Weed management is a major component of a soybean ( Glycine max L.) production system; thus, managers need tools to help them distinguish soybean from weeds. Vegetation indices derived from light reflectance properties of plants have shown promise as tools to enhance differences among plants. The objective of this study was to evaluate normalized difference vegetation indices derived from multispectral leaf reflectance data as input into random forest machine learner to differentiate soybean and three broad leaf weeds: Palmer amaranth ( Amaranthus palmeri L.), redroot pigweed ( A. retroflexus L.), and velvetleaf ( Abutilon theophrasti Medik). Leaf reflectance measurements were acquired from plants grown in two separate greenhouse experiments conducted in 2014. Twelve normalized difference vegetation indices were derived from the reflectance measurements, including advanced, green, greenred, green-blue, and normalized difference vegetation indices, shortwave infrared water stress indices, normalized difference pigment and red edge indices, and structure insensitive pigment index. Using the twelve vegetation indices as input variables, the conditional inference version of random forest (cforest) readily distinguished soybean and velvetleaf from the two pigweeds (Palmer amaranth and redroot pigweed) and from each other with classification accuracies ranging from 93.3% to 100%. The greatest errors were observed between the two pigweed classes, with classification accuracies ranging from 70% to 93.3%. Results suggest combining them into one class to increase classification accuracy. Vegetation indices results were equivalent to or slightly better than results obtained with sixteen multispectral bands used as input data into cforest. This research further supports using vegetation indices and machine learning algorithms such as cforest as decision support tools for weed identification.
Bunge, J. (2014) For Weed Control, Farmers Widen Their Arsenal of Herbicides. The Wall Street Journal. http://www.wsj.com/articles/SB10001424052702303847804579481641717350038
Spencer, N.R. (1984) Velvetleaf, Abutilon Theophrasti (Malvaceae), History and Economic Impact in the United States. Economic Botany, 38, 407-416. http://dx.doi.org/10.1007/BF02859079
Ulloa, S.M., Datta, A. and Knezevic, S.Z. (2010) Growth Stage-Influenced Differential Response of Foxtail and Pigweed Species to Broadcast Flaming. Weed Technology, 24, 319-325. http://dx.doi.org/10.1614/WT-D-10-00005.1
Ward, S.M., Webster, T.M. and Steckel, L.E. (2013) Palmer Amaranth (Amaranthus palmeri): A Review. Weed Technology, 27, 12-27. http://dx.doi.org/10.1614/WT-D-12-00113.1
Gray, C.J., Shaw, D.R. and Bruce, L.M. (2009) Utility of Hyperspectral Reflectance for Differentiating Soybean (Glycine max) and Six Weed Species. Weed Technology, 23, 108-119. http://dx.doi.org/10.1614/WT-07-117.1
Fletcher, R.S. (2015) Testing Leaf Multispectral Reflectance Data as Input into Random Forest to Differentiate Velvetleaf from Soybean. American Journal of Plant Sciences, 6, 3193-3204. http://dx.doi.org/10.4236/ajps.2015.619311
Jackson, T.J., Chen, D.Y., Cosh, M., Li, F.Q., Anderson, M., Walthall, C., Doriaswamy, P. and Hunt, E.R. (2004) Vegetation Water Content Mapping Using Landsat Data Derived Normalized Difference Water Index for Corn and Soybeans. Remote Sensing of Environment, 92, 475-482. http://dx.doi.org/10.1016/j.rse.2003.10.021
Chen, D.Y., Huang, J.F. and Jackson, T.J. (2005) Vegetation Water Content Estimation for Corn and Soybeans Using Spectral Indices Derived from MODIS Near- and Short-Wave Infrared Bands. Remote Sensing of Environment, 98, 225-236. http://dx.doi.org/10.1016/j.rse.2005.07.008
Cheng, T., Riano, D., Koltunov, A., Whiting, M.L., Ustin, S.L. and Rodriguez, J. (2013) Detection of Diurnal Variation in Orchard Canopy Water Content Using MODIS/ASTER Airborne Simulator (MASTER) Data. Remote Sensing of Environment, 132, 1-12. http://dx.doi.org/10.1016/j.rse.2012.12.024
Genc, H., Genc, L., Turhan, H., Smith, S.E. and Nation, J.L. (2008) Vegetation Indices as Indicators of Damage by the Sunn Pest (Hemiptera: Scutelleridae) to Field Grown Wheat. African Journal of Biotechnology, 7, 173-180.
