Genome-wide effects of DNA methyltransferase inhibitor on gene expression in double-stranded RNA transfected porcine PK15 cells.

Abstract:

:Double-stranded RNA (dsRNA) is produced in host cells during viral replication. The effects of DNA demethylation on gene expression in dsRNA transfected swine cells are unclear. The study aims to profile the transcriptome changes which are induced by DNA methyltransferase inhibitor (Aza-CdR) in porcine PK15 cells transfected with viral-like dsRNA (Poly(I:C)). A total of 44, 76 and 952 differentially expressed genes (DEGs) were detected in the cells treated by Poly(I:C) plus Aza-CdR (P+A), Poly(I:C) (P) or Aza-CdR (A) alone compared to the controls (C). Immune response-related pathways are observed in the comparison of A vs. C and P vs. C, and the genes in the pathways were recovered in the comparison of (P+A) vs. C. GO analysis indicated that Aza-CdR has negative regulatory effects on viral reproduction. The results suggest that the stimulant of Poly(I:C) could be regressed by Aza-CdR. These observations provide new insights into the epigenetic regulatory effects on viral replication.

journal_name

Genomics

journal_title

Genomics

authors

Wang X,Ao H,Zhai L,Bai L,He W,Yu Y,Wang C

doi

10.1016/j.ygeno.2013.10.005

subject

Has Abstract

pub_date

2014-05-01 00:00:00

pages

371-9

issue

5-6

eissn

0888-7543

issn

1089-8646

pii

S0888-7543(13)00200-0

journal_volume

103

pub_type

杂志文章

相关文献

GENOMICS文献大全
  • Molecular cloning and mapping of a human cDNA for cytosolic malate dehydrogenase (MDH1).

    abstract::We have isolated a human cDNA encoding a protein of 334 amino acids that shows 96% identity in amino acid sequence to murine cytosolic malate dehydrogenase. Heart and skeletal muscle expressed this gene most highly among the adult human tissues examined by Northern blot analysis. By fluorescence in situ hybridization,...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1996.0087

    authors: Tanaka T,Inazawa J,Nakamura Y

    更新日期:1996-02-15 00:00:00

  • A locus on distal chromosome 11 (ahl8) and its interaction with Cdh23 ahl underlie the early onset, age-related hearing loss of DBA/2J mice.

    abstract::The DBA/2J inbred strain of mice is used extensively in hearing research, yet little is known about the genetic basis for its early onset, progressive hearing loss. To map underlying genetic factors we analyzed recombinant inbred strains and linkage backcrosses. Analysis of 213 mice from 31 BXD recombinant inbred stra...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2008.06.007

    authors: Johnson KR,Longo-Guess C,Gagnon LH,Yu H,Zheng QY

    更新日期:2008-10-01 00:00:00

  • Isolation of human and murine homologues of the Drosophila minibrain gene: human homologue maps to 21q22.2 in the Down syndrome "critical region".

    abstract::The presence of an extra copy of human chromosome 21 (trisomy 21), especially region 21q22.2, causes many phenotypes in Down syndrome, including mental retardation. To study genes potentially responsible for some of these phenotypes, we cloned a human candidate gene (DYRK) from 21q22.2 and its murine counterpart (Dyrk...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1996.0636

    authors: Song WJ,Sternberg LR,Kasten-Sportès C,Keuren ML,Chung SH,Slack AC,Miller DE,Glover TW,Chiang PW,Lou L,Kurnit DM

    更新日期:1996-12-15 00:00:00

  • Isolation and regional mapping of NotI and EagI clones from human chromosome 21.

    abstract::NotI and EagI boundary libraries were constructed for human chromosome 21. One hundred forty-seven clones were isolated from the somatic cell hybrid 72532X-6 and localized using a hybrid mapping panel. After identification of those clones, which were isolated more than once, as well as those probes derived from a prev...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/0888-7543(91)90497-3

    authors: Gao JZ,Erickson P,Patterson D,Jones C,Drabkin H

    更新日期:1991-05-01 00:00:00

  • Core proteome mediated therapeutic target mining and multi-epitope vaccine design for Helicobacter pylori.

