Summary: Researchers report specific gene signatures can help to predict functional recovery following spinal cord injury.
Scientists have determined a gene signature that is linked to the severity of spinal cord injury in animals and humans, according to a study in the open-access journal eLife.
The discovery of key genes that are switched on or off in response to spinal cord injury could inform the development of biomarkers that predict recovery and possibly pinpoint new targets for treatment.
At the moment, there are no widely available treatments capable of immediately restoring motor and sensory function after injury. A major barrier is the lack of understanding of the complex cascade of biological processes that occur when a spinal cord injury happens.
“Our understanding of the pathophysiological processes triggered by spinal cord injury is fragmentary,” explains senior author Michael Skinnider, a medical and PhD student at the University of British Columbia, Canada. “We set out to integrate the data from decades of small-scale studies using a systems biology approach.”
The team first reviewed past experiments to find genes associated with the response to spinal cord injury, searching through more than 500 studies. They found 695 unique human genes that had been linked with the response to spinal cord injury and, of these, 151 were linked in more than one study. Further analysis showed that the genes are biologically and functionally related, coding for groups of protein molecules that physically interact with one another.
To find if these genes truly reflect functional changes after spinal cord injury, the team constructed a network of genes from healthy human spinal cords and integrated this data with those determined from the experimental studies. They found that two groups of genes (M3 and M7) included a high number of the genes that had been previously pinpointed in experiments as important in the response to spinal cord injury.
They next looked at five experimental studies of gene expression in mice and rats after spinal cord injury to see whether these gene groups (and others) were significantly altered. They found that four gene groups, including M3 and M7, were switched on, and a further two gene groups were switched off. Some gene groups were not as connected in mice and rats as in humans, suggesting that they might be human-specific markers of spinal cord injury. Other gene groups were only important at a certain time-point after injury, suggesting that they are involved in the transition from acute to chronic injury.
Of all the gene groups studied, M3 genes were most strongly linked to injury severity in both mice and rats, which suggests that these genes could make an ideal biomarker for predicting injury severity. Indeed, one of the genes in this group, annexin A1, previously associated with spinal cord injury, was able to perfectly differentiate between moderately and severely injured rats when used as a biomarker.
“We have developed an integrated, systems-level approach to understand the mechanisms of spinal cord injury,” concludes lead author Jordan Squair, MD/PhD student at the University of British Columbia, Canada. “We have identified gene signatures that predict injury severity and, if reversed therapeutically, could potentially increase functional recovery.”
About this neuroscience research article
Funding: This research was supported by the Heart and Stroke Foundation of Canada, Canadian Institutes of Health Research, Genome Canada.
Source: Emily Packer – eLife Publisher: Organized by NeuroscienceNews.com. Image Source: NeuroscienceNews.com image is in the public domain. Original Research: Open access research for “Integrated systems analysis reveals conserved gene networks underlying response to spinal cord injury” by Jordan W Squair, Seth Tigchelaar, Kyung-Mee Moon, Jie Liu, Wolfram Tetzlaff, Brian K Kwon, Andrei V Krassioukov, Christopher R West, Leonard J Foster, and Michael A Skinnider in eLife. Published October 2 2018. doi:10.7554/eLife.39188
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[cbtabs][cbtab title=”MLA”]eLife”Gene Signatures Predict Outcome After Spinal Cord Injury.” NeuroscienceNews. NeuroscienceNews, 5 October 2018. <https://neurosciencenews.com/sci-genetics-9967/>.[/cbtab][cbtab title=”APA”]eLife(2018, October 5). Gene Signatures Predict Outcome After Spinal Cord Injury. NeuroscienceNews. Retrieved October 5, 2018 from https://neurosciencenews.com/sci-genetics-9967/[/cbtab][cbtab title=”Chicago”]eLife”Gene Signatures Predict Outcome After Spinal Cord Injury.” https://neurosciencenews.com/sci-genetics-9967/ (accessed October 5, 2018).[/cbtab][/cbtabs]
Integrated systems analysis reveals conserved gene networks underlying response to spinal cord injury
Spinal cord injury (SCI) is a devastating neurological condition for which there are currently no effective treatment options to restore function. A major obstacle to the development of new therapies is our fragmentary understanding of the coordinated pathophysiological processes triggered by damage to the human spinal cord. Here, we describe a systems biology approach to integrate decades of small-scale experiments with unbiased, genome-wide gene expression from the human spinal cord, revealing a gene regulatory network signature of the pathophysiological response to SCI. Our integrative analyses converge on an evolutionarily conserved gene subnetwork enriched for genes associated with the response to SCI by small-scale experiments, and whose expression is upregulated in a severity-dependent manner following injury and downregulated in functional recovery. We validate the severity-dependent upregulation of this subnetwork in rodents in primary transcriptomic and proteomic studies. Our analysis provides systems-level view of the coordinated molecular processes activated in response to SCI.