Kumar, J., Vashisth, A., Sehgal, V.K. and Gupta, V.K. (2010) Identification of Aphid Infestation in Mustard by Hyperspectral Remote Sensing. Journal of Agricultural Physics, 10, 53-60.
Calderon, R., Navas-Cortes, J.A., Lucena, C. and Zarco-Tejada, P.J. (2013) High-Resolution Airborne Hyperspectral and Thermal Imagery for Early Detection of Verticillium Wilt of Olive Using Fluorescence, Temperature, and Narrow-Band Spectral Indices. Remote Sensing of Environment, 139, 231-245. http://dx.doi.org/10.1016/j.rse.2013.07.031
Ashourloo, D., Mobasheri, M.R. and Huete, A. (2014) Developing Two Spectral Disease Indices for Detection of Wheat Leaf Rust (Puccinia triticina). Remote Sensing, 6, 4723-4740. http://dx.doi.org/10.3390/rs6064723
Ranjitha, G., Srinivasan M.R. and Rajesh, A. (2014) Detection and Estimation of Damage Caused by Thrips tabaci (Lind) of Cotton Using Hyperspectral Radiometer. Agrotechnology, 3, 1-5.
Lamb, D.V. and Weedon, M. (1998) Evaluating Accuracy of Mapping Weeds in Fallow Fields Using Airborne Imaging: Panicum effesum in Oil-Seed Rape Stubble. Weed Research, 38, 443-451. http://dx.doi.org/10.1046/j.1365-3180.1998.00112.x
Lamb, D.V., Weedon, M. and Rew, L.J. (1999) Evaluating the Accuracy of Mapping Weeds in Seedling Crops using Airborne Digital Imagery: Avena spp. in Seedling Triticale. Weed Research, 39, 481-492. http://dx.doi.org/10.1046/j.1365-3180.1999.00167.x
Smith, A.M. and Blackshaw, R.E. (2003) Weed-Crop Discrimination Using Remote Sensing: A Detached Leaf Experiment. Weed Technology, 17, 811-820. http://dx.doi.org/10.1614/WT02-179
Pena-Barragan, J.M., López-Granados, F., Jurado-Expósito, M. and Garciá-Torres, L. (2006) Spectral Discrimination of Ridolfia segetum and Sunflower as Affected by Phenological Stage. Weed Research, 46, 10-21. http://dx.doi.org/10.1111/j.1365-3180.2006.00488.x
Gómez-Casero, M.T., Castillejo-González, I.L., García-Ferrer, A., Pena-Barragán, J.M., Jurado-Expósito, M., García-Torres, L. and López-Granados, F.L. (2010) Spectral Discrimination of Wild Oat and Canary Grass in Wheat Fields for Less Herbicide Application. Agronomy for Sustainable Development, 30, 689-699. http://dx.doi.org/10.1051/agro/2009052
De Castro, A.I., Jurado-Expósito, M., Gómez-Casero, M.T. and López-Granados, F. (2012) Applying Neural Networks to Hyperspectral and Multispectral Field Data for Discrimination of Cruciferous Weeds in Winter Crops. The Scientific World Journal, 2012, Article ID: 630390. http://dx.doi.org/10.1100/2012/630390
Li, F., Gnyp, M.L., Jia, L., Miao, Y., Yu, Z., Koppe, W., Bareth, G., Chen, X. and Zhang, F. (2008) Estimating N Status of Winter Wheat Using a Handheld Spectrometer in the North China Plain. Field Crop Research, 106, 77-85. http://dx.doi.org/10.1016/j.fcr.2007.11.001
Bausch, W.C. and Khosla, R. (2010) Quick Bird Satellite versus Ground-Based Multi-Spectral Data for Estimating Nitrogen Status of Irrigated Maize. Precision Agriculture, 11, 274-290. http://dx.doi.org/10.1007/s11119-009-9133-1
Huete, A. and Justice, C. (1999) MODIS Vegetation Index (MOD 13) Algorithm Theoretical Basis Document. https://modis.gsfc.nasa.gov/data/atbd/atbd_mod13.pdf
Hatfield, J.L. and Prueger, J.H. (2010) Value of Using Different Vegetative Indices to Quantify Agricultural Crop Characteristics at Different Growth Stages under Varying Management Practices. Remote Sensing, 2, 562-578. http://dx.doi.org/10.3390/rs2020562
Breiman, L. (2001) Random Forests. Machine Learning, 45, 5-32. http://dx.doi.org/10.1023/A:1010933404324
Fernández-Delgado, M., Cernadas, E., Barro, S. and Amorim, D. (2014) Do We Need Hundreds of Classifiers to Solve Real World Classification Problems? Journal of Machine Learning Research, 15, 3133-3181.
