«While previous molecular studies have provided simple snapshots
of the gene transcript variations that are associated with the exposure of insects to natural and synthetic chemicals, the genomics approaches used in this study offer a significantly more complex perspective on the biochemical and physiological processes occurring in plant - insect interactions,» Schuler said.
Tracing the dynamics
of gene transcripts after organismal death.
Not exact matches
Strikingly,
transcripts of β - casein and α - lactalbumin
genes make up 45 %
of the total pool
of mRNA during mature lactation.
He adds that the abundance
of transcripts that overlap each
gene suggests that the very term «
gene» should mean something different inside the cell nucleus, where transcription takes place, than outside
of it, where finished proteins go.
Based on the
transcript sequences, the researchers identified 1,437 new promoters — short DNA sequences where transcription begins — in or between
genes, on top
of the 1,730 promoters they knew
of.
Some
of the
transcripts hail from noncoding DNA, the researchers report, but those that do match up with the 399 ENCODE
genes overlap with each other extensively.
Transcripts from 65 percent
of the
genes incorporate pieces
of DNA from relatively far outside
of the
genes or even from one or two other
genes, says molecular biologist and consortium member Tom Gingeras
of Affymetrix, a genome technology company in Santa Clara, Calif..
The discovery that much
of the mammalian genome is transcribed, in some places without gaps (so - called transcriptional «forests»), shines a bright light on this embarrassing plentitude: an order
of magnitude more
transcripts than
genes (pp. 1559, 1564, and 1529).
One
of Beaudet's graduate students — Linyan Meng — was writing her dissertation on Angelman syndrome and was wrestling with this problem when a member
of her dissertation committee, Dr. Thomas Cooper, professor
of pathology & immunology at Baylor, said he was working with a Carlsbad, Calif. - based company called Isis Pharmaceuticals that had anti-sense oligonucleotides that could turn off the antisense
transcript that silenced the paternal copy
of the
gene.
He or she also has a paternal copy
of the
gene, but it is silenced by a long ribbon
of RNA called the UBE3A anti-sense
transcript.
She bred a mouse in which the antisense
transcript was «knocked down» and the paternal copy
of the
gene turned on.
It shuts down all
of its
genes except one — a
gene called the LATency - associated
transcript (LAT).
The same agents that damage DNA also damage its sister molecule messenger RNA (mRNA), which ferries
transcripts of the
genes to the tens
of thousands
of ribosomes in each cell.
Here, segments
of RNA known as
transcripts — derived from specific DNA
genes — hold vital clues regarding health.
Expression
of these
genes appears in the blood in the form
of specific RNA
transcripts.
Single - cell differential
gene expression analysis revealed a spectrum
of known
transcripts, including several linked to cytotoxic and costimulatory function that are expressed at higher levels in the TEMRA (effector memory T cells expressing CD45RA) subset, which is highly enriched for CD4 - CTLs, compared with CD4 + T cells in the central memory (TCM) and effector memory (TEM) subsets.
RNA serves as the template for translation
of genes into proteins, transferring amino acids to the ribosome to form proteins, and also translating the
transcript into proteins.
When the
transcript of the M1 RNA
gene is combined with the protein moiety not only is a tRNA precursor cleaved but also the precursor to 4.5 S RNA from Escherichia coli.
MicroRNAs are short molecules that work within all animal and plant cells, typically functioning as a «dimmer switch» for one or more
genes, binding to the
transcripts of those
genes and preventing protein production.
Single - cell RNA sequencing allows researchers to determine the precise nature
of the total
gene transcripts, or all
of the
genes that are actively expressed in a particular cell.
One
gene set that stood out involved components
of the spliceosome, the molecular complex that helps prepare messenger RNA (mRNA)
transcripts for protein production by removing noncoding segments called introns.
It could help reveal which
gene transcripts could serve as early signs
of toxicity and which drug combinations might be particularly dangerous, for both new and existing drugs.
The Neurogenomiks research group, linked to the Achucarro Basque Centre for Neuroscience (EHUgroup) and the University
of the Basque Country (UPV / EHU), has just had a research article published in the scientific publication Journal
of Immunology; it details how they have managed to show that the
gene known as ANKRD55 produces 3 different
transcripts of the messenger RNA, and that the genetic variant associated with MS greatly increases the production
of these
transcripts.
Clariom D Pico assays allow discovery
of coding and noncoding
genes, exons, and splicing events, including rare
transcripts, expanding the potential for finding novel biomarkers missed by alternative techniques.
Gene expression patterns in the hippocampus samples were examined using DNA microarrays that measured the expression levels
of over 30,000
genes (
transcripts) per sample.
