Detection of Genomic Regions Controlling the Antioxidant Enzymes, Phenolic Content, and Antioxidant Activities in Rice Grain through Association Mapping
Abstract
:1. Introduction
2. Results
2.1. Phenotyping of the Population for Antioxidant Traits in Rice
2.2. Genotype-by-Trait Biplot Analysis for Relatedness among the Germplasm Lines for the Antioxidant Traits
2.3. Nature of Association among Antioxidant Traits
2.4. Genetic Diversity Parameters Analysis
2.5. Population Genetic Structure Analysis
2.6. Molecular Variance (AMOVA) and LD Decay Plot Analysis
2.7. Principal Coordinates and Cluster Analyses for Genetic Relatedness among the Germplasm Lines
2.8. Marker–Trait Association for Antioxidant Traits in Rice
3. Discussion
4. Materials and Methods
4.1. Seed Material
4.2. Phenotyping for the Antioxidant Traits
4.2.1. Statistical Analysis
4.2.2. Genomic DNA Isolation, PCR Analysis and Selection of SSR Markers
4.3. Molecular Data Analysis
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
Abbreviations
ANOVA | Analysis of variance |
CAT | Catalase |
CUPRAC | Cupric ion reducing antioxidant capacity |
DPPH | 2,2-diphenyl-1-picrylhydrazyl |
FDR | False discovery rate |
FRAP | Ferric reducing antioxidant power |
PEROX | Guaicol peroxidase |
PIC | Polymorphic information content |
RBD | Randomized block design |
TPC | Total phenolics content |
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Sl. No. | Kernel Color | Genotype/Vernacular Name/Accession No. | Catalase | Peroxidase | TPC | DPPH | FRAP | CUPRAC |
---|---|---|---|---|---|---|---|---|
1 | White | AC.5993 | 0.108 | 0.0002 | 14.432 | 8.149 | 4.142 | 25.167 |
2 | White | AC.6221 | 0.216 | 0.0003 | 3.136 | 19.613 | 7.313 | 24.958 |
3 | White | AC.6023 | 0.130 | 0.0011 | 2.295 | 8.149 | 6.007 | 25.833 |
4 | White | AC.6172 | 0.065 | 0.0003 | 9.295 | 4.420 | 6.045 | 27.458 |
5 | White | AC.6027 | 0.065 | 0.0005 | 0.232 | 11.050 | 11.978 | 31.500 |
6 | White | AC.6007 | 0.173 | 0.0005 | 11.250 | 3.039 | 4.590 | 22.875 |
7 | White | AC.9021 | 0.130 | 0.0005 | 34.091 | 4.144 | 12.360 | 24.958 |
8 | Red | AC.9028 | 0.628 | 0.0008 | 205.568 | 58.011 | 27.575 | 49.958 |
9 | White | AC.9030 | 1.082 | 0.0007 | 35.000 | 11.326 | 5.821 | 26.417 |
10 | White | AC.9035 | 0.152 | 0.0013 | 41.364 | 5.249 | 8.955 | 29.958 |
11 | Red | AC.9038 | 0.065 | 0.0002 | 118.523 | 42.064 | 31.306 | 44.542 |
12 | White | AC.9043 | 0.152 | 0.0005 | 31.477 | 12.155 | 12.052 | 25.792 |
13 | White | AC.9044A | 0.152 | 0.0006 | 23.295 | 16.713 | 14.813 | 23.917 |