Pal, M. (2005) Random Forest Classifier for Remote Sensing Classification. International Journal of Remote Sensing, 26, 217-222. http://dx.doi.org/10.1080/01431160412331269698
Gislason, P.O., Benediktsson, J.A. and Sveinsson, J.R. (2006) Random Forests for Land Cover Classification. Pattern Recognition Letters, 27, 294-300. http://dx.doi.org/10.1016/j.patrec.2005.08.011
Lawrence, R.L., Wood, S.D. and Sheley, R.L. (2006) Mapping Invasive Plants Using Hyperspectral Imagery and Breiman Cutler Classifications (Random Forest). Remote Sensing of Environment, 100, 356-362. http://dx.doi.org/10.1016/j.rse.2005.10.014
Adam, E.M., Mutanga, O., Rugege, D. and Ismail, R. (2012) Discriminating the Papyrus Vegetation (Cyperus papyrus L.) and Its Co-Existent Species Using Random Forest and Hyperspectral Data Resampled to HYMAP. International Journal of Remote Sensing, 33, 552-569. http://dx.doi.org/10.1080/01431161.2010.543182
Ismail, R. and Mutanga, O. (2010) A Comparison of Regression Tree Ensembles: Predicting Sirex noctilio Induced Water Stress in Pinus patula Forests of KwaZulu-Natal, South Africa. International Journal of Applied Earth Observation and Geoinformation, 12, S45-S51. http://dx.doi.org/10.1016/j.jag.2009.09.004
Abdel-Rahman, E.M., van den Berg, M., Way, M.J. and Ahmed, F.B. (2009) Hand-Held Spectrometry for Estimating Thrips (Fulmekiola serrata) Incidence in Sugarcane. IEEE International Geoscience and Remote Sensing Symposium (IGARSS), 4, 268-271. http://dx.doi.org/10.1109/igarss.2009.5417322
Penuelas, J., Gamon, J., Freeden, A., Merino, J. and Field, C. (1994) Reflectance Indices Associated with Physiological Changes in Nitrogen and Water Limited Sunflower Leaves. Remote Sensing of Environment, 48, 135-146. http://dx.doi.org/10.1016/0034-4257(94)90136-8
Penuelas, J., Baret, F. and Filella, I. (1995) Semi-Empirical Indices to Assess Carotenoids/Chlorophyll a Ratio from Leaf Spectral Reflectance. Photosynthetica, 31, 221-230.
Gitelson, A.A., Kaufman, Y.J. and Merzlyak, M.N. (1996) Use of a Green Channel in Remote Sensing of Global Vegetation from EOS-MODIS. Remote Sensing of Environment, 58, 289-298. http://dx.doi.org/10.1016/S0034-4257(96)00072-7
Araus, J.L., Casadesus, J. and Bort, J. (2001) Recent Tools for the Screening of Physiological Traits Determining Yield. In: Reynolds, M.P., Ortiz-Monasterio, J.I. and McNabb, A., Eds., Application of Physiology in Wheat Breeding, CIMMYT, International Maize and Wheat Improvement Center Apdo, 59-77.
Motohka, T., Nasahara, K.N., Oguma, H. and Tsuchida, S. (2010) Applicability of Green-Red Vegetation Index for Remote Sensing of Vegetation Phenology. Remote Sensing, 2, 2369-2387. http://dx.doi.org/10.3390/rs2102369
Eitel, J.U.H., Vierling, L.A., Litvak, M.E., Long, D.S., Schulthess, U., Ager, A.A., Krofcheck, D.J. and Stoscheck, L. (2011) Broadband, Red-Edge Information From Satellites Improves Early Stress Detection in a New Mexico Conifer Woodland. Remote Sensing of Environment, 115, 3640-3646. http://dx.doi.org/10.1016/j.rse.2011.09.002
Gao, B.C. (1996) NDWI—A Normalized Difference Water Index for Remote Sensing of Vegetation Liquid Water from Space. Remote Sensing of Environment, 58, 257-266. http://dx.doi.org/10.1016/S0034-4257(96)00067-3
Lehnert, L.W., Meyer, H. and Bendix, J. (2016) Hsdar: Manage, Analyse and Simulate Hyperspectral Data in R. R Package Version 0.4.1.
