# Chapter 15 Exercises

## 15.1 Chapter 3

### 15.1.1 Exercise 1

A chemical analysis was performed in triplicate, with the following results: 125, 169 and 142 ng/g. Calculate mean, sum of squares, mean square, standard deviation and coefficient of variation.

### 15.1.2 Exercise 2

Download the Excel file ‘rimsulfuron.csv’ from https://www.casaonofri.it/_datasets/rimsulfuron.csv. This is a dataset relating to a field experiment to compare 15 herbicides with 4 replicates. The response variables are maize yield and height. Describe the dataset and show the results on a barplot, including some measure of variability. Check whether yield correlates to height and comment on the results.

### 15.1.3 Exercise 3

Load the csv file ‘students.csv’ from https://www.casaonofri.it/_datasets/students.csv. This dataset relates to a number of students, their votes in several undergraduate exams and information on high school. Determine whether (i) the average votes depend on the exam subject and (ii) the average votes depend on high school type.

## 15.2 Chapter 4

### 15.2.1 Exercise 1

A xenobiotic substance degrades in soil following a first-order kinetic, which is described by the following equation:

$Y = 100 \, e^{-0.07 \, t}$

where Y is the concentration at time $$t$$. After spraying this substance in soil, what is the probability that 50 days later we observe a concentration below the toxicity threshold for mammalians (2 ng/g)? Please, consider that all the unknown sources of experimental error can be regarded as gaussian, with a coefficient of variability equal to 20%.

### 15.2.2 Exercise 2

Crop yield is a function of its density, according to the following function:

$Y = 8 + 8 \, X - 0.07 \, X^2$

Draw the graph and find the required density to obtain the highest yield (use a simple graphical method). What is the probability of obtaining a yield level between 2.5 and 3 t/ha, by using the optimal density? Consider that random variability is 12%.

### 15.2.3 Exercise 3

The toxicity of a compound changes with the dose, according to the following expression:

$Y = \frac{1}{1 + exp\left\{ -2 \, \left[log(X) - log(15)\right] \right\}}$

where $$Y$$ is the proportion of dead animals and $$X$$ is the dose. If we treat 150 animals with a dose of 35 g, what is the probability of finding more than 120 dead animals? The individual variability can be approximated by using a gaussian distribution, with a standard error equal to 10.

### 15.2.4 Exercise 4

Consider the sample C = [140 - 170 - 155], which was drawn by a gaussian distribution. Calculate the probability of drawing an individual value from the same pupulation in the following intervals:

1. higher than 170
2. lower than 140
3. within the range from 170 and 140

### 15.2.5 Exercise 5

Consider a gaussian population with $$\mu$$ = 23 and $$\sigma$$ = 1. Calculate the probability of drawing three individuals with a mean

1. higher than 25
2. lower than 21
3. between 21 and 25

## 15.3 Chapter 5

### 15.3.1 Exercise 1

A chemical analysis was repeated three times, with the following results: 125, 169 and 142 ng/g. Calculate mean, deviance, variance, standard deviation, standard error and confidence intervals (P = 0.95 and P = 0.99).

### 15.3.2 Exercise 2

An experiment was carried out, comparing the yield of four wheat genotypes (in tons per hectar). The results are as follows:

Genotype Rep-1 Rep-2 Rep-3 Rep4
A 4.72 5.45 5.13 5.19
B 6.29 6.79 7.55 5.86
C 5.54 4.44 5.16 5.92
D 6.68 6.30 6.70 7.77

For each genotype, calculate the mean, deviance, variance, standard deviation, standard error and confidence interval (P = 0.95).

### 15.3.3 Exercise 3

We have measured the length of 30 maize seedlings, treated with selenium in water solution. The observed lengths are:

length <- c(2.07, 2.23, 2.04, 2.16, 2.12, 2.33, 2.21, 2.22, 2.29, 2.28,
2.44, 2.04, 2.02, 1.49, 2.12, 2.38, 2.51, 2.27, 2.55, 2.44, 2.28,
2.2, 2.03, 2.35, 2.34, 2.34, 1.99, 2.44, 2.44, 1.91)

For the above sample, calculate the mean, deviance, variance, standard deviation, standard error and confidence interval (P = 0.95).