14 | Red | AC.20920 | 0.108 | 0.0002 | 134.886 | 81.107 | 24.963 | 117.875 |
15 | Red | AC.20907 | 0.108 | 0.0003 | 148.182 | 86.645 | 27.164 | 118.083 |
16 | White | AC.20845 | 0.108 | 0.0008 | 34.773 | 22.801 | 5.075 | 21.208 |
17 | Red | AC.20770 | 0.152 | 0.0005 | 94.545 | 84.202 | 23.694 | 89.125 |
18 | Red | AC.20627 | 0.173 | 0.0003 | 144.545 | 82.736 | 28.470 | 134.958 |
19 | White | AC.20686 | 0.065 | 0.0004 | 8.636 | 4.560 | 4.179 | 24.125 |
20 | White | AC.20664 | 0.130 | 0.0007 | 45.455 | 13.192 | 7.276 | 25.792 |
21 | Red | AC.20614 | 0.173 | 0.0003 | 148.523 | 85.342 | 20.858 | 101.208 |
22 | White | Jhagrikartik | 0.152 | 0.0002 | 34.545 | 8.143 | 4.739 | 32.042 |
23 | White | Dadghani | 0.195 | 0.0004 | 26.136 | 21.010 | 5.000 | 28.083 |
24 | White | Shayam | 0.974 | 0.0001 | 39.318 | 18.567 | 5.299 | 29.542 |
25 | White | Basumati-B | 0.238 | 0.0001 | 26.364 | 22.801 | 7.500 | 27.875 |
26 | Red | Bharati | 0.195 | 0.0002 | 114.545 | 80.130 | 20.709 | 41.292 |
27 | White | Joha | 0.173 | 0.0001 | 10.000 | 17.590 | 5.187 | 21.625 |
28 | Red | Adira-1 | 0.130 | 0.0002 | 51.250 | 78.372 | 32.127 | 123.292 |
29 | Red | Adira-2 | 0.130 | 0.0005 | 70.000 | 83.206 | 35.336 | 132.667 |
30 | Red | Adira-3 | 0.108 | 0.0002 | 103.864 | 80.407 | 31.381 | 107.875 |
31 | Red | PK6 | 0.130 | 0.0005 | 62.386 | 84.478 | 30.448 | 99.125 |
32 | Red | VAC.haw | 0.130 | 0.0005 | 84.889 | 77.075 | 28.784 | 58.917 |
33 | Red | Kozhivalan | 0.152 | 0.0006 | 87.893 | 72.392 | 29.463 | 61.833 |
34 | Red | Marathondi | 0.108 | 0.0007 | 71.023 | 78.880 | 27.440 | 60.583 |
35 | Red | Ezhoml-2 | 0.260 | 0.0003 | 78.182 | 88.295 | 24.142 | 76.208 |
36 | Red | Jyothi | 0.065 | 0.0005 | 121.818 | 87.786 | 21.716 | 75.792 |
37 | Red | Kantakapura | 0.152 | 0.0003 | 113.636 | 90.228 | 31.082 | 118.917 |
38 | Red | Kantakaamala | 0.152 | 0.0006 | 128.750 | 90.554 | 28.619 | 109.958 |
39 | Red | Kapanthi | 0.108 | 0.0004 | 131.705 | 89.902 | 24.515 | 43.074 |
40 | White | Karpurkanti | 0.108 | 0.0004 | 45.909 | 29.967 | 6.866 | 31.333 |
41 | Red | Kathidhan | 0.173 | 0.0004 | 148.295 | 89.577 | 22.836 | 76.208 |
42 | Red | Kundadhan | 0.130 | 0.0001 | 160.909 | 89.902 | 31.642 | 59.542 |
43 | Red | Champaeisiali | 0.108 | 0.0003 | 136.818 | 87.296 | 23.821 | 77.875 |
44 | White | Latamahu | 0.260 | 0.0007 | 33.295 | 24.202 | 14.104 | 11.875 |
45 | Red | Latachaunri | 0.238 | 0.0015 | 128.068 | 91.531 | 24.634 | 48.292 |
46 | White | AC.10608 | 0.087 | 0.0008 | 1.182 | 14.503 | 3.769 | 21.208 |
47 | White | AC.10187 | 0.087 | 0.0004 | 31.477 | 34.586 | 10.261 | 35.792 |
