scholarly journals Spectroscopic and Molecular Methods to Differentiate Gender in Immature Date Palm (Phoenix dactylifera L.)

Plants ◽  
2021 ◽  
Vol 10 (3) ◽  
pp. 536
Author(s):  
Abdul Latif Khan ◽  
Ahmed Al-Harrasi ◽  
Muhammad Numan ◽  
Noor Mazin AbdulKareem ◽  
Fazal Mabood ◽  
...  
Keyword(s):  
Date Palm ◽  
Near Infrared ◽  
Sex Differentiation ◽  
Principal Component ◽  
Phoenix Dactylifera ◽  
Partial Least Square ◽  
Least Square ◽  
Transcript Accumulation ◽  
Near Infrared Reflectance ◽  
Phoenix Dactylifera L

Phoenix dactylifera (date palm) is a well-known nutritious and economically important fruit tree found in arid regions of the Middle East and North Africa. Being diploid, it has extremely high divergence in gender, where sex differentiation in immature date palms (Phoenix dactylifera L.) has remained an enigma in recent years. Herein, new robust infrared (near-infrared reflectance spectroscopy (NIRS) and Fourier transform infrared attenuated total reflectance (FTIR/ATR)) and nuclear magnetic resonance (NMR) spectroscopy methods coupled with extensive chemometric analysis were used to identify the sex differentiation in immature date palm leaves. NIRS/FTIR reflectance and 1H-NMR profiling suggested that the signals of monosaccharides (glucose and fructose) and/or disaccharides (maltose and sucrose) play key roles in sex differentiation. The three kinds of spectroscopic data were clearly differentiated among known and unknown male and female leaves via principal component and partial least square discriminant analyses. Furthermore, sex-specific genes and molecular markers obtained from the lower halves of LG12 chromosomes showed enhanced transcript accumulation of mPdIRDP52, mPdIRDP50, and PDK101 in females compared with in males. The phylogeny showed that the mPdIRD033, mPdIRD031, and mPdCIR032 markers formed distinctive clades with more than 70% similarity in gender differentiation. The three robust analyses provide an alternative tool to differentiate sex in date palm trees, which offers a solution to the long-standing challenge of dioecism and could enhance in situ tree propagation programs.

scholarly journals Rapid Classification Of Agricultural Products Based On Their Electro-Optic Properties Using Near Infrared Reflectance And Chemometrics

2015 ◽  
Vol 8 (1) ◽  
pp. 10-18
Author(s):  
Agus A. Munawar
Keyword(s):  
Near Infrared ◽  
Scatter Correction ◽  
Principal Component ◽  
Partial Least Square ◽  
Least Square ◽  
Agricultural Products ◽  
Near Infrared Reflectance ◽  
Electro Optic ◽  
Non Destructive