    abstract::Helicobacter pylori is a Gram-negative spiral-shaped bacterium that infects half of the human population worldwide and causes chronic inflammation. In the present study, we used the art of computational biology for therapeutic drug targets identification and a multi-epitope vaccine against multi-strains of H. pylori. ...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2020.06.026

    authors: Rahman N,Ajmal A,Ali F,Rastrelli L

    更新日期:2020-09-01 00:00:00

  • The human interleukin-11 receptor alpha gene (IL11RA): genomic organization and chromosome mapping.

    abstract::The high-affinity receptor for interleukin-11 (IL-11) is composed of two subunits, IL-11 receptor alpha chain (IL-11R alpha) and gp130, the common subunit of the interleukin-6 (IL-6), ciliary neurotrophic factor (CNTF), leukemia inhibitory factor, and oncostatin M receptors. The IL-11 receptor-specific alpha chain sha...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1996.0075

    authors: Chérel M,Sorel M,Apiou F,Lebeau B,Dubois S,Jacques Y,Minvielle S

    更新日期:1996-02-15 00:00:00

  • Whole metagenome sequencing of cecum microbiomes in Ethiopian indigenous chickens from two different altitudes reveals antibiotic resistance genes.

    abstract::We analyzed the whole genomes of cecum microbiomes of Ethiopian indigenous chickens from two distinct geographical zones: Afar (AF) district (Dulecha, 730 m above sea level) and Amhara (AM) district (Menz Gera Midir, 3300 m). Through metagenomic analysis we found that microbial populations were mainly dominated by Bac...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2019.11.011

    authors: Kumar H,Park W,Lim D,Srikanth K,Kim JM,Jia XZ,Han JL,Hanotte O,Park JE,Oyola SO

    更新日期:2020-03-01 00:00:00

  • Analysis of expressed sequence tags from a fetal human heart cDNA library.

    abstract::Single-pass sequencing of randomly selected cDNA clones to generate expressed sequence tags (ESTs) has been widely used to identify novel genes and to study gene expression in a variety of tissues. We have generated 2244 ESTs from a human fetal heart library (GenBank Accession Nos. R30692-30774 and R56965-58824), whic...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1995.9874

    authors: Hwang DM,Fung YW,Wang RX,Laurenssen CM,Ng SH,Lam WY,Tsui KW,Fung KP,Waye M,Lee CY

    更新日期:1995-11-20 00:00:00

  • EMR1, an unusual member in the family of hormone receptors with seven transmembrane segments.

    abstract::Proteins with seven transmembrane segments (7TM) define a superfamily of receptors (7TM receptors) sharing the same topology: an extracellular N-terminus, three extramembranous loops on either side of the plasma membrane, and a cytoplasmic C-terminal tail. Upon ligand binding, cytoplasmic portions of the activated rec...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/0888-7543(95)80218-b

    authors: Baud V,Chissoe SL,Viegas-Péquignot E,Diriong S,N'Guyen VC,Roe BA,Lipinski M

    更新日期:1995-03-20 00:00:00

  • ArchaeaTF: an integrated database of putative transcription factors in Archaea.

    abstract::Identification of all the transcription factors (TFs) encoded in a given genome is a prerequisite for understanding transcriptional regulatory networks. Archaea are prokaryotes that constitute one of the three main branches of organisms with an astounding diversity of habitats. In this report, we establish the Archaea...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2007.09.007

    authors: Wu J,Wang S,Bai J,Shi L,Li D,Xu Z,Niu Y,Lu J,Bao Q

    更新日期:2008-01-01 00:00:00

  • SNP identification, linkage disequilibrium, and haplotype analysis for a 200-kb genomic region in a Korean population.

    abstract::Understanding patterns of linkage disequilibrium (LD) across genomes may facilitate association mapping studies to localize genetic variants influencing complex diseases, a recognition that led to the International Haplotype Mapping Project (HapMap). Divergent patterns of haplotype frequency and LD across global popul...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2006.03.003

    authors: Kim KJ,Lee HJ,Park MH,Cha SH,Kim KS,Kim HT,Kimm K,Oh B,Lee JY

    更新日期:2006-11-01 00:00:00

  • DNA methylation in the IGF2 intragenic DMR is re-established in a sex-specific manner in bovine blastocysts after somatic cloning.