### 15.3.4 Exercise 4

A sample of 400 insects was sprayed with an insecticide and 136 individuals survived the treatment. Determine the efficacy of the insecticide, in terms of proportion of dead insects, together with 95% confidence limits.

## 15.4 Chapter 6

### 15.4.1 Exercise 1

We have compared two herbicides for weed control in maize. With the first herbicide (A), we observed the following weed coverings: 9.3, 10.2, 9.7 %. With the second herbicide, we observedd: 12.6, 12.3 e 12.5 %. Are the means for the two herbicides significantly different (P < 0.05)?

### 15.4.2 Exercise 2

We have made an experiment to compare two fungicides A and B. The first fungicide was used to treat 200 fungi colonies and the number of surviving colonies was 180. B was used to treat 100 colonies and 50 of those survived. Is there a significant difference between the efficiacies of A and B (P < 0.05)?

### 15.4.3 Exercise 3

A plant pathologist studied the crop performances with (A) and without (NT) a fungicide treatment. The results are as follows:

A NT
65 54
71 51
68 59

Was the treatment effect significant (P < 0.05)?

### 15.4.4 Exercise 4

In this year, an assay showed that 600 olive drupes out of 750 were attacked by Daucus olee. In a close field, under the same environmental conditions, the count of attacked drupes was 120 on 750. Is the the observed difference statistically significant (P < 0.05) or is it just due to random fluctuation?

### 15.4.5 Exercise 5

In a hospital, blood cholesterol level was measured for eight patients, before and after a three months terapy. The observed values were:

Patient Before After
1 167.3 126.7
2 186.7 154.2
3 105.0 107.9
4 214.5 209.3
5 148.5 138.5
6 171.5 121.3
7 161.5 112.4
8 243.6 190.5

Can we say that this terapy is effective, or not?

### 15.4.6 Exercise 6

A plant breeder organised an experiment to compare three wheat genotypes, i.e. GUERCINO, ARNOVA and BOLOGNA, according to a completely randomised design with 10 replicates. The observed yields are:

guercino arnova bologna
53.2 53.1 43.5
59.1 51.0 41.0
62.3 51.9 41.2
48.6 55.3 44.8
59.7 58.8 40.2
60.0 54.6 37.2
55.7 53.0 45.3
55.8 51.4 38.9
55.7 51.7 42.9
54.4 64.7 39.3
1. Describe the three samples, by using the appropriate statistics of central tendency and spread
2. Infere the means of the pupulations from where the samples were drawn
3. For each of the three possible couples (GUERCINO vs ARNOVA, GUERCINO vs BOLOGNA and ARNOVA vs BOLOGNA), test the hypothesis that the two means are significantly different.

### 15.4.7 Exercise 7

A botanist counted the number of germinated seeds for oilseed rape at two different temperatures (15 and 25°C). At 15°C, 358 germinations were counted out of 400 seeds. At 25°C, 286 germinations were counted out of 380 seeds.

1. Describe the proportions of germination for the three samples
2. Infere the proportion of germinated seeds in the two populations, from where the samples of seeds were extracted (remember that the variance for a proportion is calculated as $$p \times (1- p)$$.
3. Test the hypothesis that temperature had a significant effect on the germinability of oilseed rape seeds.

