633 results match your criteria phenotyping efficiency

New drought-adaptive loci underlying candidate genes on wheat chromosome 4B with improved photosynthesis and yield responses.

Physiol Plant 2021 Sep 22. Epub 2021 Sep 22.

Institute of Crop Science and Resource Conservation (INRES)-Plant Breeding and Biotechnology, University of Bonn, Bonn, Germany.

Flag leaf serves as an essential source of assimilates during grain filling, thereby contributing to grain yield up to 48%. Thus, high-throughput phenotyping of flag leaves is crucial to determine their physiological and genetic basis of yield formation and drought adaptation. Here, we utilized 200 wheat cultivars to identify drought-adaptive loci underlying candidate genes associated with flag leaf biomass and photosynthesis-related traits using a genome-wide association study (GWAS). Read More

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September 2021

Improvement of Phosphorus Use Efficiency in Rice by Adopting Image-Based Phenotyping and Tolerant Indices.

Front Plant Sci 2021 31;12:717107. Epub 2021 Aug 31.

Rice Breeding Innovation Platform, International Rice Research Institute (IRRI), Los Baños, Philippines.

Phosphorus is one of the second most important nutrients for plant growth and development, and its importance has been realised from its role in various chains of reactions leading to better crop dynamics accompanied by optimum yield. However, the injudicious use of phosphorus (P) and non-renewability across the globe severely limit the agricultural production of crops, such as rice. The development of P-efficient cultivar can be achieved by screening genotypes either by destructive or non-destructive approaches. Read More

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[Digitalized psychiatry : Critical considerations on a new paradigm].

Thomas Fuchs

Nervenarzt 2021 Sep 13. Epub 2021 Sep 13.

Karl-Jaspers-Professor für Philosophie und Psychiatrie, Psychiatrische Universitätsklinik, Voßstr. 4, 69115, Heidelberg, Deutschland.

Digitalization and artificial intelligence hold the prospect of new procedures for psychiatry. Machine learning techniques combined with big data should enable algorithmized diagnostics, prediction and therapy that are superior to clinical observation and interaction in terms of accuracy and efficiency. This development converges with the search for new, statistically and biologically based disorder patterns to replace clinical psychopathological disease entities. Read More

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September 2021

A data-driven architecture using natural language processing to improve phenotyping efficiency and accelerate genetic diagnoses of rare disorders.

HGG Adv 2021 Jul 11;2(3). Epub 2021 May 11.

The Manton Center for Orphan Disease Research, Division of Genetics and Genomics, Boston Children's Hospital, Harvard Medical School, Boston, MA 02115, USA.

Effective genetic diagnosis requires the correlation of genetic variant data with detailed phenotypic information. However, manual encoding of clinical data into machine-readable forms is laborious and subject to observer bias. Natural language processing (NLP) of electronic health records has great potential to enhance reproducibility at scale but suffers from idiosyncrasies in physician notes and other medical records. Read More

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Multi-Trait Multi-Environment Genomic Prediction of Agronomic Traits in Advanced Breeding Lines of Winter Wheat.

Front Plant Sci 2021 18;12:709545. Epub 2021 Aug 18.

Department of Agronomy, Horticulture & Plant Science, South Dakota State University, Brookings, SD, United States.

Genomic prediction is a promising approach for accelerating the genetic gain of complex traits in wheat breeding. However, increasing the prediction accuracy (PA) of genomic prediction (GP) models remains a challenge in the successful implementation of this approach. Multivariate models have shown promise when evaluated using diverse panels of unrelated accessions; however, limited information is available on their performance in advanced breeding trials. Read More

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Microfluidic devices for behavioral screening of multiple Zebrafish Larvae: Design investigation process.

Biotechnol J 2021 Sep 4:e2100076. Epub 2021 Sep 4.

Department of Mechanical Engineering, York University, Toronto, Ontario, Canada.

Microfluidic devices have been introduced for phenotypic screening of zebrafish larvae in both fundamental and pre-clinical research. One of the remaining challenges for the broad use of microfluidic devices is their limited throughput, especially in behavioural assays. Previously, we introduced the tail locomotion of a semi-mobile zebrafish larva evoked on-demand with electric signal in a microfluidic device. Read More

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September 2021

Communication Efficient Federated Generalized Tensor Factorization for Collaborative Health Data Analytics.

