Modeling Chickpea Productivity with Artificial Image Objects and Convolutional Neural Network.

The chickpea plays a significant role in global agriculture and occupies an increasing share in the human diet. The main aim of the research was to develop a model for the prediction of two chickpea productivity traits in the available dataset. Genomic data for accessions were encoded in Artificial Image Objects, and a model for the thousand-seed weight (TSW) and number of seeds per plant (SNpP) prediction was constructed using a Convolutional Neural Network, dictionary learning and sparse coding for feature extraction, and extreme gradient boosting for regression.

Pangenomics of flax fungal parasite f. sp. .

To assess the genomic diversity of f. sp. strains and compile a comprehensive gene repertoire, we constructed a pangenome using 13 isolates from four different clonal lineages, each exhibiting distinct levels of virulence.

Modeling the Flowering Activation Motif during Vernalization in Legumes: A Case Study of .

In many plant species, flowering is promoted by the cold treatment or vernalization. The mechanism of vernalization-induced flowering has been extensively studied in but remains largely unknown in legumes. The orthologs of the gene, a major regulator of vernalization response in , are absent or non-functional in the vernalization-sensitive legume species.

Morphological Signal Processing for Phenotype Recognition of Human Pluripotent Stem Cells Using Machine Learning Methods.

Human pluripotent stem cells have the potential for unlimited proliferation and controlled differentiation into various somatic cells, making them a unique tool for regenerative and personalized medicine. Determining the best clone selection is a challenging problem in this field and requires new sensing instruments and methods able to automatically assess the state of a growing colony ('phenotype') and make decisions about its destiny. One possible solution for such label-free, non-invasive assessment is to make phase-contrast images and/or videos of growing stem cell colonies, process the morphological parameters ('morphological portrait', or signal), link this information to the colony phenotype, and initiate an automated protocol for the colony selection.

Mesenchymal stromal cells facilitate resolution of pulmonary fibrosis by miR-29c and miR-129 intercellular transfer.

To date, pulmonary fibrosis remains an unmet medical need. In this study, we evaluated the potency of mesenchymal stromal cell (MSC) secretome components to prevent pulmonary fibrosis development and facilitate fibrosis resolution. Surprisingly, the intratracheal application of extracellular vesicles (MSC-EVs) or the vesicle-depleted secretome fraction (MSC-SF) was not able to prevent lung fibrosis when applied immediately after the injury caused by bleomycin instillation in mice.

Environment as a limiting factor of the historical global spread of mungbean.

While the domestication process has been investigated in many crops, the detailed route of cultivation range expansion and factors governing this process received relatively little attention. Here, using mungbean ( var. ) as a test case, we investigated the genomes of more than 1000 accessions to illustrate climatic adaptation's role in dictating the unique routes of cultivation range expansion.

Historical Routes for Diversification of Domesticated Chickpea Inferred from Landrace Genomics.

According to archaeological records, chickpea (Cicer arietinum) was first domesticated in the Fertile Crescent about 10,000 years BP. Its subsequent diversification in Middle East, South Asia, Ethiopia, and the Western Mediterranean, however, remains obscure and cannot be resolved using only archeological and historical evidence. Moreover, chickpea has two market types: "desi" and "kabuli," for which the geographic origin is a matter of debate.

Predictors of Progression and Mortality in Patients with Chronic Hypersensitivity Pneumonitis: Retrospective Analysis of Registry of Fibrosing Interstitial Lung Diseases.

Unlabelled: Hypersensitivity pneumonitis (HP) is an interstitial lung disease (ILD) resulting from an immune-mediated response in susceptible and sensitized individuals to a large variety of inhaled antigens. Chronic HP with a fibrotic phenotype is characterized by disease progression and a dismal prognosis. The aim of this study was to identify predictors of progression and mortality in patients with chronic HP in real clinical practice.

Transcriptomic Analysis of Flowering Time Genes in Cultivated Chickpea and Wild .

Chickpea ( L.) is a major grain legume and a good source of plant-based protein. However, comprehensive knowledge of flowering time control in is lacking.

Quality Control of Human Pluripotent Stem Cell Colonies by Computational Image Analysis Using Convolutional Neural Networks.

Human pluripotent stem cells are promising for a wide range of research and therapeutic purposes. Their maintenance in culture requires the deep control of their pluripotent and clonal status. A non-invasive method for such control involves day-to-day observation of the morphological changes, along with imaging colonies, with the subsequent automatic assessment of colony phenotype using image analysis by machine learning methods.

Modeling of Flowering Time in with Artificial Image Objects, Convolutional Neural Network and Random Forest.

Flowering time is an important target for breeders in developing new varieties adapted to changing conditions. In this work, a new approach is proposed in which the SNP markers influencing time to flowering in mung bean are selected as important features in a random forest model. The genotypic and weather data are encoded in artificial image objects, and a model for flowering time prediction is constructed as a convolutional neural network.

Genetic Determinants of Fiber-Associated Traits in Flax Identified by Omics Data Integration.

In this paper, we explore potential genetic factors in control of flax phenotypes associated with fiber by mining a collection of 306 flax accessions from the Federal Research Centre of the Bast Fiber Crops, Torzhok, Russia. In total, 11 traits were assessed in the course of 3 successive years. A genome-wide association study was performed for each phenotype independently using six different single-locus models implemented in the GAPIT3 R package.