## 15.5 Chapters 7 to 9

### 15.5.1 Exercise 1

An experiment was conducted with a completely randomised design to compare the yield of 5 wheat genotypes. The results (in bushels per acre) are as follows:

Variety 1 2 3
A 32.4 34.3 37.3
B 20.2 27.5 25.9
C 29.2 27.8 30.2
D 12.8 12.3 14.8
E 21.7 24.5 23.4
1. Write the linear model for this study and explain the model components
2. Compute the ANOVA
3. Check for the basic assumptions
4. Compare the means
5. Present the results and comment on them

The example is taken from: Le Clerg et al. (1962)

### 15.5.2 Exercise 2

Cell cultures of tomato were grown by using three types of media, based on glucose, fructose and sucrose. The experiment was conducted with a completely randomised design with 5 replicates and a control was also added to the design. Cell growths are reported in the table below:

Control Glucose Fructose Sucrose
45 25 28 31
39 28 31 37
40 30 24 35
45 29 28 33
42 33 27 34
1. Write the linear model for this study and explain the model components
2. Compute the ANOVA
3. Check for the basic assumptions
4. Compare the means
5. Present the results and comment on them

### 15.5.3 Exercise 3

The failure time for a heating system was assessed, to discover the effect of the operating temperature. Four temperatures were tested with 6 replicates, according to a completely randomised design and the number of hours before failure were measured. The results are as follows:

Temp. Hours to failure
1520 1953
1520 2135
1520 2471
1520 4727
1520 6134
1520 6314
1620 1190
1620 1286
1620 1550
1620 2125
1620 2557
1620 2845
1660 651
1660 837
1660 848
1660 1038
1660 1361
1660 1543
1708 511
1708 651
1708 651
1708 652
1708 688
1708 729

Please, note that these are the only possible values for temperature. Determine the best operating temperature, in order to delay failure.

### 15.5.4 Exercise 4

An entomologist counted the number of eggs laid from a lepidopter on three tobacco genotypes. 15 females were tested for each genotype and the results are as follows:

Female Field Resistant USDA
1 211 0 448
2 276 9 906
3 415 143 28
4 787 1 277
5 18 26 634
6 118 127 48
7 1 161 369
8 151 294 137
9 0 0 29
10 253 348 522
11 61 0 319
12 0 14 242
13 275 21 261
14 0 0 566
15 153 218 734

Which is the most resistant genotype?

## 15.6 Chapter 10

### 15.6.1 Exercise 1

Data were collected about 5 types of irrigation on orange trees in Spain. The experiment was laid down as complete randomised blocks with 5 replicates and the results are as follows:

Method 1 2 3 4 5
Localised 438 413 375 127 320
Surface 413 398 348 112 297
Sprinkler 346 334 281 43 231
Sprinkler + localised 335 321 267 33 219
Submersion 403 380 336 101 293
1. Write the linear model for this study and explain the model components
2. Compute the ANOVA
3. Check for the basic assumptions
4. Compare the means
5. Present the results and comment on them

### 15.6.2 Exercise 2

A fertilisation trial was conducted according to a RCBD with five replicates. One value is missing for the second treatment in the fifth block. The observed data are percentage contents in P2 O5 in leaf samples:

Treatment 1 2 3 4 5
Unfertilised 5.6 6.1 5.3 5.9 9.4
50 lb N 7.3 6.0 7.7 7.7 NA
100 lb N 6.9 6.0 5.6 7.4 8.2
50 lb N + 75 lb P2O5 10.8 11.2 8.8 10.4 12.9
100 lb N + 75 lb P205 9.6 9.3 12 10.6 11.6
1. Calculate arithmetic means
2. Calculate the ANOVA
3. Check for the basic assumptions
4. Calculate expected marginal means and compare to arithmetic means
5. The addition of P2 O5 is a convenient practice, in terms of agronomic effect?

### 15.6.3 Exercise 3

A latin square experiment was planned to assess effect of four different fertilisers on lettuce yield. The observed data are as follows:

Fertiliser Row Column Yield
A 1 1 104
B 1 2 114
C 1 3 90
D 1 4 140
A 2 4 134
B 2 3 130
C 2 1 144
D 2 2 174
A 3 3 146
B 3 4 142
C 3 2 152
D 3 1 156
A 4 2 147
B 4 1 160
C 4 4 160
D 4 3 163
1. Write the linear model for this study and explain the model components
2. Compute the ANOVA
3. Check for the basic assumptions
4. Compare the means
5. Present the results and comment on them: what is the best fertiliser?

