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Automatic discrimination of grapevine (Vitis vinifera L.) clones using leaf hyperspectral imaging and partial least squares

  • A. M. FERNANDES (a1), P. MELO-PINTO (a1) (a2), B. MILLAN (a3), J. TARDAGUILA (a3) and M. P. DIAGO (a3) (a4)...

A worldwide innovative method to discriminate grapevine clones is presented. It is an alternative to ampelography, isozyme and DNA analysis. The spectra and their first and second derivatives of 201 bands in the visible and near-infrared wavelength range between 634 and 759 nm were used as inputs to a classifier created using partial least squares. The spectra were acquired in the laboratory for the adaxial side of the apical part of the main lobe of fully hydrated grapevine leaves. The classifier created allowed the separation of 100 leaves of the Cabernet Sauvignon (Vitis vinifera L.) variety into four clones, namely CS 15, CS 169, CS 685 and CS R5, comprising 25 leaves each. The percentages of leaves correctly classified for these clones were 98·2, 99·2, 100 and 97·8%, respectively, when the classifier input was the second derivative of the normalized spectra. These percentages were determined by Monte-Carlo cross-validation. With the new method proposed, each leaf of a given variety can be classified in a few seconds according to its clone in an environmentally friendly way.

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Alonso-Villaverde, V., Boso, S., Santiago, J. L., Gago, P., Rodriguez-Garcia, M. I. & Martinez, M. C. (2011). Leaf thickness and structure of Vitis vinifera L. CV. albarino clones and its possible relation with susceptibility to downy mildew (Plasmopara viticola) infection. Journal International des Sciences de la Vigne et du Vin 45, 161169.
Anhalt, U. C. M., Martinez, S. C., Ruhl, E. & Forneck, A. (2011). Dynamic grapevine clones-an AFLP-marker study of the Vitis vinifera cultivar Riesling comprising 86 clones. Tree Genetics and Genomes 7, 739746.
Arlot, S. & Celisse, A. (2010). A survey of cross-validation procedures for model selection. Statistics Surveys 4, 4079.
Asner, G. P., Jones, M. O., Martin, R. E., Knapp, D. E. & Hughes, R. F. (2008). Remote sensing of native and invasive species in Hawaiian forests. Remote Sensing of Environment 112, 19121926.
Blaich, R., Konradi, J., Rühl, E. & Forneck, A. (2007). Assessing genetic variation among Pinot noir (Vitis vinifera L.) clones with AFLP markers. American Journal of Enology and Viticulture 58, 526529.
Burkholder, A., Warner, T. A., Culp, M. & Landenberger, R. (2011). Seasonal trends in separability of leaf reflectance spectra for Ailanthus altissima and four other tree species. Photogrammetric Engineering and Remote Sensing 77, 793804.
Butt, R. (2010). Introduction to Numerical Analysis using MATLAB. Sudbury, MA: Jones and Bartlett Publishers.
Castro-Esau, K. L., Sánchez-Azofeifa, G. A. & Caelli, T. (2004). Discrimination of lianas and trees with leaf-level hyperspectral data. Remote Sensing of Environment 90, 353372.
Cervera, M. T., Cabezas, J. A., Sanchez-Escribano, E., Cenis, J. L. & Martinez-Zapater, J. M. (2000). Characterization of genetic variation within table grape varieties (Vitis vinifera L.) based on AFLP markers. Vitis: Journal of Grapevine Research 39, 109114.
Collins, W. (1978). Remote sensing of crop type and maturity. Photogrammetric Engineering and Remote Sensing 44, 4355.
Conforto, E. C., Bittencourt, N. S. Jr., Scaloppi, E. J. Jr. & Moreno, R. M. B. (2011). Comparação entre folhas sombreadas de sete clones adultos de seringueira. Revista Ceres 58, 2934.
