scholarly journals A clinically validated human saliva metatranscriptomic test for global systems biology studies

2021 ◽  
Author(s):  
Ryan Toma ◽  
Ying Cai ◽  
Oyetunji Ogundijo ◽  
Stephanie Gline ◽  
Diana Demusaj ◽  
...  

We report here the development of a high throughput, automated, inexpensive, and clinically validated saliva metatranscriptome test that requires less than 100 microliters of saliva. The RNA in the samples is preserved at the time of collection. Samples can then be stored and transported at ambient temperatures for up to 28 days without significantly affecting the test results. Another important feature of the sample preservative is that it inactivates all classes of pathogens, enabling safe transportation globally. Given the unique set of convenience, low cost, safety, and technical performance, this saliva metatranscriptomic test can be integrated into longitudinal, global scale, systems biology studies that will lead to an accelerated development of precision medicine diagnostic and therapeutic tools. This report describes an important improvement to saliva transcriptome analysis. While current methods are complicated and expensive, the method reported here includes at-home sample collection, global shipping at ambient temperatures and pathogen inactivation at the point of collection; it uses fully automated, clinically validated and licensed laboratory and bioinformatic analyses.

2021 ◽  
Vol 0 (0) ◽  
Author(s):  
Robert Christie

Abstract This paper presents an overview of the general chemical principles underlying the structures, synthesis and technical performance of azo pigments, the dominant chemical class of industrial organic pigments in the yellow, orange, and red shade areas, both numerically and in terms of tonnage manufactured. A description of the most significant historical features in this group of pigments is provided, starting from the discovery of the chemistry on which azo colorants are based by Griess in the mid-nineteenth century, through the commercial introduction of the most important classical azo pigments in the early twentieth century, including products known as the Hansa Yellows, β-naphthol reds, including metal salt pigments, and the diarylide yellows and oranges, to the development in the 1950s and 1960s of two classes of azo pigments that exhibit high performance, disazo condensation pigments and benzimidazolone-based azo pigments. A feature that complicates the description of the chemical structures of azo pigments is that they exist in the solid state as the ketohydrazone rather than the hydroxyazo form, in which they have been traditionally been illustrated. Numerous structural studies conducted over the years on an extensive range of azo pigments have demonstrated this feature. In this text, they are referred to throughout as azo (hydrazone) pigments. Since a common synthetic procedure is used in the manufacture of virtually all azo (hydrazone) pigments, this is discussed in some detail, including practical aspects. The procedure brings together two organic components as the fundamental starting materials, a diazo component and a coupling component. An important reason for the dominance of azo (hydrazone) pigments is that they are highly cost-effective. The syntheses generally involve low cost, commodity organic starting materials and are carried out in water as the reaction solvent, which offers obvious economic and environmental advantages. The versatility of the approach means that an immense number of products may be prepared, so that they have been adapted structurally to meet the requirements of many applications. On an industrial scale, the processes are straightforward, making use of simple, multi-purpose chemical plant. Azo pigments may be produced in virtually quantitative yields and the processes are carried out at or below ambient temperatures, thus presenting low energy requirements. Finally, provided that careful control of the reaction conditions is maintained, azo pigments may be prepared directly by an aqueous precipitation process that can optimise physical form, with control of particle size distribution, crystalline structure, and surface character. The applications of azo pigments are outlined, with more detail reserved for subsequent papers on individual products.


Diagnostics ◽  
2021 ◽  
Vol 11 (8) ◽  
pp. 1304
Author(s):  
Monique Melo Costa ◽  
Nicolas Benoit ◽  
Florian Saby ◽  
Bruno Pradines ◽  
Samuel Granjeaud ◽  
...  

SARS-CoV-2 outbreak led to unprecedented innovative scientific research to preclude the virus dissemination and limit its impact on life expectancy. Waiting for the collective immunity by vaccination, mass-testing, and isolation of positive cases remain essential. The development of a diagnosis method requiring a simple and non-invasive sampling with a quick and low-cost approach is on demand. We hypothesized that the combination of saliva specimens with MALDI-TOF MS profiling analyses could be the winning duo. Before characterizing MS saliva signatures associated with SARS-CoV-2 infection, optimization and standardization of sample collection, preparation and storage up to MS analyses appeared compulsory. In this view, successive experiments were performed on saliva from healthy healthcare workers. Specimen sampling with a roll cotton of Salivette® devices appeared the most appropriate collection mode. Saliva protein precipitation with organic buffers did not improved MS spectra profiles compared to a direct loading of samples mixed with acetonitrile/formic acid buffer onto MS plate. The assessment of sample storage conditions and duration revealed that saliva should be stored on ice until MS analysis, which should occur on the day of sampling. Kinetic collection of saliva highlighted reproducibility of saliva MS profiles over four successive days and also at two-week intervals. The intra-individual stability of saliva MS profiles should be a key factor in the future investigation for biomarkers associated with SARS-CoV-2 infection. However, the singularity of MS profiles between individuals will require the development of sophisticated bio-statistical analyses such as machine learning approaches. MALDI-TOF MS profiling of saliva could be a promising PCR-free tool for SARS-CoV-2 screening.