    abstract::The recent identification of an intragenic differentially methylated region (DMR) within the last exon of the bovine Insulin-like growth factor 2 (IGF2) gene provides a diagnostic tool for in-depth investigation of bovine imprinting and regulatory mechanisms which are active during embryo development. Here, we used bi...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2009.03.004

    authors: Gebert C,Wrenzycki C,Herrmann D,Gröger D,Thiel J,Reinhardt R,Lehrach H,Hajkova P,Lucas-Hahn A,Carnwath JW,Niemann H

    更新日期:2009-07-01 00:00:00

  • "Major minisatellite loci" detected by minisatellite clones 33.6 and 33.15 correspond to the cognate loci D1S111 and D7S437.

    abstract::G. Chimini et al. (1989, Genomics 5: 316-324) have recently reported that the two multilocus DNA fingerprinting probes 33.6 and 33.15 each detect a single major site in the human genome, at 1q23 and 7q35-q36, respectively, and speculate that these sites represent particularly large loci homologous to these probes. How...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/0888-7543(90)90183-u

    authors: Jeffreys AJ,MacLeod A,Neumann R,Povey S,Royle NJ

    更新日期:1990-07-01 00:00:00

  • Comparative mapping in the beige-satin region of mouse chromosome 13.

    abstract::The proximal end of mouse chromosome (Chr) 13 contains regions conserved on human chromosomes 1q42-q44, 6p23-p21, and 7p22-p13. This region also contains mutations that may be models for human disease, including beige (human Chediak-Higashi syndrome). An interspecific backcross of SB/Le and Mus spretus mice was used t...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1996.4478

    authors: Perou CM,Perchellet A,Jago T,Pryor R,Kaplan J,Justice MJ

    更新日期:1997-01-15 00:00:00

  • The human transcriptional adaptor genes TADA2L and GCN5L2 colocalize to chromosome 17q12-q21 and display a similar tissue expression pattern.

    abstract::The chromosomal locations and the tissue expression patterns of the human transcriptional adaptors TADA2L and GCN5L2 have been determined. Northern blot analysis across a range of human tissues revealed that both the TADA2L and the GCN5L2 mRNAs are expressed to varying degrees in all tissue types. Furthermore, in most...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1996.4605

    authors: Carter KC,Wang L,Shell BK,Zamir I,Berger SL,Moore PA

    更新日期:1997-03-15 00:00:00

  • Structure of the human 4-hydroxyphenylpyruvic acid dioxygenase gene (HPD).

    abstract::4-Hydroxyphenylpyruvic acid dioxygenase (HPD) is an important enzyme in tyrosine catabolism in most organisms. The activity of this enzyme is expressed mainly in the liver and developmentally regulated in mammals, and a genetic deficiency in this enzyme in humans and mice leads to hereditary tyrosinemia type 3. Using ...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1994.1540

    authors: Awata H,Endo F,Matsuda I

    更新日期:1994-10-01 00:00:00

  • Genome-wide identification and characterization of WRKY gene family in Hevea brasiliensis.

    abstract::WRKY proteins constitute a large family of transcription factors. In this study, we identified 81 WRKY genes (named HbWRKY1 to HbWRKY81) in the latest rubber tree genome. Tissue-specific expression profiles showed that 74 HbWRKYs were expressed in at least one of the tissues and the other 7 genes showed very low expre...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2014.04.004

    authors: Li HL,Guo D,Yang ZP,Tang X,Peng SQ

    更新日期:2014-07-01 00:00:00

  • Expression and chromosomal localization of the human alpha 4/IGBP1 gene, the structure of which is closely related to the yeast TAP42 protein of the rapamycin-sensitive signal transduction pathway.

