Step out of the limelight for a minute, C9ORF72—there’s a new ALS gene in town. Called CCNF, it encodes the cyclin F protein, which is integral to the ubiquitin-proteasome system. As reported April 15 in Nature Communications, carriers of CCNF variants dot the family trees of kindreds with a history of amyotrophic lateral sclerosis (ALS), frontotemporal dementia (FTD), or both. Scientists led by Ian Blair, Macquarie University, Sydney, Australia, zeroed in on these mutations by performing genetic linkage analysis and exome sequencing in these families. They found CCNF mutations in sporadic ALS, as well. Their frequency in ALS comes close to that of TDP-43 and FUS mutations, but follow-up studies in larger cohorts will be needed to get a better idea of how common they are in FTD, said Blair. The results add weight to the idea that neuronal recycling systems jam up in these diseases, he told Alzforum.
“This interesting study nicely demonstrates the power of combining family-based studies with whole-exome sequencing to quickly identify interesting variants,” wrote Steven Finkbeiner, Gladstone Institute of Neurological Disease, San Francisco, California, to Alzforum. “It’s fascinating that [CCNF] appears to be another example of a genetic mutation that can cause ALS or FTD.” Finkbeiner was not involved in the study.
Mutations in several genes, including SOD1, TARDBP encoding TDP-43, FUS, and C9ORF72 (also see on AlzPedia) explain about two-thirds of familial and 5 percent of sporadic ALS. The remainder carry no known mutations. Up to 15 percent of ALS patients—including those with a C9ORF72 mutation—develop FTD as well. The two diseases can even show up in the same family. Both are marked by clumps of ubiquitinated proteins in the cytoplasm, which include misfolded TDP-43.
In search of new disease-causing mutations, first author Kelly Williams and colleagues analyzed the genomes of members from an extended Australian family in which 10 people had either ALS or FTD but no known disease-associated polymorphisms. Williams found that all the affected people had a variation on chromosome 16 (see image above). By sequencing the exomes in four affected people, the group found a missense variant at position 1,861 in the CCNF gene, also called FBXO1. A guanine took the place of the usual adenosine nucleotide in codon 621 of cyclin F, yielding glycine instead of serine in the protein. More gene sequencing revealed that all afflicted members of the same family carried that S621G mutation. Four relatives, three much younger than and one near the expected age of onset, have the mutations as well. To confirm that variants in that gene cause disease, the researchers searched through genetic information from hundreds of ALS and FTD families from Australia, Europe, North America, and Japan. Among those kindreds, five other protein-altering mutations in CCNF cropped up. Analyzing sporadic cases of ALS uncovered 19 more (seven never documented before), for a total of 25 different variants in cyclin F that associate with disease.
What does CCNF do? While its name might suggest a role in the cell cycle, cyclin F actually makes up part of the ubiquitin-protease system (UPS), one of several means cells use to dispose of unwanted proteins. Specifically, cyclin F sticks a ubiquitin onto target proteins, flagging them for destruction in the proteasome. By using a florescent reporter designed to be devoured by the proteasome, the group confirmed that the mutation mucks up this system. In motor neuron-like cells carrying mutant CCNF, the reporter built up, causing the cells to glow green.
Proteasome activity assays indicated the protease complex itself worked just fine, hinting that aberrant ubiquitin tagging or poor transfer of tagged proteins to the proteasome were responsible for the accumulation of the reporter, Blair said. Neuronal cells with the mutation accumulated ubiquitinated RRM2—a target of cyclin F—as well as ubiquitinated TDP-43. Scientists have wondered why ubiquitinated TDP-43 accrues in ALS and some FTD cases. “This [work] points to a mechanism through which TDP-43 could be accumulating,” Blair said.
Blair thinks the mutated protein over-ubiquitinates its targets, perhaps even healthy proteins that are not normally destined for degradation. Then, because the proteasome can’t keep up, these proteins accumulate and aggregate, he proposed. His group is now examining whether CCNF mutations affect a specific cadre of proteins, including TDP-43, or if these mutations have more general impact on protein homeostasis. Other ALS-linked variants—namely UBQLN2, SQSTM1/p62, and VCP—all relate to ubiquitin or the proteasome in some way. “We’re gathering a body of evidence that increasingly points to abnormal proteostasis in ALS and FTD,” Blair said.
Finkbeiner agreed. “The connection to protein homeostasis is a prominent theme in ALS/FTD as well as neurodegenerative disease more generally,” he wrote. Family studies similar to this one should help explain why motor neurons take a hit in some people, causing ALS, and cortical neurons in others, leading to FTD, he added. At the same time, the growing number of ALS genes and rare variants combined with a lack of strong environmental links is prompting a rethink about the nature of “sporadic” ALS, he continued. It may turn out that sporadic forms combine rare genetic variants that impinge on critical pathways required for motor/cortical neuron survival.
Meanwhile, now that these scientists have identified the disease-associated allele in the original family, relatives have the option of finding out their genetic status, and potentially using preimplantation genetic diagnosis to avoid passing on the allele to their children, said Blair (see Jul 2014 series).
Williams KL, Topp S, Yang S, Smith B, Fifita JA, Warraich ST, Zhang KY, Farrawell N, Vance C, Hu X, Chesi A, Leblond CS, Lee A, Rayner SL, Sundaramoorthy V, Dobson-Stone C, Molloy MP, van Blitterswijk M, Dickson DW, Petersen RC, Graff-Radford NR, Boeve BF, Murray ME, Pottier C, Don E, Winnick C, McCann EP, Hogan A, Daoud H, Levert A, Dion PA, Mitsui J, Ishiura H, Takahashi Y, Goto J, Kost J, Gellera C, Gkazi AS, Miller J, Stockton J, Brooks WS, Boundy K, Polak M, Muñoz-Blanco JL, Esteban-Pérez J, Rábano A, Hardiman O, Morrison KE, Ticozzi N, Silani V, de Belleroche J, Glass JD, Kwok JB, Guillemin GJ, Chung RS, Tsuji S, Brown RH Jr, García-Redondo A, Rademakers R, Landers JE, Gitler AD, Rouleau GA, Cole NJ, Yerbury JJ, Atkin JD, Shaw CE, Nicholson GA, Blair IP. CCNF mutations in amyotrophic lateral sclerosis and frontotemporal dementia. Nat Commun. 2016 Apr 15;7:11253. [PubMed].
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