2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Krithika Ramchander ◽  
Megha Hegde ◽  
Anish Paul Antony ◽  
Luda Wang ◽  
Kendra Leith ◽  
...  

AbstractNaturally-occurring membranes in the xylem tissue of gymnosperm sapwood enable its use as an abundantly-available material to construct filters, with potential to facilitate access to safe drinking water in resource-constrained settings. However, the material’s behavior as a filter is poorly understood, and challenges such as short shelf life have not been addressed. Here, we characterize the operational attributes of xylem filters and show that the material exhibits a highly non-linear dependence of flow resistance on thickness upon drying, and a tendency for self-blocking. We develop guidelines for the design and fabrication of xylem filters, demonstrate gravity-operated filters with shelf life >2 years, and show that the filters can provide >3 log removal of E. coli, MS-2 phage, and rotavirus from synthetic test waters and coliform bacteria from contaminated spring, tap, and ground waters. Through interviews and workshops in India, we use a user-centric approach to design a prototype filtration device with daily- to weekly-replaceable xylem filters, and uncover indicators of social acceptance of xylem as a natural water filter. Our work enhances the understanding of xylem as a filtration material, and opens opportunities for engineering a diverse range of low-cost, biodegradable xylem-based filtration products on a global scale.


2012 ◽  
Vol 184-185 ◽  
pp. 384-388
Author(s):  
Bing Tian Gao

In order to realize the technical performance of high speed, high precision, high stability and high reliability for conjugated indexing mechanism with periodic intermittent rotary motion, a two cams structure has been designed, and its geometry size and profile curve was carefully determined. Also the calculation formula of the contour curve for CAM was deduced. Research achievement has been applied to new equipment of enterprise development, the working performance is stable and reliable, the production efficiency raised by 30% compared to the domestic industry. The mechanism has characteristics of simplified structure, improved transmission performance and low cost.


2008 ◽  
Vol 5 (3) ◽  
pp. 761-777 ◽  
Author(s):  
T. R. Duhl ◽  
D. Helmig ◽  
A. Guenther

Abstract. This literature review summarizes the environmental controls governing biogenic sesquiterpene (SQT) emissions and presents a compendium of numerous SQT-emitting plant species as well as the quantities and ratios of SQT species they have been observed to emit. The results of many enclosure-based studies indicate that temporal SQT emission variations appear to be dominated mainly by ambient temperatures although other factors contribute (e.g., seasonal variations). This implies that SQT emissions have increased significance at certain times of the year, especially in late spring to mid-summer. The strong temperature dependency of SQT emissions also creates the distinct possibility of increasing SQT emissions in a warmer climate. Disturbances to vegetation (from herbivores and possibly violent weather events) are clearly also important in controlling short-term SQT emissions bursts, though the relative contribution of disturbance-induced emissions is not known. Based on the biogenic SQT emissions studies reviewed here, SQT emission rates among numerous species have been observed to cover a wide range of values, and exhibit substantial variability between individuals and across species, as well as at different environmental and phenological states. These emission rates span several orders of magnitude (10s–1000s of ng gDW-1 h−1). Many of the higher rates were reported by early SQT studies, which may have included artificially-elevated SQT emission rates due to higher-than-ambient enclosure temperatures and disturbances to enclosed vegetation prior to and during sample collection. When predicting landscape-level SQT fluxes, modelers must consider the numerous sources of variability driving observed SQT emissions. Characterizations of landscape and global SQT fluxes are highly uncertain given differences and uncertainties in experimental protocols and measurements, the high variability in observed emission rates from different species, the selection of species that have been studied so far, and ambiguities regarding controls over emissions. This underscores the need for standardized experimental protocols, better characterization of disturbance-induced emissions, screening of dominant plant species, and the collection of multiple replicates from several individuals within a given species or genus as well as a better understanding of seasonal dependencies of SQT emissions in order to improve the representation of SQT emission rates.


BMJ Open ◽  
2018 ◽  
Vol 8 (8) ◽  
pp. e021037 ◽  
Author(s):  
Roberta Lorenzon ◽  
Encarnita Mariotti-Ferrandiz ◽  
Caroline Aheng ◽  
Claire Ribet ◽  
Ferial Toumi ◽  
...  