48 | Red | AC.10162 | 0.065 | 0.0007 | 83.409 | 76.796 | 24.888 | 64.333 |
49 | White | AC.7282 | 0.108 | 0.0008 | 1.477 | 9.807 | 5.784 | 22.250 |
50 | White | AC.7269 | 0.108 | 0.0004 | 1.722 | 12.569 | 5.709 | 23.500 |
51 | White | AC.7134 | 0.087 | 0.0007 | 3.636 | 12.431 | 5.746 | 31.208 |
52 | White | AC.7008 | 0.108 | 0.0005 | 1.864 | 23.260 | 9.701 | 32.458 |
53 | White | AC.9093 | 0.714 | 0.0004 | 8.750 | 24.309 | 7.201 | 20.792 |
54 | White | AC.9090 | 0.173 | 0.0006 | 26.591 | 22.238 | 6.866 | 19.958 |
55 | White | AC.9076A | 0.152 | 0.0005 | 21.250 | 9.945 | 6.418 | 20.792 |
56 | Red | AC.9065 | 0.390 | 0.0004 | 126.591 | 42.486 | 26.604 | 56.417 |
57 | Red | AC.9063 | 0.108 | 0.0007 | 152.500 | 31.878 | 26.007 | 61.208 |
58 | White | AC.9058 | 0.238 | 0.0003 | 36.591 | 15.193 | 9.739 | 16.833 |
59 | White | AC.9053A | 0.195 | 0.0010 | 23.523 | 12.017 | 9.515 | 28.708 |
60 | Red | AC.9050 | 0.411 | 0.0011 | 116.477 | 38.370 | 23.657 | 56.833 |
61 | White | AC.9005 | 0.152 | 0.0003 | 13.409 | 1.657 | 5.784 | 24.542 |
62 | White | AC.20389 | 0.108 | 0.0004 | 1.409 | 18.730 | 3.769 | 23.917 |
63 | White | AC.20371 | 0.108 | 0.0005 | 19.773 | 28.664 | 10.187 | 24.958 |
64 | Red | AC.20423 | 0.130 | 0.0007 | 141.591 | 59.772 | 23.396 | 71.208 |
65 | White | AC.20362 | 0.152 | 0.0007 | 11.705 | 21.661 | 10.112 | 31.625 |
66 | White | AC.20328 | 0.152 | 0.0007 | 20.909 | 23.290 | 7.910 | 48.208 |
67 | White | AC.20317 | 0.065 | 0.0003 | 21.250 | 28.990 | 11.157 | 37.667 |
68 | Red | AC.20282 | 0.152 | 0.0003 | 169.091 | 87.948 | 42.127 | 202.250 |
69 | Red | AC.20246 | 0.238 | 0.0002 | 165.227 | 86.971 | 39.366 | 187.875 |
70 | Red | AC.20347 | 0.065 | 0.0003 | 132.727 | 36.156 | 28.060 | 47.250 |
71 | White | Palinadhan-1 | 0.065 | 0.0004 | 27.386 | 19.577 | 5.448 | 21.208 |
72 | White | Chatuimuchi | 0.108 | 0.0003 | 25.795 | 21.824 | 5.037 | 26.625 |
73 | White | Uttarbangalocal-9 | 0.216 | 0.0006 | 11.364 | 20.521 | 4.776 | 27.875 |
74 | White | Gochi | 0.216 | 0.0004 | 5.227 | 19.479 | 11.381 | 21.208 |
75 | White | Sugandha-2 | 0.152 | 0.0002 | 16.932 | 27.850 | 6.679 | 26.000 |
76 | White | Jhingesal | 0.801 | 0.0001 | 11.136 | 14.658 | 4.813 | 36.208 |
77 | Red | Cheruvirippu | 0.195 | 0.0002 | 46.932 | 88.804 | 22.425 | 73.917 |
78 | Red | Mahamaga | 0.065 | 0.0007 | 111.750 | 77.608 | 31.903 | 55.792 |
79 | White | Jaya | 0.065 | 0.0005 | 1.705 | 24.427 | 10.299 | 34.958 |
80 | Red | D1 | 0.152 | 0.0006 | 78.864 | 79.898 | 30.261 | 53.292 |
81 | Red | Pk-21 | 0.152 | 0.0007 | 62.841 | 88.041 | 25.522 | 59.542 |
