• In the absence of a finished quality genome sequence, insights into wheat genome structure and function have been accumulating through survey sequencing of individual chromosomes or chromosome-specific Bacterial Artificial Chromosome (BAC) libraries. (biomedcentral.com)
  • The sequencing of the zebra finch Taeniopygia guttata genome, in combination with targeted bacterial artificial chromosome (BAC) sequencing, has allowed us to characterize an MHC from a highly divergent and diverse avian lineage, the passerines. (biomedcentral.com)
  • Using whole-genome sequencing of OS, we found features of TP53 intron 1 rearrangements suggesting a unique mechanism correlated with transcription. (oncotarget.com)
  • While the identity in whole genome sequences between the mink- and dog-derived isolates is 99.9% (9365 SNVs), it is only 96.0% (362894 SNVs) between them and the fox-derived isolate. (cdc.gov)
  • TERRA associates with telomeric factors, but its precise function and mechanism of localization at telomeres had been largely unknown. (news-medical.net)
  • Cloning is generally first performed using Escherichia coli, and cloning vectors in E. coli include plasmids, bacteriophages (such as phage λ), cosmids, and bacterial artificial chromosomes (BACs). (wikipedia.org)
  • Cloning vectors in yeast include yeast artificial chromosomes (YACs). (wikipedia.org)
  • Fluorescence in situ hybridization and BAL31 nuclease digestion demonstrate that the (TTAGGG)n sequence occurs at the extreme termini of the chromosomes and also at an interstitial site. (westminster.ac.uk)
  • I also plan to build new, more efficient centromeres on human artificial chromosomes that can be used to better understand our genome and treat diseases. (glennislogsdon.com)
  • Keywords: telomere ageing shelterin repressor/activator protein 1 telomeric repeat factor CORIN 2 human being dermal fibroblasts oxidative tension Introduction Telomeres will be the specific nucleoprotein structures bought at the ends from the linear chromosomes INO-1001 of eukaryotic cells. (healthweeks.com)
  • Leading up to the publication of the advanced draft assembly of the Human Genome Sequence in 2001, attention switched to the innovative use of fully sequenced clones (principally Bacterial or P1 Artificial Chromosomes, BAC/PACs). (what-when-how.com)
  • The construction of BAC-based physical maps of individual chromosomes reduces the complexity of this allohexaploid genome, enables elucidation of gene space and evolutionary relationships, provides tools for map-based cloning, and serves as a framework for reference sequencing efforts. (biomedcentral.com)
  • The pseudoautosomal region 1 (PAR1) is a 2.7 Mb telomeric region of human sex chromosomes. (biomedcentral.com)
  • Sequence evolution of the pseudoautosomal region after the split between the avian and mammalian lineages, and leading up to extant mammalian species, involved the formation of several evolutionary strata mediated by recombination suppression between the sex chromosomes [ 18 , 19 , 20 ]. (biomedcentral.com)
  • YAC stands for yeast artificial chromosome, a vector (carrier) created and used in the laboratory to clone pieces of DNA. (definithing.com)
  • A YAC is constructed from the telomeric, centromeric, and replication origin sequences needed for replication in yeast cells. (definithing.com)
  • An 11-nt long G-rich DNA oligonucleotide, 5′-d(GTGTGGGTGTG)-3′, corresponding to the most abundant sequence motif in irregular telomeric DNA from Saccharomyces cerevisiae (yeast) has been shown to fold into a G-hairpin. (cobiss.net)
  • We have shown in the recent years how components of the yeast shelterin complex recruit accessory factors to promote efficient replication of the terminal sequences (Matmati et al. (crcm-marseille.fr)
  • Human telomere G-rich sequences have been shown to fold into diverse topologies in the presence of different cations, heterocyclic ligands, solution environments, and flanking sequences. (cobiss.net)
  • A large role suggested for G-quadruplexes with antiparallel basket-type topology stimulated our study by NMR, CD, and UV spectroscopy focused on oligonucleotide d[TAGGG(TTAGGG)2TTAGG] (designated as htel1-G23), a truncated version of the human telomere sequence forming hybrid-1 G-quadruplex. (cobiss.net)