R Core Team (2015) R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria. https://www.R-project.org/
Strobl, C., Hothorn, S. and Zeileis, A. (2009) Party on! A New, Conditional Variable Importance Measure for Random Forests Available in the Party Package. Technical Report Number 050, Department of Statistics, University of Munich, Munich.
Hothorn, T., Hornik, K. and Zeileis, A. (2006) Unbiased Recursive Portioning: A Conditional Inference Framework. Journal of Computational and Graphical Statistics, 15, 651- 674. http://dx.doi.org/10.1198/106186006X133933
Strobl, C., Malley, J. and Tutz, G. (2009) An Introduction to Recursive Partitioning: Rationale, Application and Characteristics of Classification and Regression Trees, Bagging and Random Forests. Physiological Methods, 14, 323-348. http://dx.doi.org/10.1037/a0016973
Hothorn, T., Buehlmann, P., Dudoit, S., Molinaro, A. and Van Der Laan, M. (2006b) Survival Ensembles. Biostatistics, 7, 355-373. http://dx.doi.org/10.1093/biostatistics/kxj011
Strobl, C., Boulesteix, A.L., Zeileis, A. and Hothorn, T. (2007) Bias in Random Forest Variable Importance Measures: Illustrations, Sources and a Solution. BMC Bioinformatics, 8, 25. http://www.biomedcentral.com/1471-2105/8/25 http://dx.doi.org/10.1186/1471-2105-8-25
Strobl, C., Boulesteix, A.L., Kneib, T., Augustin, T. and Zeileis, A. (2008) Conditional Variable Importance for Random Forests. BMC Bioinformatics, 9, 307. http://www.biomedcentral.com/1471-2105/9/307 http://dx.doi.org/10.1186/1471-2105-9-307
Congalton, R. and Green, K. (2009) Assessing the Accuracy of Remotely Sensed Data Principles and Practices. 2nd Edition, Lewis, Boca Raton.
Landis, J.R. and Koch, G.G. (1977) An Application of Hierarchical Kappa-Type Statistics in the Assessment of Majority Agreement Among Multiple Observers. Biometrics, 33, 363-374. http://dx.doi.org/10.2307/2529786
Ceccato, P., Flassee, S., Tarantola, S., Jacquemoud, S. and Gregoire, J.M. (2001) Detecting Vegetation Leaf Water Content using Reflectance in the Optical Domain. Remote Sensing of Environment, 77, 22-33. http://dx.doi.org/10.1016/S0034-4257(01)00191-2
Fensholt, R. and Sandholt, I. (2003) Derivation of a Shortwave Infrared Water Stress Index from MODIS Near- and Shortwave Infrared Data in a Semiarid Environment. Remote Sensing of Environment, 87, 111-121. http://dx.doi.org/10.1016/j.rse.2003.07.002
Wójtowicz, M., Wójtowicz, A. and Piekarczyk, J. (2016) Application of Remote Sensing Methods in Agriculture. Communications in Biometry and Crop Science, 11, 31-50.
Barnes, E.M., Clarke, T.R., Richards, S.E., Colaizzi, P.D., Haberland, J., Kostrzewski, M., Waller, P., Choi, C., Riley, E., Thompson, T., Lascano, R.J., Li, H. and Moran, M.S. (2000) Coincident Detection of Crop Water Stress, Nitrogen Status, and Canopy Density Using Ground-Based Multispectral Data. 5th International Conference on Precision Agriculture, Bloomington, 16-19 July 2000, 1-15.
Rouse, J.W., Haas, R.H., Schell, J.A. and Deering, D.W. (1974) Monitoring Vegetation Systems in the Great Plains with ERTS. 3rd Earth Resource Technology Satellite (ERTS), 1, 48-62.