82 | White | Gandhakasala | 0.152 | 0.0004 | 2.727 | 24.427 | 9.739 | 28.083 |
83 | Red | Sreyas | 0.108 | 0.0007 | 117.500 | 84.860 | 26.604 | 91.208 |
84 | Red | GondiAC.hampeisiali | 0.238 | 0.0005 | 122.273 | 91.694 | 27.612 | 42.250 |
85 | White | Chinamal | 0.195 | 0.0004 | 28.864 | 23.779 | 11.567 | 23.292 |
86 | White | Magra | 0.173 | 0.0004 | 21.477 | 23.453 | 16.604 | 24.750 |
87 | Red | Landi | 0.087 | 0.0004 | 104.659 | 89.577 | 25.075 | 38.292 |
88 | White | Lalgundi | 0.238 | 0.0003 | 33.182 | 26.384 | 9.291 | 18.708 |
89 | White | BalisaralaktimAC.hi | 0.346 | 0.0002 | 14.773 | 12.378 | 13.955 | 27.250 |
90 | White | Laxmibilash | 0.541 | 0.0002 | 17.727 | 23.127 | 9.216 | 16.625 |
91 | Red | Kaniar | 0.390 | 0.0001 | 82.955 | 89.251 | 26.418 | 48.083 |
92 | White | Kanakchampa | 0.368 | 0.0004 | 17.273 | 18.567 | 6.903 | 2.833 |
93 | White | Magura-s | 0.303 | 0.0002 | 17.273 | 5.700 | 10.560 | 3.542 |
94 | White | AC.44603 | 0.216 | 0.0003 | 32.273 | 34.351 | 11.940 | 36.208 |
95 | Red | AC.44585 | 0.346 | 0.0009 | 85.227 | 48.295 | 29.963 | 48.917 |
96 | White | AC.44598 | 0.152 | 0.0002 | 20.000 | 18.321 | 8.955 | 24.542 |
97 | Red | AC.44592 | 0.216 | 0.0006 | 68.068 | 83.969 | 34.104 | 151.833 |
98 | Red | AC.44646 | 0.866 | 0.0004 | 65.000 | 83.461 | 44.813 | 211.625 |
99 | White | AC.44604 | 0.390 | 0.0003 | 19.886 | 12.276 | 12.201 | 35.375 |
100 | White | AC.44597 | 0.108 | 0.0004 | 32.955 | 38.168 | 16.567 | 16.208 |
101 | White | AC.44638 | 0.173 | 0.0003 | 25.795 | 15.776 | 10.672 | 27.250 |
102 | Red | AC.44595 | 0.519 | 0.0003 | 54.659 | 84.478 | 49.440 | 238.708 |
103 | Red | AC.44588 | 0.346 | 0.0002 | 54.545 | 83.715 | 35.149 | 186.417 |
104 | Red | AC.44591 | 0.087 | 0.0004 | 94.773 | 46.387 | 35.597 | 57.458 |
105 | Red | AC.44594 | 0.390 | 0.0002 | 62.273 | 86.005 | 29.507 | 114.750 |
106 | Red | AC.43737 | 0.411 | 0.0003 | 52.500 | 88.931 | 36.642 | 166.000 |
107 | White | AC.43660 | 0.563 | 0.0003 | 44.432 | 26.005 | 11.231 | 47.875 |
108 | White | AC.43732 | 0.108 | 0.0002 | 41.250 | 26.768 | 25.672 | 59.542 |
109 | White | AC.43661 | 0.238 | 0.0003 | 36.818 | 34.020 | 14.627 | 39.542 |
110 | Red | AC.43738 | 0.606 | 0.0002 | 75.341 | 86.768 | 40.933 | 174.958 |
111 | White | AC.43669 | 0.238 | 0.0002 | 45.000 | 27.405 | 15.746 | 18.083 |
112 | White | AC.43663 | 0.238 | 0.0003 | 22.045 | 25.496 | 9.478 | 24.750 |
113 | Red | AC.43658 | 0.130 | 0.0004 | 86.364 | 85.496 | 38.843 | 93.708 |
114 | White | AC.43662 | 0.130 | 0.0004 | 21.250 | 23.282 | 10.634 | 34.333 |