  • To add multiple DNA repeats processively, telomerase relies on a unique mechanism whereby the template RNA and the telomeric DNA dissociate and realign reiteratively during the telomere repeat synthesis. (medium.com)
  • We investigate PAR1 evolution using population genomic datasets of extant humans, eight populations of great apes, and two archaic human genome sequences. (biomedcentral.com)
  • Functionally active DNA sequences are genes having a role in making proteins. (geneticeducation.co.in)
  • They can be found in telomeric proteins (6), in proteins of the extracellular matrix (7)and seemingly every macromolecular complex in between. (insulin-receptor.info)
  • The Wistar team demonstrated how TERRA mediates and partially stabilizes interactions between telomeric proteins that play essential roles in DNA replication. (news-medical.net)
  • In cell cultures, through RNA affinity purification, a process that isolates a single type of protein from a complex mixture, the team identified telomeric proteins (Shelterin components TRF1 and TRF2, and origin recognition complex subunits ORC1, ORC2, and ORC4) that bound to a TERRA oligonucleotide sequence but not to control oligonucleotides. (news-medical.net)
  • Using RNA chromatin immunoprecipitation assays (ChIPs), in which specific pieces of RNA are isolated from bound proteins, the team discovered that TERRA is bound by telomeric proteins indicating that TERRA was a component of the Shelterin complex. (news-medical.net)
  • DNA probes are short, single-stranded and labeled complementary oligonucleotide sequences used to hybridize with the target gene or sequence. (geneticeducation.co.in)
  • The telomerase enzyme binds to a special RNA molecule that contains a sequence complementary to the telomeric repeat. (medium.com)
  • Since we have shown that TMPyP4 binds to and stabilizes the G-quadruplex form of the complementary G-rich telomeric strand, this study raises the intriguing possibility that TMPyP4 can trigger the formation of unusual DNA structures in both strands of the telomeres, which may in turn explain the recently documented biological effects of TMPyP4 in cancer cells. (ox.ac.uk)
  • The six subunits of shelterin are telomeric repeat element 1 (TRF1) TRF2 TERF1-interacting nuclear element 2 (TIN2) safety of telomeres protein 1 (POT1) tripeptidyl peptidase 1 (TPP1) and repressor/activator protein 1 (RAP1). (healthweeks.com)
  • The TPP1-POT1 complex helps prevent a DNA damage repair response in the telomeric overhang site (17 18 TPP1 is also involved in linking POT1 to TIN2 (13 19 20 As TIN2 also binds to TRF1 and TRF2 it serves to connect all the DNA binding activities of shelterin (21-23). (healthweeks.com)
  • The structure reveals previously unknown principles of the folding of G-rich oligonucleotides that could be applied to the prediction of natural and/or the design of artificial recognition DNA elements. (cobiss.net)
  • We have studied the interactions of the cationic porphyrin 5,10,15,20-tetra-(N-methyl-4-pyridyl)porphine (TMPyP4) with the i-motif forms of several oligonucleotides containing telomeric sequences. (ox.ac.uk)
  • I'm an NIH K99-funded postdoctoral research fellow at the University of Washington School of Medicine, where I study the sequence, structure, and evolution of human centromeric regions in Dr. Evan Eichler 's laboratory. (glennislogsdon.com)
  • This hypomethylated region is centered within the 632 kbp centromeric chromatin domain, marked by the presence of the histone H3 variant, CENP-A. A pairwise sequence identity heat map reveals five major evolutionary layers and a mirror symmetry, characteristic of active sequence homogenization within the core of the HOR array. (glennislogsdon.com)
  • They are made of repetitive DNA sequences that are folded into a particular chromatin structure organized by specific DNA-protein interactions. (crcm-marseille.fr)
  • INTRODUCTION Linear motifs (LMs) are short elements embedded within larger protein Rabbit polyclonal to ZFP161 sequence segments that operate as sites of regulation (1C5). (insulin-receptor.info)
  • The bioinformatics problem is simple to state: LMs are too short (and the information content too poor) to be statistically significant in protein sequence searches. (insulin-receptor.info)
