental residues have already proven their performance. Read More

View Article and Full-Text PDF

Ultrasensitive and practical chemiluminescence sensing pesticide residue acetamiprid in agricultural products and environment: Combination of synergistically coupled co-amplifying signal and smart interface engineering.

Talanta 2021 Dec 18;235:122811. Epub 2021 Aug 18.

College of Geology and Environment, Xi'an University of Science and Technology, Xi'an, 710054, China.

Practical detection of single-component pesticide residue at ultra-low concentrations in agricultural products and environment is very important for assessment of environmental risks and protection of human health. Herein, a practical and highly sensitive chemiluminescence (CL) sensing acetamiprid in agricultural products and environmental media was constructed based on the synergistic co-catalysis of graphene oxide (GO)/gold nanoparticles (AuNPs) nanocomposites for luminol CL reaction and the smart interface engineering. ss-DNA could inhibit co-catalysis of GO/AuNPs for luminol CL reaction. Read More

View Article and Full-Text PDF
December 2021

A sensitive aptasensor based on rolling circle amplification and G-rich ssDNA/terbium (III) luminescence enhancement for ofloxacin detection in food.

Talanta 2021 Dec 4;235:122783. Epub 2021 Aug 4.

School of Food and Biological Engineering, Xihua University, Chengdu, 610039, China; Key Laboratory of Food Non Thermal Processing, Engineering Technology Research Center of Food Non Thermal Processing, Yibin Xihua University Research Institute, Yibin, Sichuan, 644004, China. Electronic address:

As the light-harvesting "antenna", G-rich oligonucleotides (such as the G-quadruplex) can interact with lanthanide (III) to bring a luminescent enhancement response. In this study, phenomenon of luminescent enhancement of G-triplex/terbium (III) (G3/Tb) and interaction between G3 and Tb were first reported and characterized. Based on G3/Tb luminescence, a label-free aptasensor for the detection of ofloxacin (OFL) residues in the food was developed. Read More

View Article and Full-Text PDF
December 2021

A bivalent binding aptamer-cDNA on MoS nanosheets based fluorescent aptasensor for detection of aflatoxin M.

Talanta 2021 Dec 4;235:122779. Epub 2021 Aug 4.

Targeted Drug Delivery Research Center, Pharmaceutical Technology Institute, Mashhad University of Medical Sciences, Mashhad, Iran. Electronic address:

To ensure the safety of dairy products, especially milk, and consequently protect human health, accurate and simple analytical techniques are highly necessary to determine the low concentration of aflatoxin M (AFM) as an important carcinogen. Herein, a novel, accurate and simple fluorescent aptasensor was designed for selective detection of AFM based on bivalent binding aptamer-cDNA (BBA-cDNA) structure. Moreover, MoS nanosheets (MoS NSs) were used as the fluorescent quencher and FAM-labeled complementary strand of aptamer (FAM-CS) was applied as a fluorescent probe. Read More

View Article and Full-Text PDF
December 2021