Cretazzo, E., Meneghetti, S., De Andrés, M. T., Gaforio, L., Frare, E. & Cifre, J. (2010). Clone differentiation and varietal identification by means of SSR, AFLP, SAMPL and M-AFLP in order to assess the clonal selection of grapevine: the case study of Manto Negro, Callet and Moll, autochthonous cultivars of Majorca. Annals of Applied Biology 157, 213227.
Durgante, F. M., Higuchi, N., Almeida, A. & Vicentini, A. (2013). Species spectral signature: discriminating closely related plant species in the Amazon with near-infrared leaf-spectroscopy. Forest Ecology and Management 291, 240248.
EHE (2006). Spectral Calibration with Osram Dulux Mobil Fluorescence Lamp. Technical Note TN-0014. Oulu, Finland: SPECIM- Spectral Imaging Ltd.
Engels, J. M. M. (1983). A systematic description of cacao clones. 2. The discriminative value of qualitative characteristics and the practical compatibility of the discriminative value of quantitative and qualitative descriptors. Euphytica 32, 387396.
Fanizza, G., Lamaj, F., Resta, P., Ricciardi, L. & Savino, V. (2005). Grapevine cvs Primitivo, zinfandel and Crljenak kastelanski: molecular analysis by AFLP. Vitis: Journal of Grapevine Research 44, 147148.
Ferrandino, A. & Guidoni, S. (2010). Anthocyanins, flavonols and hydroxycinnamates: an attempt to use them to discriminate Vitis vinifera L. cv ‘Barbera’ clones. European Food Research and Technology 230, 417427.
Ferreiro-Armán, M., Da Costa, J. P., Homayouni, S. & Martin-Herrero, J. (2006). Hyperspectral image analysis for precision viticulture. Lecture Notes in Computer Science 4142, 730741.
Galet, P. (1979). A Practical Ampelography: Grapevine Identification. Ithaca, NY: Comstock Pub. Associates.
Gausman, H. W., Allen, W. A., Cardenas, R. & Richardson, A. J. (1970). Relation of light reflectance to histological and physical evaluations of cotton leaf maturity. Applied Optics 9, 545552.
Gayol, M. F., Labuckas, D. O., Nicotra, V. E., Oberti, J. C. & Guzman, C. A. (2009). Simmondsins quantification by spectrophotometry UV-vis in press cake and in jojoba seeds (Simmondsia chinensis (Link) Schneider), from Argentina. Industrial Crops and Products 29, 177181.
Geladi, P. & Kowalski, B. R. (1986). Partial least-squares regression – a tutorial. Analytica Chimica Acta 185, 117.
Grant, L. (1987). Diffuse and specular characteristics of leaf reflectance. Remote Sensing of Environment 22, 309322.
Imazio, S., Labra, M., Grassi, F., Winfield, M., Bardini, M. & Scienza, A. (2002). Molecular tools for clone identification: the case of the grapevine cultivar ‘Traminer’. Plant Breeding 121, 531535.
Konradi, J., Blaich, R. & Forneck, A. (2007). Genetic variation among clones and sports of ‘Pinot noir’ (Vitis vinifera L.). European Journal of Horticultural Science 72, 275279.
Kozjak, P., Korošec-Koruza, Z. & Javornik, B. (2003). Characterization of cv. Refošk (Vitis vinifera L.) by SSR markers. Vitis: Journal of Grapevine Research 42, 8386.
Lacar, F. M., Lewis, M. M. & Grierson, I. T. (2001). Use of hyperspectral imagery for mapping grape varieties in the Barossa valley, South Australia. In Geoscience and Remote Sensing Symposium (2001-IGARSS ‘01), 9–13 July 2001, Sydney, Australia, Vol. 6 (Ed. IEEE), pp. 28752877. Piscataway, NJ: IEEE.
Lin, D.-D., Zhang, G.-F., Yu, J.-B. & Feng, J. (2011). Analyses of photosynthetic pigment content and chlorophyll fluorescence parameter in leaves of different clones of Cinnamomum camphora . Journal of Plant Resources and Environment 20(3), 5661.