Proc Int World Wide Web Conf 2021 Apr;2021:171-182

Emory University.

Modern healthcare systems knitted by a web of entities (e.g., hospitals, clinics, pharmacy companies) are collecting a huge volume of healthcare data from a large number of individuals with various medical procedures, medications, diagnosis, and lab tests. Read More

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Screening endophyte with capability to improve phytoremediation efficiency from hyperaccumulators: A novel and efficient microfluidic method.

Chemosphere 2021 Jul 30;286(Pt 2):131723. Epub 2021 Jul 30.

State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing, 100084, PR China. Electronic address:

Screening endophyte is the most important but also difficult to achieve a successful application in endophyte assisted phytoremediation process. Traditional screening procedure faced certain limitations including long time, difficulty in ascertaining the optimum strain and insignificant promotion efficiency of the selected strain in application. In this study, a novel endophyte screening method was established using microfluidic technology, realizing the real time observation of plant root phenotyping and allowing simultaneous incubation of different endophyte-plant systems. Read More

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High-Resolution Analysis of Growth and Transpiration of Quinoa Under Saline Conditions.

Front Plant Sci 2021 5;12:634311. Epub 2021 Aug 5.

Plant Breeding, Wageningen University and Research, Wageningen, Netherlands.

The Plantarray 3.0 phenotyping platform was used to monitor the growth and water use of the quinoa varieties Pasto and selRiobamba under salinity (0-300 mM NaCl). Salinity reduced the cumulative transpiration of both varieties by 60% at 200 mM NaCl and by 75 and 82% at 300 mM NaCl for selRiobamba and Pasto, respectively. Read More

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Using Machine Learning to Develop a Fully Automated Soybean Nodule Acquisition Pipeline (SNAP).

Plant Phenomics 2021 28;2021:9834746. Epub 2021 Jul 28.

Department of Agronomy, Iowa State University, Ames, IA, USA.

Nodules form on plant roots through the symbiotic relationship between soybean ( L. Merr.) roots and bacteria () and are an important structure where atmospheric nitrogen (N) is fixed into bioavailable ammonia (NH) for plant growth and development. Read More

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AncPhore: A versatile tool for anchor pharmacophore steered drug discovery with applications in discovery of new inhibitors targeting metallo--lactamases and indoleamine/tryptophan 2,3-dioxygenases.

Acta Pharm Sin B 2021 Jul 26;11(7):1931-1946. Epub 2021 Jan 26.

Key Laboratory of Drug-Targeting and Drug Delivery System of the Education Ministry and Sichuan Province, Department of Medicinal Chemistry, West China School of Pharmacy, Sichuan University, Chengdu 610041, China.

We herein describe AncPhore, a versatile tool for drug discovery, which is characterized by pharmacophore feature analysis and anchor pharmacophore (, most important pharmacophore features) steered molecular fitting and virtual screening. Comparative analyses of numerous protein-ligand complexes using AncPhore revealed that anchor pharmacophore features are biologically important, commonly associated with protein conservative characteristics, and have significant contributions to the binding affinity. Performance evaluation of AncPhore showed that it had substantially improved prediction ability on different types of target proteins including metalloenzymes by considering the specific contributions and diversity of anchor pharmacophore features. Read More

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Oat crown rust disease severity estimated at many time points using multispectral aerial photos.

Phytopathology 2021 Aug 12. Epub 2021 Aug 12.

University of Minnesota, Department of Agronomy and Plant Genetics, Rm 411 Borlaug Hall, 1991 Upper Buford Circle, St. Paul, Minnesota, United States, 55108;

All plant breeding programs are dependent on plant phenotypic and genotypic data, but the development of phenotyping technology has been slow relative to that of genotyping. Crown rust (Puccinia coronata f. sp. Read More

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Water Use Efficiency in Popcorn ( L. var. everta): Which Physiological Traits Would Be Useful for Breeding?

Plants (Basel) 2021 Jul 15;10(7). Epub 2021 Jul 15.

Centro de Ciências Agrárias, Naturais e Letras, Universidade Estadual da Região Tocantina do Maranhão, Av. Brejo do Pinto, S/N, Estreito 65975-000, MA, Brazil.