Abstract. Near infrared technology have been widely applied in many fields, including agriculture especially in sorting and grading process. The advantage of this technology: simple sample preparation, rapid, effective and non-destructive. The main objective of this study is to evaluate the feasibility of NIR technology in classifying several agricultural products based on their electro-optic properties. NIR diffuse reflectance spectra of apples, bananas, mangoes, garlics, tomatoes, green grapes, red grapes and oranges were acquired in wavelength range of 1000-2500 nm with gradual increment of 2 nm. Chemometrics methods were applied in combination with NIR spectra data. Classification was performed by applying principal component analysis (PCA) followed by non-iterative partial least square (NIPALS) cross validation. The results showed that NIR and chemometrics was able to differentiate and classify these agricultural products with two latent variables (2 PCs) and total explained variance of 97% (88% PC1 and 9% PC2). Furthermore, it also showed that multiplicative scatter correction (MSC) was found to be effective spectra correction or enhancement method and increased classification accuracy and robustness. It may conclude that NIR technology combined with chemometrics was feasible to apply as a rapid and non-destructive method for sorting and grading agricultural products. Rapid Classification Of Agricultural Products Based On Their Electro-Optic Properties Using Near Infrared Reflectance And ChemometricsAbstract. Aplikasi teknologi near infra red (NIR) telah digunakan dalam banyak bidang, termasuk untuk bidang pertanian terutama pada proses sortasi dan grading. Keunggulan metode ini antara lain : rapid, efektif, simultan dan tanpa merusak objek yang dikaji. Tujuan utama dari studi ini adalah untuk mengkaji potensi NIR dalam mengklasifikasi beberapa produk pertanian berdasarkan karakteristik sifat elektro-optik dari produk tersebut. Spektrum NIR pada panjang gelombang 1000 – 2500 nm dengan increment 2 nm diakuisisi untuk produk pertanian : apel, pisang, manga, bawang putih, tomat, anggur hijau, anggur merah dan jeruk. Metode chemo metrics digunakan dalam studi ini untuk dikombinasikan dengan spektrum NIR. Klasifikasi produk pertanian dilakukan dengan menerapkan metode principal component analysis (PCA) yang disertai dengan metode non-iterative partial least square (NIPALS) cross validation. Hasil studi menunjukkan bahwa kombinasi NIR dan chemo metrics mampu membedakan dan mengklasifikasi produk pertanian tersebut dengan menggunakan dua latent variable pada PCA (2 PCs) dengan total explained variance 97% (88% PC1 dan 9% PC2). Selain itu, dari studi ini juga didapatkan bahwa perbaikan data spectrum dengan metode multiplicative scatter correction (MSC) sebelum klasifikasi mampu meningkatkan akurasi hasil klasifikasi. Secara umum, dapat disimpulkan bahwa teknologi NIR dan chemo metrics dapat dijadikan sebagai metode yang efektif untuk sortasi dan atau grading produk pertanian.

scholarly journals A fast and low-cost approach to quality control of alcohol-based hand sanitizer using portable near infrared spectrometer and chemometrics

2021 ◽  
pp. 096703352098731
Author(s):  
Adenilton C da Silva ◽  
Lívia PD Ribeiro ◽  
Ruth MB Vidal ◽  
Wladiana O Matos ◽  
Gisele S Lopes
Keyword(s):  
Quality Control ◽  
Discriminant Analysis ◽  
Near Infrared ◽  
Nir Spectroscopy ◽  
Principal Component ◽  
Partial Least Square ◽  
Least Square ◽  
Chemical Components ◽  
Linear Discriminant ◽  
Hand Sanitizer

The use of alcohol-based hand sanitizers is recommended as one of several strategies to minimize contamination and spread of the COVID-19 disease. Current reports suggest that the virucidal potential of ethanol occurs at concentrations close to 70%. Traditional methods of verifying the ethanol concentration in such products invite potential errors due to the viscosity of chemical components or may be prohibitively expensive to undertake in large demand. Near infrared (NIR) spectroscopy and chemometrics have already been used for the determination of ethanol in other matrices and present an alternative fast and reliable approach to quality control of alcohol-based hand sanitizers. In this study, a portable NIR spectrometer combined with classification chemometric tools, i.e., partial least square discriminant analysis (PLS–DA) and linear discriminant analysis with successive algorithm projection (SPA–LDA) were used to construct models to identify conforming and non-conforming commercial and laboratory synthesized hand sanitizer samples. Principal component analysis (PCA) was applied in an exploratory data study. Three principal components accounted for 99% of data variance and demonstrate clustering of conforming and non-conforming samples. The PLS–DA and SPA–LDA classification models presented 77 and 100% of accuracy in cross/internal validation respectively and 100% of accuracy in the classification of test samples. A total of 43% commercial samples evaluated using the PLS–DA and SPA–LDA presented ethanol content non-conforming for hand sanitizer gel. These results indicate that use of NIR spectroscopy and chemometrics is a promising strategy, yielding a method that is fast, portable, and reliable for discrimination of alcohol-based hand sanitizers with respect to conforming and non-conforming ethanol concentrations.