Moncada, X. & Hinrichsen, P. (2007). Limited genetic diversity among clones of red wine cultivar ‘Carmenère’ as revealed by microsatellite and AFLP markers. Vitis: Journal of Grapevine Research 46, 174180.
Osman, F. N., Hashim, H., Al-Junid, S. A. M., Haron, M. A. B., Abdullah, N. E. & Muhammad, M. F. B. (2010). A statistical approach for rubber seed clones classification using reflectance index. In Proceedings of the IV Asia International Conference on Mathematical/Analytical Modelling and Computer Simulation (AMS), 26–28 May 2010, Kota Kinabalu, Borneo (Eds Al-Dabass, D., Yunus, J., Ibrahim, Z., Sarbatly, R. & Abraham, A.), pp. 291295. Piscataway, NJ: IEEE.
Pande, P. (2011). Variation in wood properties and growth in some clones of Populus deltoides Bartr. ex Marsh. American Journal of Plant Sciences 2, 644649.
Peñuelas, J., Filella, I., Biel, C., Serrano, L. & Savé, R. (1993). The reflectance at the 950–970 nm region as an indicator of plant water status. International Journal of Remote Sensing 14, 18871905.
Regner, F., Wiedeck, E. & Stadlbauer, A. (2000). A differentiation and identification of white Riesling clones by genetic markers. Vitis: Journal of Grapevine Research 39, 103107.
Regner, F., Hack, R. & Santiago, J. L. (2006). Highly variable Vitis microsatellite loci for the identification of Pinot noir clones. Vitis: Journal of Grapevine Research 45, 8591.
Ribeiro Da Luz, B. (2006). Attenuated total reflectance spectroscopy of plant leaves: a tool for ecological and botanical studies. New Phytologist 172, 305318.
Sánchez-Azofeifa, G. A., Castro, K., Wright, S. J., Gamon, J., Kalacska, M., Rivard, B., Schnitzer, S. A. & Feng, J. L. (2009). Differences in leaf traits, leaf internal structure, and spectral reflectance between two communities of lianas and trees: Implications for remote sensing in tropical environments. Remote Sensing of Environment 113, 20762088.
Schläpfer, F. & Fischer, M. (1998). An isozyme study of clone diversity and relative importance of sexual and vegetative recruitment in the grass Brachypodium pinnatum . Ecography 21, 351360.
Silvestroni, O., Di Pietro, D., Intrieri, C., Vignani, R., Filippetti, I., Del Casino, C., Scali, M. & Cresti, M. (1997). Detection of genetic diversity among clones of cv. Fortana (Vitis vinifera L.) by microsatellite DNA polymorphism analysis. Vitis: Journal of Grapevine Research 36, 147150.
Slaton, M. R., Hunt, E. R. & Smith, W. K. (2001). Estimating near-infrared leaf reflectance from leaf structural characteristics. American Journal of Botany 88, 278284.
Taylor, S., Baker, D., Owuor, P., Orchard, J., Othieno, C. & Gay, C. (1992). A model for predicting black tea quality from the carotenoid and chlorophyll composition of fresh green tea leaf. Journal of the Science of Food and Agriculture 58, 185191.
Terashima, I. & Saeki, T. (1983). Light environment within a leaf I. Optical properties of paradermal sections of camellia leaves with special reference to differences in the optical properties of palisade and spongy tissues. Plant and Cell Physiology 24, 14931501.
Vogelmann, T. C. (1993). Plant-tissue optics. Annual Review of Plant Physiology and Plant Molecular Biology 44, 231251.
Wegscheider, E., Benjak, A. & Forneck, A. (2009). Clonal variation in pinot noir revealed by S-SAP involving universal retrotransposon-based sequences. American Journal of Enology and Viticulture 60, 104109.
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