## 15.7 Chapters 11 and 12

### 15.7.1 Exercise 1

A pot experiment was planned to evaluate the best timing for herbicide application against rhizome Sorghum halepense. Five timings were compared (2-3, 4-5, 6-7 and 8-9 leaves), including a splitted treatment in two timings (3-4/8-9 leaves) and the untreated control. In order to understand whether the application is effective against plants coming from rhizomes of different sizes, a second factor was included in the experiment, i.e. rhizome size (2, 4, six nodes). The design was a fully crossed two-way factorial, laid down as completely randomised with four replicates. The results (plant weights three weeks after the herbicide application) are as follows:

Sizes ↓ / Timing → 2-3 4-5 6-7 8-9 3-4/8-9 Untreated
2-nodes 34.03 0.10 30.91 33.21 2.89 41.63
22.31 6.08 35.34 43.44 19.06 22.96
21.70 3.73 24.23 44.06 0.10 52.14
14.90 9.15 28.27 35.34 0.68 59.81
4-nodes 42.19 14.86 52.34 39.06 8.62 68.15
51.06 36.03 43.17 61.59 0.05 42.75
43.77 21.85 57.28 48.89 0.10 57.77
31.74 8.71 29.71 49.14 9.65 44.85
6-nodes 20.84 11.37 55.00 41.77 9.80 43.20
26.12 2.24 28.46 37.38 0.10 40.68
35.24 14.17 21.81 39.55 1.42 34.11
13.32 23.93 60.72 48.37 6.83 32.21
1. Write the linear model for this study and explain the model components
2. Compute the ANOVA
3. Check for the basic assumptions
4. Calculate marginal means and cell means
5. Present the results and comment on them: what type of means should you report?

### 15.7.2 Exercise 2

Six faba bean genotypes were tested in two sowing times, according to a plit-plot design in 4 complete blocks. Sowing times were randomised to main-plots within blocks and genotypes were randomised to sub-plots within main-plots and blocks. Results are:

Sowing Time Genotype 1 2 3 4
Autum Chiaro 4.36 4.00 4.23 3.83
Collameno 3.01 3.32 3.27 3.40
Palombino 3.85 3.85 3.68 3.98
Scuro 4.97 3.98 4.39 4.14
Sicania 4.38 4.01 3.94 2.99
Vesuvio 3.94 4.47 3.93 4.21
Spring Chiaro 2.76 2.64 2.25 2.38
Collameno 2.50 1.79 1.57 1.77
Palombino 2.24 2.21 2.50 2.05
Scuro 3.45 2.94 3.12 2.69
Sicania 3.24 3.60 3.16 3.08
Vesuvio 2.34 2.44 1.71 2.00
1. Write the linear model for this study and explain the model components
2. Compute the ANOVA
3. Check for the basic assumptions
4. Calculate marginal means and cell means
5. Present the results and comment on them: what type of means should you report?

### 15.7.3 Exercise 3

Four crops were sown in soil 20 days after the application of three herbicide treatments, in order to evaluate possible carry-over effects of residuals. The untreated control was also added for comparison and the weight of plants was assessed four weeks after sowing. The experiment was laid down as strip-plot and, within each block, the herbicide were randomised to rows and crops to columns. The weight of plants is reported below:

Herbidicide Block sorghum rape soyabean sunflower
Untreated 1 180 157 199 201
2 236 111 257 358
3 287 217 346 435
4 350 170 211 327
Imazethapyr 1 47 10 193 51
2 43 1 113 4
3 0 20 187 13
4 3 21 122 15
primisulfuron 1 271 8 335 379
2 182 0 201 201
3 283 22 206 307
4 147 24 240 337
rimsulfuron 1 403 238 226 290
2 227 169 195 494
3 400 364 257 397
4 171 134 137 180
1. Write the linear model for this study and explain the model components
2. Compute the ANOVA
3. Check for the basic assumptions
4. Calculate marginal means and cell means
5. Present the results and comment on them: what type of means should you report?

