The Experts below are selected from a list of 219 Experts worldwide ranked by ideXlab platform
Juergen Deckert - One of the best experts on this subject based on the ideXlab platform.
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Untangling the human estrogen receptor Gene structure.
Journal of Neural Transmission, 2002Co-Authors: Philipp G. Sand, Christian Luckhaus, K. Schlurmann, Mario E. Götz, Juergen DeckertAbstract:Awareness of estrogen's neuroprotective and behavioral effects is broadening rapidly and has served as an incentive to investigate estrogen signaling in central nervous system disorders. The present analysis focuses on two human nuclear estrogen receptors, ERα and ERβ, which have been shown to play key roles in the complex integration of estrogen's genomic and non-genomic modes of action. The corresponding Genes are estimated to have diverged from an ancestral ER Gene over 450 million years ago and are candidate Genes for a variety of brain disorders. Recent progress in the Human Genome Project has greatly aided our understanding of the molecular blueprint and provides the means for reassessing both Genes' genomic organization. Analyses of multiple alternatively spliced transcripts, large untranslated sequences and neighbouring Genes reveal several novel features which suggest an increasingly versatile transcriptional machinery. We outline additional exons in the Genes' 5′- and 3′-untranslated regions, a new polymorphic ERα microsatellite and a Nested Gene which lend themselves to further evolutionary and functional studies.
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Untangling the human estrogen receptor Gene structure.
Journal of neural transmission (Vienna Austria : 1996), 2002Co-Authors: P Sand, Christian Luckhaus, K. Schlurmann, M Götz, Juergen DeckertAbstract:Awareness of estrogen's neuroprotective and behavioral effects is broadening rapidly and has served as an incentive to investigate estrogen signaling in central nervous system disorders. The present analysis focuses on two human nuclear estrogen receptors, ER alpha and ER beta, which have been shown to play key roles in the complex integration of estrogen's genomic and non-genomic modes of action. The corresponding Genes are estimated to have diverged from an ancestral ER Gene over 450 million years ago and are candidate Genes for a variety of brain disorders. Recent progress in the Human Genome Project has greatly aided our understanding of the molecular blueprint and provides the means for reassessing both Genes' genomic organization. Analyses of multiple alternatively spliced transcripts, large untranslated sequences and neighbouring Genes reveal several novel features which suggest an increasingly versatile transcriptional machinery. We outline additional exons in the Genes' 5'- and 3'-untranslated regions, a new polymorphic ER alpha microsatellite and a Nested Gene which lend themselves to further evolutionary and functional studies.
Ramiro Barrantes-reynolds - One of the best experts on this subject based on the ideXlab platform.
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Potential regulatory relationship between the Nested Gene DDC8 and its host Gene tissue inhibitor of metalloproteinase-2.
Physiological genomics, 2006Co-Authors: Diane M. Jaworski, Micah Beem-miller, Gentian Lluri, Ramiro Barrantes-reynoldsAbstract:Nested Genes are fairly common within the mammalian nervous system, yet few studies have examined whether the guest and host Genes might be coordinately regulated. Tissue inhibitors of metalloproteinase (TIMPs) inhibit extracellular matrix proteolysis mediated by metzincin proteases. TIMP-2 is the only TIMP not Nested within a synapsin Gene. It does, however, serve as a host for differential display clone 8 (DDC8), a testis-specific Gene whose expression is upregulated during spermatoGenesis. Here, we demonstrate that DDC8 is not testis specific. Furthermore, DDC8 expression in nonneural and neural tissues mimics that of TIMP-2, including its upregulation in response to traumatic brain injury, suggesting a potential regulatory relationship. The most striking observation is that the TIMP-2 knockout mouse brain contains TIMP-2 mRNA encoding exons 2-5, which are downstream of DDC8, but not exon 1, which contains the signal sequence and cysteine residue required for MMP inhibition, indicating a functional knockout. That TIMP-2 transcripts in wild-type brain contain DDC8 sequence suggests alternative splicing between the two Genes.
Arthur D. Riggs - One of the best experts on this subject based on the ideXlab platform.