Determination of Fat, Protein, and Total Solids in Cheese by Near-Infrared Reflectance Spectroscopy

1995 ◽  
Vol 78 (3) ◽  
pp. 802-806 ◽  
Author(s):  
José Louis Rodriguez-Otero ◽  
Maria Hermida ◽  
Alberto Cepeda
Keyword(s):  
Near Infrared ◽  
Independent Set ◽  
Nir Spectroscopy ◽  
Partial Least Square ◽  
Least Square ◽  
Partial Least Square Regression ◽  
Sample Treatment ◽  
Infrared Reflectance ◽  
Near Infrared Reflectance ◽  
Total Solids

Abstract Near-infrared reflectance (NIR) spectroscopy was used to analyze fat, protein, and total solids in cheese without any sample treatment. A set of 92 samples of cow’s milk cheese was used for instrument calibration by principal components analysis and modified partial least-square regression. The following statistical values were obtained: standard error of calibration (SEC) = 0.388 and squared correlation coefficient (R2) = 0.99 for fat, SEC = 0.397 and R2 = 0.98 for protein, and SEC = 0.412 and R2 = 0.99 for total solids. To validate the calibration, an independent set of 25 cheese samples of the same type was used. Standard errors of validation were 0.47,0.50, and 0.61 for fat, protein, and total solids, respectively, and hf for the regression of measurements by reference methods versus measurements by NIR spectroscopy was 0.98 for the 3 components.

scholarly journals Prediction of macro- and microelements content in Croatian common bean landraces (Phaseolus vulgaris L.) by NIR spectroscopy

Poljoprivreda ◽  
2019 ◽  
Vol 25 (1) ◽  
pp. 48-55
Author(s):  
Marina Vranić ◽  
Marko Petek ◽  
Krešimir Bošnjak ◽  
Boris Lazarević ◽  
Klaudija Carović Stanko
Keyword(s):  
Phaseolus Vulgaris ◽  
Common Bean ◽  
Near Infrared ◽  
Model Development ◽  
Nir Spectroscopy ◽  
Principal Component ◽  
Partial Least Square ◽  
Least Square ◽  
Potassium Oxide ◽  
Phaseolus Vulgaris L

In this study, near-infrared spectroscopy (NIRS) was used to predict the contents of essential macro- and microelements in common bean (Phaseolus vulgaris L.) accessions of most widespread Croatian landraces. Total of 175 samples were used for the model development by modified partial least square (MPLS), principal component regression (PCR) and partial least square (PLS) techniques. Based on the coefficients of determination (R2), standard error of calibration (SEC) and error of prediction (SEP) the models developed were (i) nearly applicable for nitrogen (N) (0.89, 0.12 and 0.45 respectively), (ii) poor for iron (Fe), cinc (Zn), potassium oxide (K2O) and potassium (K), (iii) usable for phosphorus pentoxide (P2O5), phosphorus (P), phytic acid (PA) and manganese (Mn). The MPLS regression statistics suggested the most accurate models developed comparing with PLS and PCR. It was concluded that a wider set of common bean samples needs to be used for macro- and microelements prediction by NIRS.

scholarly journals Visible and near infrared reflectance spectroscopy for field-scale assessment of Stagnosols properties

2018 ◽  
Vol 64 (No. 6) ◽  
pp. 276-282 ◽  
Author(s):  
Šestak Ivana ◽  
Mesić Milan ◽  
Zgorelec Željka ◽  
Perčin Aleksandra ◽  
Stupnišek Ivan
Keyword(s):  
Soil Ph ◽  
Near Infrared ◽  
Soil Depth ◽  
Partial Least Square ◽  
Least Square ◽  
Partial Least Square Regression ◽  
Infrared Reflectance ◽  
Field Scale ◽  
Near Infrared Reflectance ◽  
Vnir Spectroscopy