115 | Red | AC.43670 | 0.238 | 0.0004 | 80.455 | 88.550 | 59.142 | 287.042 |
116 | White | AC.43675 | 0.303 | 0.0003 | 48.636 | 16.768 | 11.716 | 39.750 |
117 | Red | AC.43676 | 0.281 | 0.0003 | 45.341 | 73.664 | 35.522 | 149.125 |
Mean | 0.219 | 0.000 | 58.365 | 44.918 | 18.435 | 58.691 | ||
CV % | 10.75 | 11.32 | 5.78 | 4.64 | 4.72 | 5.81 | ||
LSD5% | 0.0448 | 0.00009 | 6.122 | 3.303 | 1.579 | 6.54 |
Sl. No. | Accession No./ Vernacular Name of Germplasm Line | Inferred Ancestry Value at K = 3 | Group | Antioxidants Traits in Each Germplasm Line | ||
---|---|---|---|---|---|---|
Q1 | Q2 | Q3 | ||||
1 | AC5993 | 0.995 | 0.003 | 0.003 | SP1 | Very low |
2 | AC6170 | 0.992 | 0.006 | 0.002 | SP1 | Low |
3 | AC6023 | 0.981 | 0.017 | 0.002 | SP1 | High Peroxidase |
4 | AC6172 | 0.961 | 0.037 | 0.002 | SP1 | Low |
5 | AC6027 | 0.009 | 0.002 | 0.989 | SP3 | Very low |
6 | AC9006 | 0.995 | 0.003 | 0.002 | SP1 | Very low |
7 | AC9021 | 0.986 | 0.011 | 0.003 | SP1 | Very low |
8 | AC9028 | 0.937 | 0.06 | 0.003 | SP1 | High Peroxidase |
9 | AC9030 | 0.994 | 0.005 | 0.001 | SP1 | High Catalase |
10 | AC9035 | 0.987 | 0.004 | 0.009 | SP1 | High Peroxidase |
11 | AC9038 | 0.998 | 0.001 | 0.001 | SP1 | Very low |
12 | AC9043 | 0.998 | 0.001 | 0.001 | SP1 | Low |
13 | AC9044 | 0.994 | 0.002 | 0.003 | SP1 | Very low |
14 | AC20920 | 0.995 | 0.002 | 0.003 | SP1 | High DPPH |
15 | AC20907 | 0.997 | 0.002 | 0.001 | SP1 | High DPPH |
16 | AC20845 | 0.997 | 0.002 | 0.001 | SP1 | High Peroxidase |
17 | AC20770 | 0.997 | 0.001 | 0.002 | SP1 | High DPPH |
18 | AC20627 | 0.998 | 0.001 | 0.001 | SP1 | High DPPH |
19 | AC20686 | 0.997 | 0.002 | 0.001 | SP1 | Very low |
20 | AC20664 | 0.996 | 0.002 | 0.001 | SP1 | Low |
21 | AC20614 | 0.996 | 0.001 | 0.003 | SP1 | High DPPH |
22 | Jhagrikarti | 0.99 | 0.009 | 0.002 | SP1 | Very low |
23 | Dadghani | 0.991 | 0.005 | 0.004 | SP1 | Very low |
24 | Shayam | 0.004 | 0.002 | 0.994 | SP3 | High Catalase |
25 | Basumati | 0.138 | 0.004 | 0.859 | SP3 | Low |
26 | Bharati | 0.997 | 0.001 | 0.002 | SP1 | High DPPH |
27 | Joha | 0.997 | 0.001 | 0.002 | SP1 | Very low |
28 | Adira-1 | 0.613 | 0.018 | 0.369 | A | Medium |
29 | Adira-2 | 0.997 | 0.002 | 0.001 | SP1 | High DPPH |
30 | Adira-3 | 0.622 | 0.003 | 0.376 | A | High DPPH |
31 | PK6 | 0.969 | 0.003 | 0.028 | SP1 | High DPPH |
32 | Vachaw | 0.946 | 0.002 | 0.053 | SP1 | High DPPH |
33 | Kozhivalan | 0.998 | 0.002 | 0.001 | SP1 | High DPPH |
34 | Marathondi | 0.515 | 0.022 | 0.463 | A | High DPPH |
35 | Ezhoml-2 | 0.998 | 0.001 | 0.001 | SP1 | High DPPH |
36 | Jyothi | 0.998 | 0.001 | 0.001 | SP1 | High DPPH |