To ensure genetic gains in popcorn breeding programs carried out under drought conditions knowledge about the response of morphophysiological traits of plants to water stress for the selection of key traits is required. Therefore, the objective was to evaluate popcorn inbred lines with agronomically efficient (P2 and P3) and inefficient (L61 and L63) water use and two hybrids (P2xL61 and P3xL63) derived from these contrasting parents, cultivated under two water regimes (WW watered-WW; and water-stressed-WS) in a greenhouse, replicated five times, where each experimental unit consisted of one plant in a PVC tube. Irrigation was applied until stage V6 and suspended thereafter. Read More

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OMICs, Epigenetics, and Genome Editing Techniques for Food and Nutritional Security.

Plants (Basel) 2021 Jul 12;10(7). Epub 2021 Jul 12.

Federal Research Center Kazan Scientific Center of Russian Academy of Sciences, Laboratory of Plant Infectious Diseases, 420111 Kazan, Russia.

The incredible success of crop breeding and agricultural innovation in the last century greatly contributed to the Green Revolution, which significantly increased yields and ensures food security, despite the population explosion. However, new challenges such as rapid climate change, deteriorating soil, and the accumulation of pollutants require much faster responses and more effective solutions that cannot be achieved through traditional breeding. Further prospects for increasing the efficiency of agriculture are undoubtedly associated with the inclusion in the breeding strategy of new knowledge obtained using high-throughput technologies and new tools in the future to ensure the design of new plant genomes and predict the desired phenotype. Read More

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Next-Generation Breeding Strategies for Climate-Ready Crops.

Front Plant Sci 2021 21;12:620420. Epub 2021 Jul 21.

Centre of Agricultural Biochemistry and Biotechnology (CABB), University of Agriculture, Faisalabad, Pakistan.

Climate change is a threat to global food security due to the reduction of crop productivity around the globe. Food security is a matter of concern for stakeholders and policymakers as the global population is predicted to bypass 10 billion in the coming years. Crop improvement modern breeding techniques along with efficient agronomic practices innovations in microbiome applications, and exploiting the natural variations in underutilized crops is an excellent way forward to fulfill future food requirements. Read More

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Digital phenotyping of sleep patterns among heterogenous samples of Latinx adults using unsupervised learning.

Sleep Med 2021 Sep 19;85:211-220. Epub 2021 Jul 19.

Columbia University Data Science Institute, New York, NY, 10025, USA; Columbia University School of Nursing, New York, NY, 10032, USA.

Objective: This study aimed to identify sleep disturbance subtypes ("phenotypes") among Latinx adults based on objective sleep data using a flexible unsupervised machine learning technique.

Methods: This study was an analysis of sleep data from three cross-sectional studies of the Precision in Symptom Self-Management Center at Columbia University. All studies focused on sleep health in Latinx adults at increased risk for sleep disturbance. Read More

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September 2021

Efficiency of a Seedling Phenotyping Strategy to Support European Wheat Breeding Focusing on Leaf Rust Resistance.

Biology (Basel) 2021 Jul 6;10(7). Epub 2021 Jul 6.

Department of Breeding Research, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), 06466 Gatersleben, Germany.

Leaf rust resistance is of high importance for a sustainable European wheat production. The expression of known resistance genes starts at different developmental stages of wheat. Breeding for resistance can be supported by a fast, precise, and resource-saving phenotyping. Read More

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Physiological and interactomic analysis reveals versatile functions of Arabidopsis 14-3-3 quadruple mutants in response to Fe deficiency.

Sci Rep 2021 Jul 30;11(1):15551. Epub 2021 Jul 30.

Department of Structural Biology, Faculty of Earth and Life Sciences, Vrije Universiteit Amsterdam, De Boelelaan 1085, 1081 HV, Amsterdam, the Netherlands.

To date, few phenotypes have been described for Arabidopsis 14-3-3 mutants or the phenotypes showing the role of 14-3-3 in plant responding to abiotic stress. Although one member of the 14-3-3 protein family (14-3-3 omicron) was shown to be involved in the proper operation of Fe acquisition mechanisms at physiological and gene expression levels in Arabidopsis thaliana, it remains to be explored whether other members play a role in regulating iron acquisition. To more directly and effectively observe whether members of 14-3-3 non-epsilon group have a function in Fe-deficiency adaptation, three higher order quadruple KOs, kappa/lambda/phi/chi (klpc), kappa/lambda/upsilon/nu(klun), and upsilon/nu/phi/chi (unpc) were generated and studied for physiological analysis in this study. Read More

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The Transcription Factor Is Involved in the Multiple Stress Tolerance to Heat and Drought in Rice Plants.