### 15.7.4 Exercise 4

A field experiment was conducted to evaluate the effect of fertilisation timing (early, medium, late) on two genotypes. The experiment was designed as a randomised complete block design and the data represent the amount of absorbed nitrogen by the plant:

Genotype Block Early Med Late
A 1 21.4 50.8 53.2
2 11.3 42.7 44.8
3 34.9 61.8 57.8
B 1 54.8 56.9 57.7
2 47.9 46.8 54.0
3 40.1 57.9 62.0
1. Write the linear model for this study and explain the model components
2. Compute the ANOVA
3. Check for the basic assumptions
4. Calculate marginal means and cell means
5. Present the results and comment on them: what type of means should you report?

### 15.7.5 Exercise 5

A study was carried out to evaluate the effect of washing temperature on the reduction of length for four types of fabric. Results are expressed as percentage reduction and the experiment was completely randomised, with two replicates:

Fabric 210 °F 215 °F 220 °F 225 °F
A 1.8 2.0 4.6 7.5
2.1 2.1 5.0 7.9
B 2.2 4.2 5.4 9.8
2.4 4.0 5.6 9.2
C 2.8 4.4 8.7 13.2
3.2 4.8 8.4 13.0
D 3.2 3.3 5.7 10.9
3.6 3.5 5.8 11.1

Consider the temperature as a factor and:

1. Write the linear model for this study and explain the model components
2. Compute the ANOVA
3. Check for the basic assumptions
4. Calculate marginal means and cell means
5. Present the results and comment on them: what type of means should you report?

### 15.7.6 Exercise 6

A chemical process requires one alcohol and one base. A study is organised to evaluate the factorial combinations of three alcohols and two bases on the efficiency of the process, expressed as a percentage. The experiment is designd as completely randomised.

Base Alcohol 1 Alcohol 2 Alcohol 3
A 91.3 89.9 89.3
88.1 89.5 87.6
90.7 91.4 90.4
91.4 88.3 90.3
B 87.3 89.4 92.3
91.5 93.1 90.7
91.5 88.3 90.6
94.7 91.5 89.8
1. Write the linear model for this study and explain the model components
2. Compute the ANOVA
3. Check for the basic assumptions
4. Calculate marginal means and cell means
5. Present the results and comment on them: what type of means should you report?

## 15.8 Chapter 13

### 15.8.1 Exercise 1

A study was conducted to evaluate the effect of nitrogen fertilisation in lettuce. The experiment is completely randomised with 4 replicates and the yield results are as follows:

N level B1 B2 B3 B4
0 124 114 109 124
50 134 120 114 134
100 146 132 122 146
150 157 150 140 163
200 163 156 156 171
1. Write the linear model for this study and explain the model components
2. Estimate model parameters
3. Check for the basic assumptions
4. What yield might be obtained by using 120 kg N ha-1?
5. Present the results and comment on them?

### 15.8.2 Exercise 2

A study was conducted to evaluate the effect of increasing densities of a weed (Sinapis arvensis) on sunflower yield. The experiment was completely randomised. Assuming that the yield response is linear, parameterise the model, check the goodness of fit and find the economical threshold level of weed density, considering that the yield worths 150 Euros per ton and the herbicide treatment costs 40 Euros per hectar. The observed results are:

density Rep y ield
0 1 36.63
14 1 29.73
19 1 32.12
28 1 30.61
32 1 27.7
38 1 27.43
54 1 24.79
0 2 36.11
14 2 34.72
19 2 30.12
28 2 30.8
32 2 26.53
38 2 27.6
54 2 23.31
0 3 38.35
14 3 32.16
19 3 31.72
28 3 28.69
32 3 25.88
38 3 28.43
54 3 30.26
0 4 36.74
14 4 32.566
19 4 29.57
28 4 33.663
32 4 28.751
38 4 27.114
54 4 24.664

## 15.9 Chapter 14

### 15.9.1 Exercise 1

Two soil samples were treated with two herbicides and put in a climatic chamber at 20°C. Sub-samples were collected from both samples in different times and the concentration of herbicide residues was measured. The results are as follows:

Time Herbicide A Herbicide B
0 100.00 100.00
10 50.00 60.00
20 25.00 40.00
30 15.00 23.00
40 7.00 19.00
50 3.50 11.00
60 2.00 5.10
70 1.00 3.00

Assuming that the degradation follows an exponential decay trend, determine the half-life for both herbicides.

