A low cost scheme for high precision dual-wavelength laser metrology

A novel method capable of delivering relative optical path length metrology with nanometer precision is demonstrated. Unlike conventional dual-wavelength metrology which employs heterodyne detection, the method developed in this work utilizes direct detection of interference fringes of two He-Ne lasers as well as a less precise stepper motor open-loop position control system to perform its measurement. Although the method may be applicable to a variety of circumstances, the specific application where this metrology is essential is in an astrometric optical long baseline stellar interferometer dedicated to precise measurement of stellar positions. In our example application of this metrology to a narrow-angle astrometric interferometer, measurement of nanometer precision could be achieved without frequency-stabilized lasers although the use of such lasers would extend the range of optical path length the metrology can accurately measure. Implementation of the method requires very little additional optics or electronics, thus minimizing cost and effort of implementation. Furthermore, the optical path traversed by the metrology lasers is identical with that of the starlight or science beams, even down to using the same photodetectors, thereby minimizing the non-common-path between metrology and science channels.Comment: 17 pages, 4 figures, accepted for publication in Applied Optic

Low-cost scheme for high-precision dual-wavelength laser metrology

A method capable of delivering relative optical path length metrology with nanometer precision is demonstrated. Unlike conventional dual-wavelength metrology, which employs heterodyne detection, the method developed in this work utilizes direct detection of interference fringes of two He-Ne lasers as well as a less precise stepper motor open-loop position control system to perform its measurement. Although the method may be applicable to a variety of circumstances, the specific application in which this metrology is essential is in an astrometric optical long baseline stellar interferometer dedicated to precise measurement of stellar positions. In our example application of this metrology to a narrow-angle astrometric interferometer, measurement of nanometer precision could be achieved without frequency-stabilized lasers, although the use of such lasers would extend the range of optical path length the metrology can accurately measure. Implementation of the method requires very little additional optics or electronics, thus minimizing the cost and effort of implementation. Furthermore, the optical path traversed by the metrology lasers is identical to that of the starlight or science beams, even down to using the same photodetectors, thereby minimizing the noncommon path between metrology and science channels.This research was supported under the Australian Research Council’s Discovery Project funding scheme. Y. K. was supported by the University of Sydney International Scholarship (USydIS)

Science and Technology Progress at the Sydney University Stellar Interferometer

This paper presents an overview of recent progress at the Sydney University Stellar Interferometer (SUSI). Development of the third-generation PAVO beam combiner has continued. The MUSCA beam combiner for high-precision differential astrometry using visible light phase referencing is under active development and will be the subject of a separate paper. Because SUSI was one of the pioneering interferometric instruments, some of its original systems are old and have become difficult to maintain. We are undertaking a campaign of modernization of systems: (1) an upgrade of the Optical Path Length Compensator IR laser metrology counter electronics from a custom system which uses an obsolete single-board computer to a modern one based on an FPGA interfaced to a Linux computer - in addition to improving maintainability, this upgrade should allow smoother motion and higher carriage speeds; (2) the replacement of the aged single-board computer local controllers for the siderostats and the longitudinal dispersion compensator has been completed; (3) the large beam reducing telescope has been replaced with a pair of smaller units with separate accessible foci. Examples of scientific results are also included.Comment: 10 pages, 9 Figure

New genetic loci link adipose and insulin biology to body fat distribution.

Body fat distribution is a heritable trait and a well-established predictor of adverse metabolic outcomes, independent of overall adiposity. To increase our understanding of the genetic basis of body fat distribution and its molecular links to cardiometabolic traits, here we conduct genome-wide association meta-analyses of traits related to waist and hip circumferences in up to 224,459 individuals. We identify 49 loci (33 new) associated with waist-to-hip ratio adjusted for body mass index (BMI), and an additional 19 loci newly associated with related waist and hip circumference measures (P < 5 × 10(-8)). In total, 20 of the 49 waist-to-hip ratio adjusted for BMI loci show significant sexual dimorphism, 19 of which display a stronger effect in women. The identified loci were enriched for genes expressed in adipose tissue and for putative regulatory elements in adipocytes. Pathway analyses implicated adipogenesis, angiogenesis, transcriptional regulation and insulin resistance as processes affecting fat distribution, providing insight into potential pathophysiological mechanisms

Self-phase-referencing interferometry with SUSI

The Sydney University Stellar Interferometer (SUSI) is being fitted with a new beam combiner, called the Micro-arcsecond University of Sydney Companion Astrometry instrument (MUSCA), for the purpose of high precision astrometry of bright binary stars. Operating in the visible wavelength regime where photon-counting and post-processing fringe tracking is possible, MUSCA will be used in tandem with SUSI's primary beam combiner, Precision Astronomical Visible Observations (PAVO), to record high spatial resolution fringes and thereby measure the separation of fringe packets of binary stars. With continued monitoring of stellar separation vectors at precisions in the tens of micro-arcseconds over timescales of years, it will be possible to search for the presence of gravitational perturbations in the orbital motion such as those expected from planetary mass objects in the system. This paper describes the first phase of the development, which includes the setup of the dual beam combiner system and the methodology applied to stabilize fringes of a star by means of self-phase-referencing.12 page(s

Alternative approach to precision narrow-angle astrometry for Antarctic long baseline interferometry

The conventional approach to high-precision narrow-angle astrometry using a long baseline interferometer is to directly measure the fringe packet separation of a target and a nearby reference star. This is done by means of a technique known as phase-referencing which requires a network of dual beam combiners and laser metrology systems. Using an alternative approach that does not rely on phase-referencing, the narrow-angle astrometry of several closed binary stars (with separation less than 2″), as described in this paper, was carried out by observing the fringe packet crossing event of the binary systems. Such an event occurs twice every sidereal day when the line joining the two stars of the binary is is perpendicular to the projected baseline of the interferometer. Observation of these events is well suited for an interferometer in Antarctica. Proof of concept observations were carried out at the Sydney University Stellar Interferometer (SUSI) with targets selected according to its geographical location. Narrow-angle astrometry using this indirect approach has achieved sub-100 micro-arcsecond precision