Int J Mol Sci 2021 Jul 2;22(13). Epub 2021 Jul 2.

Gene Engineering Division, National Institute of Agricultural Sciences, RDA, Jeonju 54874, Korea.

The AP2/EREBP family transcription factors play important roles in a wide range of stress tolerance and hormone signaling. In this study, a heat-inducible rice gene was isolated and functionally characterized. The was categorized to Group-IIIc of the rice AP2/EREBP family and strongly induced by heat and drought treatment. Read More

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Accuracy of predicting chemical body composition of growing pigs using dual-energy X-ray absorptiometry.

Animal 2021 Aug 15;15(8):100307. Epub 2021 Jul 15.

Agroscope, Swine Research Unit, Tioleyre 4, 1725 Posieux, Switzerland.

Studies in animal science assessing nutrient and energy efficiency or determining nutrient requirements benefit from gathering exact measurements of body composition or body nutrient contents. Those are acquired by standardized dissection or by grinding the body followed by wet chemical analysis, respectively. The two methods do not result in the same type of information, but both are destructive. Read More

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Membrane Feature-Inspired Profiling of Extracellular Vesicles for Pancreatic Cancer Diagnosis.

Anal Chem 2021 07 12;93(28):9860-9868. Epub 2021 Jul 12.

Department of Biomedical Engineering, School of Engineering, China Pharmaceutical University, Nanjing 211198, China.

Extracellular vesicles (EVs) have recently emerged as a promising tumor biomarker, and EV phenotyping offers many benefits for cancer diagnosis. However, the practicality of EV assays remains a challenge due to macromolecule disturbances, biomarker heterogeneities, and EV abundance limitations. Here, we demonstrate a membrane-based biosensor for precise and sensitive EV identification. Read More

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Molecular phenotyping and functional assessment of smooth muscle like-cells with pathogenic variants in aneurysm genes ACTA2, MYH11, SMAD3 and FBN1.

Hum Mol Genet 2021 Jul 8. Epub 2021 Jul 8.

Department of Surgery, Institute for Cardiovascular Research, Amsterdam University Medical Centers, location VU University Medical Center, Amsterdam, The Netherlands.

Aortic aneurysms (AA) are pathological dilatations of the aorta. Pathogenic variants in genes encoding for proteins of the contractile machinery of vascular smooth muscle cells (VSMC), genes encoding proteins of the TGFβ signaling pathway, and extracellular matrix (ECM) homeostasis play a role in the weakening of the aortic wall. These variants affect the functioning of VSMC, the predominant cell type in the aorta. Read More

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Analysis of merged whole blood transcriptomic datasets to identify circulating molecular biomarkers of feed efficiency in growing pigs.

BMC Genomics 2021 Jul 3;22(1):501. Epub 2021 Jul 3.

PEGASE, INRAE, Institut Agro, 35590, Saint-Gilles, France.

Background: Improving feed efficiency (FE) is an important goal due to its economic and environmental significance for farm animal production. The FE phenotype is complex and based on the measurements of the individual feed consumption and average daily gain during a test period, which is costly and time-consuming. The identification of reliable predictors of FE is a strategy to reduce phenotyping efforts. Read More

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Carbon budgeting belowground.

New Phytol 2021 10 3;232(1):5-7. Epub 2021 Jul 3.

CSIRO Agriculture & Food, St Lucia, Brisbane, QLD, 4067, Australia.

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October 2021

Improved Transformation and Regeneration of Rice: Disruption of as a Test Case via CRISPR-Cas9.

Int J Mol Sci 2021 Jun 29;22(13). Epub 2021 Jun 29.

Department of Soil and Crop Sciences, Texas A&M University, College Station, TX 77843, USA.

