scholarly journals 3-D Image-Driven Morphological Crop Analysis: A Novel Method for Detection of Sunflower Broomrape Initial Subsoil Parasitism

Sensors ◽  
2019 ◽  
Vol 19 (7) ◽  
pp. 1569 ◽  
Author(s):  
Ran Lati ◽  
Sagi Filin ◽  
Bashar Elnashef ◽  
Hanan Eizenberg
Keyword(s):  
Three Dimensional ◽  
Soil Surface ◽  
Plant Morphology ◽  
Effective Control ◽  
Potential Contribution ◽  
Main Challenge ◽  
Sunflower Broomrape ◽  
Novel Method ◽  
Organ Level ◽  
Morphological Modeling

Effective control of the parasitic weed sunflower broomrape (Orobanche cumana Wallr.) can be achieved by herbicides application in early parasitism stages. However, the growing environmental concerns associated with herbicide treatments have motivated the adoption of precise chemical control approaches that detect and treat infested areas exclusively. The main challenge in developing such control practices for O. cumana lies in the fact that most of its life-cycle occurs in the soil sub-surface and by the time shoots emerge and become observable, the damage to the crop is irreversible. This paper approaches early O. cumana detection by hypothesizing that its parasitism already impacts the host plant morphology at the sub-soil surface developmental stage. To validate this hypothesis, O. cumana- infested sunflower and non-infested control plants were grown in pots and imaged weekly over 45-day period. Three-dimensional plant models were reconstructed using image-based multi-view stereo followed by derivation of their morphological parameters, down to the organ-level. Among the parameters estimated, height and first internode length were the earliest definitive indicators of infection. Furthermore, the detection timing of both parameters was early enough for herbicide post-emergence application. Considering the fact that 3-D morphological modeling is nondestructive, is based on commercially available RGB sensors and can be used under natural illumination; this approach holds potential contribution for site specific pre-emergence managements of parasitic weeds and as a phenotyping tool in O. cumana resistant sunflower breeding projects.

scholarly journals Homogeneous 2D and 3D alignment of cardiomyocyte in dilated cardiomyopathy revealed by intravital heart imaging

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Kiyoshi Masuyama ◽  
Tomoaki Higo ◽  
Jong-Kook Lee ◽  
Ryohei Matsuura ◽  
Ian Jones ◽  
...  
Keyword(s):  
Heart Failure ◽  
Dilated Cardiomyopathy ◽  
Cardiac Dysfunction ◽  
Three Dimensional ◽  
Single Layer ◽  
Specific Pattern ◽  
Two Dimensional ◽  
Heart Imaging ◽  
Novel Method ◽  
2D And 3D

AbstractIn contrast to hypertrophic cardiomyopathy, there has been reported no specific pattern of cardiomyocyte array in dilated cardiomyopathy (DCM), partially because lack of alignment assessment in a three-dimensional (3D) manner. Here we have established a novel method to evaluate cardiomyocyte alignment in 3D using intravital heart imaging and demonstrated homogeneous alignment in DCM mice. Whilst cardiomyocytes of control mice changed their alignment by every layer in 3D and position twistedly even in a single layer, termed myocyte twist, cardiomyocytes of DCM mice aligned homogeneously both in two-dimensional (2D) and in 3D and lost myocyte twist. Manipulation of cultured cardiomyocyte toward homogeneously aligned increased their contractility, suggesting that homogeneous alignment in DCM mice is due to a sort of alignment remodelling as a way to compensate cardiac dysfunction. Our findings provide the first intravital evidence of cardiomyocyte alignment and will bring new insights into understanding the mechanism of heart failure.

scholarly journals The Use of Right Angle Fluorescence Spectroscopy to Distinguish the Botanical Origin of Greek Common Honey Varieties

2021 ◽  
Vol 11 (9) ◽  
pp. 4047
Author(s):  
Marinos Xagoraris ◽  
Panagiota-Kyriaki Revelou ◽  
Eleftherios Alissandrakis ◽  
Petros A. Tarantilis ◽  
Christos S. Pappas
Keyword(s):  
Fluorescence Spectroscopy ◽  
External Validation ◽  
Three Dimensional ◽  
Excitation Wavelength ◽  
Botanical Origin ◽  
Linear Discriminant ◽  
Classification Score ◽  
Hydroxybenzoic Acids ◽  
Unifloral Honey ◽  
Novel Method

