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Yoshio Inoue, Takashi Saito, Akira Iwasaki, Tomoaki Nemoto & Tsukasa Ono
To cite this article: Yoshio Inoue, Takashi Saito, Akira Iwasaki, Tomoaki Nemoto &
Tsukasa Ono (2020) Hyperspectral assessment of soil fertility in farm fields in Fukushima
decontaminated after the radioactive fallout, Soil Science and Plant Nutrition, 66:6, 820-827,
DOI: 10.1080/00380768.2020.1753237
ORIGINAL ARTICLE
CONTACT Yoshio Inoue yoshio.inoue@mail.u-tokyo.ac.jp. Graduate School of Engineering, The University of Tokyo, Tokyo 113-8656, Japan
© 2020 Japanese Society of Soil Science and Plant Nutrition
SOIL SCIENCE AND PLANT NUTRITION 821
sensing for assessing soil fertility in decontaminated fields in 2.3. Analytical methods
Fukushima. This paper reports the preliminary analytical
The relationship between spectral reflectance and SC values
results regarding predicting the spatial heterogeneity of
was analyzed using the normalized spectral index (SI) approach
soil carbon in decontaminated fields.
and multivariate regression.
set of 700 bands from 401 nm to 2498 nm was used for the
analyses. X
m
Tik ¼ ckj xij ; ðk ¼ 1; . . . ; rÞ (4)
Each soil sample was prepared in a 12-cm-diameter, 1.5-cm- j¼1
deep Petri dish that formed a uniform surface for the spectral
measurements. The soil surface was illuminated using four 200- where yi is the target variable (dependent variable), xij is the
W tungsten lamps, with an incidence angle of 45°. The reflec- spectral reflectance (independent variables), m is the number
tance spectrum of each soil sample was obtained using an of spectral bands, n is the number of samples, ei is the error,
optical-fiber probe which was positioned perpendicular to the βk is the regression coefficient, Tik is the latent variable (LV),
soil surface. The field of view of the fiber probe was 25° and the r is the number of latent variables, and ckj is the coefficient of
distance between the probe end and the soil surface was the LV. These calculations were conducted using MATLAB
15 cm. Five spectra were collected for each soil sample and (R2018a, MathWorks) and PLS toolbox (R8.7, Eigenvector).
averaged for analyses. A white reference panel (Spectralon,
Labsphere, USA) was measured before and after measuring 2.3.3. Comparative assessment of model performance
every five soil samples to derive the absolute reflectance of Statistical indicators such as the coefficient of determination
the soils. (r2) and root mean square error (RMSE) were used to compare
822 Y. INOUE ET AL.
the predictive ability of the spectral algorithms and models 600 nm. This high variability in the VIS region is due to the
using the SI, PLSR, and iPLSR methods. Because our main differences in soil color related to the electronic transitions in
purpose was to investigate the potential of hyperspectral chromophores. In general, soil becomes darker with increasing
remote sensing for estimating the within-field heterogeneity SC (Ladoni et al. 2010).
of SC in the decontaminated fields, a cross-validation method In the NIR and SWIR regions, some weak absorption
was used to assess their relative capabilities. occurred due to stretching and bending of the N–H, O–H, and
C–H bonds; such spectral changes are related to SC values via
the differences in lignin, cellulose, and other carbohydrates
3. Results and discussion
(Stuart 2004). Accordingly, even with a relatively small CV, the
3.1. Soil properties of the decontaminated field spectral changes in some narrow bands are closely related to
SC values. This is the basis for the cellulose absorption index
In the decontaminated field, SC values were 0.43–1.94% and SN
(CAI) proposed for discriminating crop residues on soil
values were 0.04–0.17%. These values are low compared to the
(Daughtry 2001). Derivative spectra can be useful for detecting
overall range of SC values for soil samples from the Fukushima
such weak changes in narrow wavebands (Zhi and Inoue 2012).
coastal region (SC = 0.22–8.63%; SN = 0.04–0.61%; n = 368)
Accordingly, the correlation between the reflectance of indi-
obtained in 2011 by the Fukushima Agricultural Technology
vidual wavelengths and SC values was relatively high
Center. The coefficients of variation (CVs) of the SC and SN
(r2 = 0.60–0.78) in the 500–1850-nm spectral region compared
values in the field were 39.2% and 35.3%, respectively, indicat-
to the 400–500 and 1850–2500-nm regions (Figure 2). There
ing significant within-field heterogeneity. A part of such spatial
was an absorption peak of cellulose at around 2100 nm.