    abstract::To study the function of the B cell signal transduction molecule alpha 4 (IGBP1), we isolated a human alpha 4 (IGBP1) gene that has sequence similarity to the yeast protein (TAP42) involved in the rapamycin-sensitive signal transduction pathway. The human alpha 4 has sequence identities with murine alpha 4 of 83.4% nu...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1997.5048

    authors: Onda M,Inui S,Maeda K,Suzuki M,Takahashi E,Sakaguchi N

    更新日期:1997-12-15 00:00:00

  • Cloning and genomic organization of beclin 1, a candidate tumor suppressor gene on chromosome 17q21.

    abstract::The beclin 1 (BECN1) gene encodes a 60-kDa coiled-coil protein that interacts with the prototypic apoptosis inhibitor Bcl-2. Previous studies indicate that beclin 1 maps to a region approximately 150 kb centromeric to BRCA1 on chromosome 17q21 that is commonly deleted in breast, ovarian, and prostate cancer. The compl...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1999.5851

    authors: Aita VM,Liang XH,Murty VV,Pincus DL,Yu W,Cayanis E,Kalachikov S,Gilliam TC,Levine B

    更新日期:1999-07-01 00:00:00

  • Molecular cloning of two cannabinoid type 1-like receptor genes from the puffer fish Fugu rubripes.

    abstract::The puffer fish, Fugu rubripes (Fugu), has been proposed as a model vertebrate genome. We have characterized two putative G-protein-coupled receptor encoding genes, FCB1A and FCB1B, obtained by degenerate PCR and low-stringency hybridization of a Fugu genomic library. These two genes show high homology to the human ca...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1996.0406

    authors: Yamaguchi F,Macrae AD,Brenner S

    更新日期:1996-08-01 00:00:00

  • Transcriptome sequencing of Chinese and Caucasian population identifies ethnic-associated differential transcript abundance of heterogeneous nuclear ribonucleoprotein K (hnRNPK).

    abstract::Gene expression variations (GEV) among different ethnic groups have been a subject matter for extensive study. Relatively less known is the extent of alternative splicing variations (ASV) in the context of ethnicity. We conducted a transcriptome sequencing study of 20 lymphoblastoid cell lines obtained from Caucasian ...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2013.12.005

    authors: Li JW,Lai KP,Ching AK,Chan TF

    更新日期:2014-01-01 00:00:00

  • The HOX-5 and surfeit gene clusters are linked in the proximal portion of mouse chromosome 2.

    abstract::Using an interspecies backcross, we have mapped the HOX-5 and surfeit (surf) gene clusters within the proximal portion of mouse chromosome 2. While the HOX-5 cluster of homeobox-containing genes has been localized to chromosome 2, bands C3-E1, by in situ hybridization, its more precise position relative to the genes a...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/0888-7543(90)90499-k

    authors: Stubbs L,Huxley C,Hogan B,Evans T,Fried M,Duboule D,Lehrach H

    更新日期:1990-04-01 00:00:00

  • Localization of eight additional genes in the human major histocompatibility complex, including the gene encoding the casein kinase II beta subunit (CSNK2B).

    abstract::A wide range of autoimmune and other diseases are known to be associated with the major histocompatibility complex. Many of these diseases are linked to the genes encoding the polymorphic histocompatibility antigens in the class I and class II regions, but some appear to be more strongly associated with genes in the c...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1996.0459

    authors: Albertella MR,Jones H,Thomson W,Olavesen MG,Campbell RD

    更新日期:1996-09-01 00:00:00

  • Molecular cloning and characterization of NEU4, the fourth member of the human sialidase gene family.

    abstract::Several mammalian sialidases have been cloned so far and here we describe the identification and expression of a new member of the human sialidase gene family. The NEU4 gene, identified by searching sequence databases for entries showing homologies to the human cytosolic sialidase NEU2, maps in 2q37 and encodes a 484-...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2003.08.019

    authors: Monti E,Bassi MT,Bresciani R,Civini S,Croci GL,Papini N,Riboni M,Zanchetti G,Ballabio A,Preti A,Tettamanti G,Venerando B,Borsani G