Spectral data contain information on soil organic and mineral composition, which can be useful for soil quality monitoring. The objective of research was to evaluate hyperspectral visible and near infrared reflectance (VNIR) spectroscopy for field-scale prediction of soil properties and assessment of factors affecting soil spectra. Two hundred soil samples taken from the experiment field (soil depth: 30 cm; sampling grid: 15 × 15 m) were scanned using portable spectroradiometer (350–1050 nm) to identify spectral differences of soil treated with ten different rates of mineral nitrogen (N) fertilizer (0–300 kg N/ha). Principal component analysis revealed distinction between higher- and lower-N level treatments conditioned by differences in soil pH, texture and soil organic matter (SOM) composition. Partial least square regression resulted in very strong correlation and low root mean square error (RMSE) between predicted and measured values for the calibration (C) and validation (V) dataset, respectively (SOM, %: R<sub>C</sub><sup>2</sup> = 0.75 and R<sub>V</sub><sup>2</sup> = 0.74; RMSE<sub>C</sub> = 0.334 and RMSE<sub>V</sub> = 0.346; soil pH: R<sub>C</sub><sup>2</sup> = 0.78 and R<sub>V</sub><sup>2</sup> = 0.62; RMSE<sub>C</sub> = 0.448 and RMSE<sub>V</sub> = 0.591). Results indicated that hyperspectral VNIR spectroscopy is an efficient method for measurement of soil functional attributes within precision farming framework.  

scholarly journals Prediction of Soil Texture Distributions by using PLSR and Reflectance Spectroscopy

2019 ◽  
Vol 8 (3) ◽  
pp. 7876-7881
Keyword(s):  
Statistical Analysis ◽  
Soil Texture ◽  
Near Infrared ◽  
Diffuse Reflectance Spectroscopy ◽  
Principal Component ◽  
Reflectance Spectroscopy ◽  
Soil Samples ◽  
Partial Least Square ◽  
Least Square ◽  
Partial Least Square Regression

The texture of soil i.e. Sand, Silt and Clay are the most important physical properties of soil for agricultural management. In the agricultural practices to increase the productivity of soil, moisture-holding capacity, aeration and to support the agronomic decisions the knowledge of soil texture is an essential task. For this purpose, the present research gives better results and fast acquisition of soil information with the use of Visible and Near Infrared (Vis- NIR) Diffuse Reflectance Spectroscopy. A total of 30 soil samples from two different locations from Aurangabad, Maharashtra, India were collected and analyzed for soil texture. To detect the soil texture the Vis-NIR DRS has shown levels of accurate results compared to the traditional laboratory method with less time, cost and effort. To measure the reflectance of soil the ASD FieldSpec4 Spectroradiometer (350-2500nm) was used. By the observation of captured spectra by using Spectroradiometer it showed that on the basis of different textural classes the soil samples could be spectrally separable. For database collection and pre-processing, we have used RS3 and ViewSpec Pro software respectively. The statistical analysis by using the combination of Principal Component Analysis (PCA) and Partial Least Square Regression method gives accurate results. To determine the texture of soil sample thirteen features were calculated. The main goal of this research was to determine the soil texture by using statistical methods and to test the performance of VNIR-SWIR reflectance spectroscopy by using the ASD FieldSpec4 Spectroradiometer for estimation of the texture of the soil. The results showed that R2 = 0.99 gives maximum accuracy for clay content and R2 = 0.988 for silt content and R2 = 0.989 for sand. The Root Mean Square Values (RMSE) for clay, silt, and sand are 0.02392, 0.02399 and 0.02289 respectively. With the use of reflectance spectroscopy and statistical analysis by using regression models we can determine the soil properties accurately in very less time.

scholarly journals Prediction of Soil Oxalate Phosphorus using Visible and Near-Infrared Spectroscopy in Natural and Cultivated System Soils of Madagascar