heterogeneity was observable by eye to some extent because
Nevertheless, the correlation was not as high as in the
the color of the added soil was somewhat whiter than the
500–1850-nm region. Of note, the 500–700-nm region corre-
original soil. However, the degree of difference could only be
lated best with SC values for this soil type. The correlation of
observed qualitatively and the spatial heterogeneity looked
reflectance with SN values showed a similar spectral pattern,
non-systematic. SC and SN values were closely correlated in
but the correlation coefficient was somewhat lower than that
both the paddy field (r2 = 0.95; n = 60) and regional datasets
for SC. This significant correlation with SN can be attributed to
(r2 = 0.94; n = 368) (Figure 1). Because nitrogen released from
the high correlation between SN and SC (Figure 1).
the soil is important for crop growth, these results imply that SC
values are an indirect, but reasonable, indicator of soil fertility.
3.3. Spectral indices for assessing SC
3.2. Reflectance spectra of the sample soils
The analytical results imply that some RSIs and NDSIs are
Figure 2 shows the reflectance spectra of all soil samples. The promising (Figure 3). Figure 3 shows a contour map of r2
overall pattern of spectral reflectance was typical of lowland between SC and RSI (Ri, Rj) using the reflectance values (Ri
gray soils. The strong absorption around 1400 and 1940 nm is and Rj nm) for all combinations of two wavebands. The highest
due to water, hydroxyls, and clay (Ben-Dor, Inbar, and Chen r2val (0.844) was found in the red-edge region, i.e., RSI (R752,
1997). The spectral curves and CV of each waveband clearly R743), although the peak was narrow. The second-best region
show the significant spatial variability of the reflectance within (r2val = 0.809) was a broad area around RSI (R803, R629), which
the decontaminated field. Overall, CVs were relatively high in implied robustness against a wavelength shift or applicability
the visible (VIS) to near-infrared (NIR) wavelength regions (- to broadband sensors. The third-best index used SWIR band
500–900 nm) compared to the shortwave infrared (SWIR) R1697 with R581, which was also a broad spectral region, but
region (1300–2500 nm). The highest CVs were found at around the predictive ability was lower (r2val = 0.755). The scatterplots
Figure 1. Relationship between carbon (SC) and nitrogen (SN) in the soil of crop fields. (a) Data for soil samples taken in the entire area in 2011, the year of the tsunami
and nuclear disaster, and (b) data for soil from a decontaminated paddy field in 2018.
SOIL SCIENCE AND PLANT NUTRITION 823
Figure 2. Reflectance spectra of 60 soil samples from a decontaminated paddy field and their relations with soil properties (SC, SN, and C/N ratio).
show the close relationship and overall linearity between these 3.4. PSLRs for assessing SC
spectral indices and SC values (Figure 4, Table 1).
The predictive ability of iPLSR for this dataset is shown in
The results of another spectral index NDSI (Rj, Ri) implied
Figure 5 (r2val = 0.937); it was superior to PLSR
that similar waveband combinations to those for RSI are sig-
(r2val = 0.802). Note that PLSR using all 700 bands had
nificant. While the overall predictive ability of NDSIs was some-
lower predictive ability than iPLSR using 412 wavebands.
what lower than that of RSIs, NDSI (R743, R753) was best
This might have resulted from the influence of useless or
(r2val = 0.843) and NDSI (R581, R1697) was second best
disturbing wavebands. By contrast, the discrepancy between
(r2val = 0.730).
calibration and validation accuracy was much larger for
The results imply that the VIS and NIR wavebands are useful
PLSR (18%) than for iPLSR (5.5%), presumably because of
for assessing within-field variability of SC values in this soil. Based
stronger multicollinearity in PLSR. Accordingly, iPLSR may
on the selected wavebands, the spectral absorption of soil com-
be more powerful than PLSR for assessing SC values, as
ponents such as lignin, cellulose, and carbohydrate, which are
reported for hyperspectral assessment of plant ecophysiolo-
directly related to SC, may not contribute strongly to the overall
gical variables (Inoue et al. 2016). The 412 bands selected in
soil spectra. Conversely, the changes in soil color, which are
iPLSR were summarized into 15 latent variables that con-
closely related to these constituents, contribute more signifi-
sisted of multiple wavebands in the VIS, NIR, and SWIR
cantly to indirect assessment of SC values. This implies that the
regions. The majority of the selected wavebands had high
predictive ability of spectral indices is highly dependent on soil
correlations with SC values, but some were not always
type, because the relative significance of wavebands is affected
strongly correlated with SC values. As suggested by pre-
by the integrated effects of the absorptive features of SC com-
vious studies (Bartholomeus et al. 2008; Bellon-Maurel and
ponents, as well as their relationships with soil color and soil
McBratney 2011; Ladoni et al. 2010; Xu et al. 2018), the
texture. These results accord with the general insights from
model structure (combinations and contributions of wave-
preceding studies indicating that useful wavebands and models
bands) is highly dataset dependent. Accordingly, in addition
are diverse, depending on soil types and locations (Stevens et al.