    更新日期:2004-03-01 00:00:00

  • The NACP/synuclein gene: chromosomal assignment and screening for alterations in Alzheimer disease.

    abstract::The major component of the vascular and plaque amyloid deposits in Alzheimer disease is the amyloid beta peptide (A beta). A second intrinsic component of amyloid, the NAC (non-A beta component of amyloid) peptide, has recently been identified, and its precursor protein was named NACP. A computer homology search allow...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/0888-7543(95)80208-4

    authors: Campion D,Martin C,Heilig R,Charbonnier F,Moreau V,Flaman JM,Petit JL,Hannequin D,Brice A,Frebourg T

    更新日期:1995-03-20 00:00:00

  • Single-nucleotide polymorphism alleles in the insulin receptor gene are associated with typical migraine.

    abstract::We have identified a migraine locus on chromosome 19p13.3/2 using linkage and association analysis. We isolated 48 single-nucleotide polymorphisms within the locus, of which we genotyped 24 in a Caucasian population comprising 827 unrelated cases and 765 controls. Five single-nucleotide polymorphisms within the insuli...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.2001.6647

    authors: McCarthy LC,Hosford DA,Riley JH,Bird MI,White NJ,Hewett DR,Peroutka SJ,Griffiths LR,Boyd PR,Lea RA,Bhatti SM,Hosking LK,Hood CM,Jones KW,Handley AR,Rallan R,Lewis KF,Yeo AJ,Williams PM,Priest RC,Khan P,Donnelly

    更新日期:2001-12-01 00:00:00

  • Regional localization of over 300 loci on human chromosome 22 using a somatic cell hybrid mapping panel.

    abstract::A somatic cell hybrid panel, consisting of 25 cell lines, has been developed to localize loci subregionally on chromosome 22. Over 300 markers in the form of STSs or hybridization probes have been assigned to one of 24 unique regions or "bins" using this panel. This ordered collection of markers will aid in the assemb...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1996.0358

    authors: Budarf ML,Eckman B,Michaud D,McDonald T,Gavigan S,Buetow KH,Tatsumura Y,Liu Z,Hilliard C,Driscoll D,Goldmuntz E,Meese E,Zwarthoff EC,Williams S,McDermid H,Dumanski JP,Biegel J,Bell CJ,Emanuel BS

    更新日期:1996-07-15 00:00:00

  • The mouse biliary glycoprotein gene (Bgp): partial nucleotide sequence, expression, and chromosomal assignment.

    abstract::Transcripts related to the human carcinoembryonic antigen were found in mRNA isolated from both dimethylbenzanthracene-induced and mouse mammary tumor virus-induced mammary tumors. A cDNA library was prepared from a dimethylbenzanthracene-induced tumor, and a clone was isolated by hybridization with a human carcinoemb...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/0888-7543(91)90439-l

    authors: Robbins J,Robbins PF,Kozak CA,Callahan R

    更新日期:1991-07-01 00:00:00

  • Sequences of junction fragments in the deletion-prone region of the dystrophin gene.

    abstract::The Duchenne muscular dystrophy locus is remarkable in that it shows a high mutation rate and the majority of mutations found are deletions. These deletions are generated as meiotic as well as mitotic events and occur preferentially in the central region of the gene. Nothing is known so far about the mechanisms involv...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/0888-7543(91)90484-v

    authors: Love DR,England SB,Speer A,Marsden RF,Bloomfield JF,Roche AL,Cross GS,Mountford RC,Smith TJ,Davies KE

    更新日期:1991-05-01 00:00:00

  • Machine learning method using position-specific mutation based classification outperforms one hot coding for disease severity prediction in haemophilia 'A'.

    abstract::Haemophilia is an X-linked genetic disorder in which A and B types are the most common that occur due to absence or lack of protein factors VIII and IX, respectively. Severity of the disease depends on mutation. Available Machine Learning (ML) methods that predict the mutational severity by using traditional encoding ...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2020.09.020

    authors: Singh VK,Maurya NS,Mani A,Yadav RS

    更新日期:2020-11-01 00:00:00