Stable, fluorescent markers for tracking synthetic communities and assembly dynamics.

BACKGROUND: After two decades of extensive microbiome research, the current forefront of scientific exploration involves moving beyond description and classification to uncovering the intricate mechanisms underlying the coalescence of microbial communities. Deciphering microbiome assembly has been technically challenging due to their vast microbial diversity but establishing a synthetic community (SynCom) serves as a key strategy in unravelling this process. Achieving absolute quantification is crucial for establishing causality in assembly dynamics. However, existing approaches are primarily designed to differentiate a specific group of microorganisms within a particular SynCom. RESULTS: To address this issue, we have developed the differential fluorescent marking (DFM) strategy, employing three distinguishable fluorescent proteins in single and double combinations. Building on the mini-Tn7 transposon, DFM capitalises on enhanced stability and broad applicability across diverse Proteobacteria species. The various DFM constructions are built using the pTn7-SCOUT plasmid family, enabling modular assembly, and facilitating the interchangeability of expression and antibiotic cassettes in a single reaction. DFM has no detrimental effects on fitness or community assembly dynamics, and through the application of flow cytometry, we successfully differentiated, quantified, and tracked a diverse six-member SynCom under various complex conditions like root rhizosphere showing a different colonisation assembly dynamic between pea and barley roots. CONCLUSIONS: DFM represents a powerful resource that eliminates dependence on sequencing and/or culturing, thereby opening new avenues for studying microbiome assembly. Video Abstract.

Surgical management of a congenital genital tract abnormality in a patient with Lynch syndrome.

Lynch syndrome (LS), also known as hereditary non-polyposis colorectal cancer, is an inherited cancer syndrome which increases the risk of developing colorectal cancer and endometrial cancer. Individuals with LS have an increased risk of cancers of the ovary, urinary tract, stomach, small intestine, pancreas, biliary tract, brain and skin. Cancer risk reduction is recommended through chemoprevention (aspirin), surveillance (colonoscopy, assessment of the endometrium and ovaries via USS, aspiration biopsy and tumour marker monitoring; CA125) or risk reduction surgery, that is, total hysterectomy and bilateral salpingo-oophorectomy.This is a case of a nulliparous woman in her early 30s with LS and a congenital genital tract malformation. She had a unicornuate (left) uterus and a vestigial (right) uterine horn. There was an inability to obtain a conclusive set of endometrial biopsies in this patient due to the nature of the patient's congenital uterine abnormality. In this case, surgery was recommended to excise the vestigial horn and fallopian tube in order to optimise surveillance and fertility.

Dielectric Properties of Water in Charged Nanopores.

In this study, we examine the spectral dielectric properties of liquid water in charged nanopores over a wide range of frequencies (0.3 GHz to 30 THz) and pore widths (0.3 to 5 nm). This has been achieved using classical molecular dynamics simulations of hydrated Na-smectite, the prototypical swelling clay mineral. We observe a drastic (20-fold) and anisotropic decrease in the static relative permittivity of the system as the pore width decreases. This large decrement in static permittivity reflects a strong attenuation of the main Debye relaxation mode of liquid water. Remarkably, this strong attenuation entails very little change in the time scale of the collective relaxation. Our results indicate that water confined in charged nanopores is a distinct solvent with a much weaker collective nature than bulk liquid water, in agreement with recent observations of water in uncharged nanopores. Finally, we observe remarkable agreement between the dielectric properties of the simulated clay system against a compiled set of soil samples at various volumetric water contents. This implies that saturation may not be the sole property dictating the dielectric properties of soil samples, rather that the pore-size distribution of fully saturated nanopores may also play a critically important role.

Dynamic formation of stable current-driven plasma jets.

Instabilities play a prominent role in determining the inherent structure and properties of magnetized plasma jets spanning both laboratory and astrophysical settings. The manner in which prominent unstable modes dynamically evolve remains key to understanding plasma behavior and control. In astrophysical phenomena, self-similar jets are observed to propagate over vast distances while avoiding breakup caused by unstable mode growth. However, the production of stable dense plasma jets in the laboratory has been limited by the onset of unstable modes that restrict jet lifetime, collimation, and scalability. In this work, we visualize the formation of stable laboratory-generated, dense, super-magnetosonic plasma jets in real time, and we identify an underlying mechanism that contributes to this behavior. The current-driven plasma jets generated in our experiments form a flowing Z-pinch, which is generally unstable to the m = 1 kink instability. Our results indicate that a stable dense plasma jet can be maintained for timescales over which a steady pinch current can be sustained, even at levels which would otherwise lead to rapid unstable mode growth and resultant pinch disassembly.

The Water-Alkane Interface at Various NaCl Salt Concentrations: A Molecular Dynamics Study of the Readily Available Force Fields.

In this study, classical molecular dynamic simulations have been used to examine the molecular properties of the water-alkane interface at various NaCl salt concentrations (up to 3.0 mol/kg). A variety of different force field combinations have been compared against experimental surface/interfacial tension values for the water-vapour, decane-vapour and water-decane interfaces. Six different force fields for water (SPC, SPC/E, TIP3P, TIP3Pcharmm, TIP4P & TIP4P2005), and three further force fields for alkane (TraPPE-UA, CGenFF & OPLS) have been compared to experimental data. CGenFF, OPLS-AA and TraPPE-UA all accurately reproduce the interfacial properties of decane. The TIP4P2005 (four-point) water model is shown to be the most accurate water model for predicting the interfacial properties of water. The SPC/E water model is the best three-point parameterisation of water for this purpose. The CGenFF and TraPPE parameterisations of oil accurately reproduce the interfacial tension with water using either the TIP4P2005 or SPC/E water model. The salinity dependence on surface/interfacial tension is accurately captured using the Smith & Dang parameterisation of NaCl. We observe that the Smith & Dang model slightly overestimates the surface/interfacial tensions at higher salinities (>1.5 mol/kg). This is ascribed to an overestimation of the ion exclusion at the interface.

Evidence of Branching Phenomena in Current-Driven Ionization Waves.

This Letter reports the first fully consistent experimental observations of current-driven ionization waves conforming to the magnetohydrodynamic Rankine-Hugoniot model for hydromagnetic shocks. Detailed measurements of the thermodynamic and electrodynamic plasma state variables across the ionization region confirm the existence of two types of waves, corresponding to the upper and lower solution branches of the Hugoniot curve. These waves are generated by pulsed currents in a coaxial gas-fed plasma accelerator. The coupling between the state variables of this complex, transient, three-dimensional system shows a remarkable quantitative agreement of less than 8% deviation from the quasisteady, one-dimensional theoretical model.

A fast rise-rate, adjustable-mass-bit gas puff valve for energetic pulsed plasma experiments.

A fast rise-rate, variable mass-bit gas puff valve based on the diamagnetic repulsion principle was designed, built, and experimentally characterized. The ability to hold the pressure rise-rate nearly constant while varying the total overall mass bit was achieved via a movable mechanical restrictor that is accessible while the valve is assembled and pressurized. The rise-rates and mass-bits were measured via piezoelectric pressure transducers for plenum pressures between 10 and 40 psig and restrictor positions of 0.02-1.33 cm from the bottom of the linear restrictor travel. The mass-bits were found to vary linearly with the restrictor position at a given plenum pressure, while rise-rates varied linearly with plenum pressure but exhibited low variation over the range of possible restrictor positions. The ability to change the operating regime of a pulsed coaxial plasma deflagration accelerator by means of altering the valve parameters is demonstrated.