Local rewiring of genome-nuclear lamina interactions by transcription

Transcriptionally inactive genes are often positioned at the nuclear lamina (NL), as part of large lamina-associated domains (LADs). Activation of such genes is often accompanied by repositioning toward the nuclear interior. How this process works and how it impacts flanking chromosomal regions are poorly understood. We addressed these questions by systematic activation or inactivation of individual genes, followed by detailed genome-wide analysis of NL interactions, replication timing, and transcription patterns. Gene activation inside LADs typically causes NL detachment of the entire transcription unit, but rarely more than 50-100 kb of flanking DNA, even when multiple neighboring genes are activated. The degree of detachment depends on the expression level and the length of the activated gene. Loss of NL interactions coincides with a switch from late to early replication timing, but the latter can involve longer stretches of DNA. Inactivation of active genes can lead to increased NL contacts. These extensive datasets are a resource for the analysis of LAD rewiring by transcription and reveal a remarkable flexibility of interphase chromosomes

Freshwater Seepage Into Sediments of the Shelf, Shelf Edge, and Continental Slope of the Canadian Beaufort Sea

Long‐term warming of the continental shelf of the Canadian Beaufort Sea caused by the transgression associated with the last deglaciation may be causing decomposition of relict offshore subsea permafrost and gas hydrates. To evaluate this possibility, pore waters from 118 sediment cores up to 7.3‐m long were taken on the shelf and slope and analyzed for chloride concentrations and δ180 and δD composition. We observed downcore decreases in pore waters Cl− concentration in sediments from all sites from the inner shelf (<20‐m water depth), from the shelf edge, from the outer slope (down to 1,000‐m water depths), and from localized shelf features such as midshelf pingo‐like features and inner shelf pockmarks. In contrast, pore water freshening is absent from all investigated cores of the Mackenzie Trough. Downcore pore waters Cl− concentration decreases indicate regional widespread freshwater seepage. Extrapolations to zero Cl− of pore water Cl− versus δ180 regression lines indicate that freshwaters in these environments carry different isotope signatures and thus are sourced from different reservoirs. These isotopic signatures indicate that freshening of shelf sediments pore waters is a result of downward infiltration of Mackenzie River water, freshening of shelf edge sediments is due to relict submarine permafrost degradation or gas hydrate decomposition under the shelf, and freshening of slope sediments is consistent with regional groundwater flow and submarine groundwater discharge as far as 150 km from shore. These results confirm ongoing decomposition of offshore permafrost and suggest extensive current groundwater discharge far from the coast