Mechanisms of Vernalization-Induced Flowering in Legumes.

Vernalization is the requirement for exposure to low temperatures to trigger flowering. The best knowledge about the mechanisms of vernalization response has been accumulated for and cereals. In , vernalization involves an epigenetic silencing of the MADS-box gene , which is a flowering repressor.

An account of Fusarium wilt resistance in flax : The disease severity data.

A collection of flax accessions maintained by the Russian Federal Research Center for Bast Fiber Crops was characterized to evaluate its resistance to Fusarium wilt. 297 samples representing different morphotypes and selection status were infected with highly virulent MI39 strain of f. sp.

Accelerated Growth, Differentiation, and Ploidy with Reduced Proliferation of Right Ventricular Cardiomyocytes in Children with Congenital Heart Defect Tetralogy of Fallot.

The myocardium of children with tetralogy of Fallot (TF) undergoes hemodynamic overload and hypoxemia immediately after birth. Comparative analysis of changes in the ploidy and morphology of the right ventricular cardiomyocytes in children with TF in the first years of life demonstrated their significant increase compared with the control group. In children with TF, there was a predominantly diffuse distribution of Connexin43-containing gap junctions over the cardiomyocytes sarcolemma, which redistributed into the intercalated discs as cardiomyocytes differentiation increased.

The Genetic Landscape of Fiber Flax.

Genetic diversity in a breeding program is essential to overcome modern-day environmental challenges faced by humanity and produce robust, resilient crop cultivars with improved agronomic characteristics, as well as to trace crop domestication history. Flax (), one of the first crops domesticated by mankind, has been traditionally cultivated for fiber as well as for medicinal purposes and as a nutritional product. The origins of fiber flax are hidden in the mists of time and can be hypothetically traced back to either the Indo-Afghan region or Fertile Crescent.

The role of AUX1 during lateral root development in the domestication of the model C4 grass Setaria italica.

C4 photosynthesis increases the efficiency of carbon fixation by spatially separating high concentrations of molecular oxygen from Rubisco. The specialized leaf anatomy required for this separation evolved independently many times. The morphology of C4 root systems is also distinctive and adapted to support high rates of photosynthesis; however, little is known about the molecular mechanisms that have driven the evolution of C4 root system architecture.

Application of Domain- and Genotype-Specific Models to Infer Post-Transcriptional Regulation of Segmentation Gene Expression in .

Unlike transcriptional regulation, the post-transcriptional mechanisms underlying zygotic segmentation gene expression in early embryo have been insufficiently investigated. Condition-specific post-transcriptional regulation plays an important role in the development of many organisms. Our recent study revealed the domain- and genotype-specific differences between mRNA and the protein expression of , , and genes in cleavage cycle 14A.

Stochastic Effects in Retrotransposon Dynamics Revealed by Modeling under Competition for Cellular Resources.

Transposons are genomic elements that can relocate within a host genome using a 'cut'- or 'copy-and-paste' mechanism. They make up a significant part of many genomes, serve as a driving force for genome evolution, and are linked with Mendelian diseases and cancers. Interactions between two specific retrotransposon types, autonomous (e.

Genomic Regions Associated with Fusarium Wilt Resistance in Flax.

Modern flax cultivars are susceptible to many diseases; arguably, the most economically damaging of these is the Fusarium wilt fungal disease. Over the past decades international flax breeding initiatives resulted in the development of resistant cultivars. However, much remains to be learned about the mechanisms of resistance to Fusarium infection in flax.

A 61-Year-Old Woman With Insidious Dyspnea and Diffuse Cystic Lung Disease.

A 61-year-old woman, an ex-smoker with a 10 pack year smoking history, was referred to our clinic for the evaluation of insidious dyspnea and diffuse, bilateral infiltrates on a chest radiograph. She reported that she had been experiencing dyspnea on exertion and dry cough for the past 1.5 years.

A comprehensive dataset of flax ( L.) phenotypes.

A collection of flax accessions from Russian Federal Research Center for Bast Fiber Crops was characterised to evaluate its phenotypic diversity. 406 samples representing different morphotypes were selected for thorough quantitative assessment of various agronomic traits. We measured height, length of technical part of the stem, technical part weight, inflorescence length, number of bolls and seeds per plant, 1000 seed weight, the diameter of the stem, the number of internodes and finally, distance between internodes.

A Genomic Blueprint of Flax Fungal Parasite f. sp. .

Fusarium wilt of flax is an aggressive disease caused by the soil-borne fungal pathogen f. sp. .

Dynamical Modeling of the Core Gene Network Controlling Transition to Flowering in .

Transition to flowering is an important stage of plant development. Many regulatory modules that control floral transition are conservative across plants. This process is best studied for the model plant .

Interplay between sex determination cascade and major signaling pathways during Drosophila eye development: Perspectives for future research.

Understanding molecular mechanisms of sexually dimorphic organ growth is a fundamental problem of developmental biology. Recent quantitative studies showed that the Drosophila compound eye is a convenient model to study the determination of the final organ size. In Drosophila, females have larger eyes than males and this is evident even after correction for the larger body size.