Agriculture ◽  
2020 ◽  
Vol 10 (5) ◽  
pp. 177
Author(s):  
Hobimiarantsoa Rakotonindrina ◽  
Kensuke Kawamura ◽  
Yasuhiro Tsujimoto ◽  
Tomohiro Nishigaki ◽  
Herintsitohaina Razakamanarivo ◽  
...  
Keyword(s):  
Prediction Accuracy ◽  
Near Infrared ◽  
Predictive Accuracy ◽  
Regional Scale ◽  
Organic Matter Content ◽  
Partial Least Square ◽  
Least Square ◽  
Near Infrared Reflectance ◽  
Wide Range ◽  
The Tropics

Phosphorus is among the main limiting nutrients for plant growth and productivity in both agricultural and natural ecosystems in the tropics, which are characterized by weathered soil. Soil bioavailable P measurement is necessary to predict the potential growth of plant biomass in these ecosystems. Visible and near-infrared reflectance spectroscopy (Vis-NIRS) is widely used to predict soil chemical and biological parameters as an alternative to time-consuming conventional laboratory analyses. However, quantitative spectroscopic prediction of soil P remains a challenge owing to the difficulty of direct detection of orthophosphate. This study tested the performance of Vis-NIRS with partial least square regression to predict oxalate-extractable P (Pox) content, representing available P for plants in natural (forest and non-forest including fallows and degraded land) and cultivated (upland and flooded rice fields) soils in Madagascar. Model predictive accuracy was assessed based on the coefficient of determination (R2), the root mean squared error of cross-validation (RMSECV), and the residual predictive deviation (RPD). The results demonstrated successful Pox prediction accuracy in natural (n = 74, R² = 0.90, RMSECV = 2.39, and RPD = 3.22), and cultivated systems (n = 142, R² = 0.90, RMSECV = 48.57, and RPD = 3.15) and moderate usefulness at the regional scale incorporating both system types (R² = 0.70, RMSECV = 71.87 and RPD = 1.81). These results were also confirmed with modified bootstrap procedures (N = 10,000 times) using selected wavebands on iterative stepwise elimination–partial least square (ISE–PLS) models. The wavebands relevant to soil organic matter content and Fe content were identified as important components for the prediction of soil Pox. This predictive accuracy for the cultivated system was related to the variability of some samples with high Pox values. However, the use of “pseudo-independent” validation can overestimate the prediction accuracy when applied at site scale suggesting the use of larger and dispersed geographical cover sample sets to build a robust model. Our study offers new opportunities for P quantification in a wide range of ecosystems in the tropics.

Light at the museum – A near impossible result

NIR news ◽  
2020 ◽  
Vol 31 (5-6) ◽  
pp. 15-18
Author(s):  
AC Power ◽  
S Ingleby ◽  
J Chapman ◽  
D Cozzolino
Keyword(s):  
Near Infrared ◽  
Screening Tool ◽  
Principal Component ◽  
Partial Least Square ◽  
Least Square ◽  
Animal Products ◽  
Non Invasive ◽  
Australian Museum ◽  
Methods And Techniques ◽  
Protected Animal

The monitoring and quantification of the illegal harvest of protected animal products is very vital for the conservation and protection of endangered species. Most of the methods and techniques used in the trade of these products are recognised to be incredibly time consuming and labour intensive requiring significant analyst expertise. In this study, we have demonstrated the potential of near-infrared spectroscopy combined with either principal component analysis or partial least square discriminant analysis regression as a rapid and non-invasive tool to classify horn and ivory samples stored in the Australian Museum, Sydney. This study has also demonstrated the attractiveness of the near-infrared technique as a screening tool that could revolutionise the tracking and identification of contraband materials produced from horn and ivory biomaterials.

scholarly journals Prediction of Composition of Broiler Chicken Excreta Using Near-infrared Reflectance Spectroscopy