In a study published online in Genome Research, researchers devised a strategy for genome - wide annotation
of primary miRNA
transcripts, providing extensive new annotations in human and mouse, and shedding light on mechanisms
of regulation
of microRNA
gene expression.
The atlas now also includes RNA
transcript data for 27
of these organ - specific tissues using next generation sequencing, providing a tissue distribution map
of both protein and
gene expression.
Since using the WormBase name
of W01A8.1 (MDT - 28) would be misleading, the
gene is referred here by the cosmid name W01A8.1, which gives rise to at least three protein isoforms designated W01A8.1 a, W01A8.1 b, and W01A8.1 c from at least seven different
transcripts (W01A8.1 a. 1, W01A8.1 a. 2, W01A8.1 b. 1, W01A8.1 b. 2, W01A8.1 b. 3, W01A8.1 c. 1, W01A8.1 c. 2).
A focused oligonucleotide microarray
of 1,178
genes, qRT — PCR
of selected
transcripts, and western analysis
of hypoxia inducible factor - 1α (HIF - 1α) were used to compare retinas from the hypoxic and recovery groups to control animals that were not made hypoxic.
This technology is based on differential expression
of key
gene transcript variants (isoform - level
gene expression) and was originally tested on a vast collection
of glioblastoma samples made available by the University
of Pennsylvania.
However, despite these fragments, we were able to create a significant number
of full - length
transcript models and 8,374
of these were added to the core Ensembl
gene - set.
«We are truly excited about the RNA
transcript data and the map
of gene expression that we now have for 27 different organ - specific tissues», says Professor Mathias Uhlén, Program Director
of the Human Protein Atlas.
The
gene - centric visualization with data covering a majority
of the human protein - coding
genes is now complemented with RNA
transcript data.
Importantly, 25
of the 115
transcripts, shared by EFTF - expressing pluripotent cells and the EF, encode for 15
genes that are both expressed in retinal stem / progenitor cells and required for normal eye formation in frogs, fish, mice, or humans (Figure 1C; Table S1).
Among the total
gene transcripts that were differentially expressed during daytime six biological processes were found: Wnt signaling pathway, cell junction organization, SMAD binding, regulation
of cell morphogenesis, TGF - β signaling pathway, and amino acid synthesis (Fig. 4A).
These classifications are based on large amounts
of data inclusing clinical data, somatic mutations,
gene and alternative
transcript expression, or structural DNA modification, and involve high - dimensional statistical machine learning techniques.
These targets were identified based on the presence
of predicted regulator binding sites or experimental regulator binding in the target promoter, and / or changes in the target
gene's
transcript levels in regulator mutant strains.
Global
transcript structure resolution
of high
gene density genomes through multi-platform data integration.
This is consistent with work in other systems that showed
transcripts from BR biosynthesis
genes accumulated following loss
of BR due to negative feedback regulation (Bancoş et al., 2002; Tanabe et al., 2005; Tanaka et al., 2005).
Regulation
of transcript levels
of the Arabidopsis cytochrome p450
genes involved in brassinosteroid biosynthesis
The draft genome generated by the present study covered > 70 %
of the whole genome and harbored > 87 %
of the known
gene transcripts, thereby constituting the most informative genome resource currently available for bay scallop.
An important issue for molecular biology is to establish if
transcript levels
of a given
gene can be used as proxies for the corresponding protein levels.
A dizzying number
of genetic
transcripts, proteins and other molecular players alternatively glom together or fall apart, turning on or tuning down countless patterns
of gene expression that keep our cells, organs and bodies humming along with the Earth's daily rotations.
«This way we can link local environmental conditions to microbial
gene - and
transcript profiles and in the future quickly determine the environmental status
of samples
of unknown character».
The plan is to analyze the
genes and
gene -
transcripts of microorganisms in the sea to determine what metabolic processes are active and from this get information on the environmental status.
The HIV
genes that do remain are very important for viral production: Gag (structural precursor protein), Pol (polymerase), Tat (viral transactivator for transcriptional activation from the 5» LTR) and Rev (facilitates nuclear export
of transcripts).
Multiple
transcripts arising from alternative initiation or polyadenylation sites, or alternative RNA splicing at a single locus were not considered as multiple
genes but as variants
of a single transcription unit.
This figure depicts how the expression
of the longer
transcript in this
gene becomes less dominant as PMI increases, and, as a consequence, the abundance
of the different isoforms tends to converge
Disrupting «Silent»
Genes The number
of transcripts appears to exceed the number
of mutable loci in several extensively analyzed segments
of the Drosophila genome (34 - 35).
The authors highlight the importance
of measuring the variability
of transcript expression and location in so many cells by using their data to discover
genes with related functions in the cell.