The standardization of the botanical origin of honey reflects the commercial value and quality of honey. Nowadays, most consumers are looking for a unifloral honey. The aim of the present study was to develop a novel method for honey classification using chemometric models based on phenolic compounds analyzed with right angle fluorescence spectroscopy, coupled with stepwise linear discriminant analysis (LDA). The deconstructed spectrum from three-dimensional-emission excitation matrix (3D-EEM) spectra provided a correct classification score of 94.9% calibration and cross-validation at an excitation wavelength (λex) of 330 nm. Subsequently, a score of 81.4% and 79.7%, respectively, at an excitation wavelength (λex) of 360 nm was achieved. Each chemometric model confirmed its power through the external validation with a score of 82.1% for both. Differentiation could be correlated with hydroxycinnamic and hydroxybenzoic acids, which absorb in this region of the spectrum. Fluorescence spectroscopy constitutes a rapid and sensitive technique, which, when combined with the stepwise algorithm and LDA method, can be used as a reliable and predictive authentication tool for honey. This study indicates that the developed methodology is a promising technique for determination of the botanical origin of common Greek honey varieties. Our long-term ambition is to support producers and suppliers to remain in a competitive national and international market.

AN EFFECTIVE CONTROL FLOW CHECKING METHOD FOR MULTITASK PROCESSING IN HARSH ENVIRONMENTS

2013 ◽  
Vol 22 (08) ◽  
pp. 1350067 ◽  
Author(s):  
SEYYED AMIR ASGHARI ◽  
ATENA ABDI ◽  
OKYAY KAYNAK ◽  
HASSAN TAHERI ◽  
HOSSEIN PEDRAM
Keyword(s):  
Error Detection ◽  
Optimal Solution ◽  
Control Flow ◽  
Simultaneous Optimization ◽  
Harsh Environments ◽  
Effective Control ◽  
Power Performance ◽  
Single Event Upsets ◽  
Novel Method ◽  
And Performance

Electronic equipment used in harsh environments such as space has to cope with many threats. One major threat is the intensive radiation which gives rise to Single Event Upsets (SEU) that lead to control flow errors and data errors. In the design of embedded systems to be used in space, the use of radiation tolerant equipment may therefore be a necessity. However, even if the higher cost of such a choice is not a problem, the efficiency of such equipment is lower than the COTS equipment. Therefore, the use of COTS with appropriate measures to handle the threats may be the optimal solution, in which a simultaneous optimization is carried out for power, performance, reliability and cost. In this paper, a novel method is presented for control flow error detection in multitask environments with less memory and performance overheads as compared to other methods seen in the literature.

PUTRACER: A NOVEL METHOD FOR IDENTIFICATION OF CONTINUOUS-DOMAINS IN MULTI-DOMAIN PROTEINS

2013 ◽  
Vol 11 (01) ◽  
pp. 1340012 ◽  
Author(s):  
SEYED SHAHRIAR ARAB ◽  
MOHAMMADBAGHER PARSA GHARAMALEKI ◽  
ZAIDDODINE PASHANDI ◽  
REZVAN MOBASSERI
Keyword(s):  
Protein Structures ◽  
Three Dimensional ◽  
Accessible Surface Area ◽  
Computer Assisted ◽  
Correct Assignment ◽  
Critical Boundary ◽  
Novel Method ◽  
Accessible Surface ◽  
A Chain

Computer assisted assignment of protein domains is considered as an important issue in structural bioinformatics. The exponential increase in the number of known three dimensional protein structures and the significant role of proteins in biology, medicine and pharmacology illustrate the necessity of a reliable method to automatically detect structural domains as protein units. For this aim, we have developed a program based on the accessible surface area (ASA) and the hydrogen bonds energy in protein backbone (HBE). PUTracer (Protein Unit Tracer) is built on the features of a fast top-down approach to cut a chain into its domains (contiguous domains) with minimal change in ASA as well as HBE. Performance of the program was assessed by a comprehensive benchmark dataset of 124 protein chains, which is based on agreement among experts (e.g. CATH, SCOP) and was expanded to include structures with different types of domain combinations. Equal number of domains and at least 90% agreement in critical boundary accuracy were considered as correct assignment conditions. PUTracer assigned domains correctly in 81.45% of protein chains. Although low critical boundary accuracy in 18.55% of protein chains leads to the incorrect assignments, adjusting the scales causes to improve the performance up to 89.5%. We discuss here the success or failure of adjusting the scales with provided evidences. Availability: PUTracer is available at http://bioinf.modares.ac.ir/software/PUTracer/

scholarly journals Vascular phenotyping of brain tumors using magnetic resonance microscopy (μMRI)