2005 ◽  
Vol 10 (1) ◽  
pp. 13
Author(s):  
I. T. Kadim ◽  
W. Al-Marzooqi ◽  
O. Mahgoub ◽  
K. Annamalai
Keyword(s):  
Near Infrared ◽  
Partial Least Square ◽  
Least Square ◽  
Partial Least Square Regression ◽  
Coefficient Of Determination ◽  
Infrared Reflectance ◽  
Near Infrared Reflectance ◽  
Acid Detergent Fibre ◽  
Gross Energy ◽  
Calibration Equations

Near-infrared reflectance spectroscopic (NIRS) calibrations were developed for the prediction of the content of dry matter (DM); nitrogen (N), ether extract (EE), neutral detergent fibre (NDF), acid detergent fibre (ADF), gross energy (GE), calcium (Ca) and phosphate (P) in broiler excreta samples. The chemical composition of broiler excreta was determined by the conventional chemical analysis methods in the laboratory and compared with NIRS. Excreta samples (n = 72) were oven dried (60 oC) and analyzed for DM, N, EE, NDF, ADF, GE, Ca and P. The determined values (mean ± SD) were as follows: DM: 31.46 ± 7.65 (range:19.14 - 44.51), N: 5.85 ± 2.88 (range: 4.85 -7.00), EE: 1.37 ± 0.25 (range: 0.88-1.99), ADF: 16.71 ± 1.99 (range: 12.11-19.97), NDF: 26.26 ± 1.63 (range: 22.03-30.21), GE: 15.27 ± 0.33 (range: 14.52-16.11), Ca: 2.57 ± 0.22 (range: 2.16-3.01), P: 1.79 ± 0.15 (range: 1.41-2.11). The samples were then scanned in a NIRS model 5000 analyzer and the spectra obtained for each sample. Calibration equations and prediction values were developed for broiler excreta samples. The software used modified partial least square regression statistic, as it is most suitable for natural products. For broiler excreta samples, the coefficient of determination (R2) and the standard error of prediction (SEP) was DM = 0.97, 1.27, N = 0.95, 0.72, EE = 0.92, 0.07, ADF = 0.87, 0.78, NDF = 0.88, 0.72, GE = 0.89; 0.24, Ca = 0.96, 0.06, P = 0.93, 0.09, respectively. The results indicate that it is possible to calibrate NIRS to predict major constituents in broiler excreta samples.

Nondestructive NIR Reflectance Spectroscopic Method for Rapid Fatty Acid Analysis of Peanut Seeds

2011 ◽  
Vol 38 (2) ◽  
pp. 85-92 ◽  
Author(s):  
Jaya Sundaram ◽  
Chari V. Kandala ◽  
Christopher L. Butts ◽  
Charles Y. Chen ◽  
Victor Sobolev
Keyword(s):  
Fatty Acids ◽  
Fatty Acid ◽  
Near Infrared ◽  
Methyl Esters ◽  
Spectroscopic Method ◽  
Nondestructive Method ◽  
Partial Least Square ◽  
Least Square ◽  
Coefficient Of Determination ◽  
Near Infrared Reflectance

ABSTRACT Near Infrared Reflectance Spectroscopy (NIRS) was used to rapidly and nondestructively analyze the fatty acid concentration present in peanut seeds samples. Absorbance spectra were collected in the wavelength range from 400 nm to 2500 nm using NIRS. The oleic, linoleic and palmitic fatty acids were converted to their corresponding methyl esters and their concentrations were measured using a gas chromatograph (GC). Partial least square (PLS) analysis was performed on a calibration set, and models were developed for prediction of fatty acid concentrations. The best model was selected based on the coefficient of determination (R2), Root Mean Square Error of Prediction, residual percent deviation (RPD) and correlation coefficient percentage between the gas chromatography measured values and the NIR predicted values. The NIR reflectance model developed yielded RPD values of three and above for prediction of the three fatty acids, indicating that this nondestructive method would be suitable for fatty acid predictions in peanut seeds.

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