37 | Kantakopura | 0.997 | 0.001 | 0.002 | SP1 | High DPPH |
38 | Kantakaamal | 0.693 | 0.081 | 0.227 | A | High DPPH |
39 | Kapanthi | 0.302 | 0.323 | 0.375 | A | High DPPH |
40 | Karpurkanti | 0.002 | 0.001 | 0.997 | SP3 | Very low |
41 | Kathidhan | 0.899 | 0.095 | 0.006 | SP1 | High DPPH |
42 | Kundadhan | 0.995 | 0.004 | 0.001 | SP1 | High TPC and DPPH |
43 | Champaeisia | 0.991 | 0.003 | 0.006 | SP1 | High DPPH |
44 | Latamahu | 0.996 | 0.002 | 0.002 | SP1 | Low |
45 | Latachaunri | 0.994 | 0.004 | 0.002 | SP1 | High DPPH and Peroxidase |
46 | AC10608 | 0.995 | 0.005 | 0.001 | SP1 | High Peroxidase |
47 | AC10187 | 0.945 | 0.052 | 0.002 | SP1 | High DPPH |
48 | AC10162 | 0.963 | 0.021 | 0.016 | SP1 | High DPPH |
49 | AC7282 | 0.002 | 0.001 | 0.997 | SP1 | High Peroxidase |
50 | AC7269 | 0.997 | 0.002 | 0.001 | SP1 | Very low |
51 | AC7134 | 0.785 | 0.006 | 0.208 | A | Low |
52 | AC7008 | 0.998 | 0.001 | 0.001 | SP1 | Low |
53 | AC9093 | 0.996 | 0.001 | 0.003 | SP1 | High Catalase |
54 | AC9090 | 0.993 | 0.003 | 0.004 | SP1 | Very low |
55 | AC9076A | 0.995 | 0.003 | 0.001 | SP1 | Low |
56 | AC9065 | 0.973 | 0.003 | 0.024 | SP1 | Low |
57 | AC9063 | 0.993 | 0.006 | 0.001 | SP1 | High TPC |
58 | AC9058 | 0.998 | 0.001 | 0.001 | SP1 | Low |
59 | AC9053A | 0.831 | 0.158 | 0.011 | SP1 | High Peroxidase |
60 | AC9050 | 0.994 | 0.001 | 0.004 | SP1 | Low |
61 | AC9005 | 0.994 | 0.004 | 0.002 | SP1 | Low |
62 | AC20389 | 0.945 | 0.035 | 0.02 | SP1 | Low |
63 | AC20371 | 0.993 | 0.006 | 0.001 | SP1 | Low |
64 | AC20423 | 0.996 | 0.003 | 0.001 | SP1 | Low |
65 | AC20362 | 0.977 | 0.018 | 0.005 | SP1 | Low |
66 | AC20328 | 0.986 | 0.008 | 0.006 | SP1 | Low |
67 | AC20317 | 0.996 | 0.002 | 0.002 | SP1 | Low |
68 | AC20282 | 0.889 | 0.104 | 0.007 | SP1 | High CUPRAC, Cata, TPC, DPPH and FRAP |
69 | AC20246 | 0.894 | 0.017 | 0.089 | SP1 | High CUPRAC, FRAP and DPPH |
70 | AC20347 | 0.943 | 0.055 | 0.002 | SP1 | Low |
71 | Palinadhan- | 0.334 | 0.214 | 0.452 | A | High DPPH |
72 | Chatuimuchi | 0.001 | 0.001 | 0.998 | SP3 | Very low |
73 | Uttarbangal | 0.904 | 0.094 | 0.002 | SP1 | Very low |
74 | Gochi | 0.941 | 0.053 | 0.006 | SP1 | High DPPH |
75 | Sugandha-2 | 0.002 | 0.001 | 0.998 | SP3 | Very low |
76 | Jhingesal | 0.997 | 0.002 | 0.001 | SP1 | High Catatalase |
77 | Cheruviripp | 0.996 | 0.003 | 0.001 | SP1 | High DPPH |
78 | Mahamaga | 0.985 | 0.013 | 0.002 | SP1 | High DPPH |
79 | Jaya | 0.991 | 0.008 | 0.001 | SP1 | Low |
80 | D1 | 0.944 | 0.033 | 0.023 | SP1 | High DPPH |
81 | PK21 | 0.985 | 0.014 | 0.001 | SP1 | High DPPH |