to sufficient calibration and validation, a careful application
2008; Zhi and Inoue 2012; Bellon-Maurel et al. 2010;
strategy in terms of soil types, surface conditions, and sen-
Angelopoulou et al. 2019; Castaldi et al. 2019).
sor specifications is required.
824 Y. INOUE ET AL.
Figure 3. RSI map of the relationship between SC values and RSI (Ri, Rj) using the combination of two wavebands (Ri, Rj) from the entire reflectance spectra. This
contour map shows the predictive ability (r2) of SC values by RSI (Ri, Rj) (n = 60).
Figure 4. Relationship between SC values and some promising spectral indices selected from the RSI map.
3.5. Comparison of the predictive methods useful (Daughtry 2001; Nagler et al. 2003). The CAI may be
robust, in principle, because it is based on the spectral features
Table 1 compares the predictive ability and necessary wave-
of a soil component (cellulose) with reasonable normalization.
bands of all algorithms. The multivariate models (iPLSR and
However, the predictive accuracy is not always high because
PLSR) had higher predictive accuracy compared to the other
the signature may be disturbed by other soil physicochemical
methods. However, the robustness or applicability of multivari-
factors.
ate models is often uncertain, even if the fitting to individual
The optimized spectral indices with the RSI and NDSI for-
datasets is excellent. In fact, the discrepancy between r2val and
mulations proved to have good potential for spectral assess-
r2cal was largest for PLSR (18%), while it was 1.3 to 5.5% for the
ment of the spatial variability of SC despite using only two
other algorithms. Care should be taken regarding the multicolli-
wavebands. The simplicity and wide applicability of spectral
nearity and over-fitting issues of multivariate methods (Inoue
indices, particularly with broad wavebands, is of significant
et al. 2012). In addition, note that the applicability of PLSR models
merit. The influence of disturbing factors such as moisture
is constrained by the sensor specifications of individual systems
content and measuring environments would be reduced by
(number, position, and width of wavebands). This would be
spectral normalization using multiple wavebands (Inoue et al.
a case for machine learning methods (Ali et al. 2015).
2016). In this preliminary case study, several spectral indices
The CAI using three SWIR bands, including the absorption
using VIS to NIR wavelength regions proved promising, but
peak of cellulose (2100 nm), was moderately correlated with SC
their close relationship with SC values was attributed mainly
values (r2val = 0.663). CAI is thought to be able to discriminate or
to changes in soil color associated with the decontamination
quantify crop residues on the soil surface, and has proven to be
SOIL SCIENCE AND PLANT NUTRITION 825
Table 1. Comparison of the fitting and predictive ability of the generalized spectral index method (NDSI and RSI) and multivariate regression methods (PLSR and
iPLSR).
Algorithm Bands Ri (mm) r2cal RMSEcal r2val RMSEval
1 539 0.776 0.189 0.759 0.196
NDSI Bands Rj (nm) Ri (mm) r2cal RMSEcal r2val RMSEval
2 752 743 0.855 0.152 0.843 0.158
2 1691 581 0.753 0.199 0.730 0.208
RSI Bands Ri (nm) Rj (nm) r2cal RMSEcal r2val RMSEval
2 752 743 0.855 0.152 0.844 0.158
2 803 629 0.824 0.168 0.809 0.175
2 1697 581 0.774 0.190 0.755 0.198
2 2210 581 0.766 0.193 0.744 0.202
CAI Bands Ri (nm) r2cal RMSEcal r2val RMSEval
2000
3 2100 0.688 0.233 0.633 0.232
2200
PLSR Bands Rn (nm) NLV r2cal RMSEcal r2val RMSEval
700 – 12 0.976 0.063 0.802 0.182
iPLSR Bands Rn (nm) NLV r2cal RMSEcal r2val RMSEval
412 – 15 0.992 0.037 0.938 0.100
Rλ: reflectance at λ nm, SI: spectral index. PLSR: partial least squares regression, iPLSR: interval PLSR, cal: calibration, val: validation, NLV: number of latent
variables.
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ORCID
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