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In vivo, high-resolution analysis of yeast and mammalian RNA–protein interactions, RNA structure, RNA splicing and ribozyme cleavage by use of terminal transferase-dependent PCR
Nucleic acids research, 2000Co-Authors: Hsiu-hua Chen, Daniela Castanotto, Jeanne M. Lebon, John J. Rossi, Arthur D. RiggsAbstract:We have investigated the analysis of RNA by use of terminal transferase-dependent PCR (TDPCR), a procedure previously used for the analysis of DNA and chromatin [J. Komura and A.D.Riggs, Nucleic Acids Res.,26, 1807-1811 (1998)]. When preceded by reverse transcription (RT), TDPCR provides an extremely sensitive, versatile, quantitative and nucleotide-level assay for detecting RNA lesions or structures that block primer extension during the RT step. The procedure is: (i) RT using a Gene-specific oligonucleotide; (ii) ribo-tailing of the single-stranded cDNA product by use of terminal deoxy-nucleotidyl transferase; (iii) ligation of a DNA linker to the tailed cDNA by use of T4 DNA ligase; and (iv) PCR using a Nested, Gene-specific primer and a linker-specific primer. This procedure combines the versatility of a primer extension assay with nucleotide-level resolution, the specificity of Nested primers and the sensitivity of PCR. Band patterns obtained are reproducible and quantifiable. We successfully used the technique for the study of yeast RNA structure, splicing intermediates and ribozyme cleavage. Also, in vivo footprint experiments, using mammalian cells and RNase T1, revealed the binding of iron-responsive element binding protein to iron responsive elements in the mRNAs of transferrin receptor and ferritin H-chain.
Ian A. Johnston - One of the best experts on this subject based on the ideXlab platform.
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Targeted rapid amplification of cDNA ends (T-RACE)—an improved RACE reaction through degradation of non-target sequences
Nucleic acids research, 2010Co-Authors: Neil I. Bower, Ian A. JohnstonAbstract:Amplification of the 5 0 ends of cDNA, although simple in theory, can often be difficult to achieve. We describe a novel method for the specific amplification of cDNA ends. An oligo-dT adapter incorporating a dUTP-containing PCR primer primes first-strand cDNA synthesis incorporating dUTP. Using the Cap finder approach, another distinct dUTP containing adapter is added to the 3 0 end of the newly synthesized cDNA. Secondstrand synthesis incorporating dUTP is achieved by PCR, using dUTP-containing primers complimentary to the adapter sequences incorporated in the cDNA ends. The double-stranded cDNA-containing dUTP serves as a universal template for the specific amplification of the 3 0 or 5 0 end of any Gene. To amplify the ends of cDNA, asymmetric PCR is performed using a single Gene-specific primer and standard dNTPs. The asymmetric PCR product is purified and non-target transcripts containing dUTP degraded by Uracil DNA glycosylase, leaving only those transcripts produced during the asymmetric PCR. Subsequent PCR using a Nested Gene-specific primer and the 3 0 or 5 0 T-RACE primer results in specific amplification of cDNA ends. This method can be used to specifically amplify the 3 0 and 5 0 ends of numerous cDNAs from a single
Xianbing Wang - One of the best experts on this subject based on the ideXlab platform.
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characterization of the complete genome of barley yellow striate mosaic virus reveals a Nested Gene encoding a small hydrophobic protein
Virology, 2015Co-Authors: Teng Yan, Jingrong Zhu, Qiang Gao, Yongliang Zhang, Aihong Zhang, Chong Yan, Hongqin Miao, Xianbing WangAbstract:Barley yellow striate mosaic virus (BYSMV), a member of the genus Cytorhabdovirus, causes serious crop losses in agriculture. Here, we have cloned the BYSMV-derived small interfering RNAs (siRNAs), assembled the siRNAs and used RT-PCR to reconstruct the BYSMV genome. The genome consists of 12,706 nucleotides and encodes ten predicted Genes from the antigenomic strand. The major BYSMV structural proteins share identities ranging from 35% to 62% with northern cereal mosaic virus (NCMV) counterparts. A notable difference is that BYSMV contains three transcriptional units residing between the P and M Genes compared with four units in the corresponding region of NCMV. Unexpectedly, the middle mRNA in this region encodes Gene5 Nested in an alternative frame within Gene4 via a leaky scanning mechanism. The Gene5 encodes a small hydrophobic protein targeting to the endoplasmic reticulum (ER). To our knowledge, this is the first report of Nested Gene in plant rhabdoviruses.