Search bioRxiv⌕ Search

Biology subjects

Paine, A.

Publications and source records attributed to Paine, A..

2 recordsLinked to original sources

Inhibition of the mitochondrial permeability transition exerts sex-specific stimulatory effect on fracture repair

Bone fracture is accompanied by mechanical stresses and inflammation - conditions that impair mitochondria via the phenomenon of permeability transition. This phenomenon occurs due to opening of the mitochondrial permeability transition pore (MPTP) promoted by cyclophilin D (CypD). MPTP opening exacerbates inflammation and cell death and, thus can disrupt fracture repair. Here we tested a hypothesis that protecting mitochondria from MPTP opening via inhibition of CypD improves fracture repair. Our data indicate that osteoblast activity, bone formation, and biomechanical properties of repaired bones were significantly increased in CypD knock-out mice when compared to controls during fracture repair. These effects were observed in male but not female mice, thus showing sexual dimorphism. Pharmacological inhibition of CypD with NIM811 in male mice also stimulated fracture repair. In addition, CypD knock-out or pharmacological inhibition produced pro-osteogenic effect in isolated bone marrow osteoprogenitors. This in vitro effect was associated with higher mitochondrial respiration and increased {beta}-catenin activity regulated by mitochondria-dependent acetylation. Our findings implicate a sex-specific role of MPTP in bone fracture and suggest CypD inhibition as a modality to promote fracture repair.

biochemistry↗

A stochastic hybrid model for DNA replication incorporating protein mobility dynamics

DNA replication, the basis of genetic information maintenance, is a remarkably robust yet highly stochastic process. We present a computational model that incorporates experimental genome structures and protein mobility dynamics to mechanistically describe the stochastic foundations of DNA replication. Analysis of about 300,000 in silico profiles for fission yeast indicates that the number of firing factors is rate-limiting and dominates completion time. Incorporating probabilistic activation and binding, a full-genome duplication was achieved with at least 300 firing factors, with the only assumption that factors get recycled upon replication fork collision. Spatial patterns of replication timing were reproduced only when firing factors were explicitly activated proximally to the spindle pole body. Independent in vivo experiments corroborate that the spindle pole body acts as a replication activator, driving origin firing. Our model provides a framework to realistically simulate full-genome DNA replication and investigate the effects of nuclear architecture.

bioinformatics↗