Metropolis-Hastings thermal state sampling for numerical simulations of Bose-Einstein condensates

Berezinskii-Kosterlitz-Thouless phase induced by dissipating quasisolitons

We theoretically study the sound propagation in a two-dimensional weakly interacting uniform Bose gas. Using the classical fields approximation we analyze in detail the properties of density waves generated both in a weak and strong perturbation regimes. While in the former case density excitations can be described in terms of hydrodynamic or collisionless sound, the strong disturbance of the system results in a qualitatively different response. We identify observed structures as quasisolitons and uncover their internal complexity for strong perturbation case. For this regime quasisolitons break into vortex pairs as time progresses, eventually reaching an equilibrium state. We find this state, characterized by only fluctuating in time averaged number of pairs of opposite charge vortices and by appearance of a quasi-long-range order, as the Berezinskii-Kosterlitz-Thouless (BKT) phase.

Nascent Pre-rRNA Sorting via Phase Separation Drives the Assembly of Dense Fibrillar Components in the Human Nucleolus

Fibrillar centers (FCs) and dense fibrillar components (DFCs) are essential morphologically distinct sub-regions of mammalian cell nucleoli for rDNA transcription and pre-rRNA processing. Here, we report that a human nucleolus consists of several dozen FC/DFC units, each containing 2-3 transcriptionally active rDNAs at the FC/DFC border. Pre-rRNA processing factors, such as fibrillarin (FBL), form 18-24 clusters that further assemble into the DFC surrounding the FC. Mechanistically, the 5' end of nascent 47S pre-rRNA binds co-transcriptionally to the RNA-binding domain of FBL. FBL diffuses to the DFC, where local self-association via its glycine- and arginine-rich (GAR) domain forms phase-separated clusters to immobilize FBL-interacting pre-rRNA, thus promoting directional traffic of nascent pre-rRNA while facilitating pre-rRNA processing and DFC formation. These results unveil FC/DFC ultrastructures in nucleoli and suggest a conceptual framework for considering nascent RNA sorting using multivalent interactions of their binding proteins.