SARS-CoV-2 detection by extraction-free qRT-PCR for massive and rapid COVID-19 diagnosis during a pandemic in Armenia.

COVID-19 pandemic severely impacted the healthcare and economy on a global scale. It is widely recognized that mass testing is an efficient way to contain the spread of SARS-CoV-2 infection as well as aid in the development of informed policies for disease management. However, the current COVID-19 worldwide infection rates increased the demand for rapid and reliable screening of infection. We compared the performance of qRT-PCR in direct heat-inactivated (H), heat-inactivated and pelleted (HC) samples against RNA in a group of 74 subjects (44 positive and 30 negative). Then we compared the sensitivity of HC in a larger group of 196 COVID-19 positive samples. Our study suggests that HC samples show higher accuracy for SARS-CoV-2 detection PCR assay compared to direct H (89 % vs 83 % of the detection in RNA). The sensitivity of detection using direct samples varied depending on the sample transport and storage media as well as the viral loads (as measured by qRT-PCR Ct levels). Altogether, all the data suggest that purified RNA provides more accurate results, however, direct sample testing with qRT-PCR may help to significantly increase testing capacity. Switching to the direct sample testing is justified if the number of tests is doubled at least.

Transcriptome Patterns of BRCA1- and BRCA2- Mutated Breast and Ovarian Cancers.

Mutations in the BRCA1 and BRCA2 genes are known risk factors and drivers of breast and ovarian cancers. So far, few studies have been focused on understanding the differences in transcriptome and functional landscapes associated with the disease (breast vs. ovarian cancers), gene (BRCA1 vs. BRCA2), and mutation type (germline vs. somatic). In this study, we were aimed at systemic evaluation of the association of BRCA1 and BRCA2 germline and somatic mutations with gene expression, disease clinical features, outcome, and treatment. We performed BRCA1/2 mutation centered RNA-seq data analysis of breast and ovarian cancers from the TCGA repository using transcriptome and phenotype "portrayal" with multi-layer self-organizing maps and functional annotation. The results revealed considerable differences in BRCA1- and BRCA2-dependent transcriptome landscapes in the studied cancers. Furthermore, our data indicated that somatic and germline mutations for both genes are characterized by deregulation of different biological functions and differential associations with phenotype characteristics and poly(ADP-ribose) polymerase (PARP)-inhibitor gene signatures. Overall, this study demonstrates considerable variation in transcriptomic landscapes of breast and ovarian cancers associated with the affected gene (BRCA1 vs. BRCA2), as well as the mutation type (somatic vs. germline). These results warrant further investigations with larger groups of mutation carriers aimed at refining the understanding of molecular mechanisms of breast and ovarian cancers.

Environmental and socio-economic vulnerability of agricultural sector in Armenia.

Being a mountainous country, Armenia has undergone different kinds of natural disasters, such as droughts, floods, and storms, which have a direct influence on economy and are expected to occur more frequently in terms of climate change, raising the need to estimate economic vulnerability especially in agricultural sector. Agriculture plays a great role in national economy of Armenia, with 21% share in Gross Domestic Production (GDP). For this reason, the estimation of agricultural resources of the country, their vulnerability towards current and future climate, and assessment of economical loss of the agricultural crop production due to climate change are the main goals of the given study. Crop productivity in dependence on climatic elements - temperature, radiation, precipitation, wind field, etc. has been estimated, further on interpolating these relations for future climate conditions using climate projections in the region for the time period of 2011-2040. Data on air temperature, precipitation, relative humidity, wind speed and direction for the period of 1966-2011 have been taken from 30 stations from the measuring network of Armenian State Hydrometeorological Service. Other climatic parameters like potential and actual evapotranspiration, soil temperature and humidity, field capacity, and wilting point have been calculated with the help of an AMBAV/AMBETTI (agroclimatic) model (German Weather Service). The results showed that temperature increase accompanied with evapotranspiration increase and water availability decrease especially in low and mid-low altitudes (where the main national crop production is centralized) caused a significant shift in the phenological phases of crops, which is very important information for effective farming dates, giving an opportunity to raise efficiency of agricultural production through minimizing the yield loss due to unfavorable climatic conditions. With the help of macroeconomical analysis of the crop market, it was estimated that the economical loss of the wheat production due to even drier conditions in the future climate (2011-2040) will be more than doubled, causing essential problems in irrigation systems with sparse water resources.