| Title |
Whole transcriptome sequencing of the aging rat brain reveals dynamic RNA changes in the dark matter of the genome
|
|---|---|
| Published in |
GeroScience, May 2012
|
| DOI | 10.1007/s11357-012-9410-1 |
| Pubmed ID | |
| Authors |
Shona H. Wood, Thomas Craig, Yang Li, Brian Merry, João Pedro de Magalhães |
| Abstract |
Brain aging frequently underlies cognitive decline and is a major risk factor for neurodegenerative conditions. The exact molecular mechanisms underlying brain aging, however, remain unknown. Whole transcriptome sequencing provides unparalleled depth and sensitivity in gene expression profiling. It also allows non-coding RNA and splice variant detection/comparison across phenotypes. Using RNA-seq to sequence the cerebral cortex transcriptome in 6-, 12- and 28-month-old rats, age-related changes were studied. Protein-coding genes related to MHC II presentation and serotonin biosynthesis were differentially expressed (DE) in aging. Relative to protein-coding genes, more non-coding genes were DE over the three age-groups. RNA-seq quantifies not only levels of whole genes but also of their individual transcripts. Over the three age-groups, 136 transcripts were DE, 37 of which were so-called dark matter transcripts that do not map to known exons. Fourteen of these transcripts were identified as novel putative long non-coding RNAs. Evidence of isoform switching and changes in usage were found. Promoter and coding sequence usage were also altered, hinting of possible changes to mitochondrial transport within neurons. Therefore, in addition to changes in the expression of protein-coding genes, changes in transcript expression, isoform usage, and non-coding RNAs occur with age. This study demonstrates dynamic changes in RNA with age at various genomic levels, which may reflect changes in regulation of transcriptional networks and provides non-coding RNA gene candidates for further studies. |
X Demographics
The data shown below were collected from the profiles of 3 X users who shared this research output. Click here to find out more about how the information was compiled.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United Kingdom | 1 | 33% |
| Canada | 1 | 33% |
| Norway | 1 | 33% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Scientists | 3 | 100% |
Mendeley readers
The data shown below were compiled from readership statistics for 152 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United Kingdom | 3 | 2% |
| Netherlands | 2 | 1% |
| Chile | 1 | <1% |
| Germany | 1 | <1% |
| Australia | 1 | <1% |
| United States | 1 | <1% |
| Unknown | 143 | 94% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Student > Ph. D. Student | 48 | 32% |
| Researcher | 30 | 20% |
| Student > Master | 15 | 10% |
| Student > Bachelor | 13 | 9% |
| Student > Doctoral Student | 7 | 5% |
| Other | 21 | 14% |
| Unknown | 18 | 12% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 67 | 44% |
| Biochemistry, Genetics and Molecular Biology | 26 | 17% |
| Neuroscience | 15 | 10% |
| Medicine and Dentistry | 8 | 5% |
| Immunology and Microbiology | 4 | 3% |
| Other | 11 | 7% |
| Unknown | 21 | 14% |
Attention Score in Context
This research output has an Altmetric Attention Score of 2. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 25 June 2012.
All research outputs
#15,740,207
of 25,374,647 outputs
Outputs from GeroScience
#1,096
of 1,595 outputs
Outputs of similar age
#105,767
of 176,271 outputs
Outputs of similar age from GeroScience
#12
of 24 outputs
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