The 2 micron plasmid of Saccharomyces cerevisiae resides in the nucleus as an extra-chromosomal element with a steady state copy number of 40-60 per cell. As a benign but selfish DNA element, the plasmid utilizes a self-encoded partitioning system and an amplification system to ensure its stable, high-copy propagation. The partitioning system consists of the plasmid encoded proteins, Rep1 and Rep2 and a cis-acting partitioning locus STB. The Rep proteins, together with several host factors, assembled at STB couple plasmid segregation to chromosome segregation. A plasmid lacking an active partitioning system is subject to a ‘diffusion barrier’, which causes it to be retained in the mother cell with a strong bias (mother bias). Currently available evidence favors the hitchhiking model for plasmid segregation, in which the tethering of plasmids to chromosome provides the basis for faithful plasmid partitioning. However, direct evidence to support this hypothesis has been difficult to obtain because of the small size of the budding yeast nucleus and the poor resolution of chromosomes in live cells or in chromosome spreads. In this study, we have attempted to verify the hitchhiking model using single copy derivatives of the 2 micron plasmid as reporters. We demonstrate, using two single copy reporters present in the same nucleus, that plasmid association with chromosome spreads is authentic, and is dependent on the partitioning system. By using a strategy that forces all chromosomes to stay in either the mother or the daughter compartment, we show that plasmid segregation can be uncoupled from nuclear envelope segregation. However, plasmid segregation cannot be uncoupled from chromosome segregation under this condition. This tight coupling between plasmid and chromosome segregation is consistent with the hitchhiking model for plasmid segregation. The plasmid partitioning complex is assembled de novo at STB during each cell cycle during the G1-S window. Plasmid replication or cell cycle cues that signal cellular DNA replication appear to trigger this assembly. Furthermore, there is an apparent temporal hierarchy in the association and dissociation of protein factors at STB. When DNA replication is delayed or blocked, the dissociation of factors from STB from the previous portioning cycle and the association of factors for the new partitioning cycle are delayed or blocked, respectively. The precise role of replication in plasmid segregation has not been elucidated. We have addressed this question by blocking either plasmid replication or all cellular DNA replication. We find that replication is not required for plasmid to overcome mother bias. However, replication is critical for the equal segregation of sister plasmid copies. These results provide a refinement of the hitchhiking model by suggesting that sister plasmids tether to sister chromatids in a replication-dependent manner and hitchhike on them during chromosome segregation. Finally, we have attempted to reconstitute the 2 micron plasmid partitioning system in mammalian cells with the goal of exploiting their larger nuclear size and the considerably higher chromosome resolution they provide. In experiments completed so far, we show that Rep2 expressed in COS7 cells localizes to chromosomes, and Rep1 does so in the presence of Rep2. Furthermore, they show co-localization on sister chromatids in a symmetric fashion, implying that plasmids associated with them are likely to follow suit. These observations suggest, by extrapolation, the Rep1-Rep2 assisted association of sister plasmids with sister chromatids in yeast as well, and are consistent with the refined hitchhiking model for plasmid segregation. / text

The 2 micron plasmid of the budding yeast Saccharomyces cerevisiae resides in the nucleus as an extra-chromosomal element with a steady state copy number around 40-60 per cell. As a benign but selfish DNA element, the plasmid utilizes a self-coded partitioning system and an amplification system to exhibit nearly chromosome-like stability in its host. Plasmid behavior under conditions that missegregate chromosomes suggest that the partitioning system couples plasmid segregation to chromosome segregation. However, the mechanism of this coupling has not been elucidated. A plausible model, consistent with current evidence, is the hitchhiking model, in which plasmid-chromosome tethering provides the basis for faithful plasmid partitioning. Testing this hypothesis unequivocally has been difficult, primarily because of the technical limitations posed by the small size of the budding yeast nucleus and poor resolution of chromosomes. As a result, cell biological assays based on fluorescence microscopy have had only modest success in addressing this problem. In the present study, I devised an experimental verification of the hitchhiking model using a single copy derivative of the 2 micron plasmid as a reporter. The rationale was to establish various conditions that force sister chromatids to co-segregate during mitosis in a bias-free manner or with a bias towards the daughter. The segregation patterns of plasmid sisters were followed under these conditions. The sum of the results from this analysis is accommodated by the hitchhiking model, with sister plasmids associating with sister chromatids in a one-to-one fashion. Episomes of mammalian viruses belonging to the gamma-herpes and papilloma families utilize a hitchhiking mechanism to persist in cells during the latent phase of their infection. Two of the viral partitioning systems have been reconstituted in S. cerevisiae. We wished to exploit these systems to characterize the efficiency of non-native chromosome tethering systems in promoting equal segregation of viral plasmids in S. cerevisiae. We find that the 2 micron plasmid partitioning system is considerably superior to the viral systems. This could be due to the higher efficiency of plasmid-chromosome association and/or due to the ability of plasmid sisters to tether to sister chromatids. / text

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High power thulium fiber lasers are interesting for a myriad of applications due to their potential for high average output power, excellent beam quality, compactness, portability, high operating efficiency and broad, eye-safe spectral range from 1.8-2.1 microns. Currently, the majority of thulium laser research effort is being invested into scaling average output powers; however, such output powers are being scaled with no degree of control on laser system output spectrum or temporal behavior. Thulium fiber laser technology is not useful for many of its most important applications without implementation of techniques enabling tunable, narrow spectral widths with appropriate pulse durations for particular applications. This work outlines several techniques for spectral control of thulium fiber lasers and investigates scaling of average laser powers while using these techniques to maintain a desired spectral output. In addition, an examination of operation in both nanosecond and picosecond pulsed regimes and scaling of average powers and pulse energies in these regimes to useful power levels is conducted. The demonstration of thulium fiber laser systems for applications in frequency conversion and spectral beam combination is also discussed. In addition to the experimental results, theoretical modeling of thulium fiber amplifier operation, simple thermal management analysis, as well as practical fiber and system design considerations for future power scaling are presented. Experimental and theoretical results of this work will enable the successful design of future extremely high power spectrally and temporally controlled thulium fiber laser systems.

Fiber based ultrashort pulse laser sources are desirable for many applications; however generating high peak powers in fiber lasers is primarily limited by the onset of nonlinear effects such as self-phase modulation, stimulated Raman scattering, and self-focusing. Increasing the fiber core diameter mitigates the onset of these nonlinear effects, but also allows unwanted higher-order transverse spatial modes to propagate. Both large core diameters and single-mode propagation can be simultaneously attained using photonic crystal fibers. Thulium-doped fiber lasers are attractive for high peak power ultrashort pulse systems. They offer a broad gain bandwidth, capable of amplifying sub-100 femtosecond pulses. The longer center wavelength at 2 ?m theoretically enables higher peak powers relative to 1 [micro]m systems since nonlinear effects inversely scale with wavelength. Also, the 2 [micro]m emission is desirable to support applications reaching further into the mid-IR. This work evaluates the performance of a novel all-fiber pump combiner that incorporates a thulium-doped photonic crystal fiber. This fully integrated amplifier is characterized and possesses a large gain bandwidth, essentially single-mode propagation, and high degree of polarization. This innovative all-fiber, thulium-doped photonic crystal fiber amplifier has great potential for enabling high peak powers in 2 [micro]m fiber systems; however the current optical-to-optical efficiency is low relative to similar free-space amplifiers. Further development and device optimization will lead to higher efficiencies and improved performance.