  • Conclusions: Our study demonstrates for thefirst time the expression of the full protein hTERT by AFCs and its release outside the cell mediated by EVs, indicating a new extra telomeric role for this protein. (123dok.org)
  • Large international consortiums such as ENCODE (The Encyclopedia of DNA Elements) has shown that up to 80% of the genome is transcribed while only 1,5% of it is protein -coding sequences [ 1 ]. (biomedcentral.com)
  • Despite recent evidence for Y chromosome introgression from humans into Neanderthals, we find that the Neanderthal PAR1 retained similarity to the Denisovan sequence. (biomedcentral.com)
  • Telomerase is a highly specialized reverse transcriptase that synthesizes telomeric DNA repeats at the ends of chromosome to confer cellular immortality. (medium.com)
  • For example, XIST (X-inactive specific transcript), one of the first described lncRNAs has a low level of sequence conservation, but a highly conserved function across placental mammals - inactivation of the X chromosome [ 5 ]. (biomedcentral.com)
  • The goals of this study were to 1) confirm the presence of WSSV-ORFs and TE-like repeats in the M. japonicus BAC clone, and compare it to other penaeids, and 2) classify the TE repeats in the complete WSSV sequences of Thailand, Taiwan and China isolates. (weebly.com)
  • RTE-like repeats were also identified in DNA and cDNA sequences of P. monodon , L. vannamei , L. stylirostris , M. japonicus, F. chinensis . (weebly.com)
  • The repeated sequence TTAGGG is present at all tested vertebrate telomeres including those of humans and at the telomeres of evolutionarily very distant organisms such as trypanosomes and slime moulds. (westminster.ac.uk)
  • G-rich sequences found in human genome include hexanucleotide repeat TTAGGG in telomeric ends. (cobiss.net)
  • Individual telomeres are comprised of many kilobases of 5′-TTAGGG-3′ sequences on what's known as the G-rich strand. (healthweeks.com)
  • Telomeres are known to be natural hard-to-replicate regions of the genome also defined as fragile sites because of the many obstacles that prevent the progression of replication forks at terminal sequences. (crcm-marseille.fr)
  • Despite the advent of next-generation sequencing technologies, the above mentioned attributes of the wheat genome have rendered the assembly of genomic sequences extremely difficult. (biomedcentral.com)
  • In order to better understand the genomic forces driving the evolution of Echinochloa species toward weed and crop characteristics, we assemble genomes of three Echinochloa species (allohexaploid E. crus-galli and E. colona , and allotetraploid E. oryzicola ) and re-sequence 737 accessions of barnyard grasses and millets from 16 rice-producing countries. (nature.com)
  • And, G-quadruplex formation on single stranded DNA is one of the ways that the telomeric DNA is protected from oxidative stress and from triggering the DNA-damage response (DDR), which causes cellular senescence. (anti-agingfirewalls.com)
  • Sequence homology searches using Blastn, Blastx and Blastp databases confirmed the presence of WSSV-ORFs in the M. japonicus BAC clone. (weebly.com)
  • In a comparative analysis of 127 newly sequenced and 95 published C.hominis genomes, IfA12G1R5 isolates from the United States place into three of the 14 clusters (Pop6, Pop13, and Pop14), indicating that this subtype has multiple ancestral origins. (cdc.gov)
  • A variety of simple repeat sequences that are distributed throughout the GENOME. (lookformedical.com)
  • Overall, barnyard grasses are excellent resources or systems for understanding plant tolerance to stress, due to their high adaptability to artificial and wild environments. (nature.com)
  • With bioinformatics studies we have shown that AGCGA rich sequences are found in regulatory regions of 39 human genes responsible for basic cellular processes that are related to neurological disorders, cancer and abnormalities in bone and cartilage development. (cobiss.net)
  • G-quadruplexes are secondary semi-stable folded structures found in our DNA and RNA which tend to assemble around guanine-rich sequences in the presence of cation molecules like potassium. (anti-agingfirewalls.com)