2011 ◽  
Vol 31 (7) ◽  
pp. 1623-1636 ◽  
Author(s):  
Eugene Kim ◽  
Jiangyang Zhang ◽  
Karen Hong ◽  
Nicole E Benoit ◽  
Arvind P Pathak
Keyword(s):  
Brain Tumor ◽  
Magnetic Resonance ◽  
Brain Tumors ◽  
Three Dimensional ◽  
Region Of Interest ◽  
Tumor Model ◽  
Magnetic Resonance Microscopy ◽  
Vascular Phenotype ◽  
Brain Tumor Model ◽  
Novel Method

Abnormal vascular phenotypes have been implicated in neuropathologies ranging from Alzheimer's disease to brain tumors. The development of transgenic mouse models of such diseases has created a crucial need for characterizing the murine neurovasculature. Although histologic techniques are excellent for imaging the microvasculature at submicron resolutions, they offer only limited coverage. It is also challenging to reconstruct the three-dimensional (3D) vasculature and other structures, such as white matter tracts, after tissue sectioning. Here, we describe a novel method for 3D whole-brain mapping of the murine vasculature using magnetic resonance microscopy (μMRI), and its application to a preclinical brain tumor model. The 3D vascular architecture was characterized by six morphologic parameters: vessel length, vessel radius, microvessel density, length per unit volume, fractional blood volume, and tortuosity. Region-of-interest analysis showed significant differences in the vascular phenotype between the tumor and the contralateral brain, as well as between postinoculation day 12 and day 17 tumors. These results unequivocally show the feasibility of using μMRI to characterize the vascular phenotype of brain tumors. Finally, we show that combining these vascular data with coregistered images acquired with diffusion-weighted MRI provides a new tool for investigating the relationship between angiogenesis and concomitant changes in the brain tumor microenvironment.

Three Dimensional Bacteria Concentration by Negative Dielectrophoresis

2013 ◽  
Vol 699 ◽  
pp. 251-256
Author(s):  
T. Hisajima ◽  
L. Mao ◽  
K. Shinzato ◽  
M. Nakano ◽  
J. Suehiro
Keyword(s):  
Escherichia Coli ◽  
Numerical Simulation ◽  
Dielectric Layer ◽  
Parallel Plate ◽  
Three Dimensional ◽  
Three Dimension ◽  
Escherichia Coli Cells ◽  
Opposite Electrode ◽  
Novel Method ◽  
Thin Dielectric Layer

Thispaper reports a novel method to concentrate bacteria in three-dimension by negative dielectrophoretic (n-DEP) force in a microchannel. This was achieved by placing a thin dielectric layer on one of a pair of parallel plate electrodes. The dielectric layer having a home-plate like pentagonal shape, forms a gradient of electric field causing n-DEP. A three-dimensional numerical simulation of bacteria trajectory predicts that bacteria flowing a microchannel were three-dimensionally concentrated beneath the tip of the pentagonal dielectric thin layer. The trajectory and concentration of bacteria under n-DEP force were also experimentally confirmed using Escherichia coli cells. Bacteria moved along edges of the dielectric layer and were pushed to the opposite electrode, resulting in their concentration in three-dimension. The proposed device might be applicable to selective concentration of bacteria depending on their dielectric properties.

Effect of Three-Dimensional Electric Field and Heat Conduction to Electrodes on the Temperature Rise During Irreversible Electroporation

2011 ◽  
Author(s):  
Seiji Nomura ◽  
Kosaku Kurata ◽  
Hiroshi Takamatsu
Keyword(s):  
Heat Conduction ◽  
Electric Field ◽  
Temperature Rise ◽  
Heat Conduction Equation ◽  
Thermal Damage ◽  
Irreversible Electroporation ◽  
Three Dimensional ◽  
End Effects ◽  
Abnormal Cells ◽  
Novel Method

The irreversible electroporation (IRE) is a novel method to ablate abnormal cells by applying a high voltage between two electrodes that are stuck into abnormal tissues. One of the advantages of the IRE is that the extracellular matrix (ECM) may be kept intact, which is favorable for healing. For a successful IRE, it is therefore important to avoid thermal damage of ECM resulted from the Joule heating within the tissue. A three-dimensional (3-D) analysis was conducted in this study to predict temperature rise during the IRE. The equation of electric field and the heat conduction equation were solved numerically by a finite element method. It was clarified that the highest temperature rise occurred at the base of electrodes adjacent to the insulated surface. The result was significantly different from a two-dimensional (2-D) analysis due to end effects, suggesting that the 3-D analysis is required to determine the optimal condition.

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