### 15.9.2 Exercise 2

A microbial population grows exponentially over time. Considering the following data, determine the relative rate of growth, by fitting the exponential growth model.

Time Cells
0 2
10 3
20 5
30 9
40 17
50 39
60 94
70 201

### 15.9.3 Exercise 3

An experiment was conducted to determine the absorption of nitrogen by roots of Lemna minor in hydroponic colture. Results (N content) are the following:

Conc Rate
2.86 14.58
5.00 24.74
7.52 31.34
22.10 72.97
27.77 77.50
39.20 96.09
45.48 96.97
203.78 108.88

Use nonlinear least squares to estimate the parameters for the rectangular hyperbola (Michaelis-Menten model):

$Y = \frac{a X} {b + X}$

and make sure that model fit is good enough.

### 15.9.4 Exercise 4

An experiment was conducted to determine the yield of sunflower at increasing densities of a weed (Ammi majus). Based on the following results, parameterise a rectangular hyperbola ($$Y = (a \, X)/(b + X)$$ and test for possible lack of fit. The results are:

Weed density Yield Loss (%)
0 0
23 17.9
31 21.6
39 26.9
61 29.5

### 15.9.5 Exercise 5

An experiment was conducted in a pasture, to determine the effect of sampling area on the number of plant species (in general, the higher the sampling area and the higher the number of sampled species). The results are as follows:.

Area N. of species
1 4
2 5
4 7
8 8
16 10
32 14
64 19
128 22
256 22

By using the above data, parameterise a power curve $$Y = a \, X^b$$ and test for lack of fit.

### 15.9.6 Exercise 6

Crop growth can be often described by using a Gompertz model. The data below refer to an experiment were sugarbeet was grown either weed free, or weed infested; the weight of the crop per unit area was measured after six different numbers of Days After Emergence (DAE). The experiment was conducted by using a completely randomised design with three replicates and the results are reported below:

DAE Infested Weed Free
21 0.06 0.07
21 0.06 0.07
21 0.11 0.07
27 0.20 0.34
27 0.20 0.40
27 0.21 0.25
38 2.13 2.32
38 3.03 1.72
38 1.27 1.22
49 6.13 11.78
49 5.76 13.62
49 7.78 12.15
65 17.05 33.11
65 22.48 24.96
65 12.66 34.66
186 21.51 38.83
186 26.26 27.84
186 27.68 37.72

Parameterise two Gompertz growth models (one for the weed-free crop and one for the infested crop) and evalaute which of the parameters are most influenced by the competition. The Gompertz growth model is:

$Y = d \cdot exp\left\{- exp \left[ - b (X - e)\right] \right\}$

### 15.9.7 Exercise 7

Plants of Tripleuspermum inodorum in pots were treated with a sulphonylurea herbicide (tribenuron-methyl) at increasing rates. Three weeks after the treatment the weight per pot was recorded, with the following results:

Dose (g a.i. ha$$^{-1}$$) Fresh weight (g pot $$^{-1}$$)
0 115.83
0 102.90
0 114.35
0.25 91.60
0.25 103.23
0.25 133.97
0.5 98.66
0.5 92.51
0.5 124.19
1 93.92
1 49.21
1 49.24
2 21.85
2 23.77
2 22.46

Assuming that the dose-response relationship can be described by using the following log-logistic model:

$Y = c + \frac{d - c}{1 + exp \left\{ - b \left[ log (X) - log (e) \right] \right\}}$

Parameterise the model and evaluate the goodnes of fit.