IntroductionAutoimmune and autoinflammatory diseases (AIDs) represent a socioeconomic burden as the second cause of chronic illness in Western countries. In this context, the TRANSIMMUNOM clinical protocol is designed to revisit the nosology of AIDs by combining basic, clinical and information sciences. Based on classical and systems biology analyses, it aims to uncover important phenotypes that cut across diagnostic groups so as to discover biomarkers and identify novel therapeutic targets.Methods and analysisTRANSIMMUNOM is an observational clinical protocol that aims to cross-phenotype a set of 19 AIDs, six related control diseases and healthy volunteers . We assembled a multidisciplinary cohort management team tasked with (1) selecting informative biological (routine and omics type) and clinical parameters to be captured, (2) standardising the sample collection and shipment circuit, (3) selecting omics technologies and benchmarking omics data providers, (4) designing and implementing a multidisease electronic case report form and an omics database and (5) implementing supervised and unsupervised data analyses.Ethics and disseminationThe study was approved by the institutional review board of Pitié-Salpêtrière Hospital (ethics committee Ile-De-France 48–15) and done in accordance with the Declaration of Helsinki and good clinical practice. Written informed consent is obtained from all participants before enrolment in the study. TRANSIMMUNOM’s project website provides information about the protocol (https://www.transimmunom.fr/en/) including experimental set-up and tool developments. Results will be disseminated during annual scientific committees appraising the project progresses and at national and international scientific conferences.DiscussionSystems biology approaches are increasingly implemented in human pathophysiology research. The TRANSIMMUNOM study applies such approach to the pathophysiology of AIDs. We believe that this translational systems immunology approach has the potential to provide breakthrough discoveries for better understanding and treatment of AIDs.Trial registration numberNCT02466217; Pre-results.


2021 ◽  
Vol 11 (22) ◽  
pp. 10955
Author(s):  
Kazuhiko Kurata ◽  
Luca Giorgi ◽  
Fabio Cavaliere ◽  
Liam O’Faolain ◽  
Sebastian A. Schulz ◽  
...  

Here, we report on the design and performance of a silicon photonic micro-transceiver required to operate in 5G and 6G environments at high ambient temperatures above 105 °C. The four-channel “IOCore” micro-transceiver incorporates a 1310 nm quantum dot laser system and operates at a data rate of 25 Gbps and higher. The 5 × 5 mm micro-transceiver chip benefits from a multimode coupling interface for low-cost assembly and robust connectivity at high temperatures as well as an optical redundancy scheme, which increases reliability by over an order of magnitude.


2021 ◽  
Vol 122 (1) ◽  
pp. 46-57
Author(s):  
Kate Bayliss ◽  
Ben Fine

This article is concerned with the ways that diet-related health outcomes (including increased incidence and severity of Covid-19) are linked to the system of provision for food. Worldwide obesity has tripled in the past three decades, creating an immense strain on health services, with poor diet associated with 22 per cent of global deaths in 2017. We show that neoliberal and financialised global systems of food production have intensified dysfunctional practices such as land grabs and price speculation. Moreover, capitalist expansion of production inevitably creates pressures to increase consumption such that malnutrition from overeating runs neck and neck with undernutrition on a global scale. It is shown how food corporates (producers, retailers, and so on) are instrumental in creating avenues to affect our diets in ways that are far more effective than government campaigns to promote healthy eating. It is these powerful systemic corporate interests that need to be addressed in order to improve diets and consequent health outcomes.


2020 ◽  
Author(s):  
Jana von Freyberg ◽  
Julia L. A. Knapp ◽  
Andrea Rücker ◽  
Bjørn Studer ◽  
James W. Kirchner

Abstract. Automated field sampling of streamwater or precipitation for subsequent analysis of stable water isotopes (2H and 18O) is often conducted with off-the-shelf automated samplers. However, water samples stored in the field for days and weeks in open bottles inside autosamplers undergo isotopic fractionation and vapor mixing, thus altering their isotopic signature. We therefore designed an evaporation protection method which modifies autosampler bottles using a syringe housing and silicone tube, and tested whether this method reduces evaporative fractionation and vapor mixing in water samples stored for up to 24 days in ISCO autosamplers (Teledyne ISCO., Lincoln, US). Laboratory and field tests under different temperature and humidity conditions showed that water samples in bottles with evaporation protection were far less altered by evaporative fractionation and vapor mixing than samples in conventional open bottles. Our design is a cost-efficient approach to upgrade the 1-litre sample bottles of ISCO 6712 Full-size Portable Samplers, allowing secure water sample collection in warm and dry environments. Our design can be readily adapted (e.g., by using a different syringe size) to fit the bottles used by many other field autosamplers.


2014 ◽  
Vol 68 (5) ◽  
pp. 629-641 ◽  
Author(s):  
Tatjana Djakov ◽  
Ivanka Popovic ◽  
Ljubinka Rajakovic

Micro-electro-mechanical systems (MEMS) are miniturized devices that can sense the environment, process and analyze information, and respond with a variety of mechanical and electrical actuators. MEMS consists of mechanical elements, sensors, actuators, electrical and electronics devices on a common silicon substrate. Micro-electro-mechanical systems are becoming a vital technology for modern society. Some of the advantages of MEMS devices are: very small size, very low power consumption, low cost, easy to integrate into systems or modify, small thermal constant, high resistance to vibration, shock and radiation, batch fabricated in large arrays, improved thermal expansion tolerance. MEMS technology is increasingly penetrating into our lives and improving quality of life, similar to what we experienced in the microelectronics revolution. Commercial opportunities for MEMS are rapidly growing in broad application areas, including biomedical, telecommunication, security, entertainment, aerospace, and more in both the consumer and industrial sectors on a global scale. As a breakthrough technology, MEMS is building synergy between previously unrelated fields such as biology and microelectronics. Many new MEMS and nanotechnology applications will emerge, expanding beyond that which is currently identified or known. MEMS are definitely technology for 21st century.


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