A protein long believed to only guard the nucleus also regulates gene expression and stem cell development.
What if you found out that pieces of your front door were occasionally flying off the door frame to carry out chores around the house? That’s the kind of surprise scientists at the Salk Institute experienced with their recent discovery that nucleoporins — proteins that act as cellular ‘doorways’ to help manage what goes in and out of a cell’s nucleus — are actually much bigger players in expressing genes than previously thought.
The finding, published June 16 in the journal Genes & Development, shows that nucleoporins play an important role in maintaining embryonic stem cells before they begin to develop into specific tissues. This discovery gives a new understanding to genetic diseases that are caused by mutations in these proteins. One nucleoporin protein in particular has a dramatic — and unanticipated — function in the formation of neurons from stem cells.
‘We’ve shone a new light on this class of proteins,’ says Martin Hetzer, a professor in Salk’s Molecular and Cell Biology Laboratory and senior author of the new paper. ‘I hope researchers start to accept and realize that nucleoporins are more than just transport proteins.’
Nucleoporins — of which there are about 30 versions — are typically part of nuclear pore complexes, giant structures that connect the inside of a cell’s nucleus to the outer cytoplasm. In 2010, Hetzer’s team first uncovered hints that nucleoporins may also have a role in regulating the timing of when genes inside the nucleus are transcribed into proteins during a cell’s development. But exactly what that role might be was unclear.
In the new work, Hetzer and his colleagues focused on one particular nucleoporin called Nup153, which is known to rapidly move on and off of the nuclear pore complex, suggesting it might be doing something other than providing structural support to the pore.
The researchers turned to mouse embryonic stem cells — cells that have the potential to differentiate into any cell type in the body — and deleted Nup153. They expected that if Nup153 played a key role in cell differentiation, then removing it from stem cells would stop them from differentiating. Instead, the opposite happened.
‘The big surprise was that when we took out this gene, the stem cells started to differentiate,’ said Hetzer. ‘And not only did they start to differentiate, but they started to differentiate into neurons.’
Nup153, researchers discovered, put the brakes on certain genes that need to be turned on for stem cells to turn into brain cells. When the brakes are lifted, the stem cells start differentiating.
‘This study not only revealed a critical function for nucleoporins in mediating the undifferentiated state of embryonic stem cells by silencing neural genes, but also introduced new mechanistic directions for elucidating the role of these proteins during mammalian development,’ says Filipe Jacinto, a postdoctoral researcher in Hetzer’s lab and first author of the paper.
Hetzer suspects that other nucleoporins also have roles in gene expression control, but cautions that the roles could be very different — each nucleoporin, he says, likely targets a different set of genes, and some might activate the genes rather than repress them.
Mutations in many nucleoporin genes has been linked to human diseases and developmental disorders, including some forms of leukemia and inherited heart problems. Until now, Hetzer says, researchers have assumed the mutations led to disease by altering the transport of proteins in and out of a cell’s nucleus. ‘Now, we’re realizing this is probably not the only explanation,’ he says. ‘Many of those diseases and developmental disorders might actually be caused by the ability of these genes to regulate gene expression programs.’
His lab is planning to follow up with studies on Nup153, and exactly how it’s recruited to genes, as well as investigating the developmental roles of other nucleoporins.
Chris Benner, director of the Integrative Genomics and Bioinformatics Core at the Salk Institute, also contributed to the work.
Funding: The work and the researchers involved were supported by grants from the National Institutes of Health and the National Cancer Institute.
Source: Salk Institute
Image Credit: Image credited to Salk Institute
Original Research: Abstract for “The nucleoporin Nup153 regulates embryonic stem cell pluripotency through gene silencing” by Filipe V. Jacinto, Chris Benner, and Martin W. Hetzer in Genes & Development. Published online June 16 2015 doi:10.1101/gad.260919.115
The nucleoporin Nup153 regulates embryonic stem cell pluripotency through gene silencing
Nucleoporins (Nups) are a family of proteins best known as the constituent building blocks of nuclear pore complexes (NPCs), membrane-embedded channels that mediate nuclear transport across the nuclear envelope. Recent evidence suggests that several Nups have additional roles in controlling the activation and silencing of developmental genes; however, the mechanistic details of these functions remain poorly understood. Here, we show that depletion of Nup153 in mouse embryonic stem cells (mESCs) causes the derepression of developmental genes and induction of early differentiation. This loss of stem cell identity is not associated with defects in the nuclear import of key pluripotency factors. Rather, Nup153 binds around the transcriptional start site (TSS) of developmental genes and mediates the recruitment of the polycomb-repressive complex 1 (PRC1) to a subset of its target loci. Our results demonstrate a chromatin-associated role of Nup153 in maintaining stem cell pluripotency by functioning in mammalian epigenetic gene silencing.
“The nucleoporin Nup153 regulates embryonic stem cell pluripotency through gene silencing” by Filipe V. Jacinto, Chris Benner, and Martin W. Hetzer in Genes & Development. Published online June 16 2015 doi:10.1101/gad.260919.115