Plasma metabolomic profiling in patients with rheumatoid arthritis identifies biochemical features predictive of quantitative disease activity

Abstract Background Rheumatoid arthritis (RA) is a chronic, autoimmune disorder characterized by joint inflammation and pain. In patients with RA, metabolomic approaches, i.e., high-throughput profiling of small-molecule metabolites, on plasma or serum has thus far enabled the discovery of biomarkers for clinical subgroups, risk factors, and predictors of treatment response. Despite these recent advancements, the identification of blood metabolites that reflect quantitative disease activity remains an important challenge in precision medicine for RA. Herein, we use global plasma metabolomic profiling analyses to detect metabolites associated with, and predictive of, quantitative disease activity in patients with RA. Methods Ultra-high-performance liquid chromatography-tandem mass spectrometry (UPLC-MS/MS) was performed on a discovery cohort consisting of 128 plasma samples from 64 RA patients and on a validation cohort of 12 samples from 12 patients. The resulting metabolomic profiles were analyzed with two different strategies to find metabolites associated with RA disease activity defined by the Disease Activity Score-28 using C-reactive protein (DAS28-CRP). More specifically, mixed-effects regression models were used to identify metabolites differentially abundant between two disease activity groups (“lower”, DAS28-CRP ≤ 3.2; and “higher”, DAS28-CRP > 3.2) and to identify metabolites significantly associated with DAS28-CRP scores. A generalized linear model (GLM) was then constructed for estimating DAS28-CRP using plasma metabolite abundances. Finally, for associating metabolites with CRP (an indicator of inflammation), metabolites differentially abundant between two patient groups (“low-CRP”, CRP ≤ 3.0 mg/L; “high-CRP”, CRP > 3.0 mg/L) were investigated. Results We identified 33 metabolites differentially abundant between the lower and higher disease activity groups (P < 0.05). Additionally, we identified 51 metabolites associated with DAS28-CRP (P < 0.05). A GLM based upon these 51 metabolites resulted in higher prediction accuracy (mean absolute error [MAE] ± SD: 1.51 ± 1.77) compared to a GLM without feature selection (MAE ± SD: 2.02 ± 2.21). The predictive value of this feature set was further demonstrated on a validation cohort of twelve plasma samples, wherein we observed a stronger correlation between predicted and actual DAS28-CRP (with feature selection: Spearman’s ρ = 0.69, 95% CI: [0.18, 0.90]; without feature selection: Spearman’s ρ = 0.18, 95% CI: [−0.44, 0.68]). Lastly, among all identified metabolites, the abundances of eight were significantly associated with the CRP patient groups while controlling for potential confounders (P < 0.05). Conclusions We demonstrate for the first time the prediction of quantitative disease activity in RA using plasma metabolomes. The metabolites identified herein provide insight into circulating pro-/anti-inflammatory metabolic signatures that reflect disease activity and inflammatory status in RA patients

Alternative approach to precision narrow-angle astrometry for Antarctic long baseline interferometry

The conventional approach to high-precision narrow-angle astrometry using a long baseline interferometer is to directly measure the fringe packet separation of a target and a nearby reference star. This is done by means of a technique known as phase-referencing which requires a network of dual beam combiners and laser metrology systems. Using an alternative approach that does not rely on phase-referencing, the narrow-angle astrometry of several closed binary stars (with separation less than 2"), as described in this paper, was carried out by observing the fringe packet crossing event of the binary systems. Such an event occurs twice every sidereal day when the line joining the two stars of the binary is is perpendicular to the projected baseline of the interferometer. Observation of these events is well suited for an interferometer in Antarctica. Proof of concept observations were carried out at the Sydney University Stellar Interferometer (SUSI) with targets selected according to its geographical location. Narrow-angle astrometry using this indirect approach has achieved sub-100 micro-arcsecond precision.17 page(s

SymPortal: A novel analytical framework and platform for coral algal symbiont next-generation sequencing ITS2 profiling

We present SymPortal (SymPortal.org), a novel analytical framework and platform for genetically resolving the algal symbionts of reef corals using next-generation sequencing (NGS) data of the ITS2 rDNA. Although the ITS2 marker is widely used to genetically characterize taxa within the family Symbiodiniaceae (formerly the genus Symbiodinium), the multicopy nature of the marker complicates its use. Commonly, the intragenomic diversity resultant from this multicopy nature is collapsed by analytical approaches, thereby focusing on only the most abundant sequences. In contrast, SymPortal employs logic to identify within-sample informative intragenomic sequences, which we have termed ‘defining intragenomic variants' (DIVs), to identify ITS2-type profiles representative of putative Symbiodiniaceae taxa. By making use of this intragenomic ITS2 diversity, SymPortal is able to resolve genetic delineations using the ITS2 marker at a level that was previously only possible by using additional genetic markers. We demonstrate this by comparing this novel approach to the most commonly used alternative approach for NGS ITS2 data, the 97% similarity clustering to operational taxonomic units (OTUs). The SymPortal platform accepts NGS raw sequencing data as input to provide an easy-to-use, standardization-enforced, and community-driven framework that integrates with a database to gain resolving power with increased use. We consider that SymPortal, in conjunction with ongoing large-scale sampling and sequencing efforts, should play an instrumental role in making future sampling efforts more comparable and in maximizing their efficacy in working towards the classification of the global Symbiodiniaceae diversity.</p