  • have recently sequenced the exome of affected cells in 12 PNH patients, and found a complex pattern of clonal evolution denoted by shared and distinct mutations in subclones, but not a single recurrent mutation besides PIGA [ 19 ]. (annexpublishers.co)
  • The high-quality physical map constructed in this study paves the way for the assembly of a reference sequence, from which breeding efforts will greatly benefit. (biomedcentral.com)
  • DNA probes carry the information which we use to study a target sequence or gene. (geneticeducation.co.in)
  • On the other hand, MALAT1 whose sequence is highly conserved between human and mice do not tend to be conserved on the functional level. (biomedcentral.com)
  • The molecular mechanisms underlying the formation of at least some of the cryptic rearrangements are being elucidated, some of which are thought to arise following unequal meiotic recombination mediated by the proximity of nonallelic segmental duplications particularly in the pericentromeric and telomeric regions (Emanuel and Shaikh, 2001). (what-when-how.com)
  • My research is on the translational application of next-generation sequencing technologies to breast cancer care: (1) the value of hereditary cancer genetic panel testing in clinical practice, (2) the mechanisms by which inherited genetic variants lead to breast cancer development, and (3) the analysis of somatic tumor sequencing data to inform understanding of breast tumorigenesis, metastasis, and development of resistance in response to therapeutics. (stanford.edu)
  • Christina Curtis, PhD, MSc is the RZ Cao Professor of Medicine, Genetics and Biomedical Data Science at Stanford University where she also serves as the Director of Artificial Intelligence and Cancer Genomics and of Breast Cancer Translational Research. (stanford.edu)
  • Christina Curtis, PhD, MSc is a Professor of Medicine, Genetics and Biomedical Data Science and an Endowed Scholar at Stanford University where she also serves as the Director of Artificial Intelligence and Cancer Genomics. (stanford.edu)
  • Telomeric C-rich strands can form a noncanonical intercalated DNA structure known as an i-motif. (ox.ac.uk)
  • LncRNA is less conserved than mRNA, but the sequence conservation in lncRNA is not always correlated to their function. (biomedcentral.com)
  • Hydrogen peroxide (H2O2) stress was used as an artificial means of ageing in the cells and this resulted in RAP1 levels reducing but the effect was only observed in the nuclear portion. (healthweeks.com)
  • The target DNA sequence can be inserted into the vector in a specific direction if so desired. (wikipedia.org)
  • These examples demonstrate that for lncRNA the sequence conservation is not always a predictor for functionality, and that functional conservation may have a more complex nature in lncRNAs. (biomedcentral.com)
  • The zebra finch MHC differs markedly from that of the chicken, the only other bird species with a complete genome sequence. (biomedcentral.com)
  • These are cell types that need to undergo many divisions, or, in the case of germ cells, give rise to a new organism with its telomeric "clock" 20). (medium.com)
  • To understand the genetic basis for host adaptation, we sequenced the genomes of C. canis from dogs, minks, and foxes and conducted a comparative genomics analysis. (cdc.gov)
  • We tested for the presence of this sequence in the genome of the crustacean isopod Asellus aquaticus. (westminster.ac.uk)
  • The negative supercoiling of DNA can induce sequence-dependent conformational changes that give rise to local DNA structures and alternative DNA conformations such as cruciforms, A-DNA, left-handed DNA (Z-DNA), triplexes, four-stranded DNA (quadruplexes) and others [ 2 , 3 ]( ref )" But we don't really get into most of those other types here. (anti-agingfirewalls.com)
  • DNA probes are single-stranded and labeled oligonucleotide sequences used in FISH, PCR and DNA sequencing. (geneticeducation.co.in)
  • Among these techniques, FISH, PCR, DNA sequencing and microarray have one common special requirement- DNA probes . (geneticeducation.co.in)
  • Hybridization probes are single-stranded oligo-sequences used in hybridization-based detection techniques like- FISH, in situ hybridization and microarray. (geneticeducation.co.in)