Gene editing by use of clustered regularly interspaced short palindromic repeats (CRISPR) has become a powerful tool for crop improvement. However, a common bottleneck in the application of this approach to grain crops, including rice (), is efficient vector delivery and calli regeneration, which can be hampered by genotype-dependent requirements for plant regeneration. Here, methods for -mediated and biolistic transformation and regeneration of rice were optimized using CRISPR-Cas9 gene-editing of the submergence tolerance regulator gene of the cultivar Ciherang-Sub1. Read More

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Convolutional Neural Networks to Estimate Dry Matter Yield in a Guineagrass Breeding Program Using UAV Remote Sensing.

Sensors (Basel) 2021 Jun 9;21(12). Epub 2021 Jun 9.

Faculty of Computer Science, Federal University of Mato Grosso do Sul, Campo Grande 79070900, Brazil.

Forage dry matter is the main source of nutrients in the diet of ruminant animals. Thus, this trait is evaluated in most forage breeding programs with the objective of increasing the yield. Novel solutions combining unmanned aerial vehicles (UAVs) and computer vision are crucial to increase the efficiency of forage breeding programs, to support high-throughput phenotyping (HTP), aiming to estimate parameters correlated to important traits. Read More

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3D Reconstruction of Non-Rigid Plants and Sensor Data Fusion for Agriculture Phenotyping.

Sensors (Basel) 2021 Jun 15;21(12). Epub 2021 Jun 15.

Department of Computer Science, Federal University of Minas Gerais, Avenida Antônio Carlos, 6627, Prédio do ICEx, Pampulha, Belo Horizonte 31270-901, Brazil.

Technology has been promoting a great transformation in farming. The introduction of robotics; the use of sensors in the field; and the advances in computer vision; allow new systems to be developed to assist processes, such as phenotyping, of crop's life cycle monitoring. This work presents, which we believe to be the first time, a system capable of generating 3D models of non-rigid corn plants, which can be used as a tool in the phenotyping process. Read More

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Review: Application of Artificial Intelligence in Phenomics.

Sensors (Basel) 2021 Jun 25;21(13). Epub 2021 Jun 25.

Department of Biosystems Engineering, Chungnam National University, Daejeon 34134, Korea.

Plant phenomics has been rapidly advancing over the past few years. This advancement is attributed to the increased innovation and availability of new technologies which can enable the high-throughput phenotyping of complex plant traits. The application of artificial intelligence in various domains of science has also grown exponentially in recent years. Read More

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High-throughput field phenotyping reveals genetic variation in photosynthetic traits in durum wheat under drought.

Plant Cell Environ 2021 Sep 10;44(9):2858-2878. Epub 2021 Jul 10.

Institute of Bio- and Geosciences, IBG-2: Plant Sciences, Forschungszentrum Jülich GmbH, Jülich, Germany.

Chlorophyll fluorescence (ChlF) is a powerful non-invasive technique for probing photosynthesis. Although proposed as a method for drought tolerance screening, ChlF has not yet been fully adopted in physiological breeding, mainly due to limitations in high-throughput field phenotyping capabilities. The light-induced fluorescence transient (LIFT) sensor has recently been shown to reliably provide active ChlF data for rapid and remote characterisation of plant photosynthetic performance. Read More

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September 2021

Domain-Specific Outcomes for Stroke Clinical Trials: What the Modified Rankin Isn't Ranking.

Neurology 2021 08 25;97(8):367-377. Epub 2021 Jun 25.

From the Department of Neurology (R.G.B., J.W.C.), University of Maryland, Baltimore; Department of Emergency Medicine (L.H.), Washington University, St. Louis, MO; Department of Clinical Sciences, Lund (A.L.), Lund University; Department of Neurology (A.G.L.), Skåne University Hospital, Lund, Sweden; Departments of Neurology (A.d.H.) and Health and Kinesiology (J.A.D., K.R.L.), University of Utah, Salt Lake City; Department of Neurology (S.C.C.), University of California, Los Angeles; California Rehabilitation Institute (S.C.C.), Los Angeles; and Departments of Neurology and Public Health Sciences (B.B.W.), University of Virginia, Charlottesville.

Global outcome measures that are widely used in stroke clinical trials, such as the modified Rankin Scale (mRS), lack sufficient detail to detect changes within specific domains (e.g., sensory, motor, visual, linguistic, or cognitive function). Read More

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