82 | Gandhakasal | 0.004 | 0.003 | 0.993 | SP3 | Very low |
83 | Sreyas | 0.995 | 0.002 | 0.003 | SP1 | High DPPH |
84 | Gondiachamp | 0.995 | 0.002 | 0.003 | SP1 | High DPPH |
85 | Chinamal | 0.981 | 0.001 | 0.017 | SP1 | Low |
86 | Magra | 0.995 | 0.002 | 0.003 | SP1 | Very low |
87 | Landi | 0.997 | 0.001 | 0.002 | SP1 | High DPPH |
88 | Lalgundi | 0.99 | 0.003 | 0.007 | SP1 | Very low |
89 | Balisaralak | 0.994 | 0.003 | 0.003 | SP1 | Very low |
90 | Laxmibilash | 0.426 | 0.002 | 0.572 | A | Low |
91 | Kaniar | 0.98 | 0.005 | 0.016 | SP1 | High DPPH |
92 | Kanakchampa | 0.976 | 0.003 | 0.02 | SP1 | Very low |
93 | Magura-S | 0.895 | 0.001 | 0.104 | SP1 | Very low |
94 | AC44603 | 0.017 | 0.981 | 0.001 | SP2 | Low |
95 | AC44585 | 0.004 | 0.984 | 0.012 | SP2 | High Peroxidase |
96 | AC44598 | 0.007 | 0.987 | 0.006 | SP2 | Low |
97 | AC44592 | 0.995 | 0.003 | 0.003 | SP2 | High DPPH |
98 | AC44646 | 0.001 | 0.997 | 0.001 | SP2 | High Cata, DPPH, FRAP and CUPRAC |
99 | AC44604 | 0.001 | 0.998 | 0.001 | SP2 | Medium |
100 | AC44597 | 0.013 | 0.98 | 0.007 | SP2 | Medium |
101 | AC44638 | 0.002 | 0.997 | 0.001 | A | Low |
102 | AC44595 | 0.001 | 0.284 | 0.715 | SP2 | High CUPRAC, FRAP and DPPH |
103 | AC44588 | 0.005 | 0.994 | 0.002 | SP2 | High CUPRAC, DPPH and FRAP |
104 | AC44591 | 0.002 | 0.997 | 0.001 | SP2 | Low |
105 | AC44594 | 0.002 | 0.998 | 0.001 | SP2 | High DPPH |
106 | AC43737 | 0.01 | 0.988 | 0.002 | SP2 | High DPPH and CUPRAC |
107 | AC43660 | 0.002 | 0.997 | 0.001 | SP2 | High Catalase, DPPH, FRAP, CUPRAC |
108 | AC43732 | 0.003 | 0.996 | 0.001 | SP2 | High Catalase, DPPH and CUPRAC |
109 | AC43661 | 0.001 | 0.998 | 0.001 | SP2 | Low |
110 | AC43738 | 0.004 | 0.995 | 0.001 | SP2 | High Catalase and CUPRAC |
111 | AC43669 | 0.002 | 0.997 | 0.001 | SP2 | High DPPH |
112 | AC43663 | 0.003 | 0.994 | 0.003 | SP2 | High DPPH |
113 | AC43658 | 0.001 | 0.997 | 0.002 | SP2 | High DPPH |
114 | AC43662 | 0.001 | 0.998 | 0.001 | SP2 | Low |
115 | AC43670 | 0.003 | 0.981 | 0.016 | SP2 | High DPPH and CUPRAC |
116 | AC43675 | 0.002 | 0.805 | 0.193 | SP2 | High DPPH |
117 | AC43676 | 0.002 | 0.986 | 0.012 | SP2 | Medium |
Source of Variation | AMOVA for the Four Subpopulations at K = 3 | |||
---|---|---|---|---|
df. | Mean Sum of Squares | Variance Components | Percentage Variation | |
Among populations | 3 | 0.641 | 0.003 | 1% |
Among individuals (accessions) within population | 113 | 0.514 | 0.022 | 4% |
Within individuals (accessions) | 117 | 0.470 | 0.470 | 95% |
Total | 233 | 0.495 | ||
F-Statistics | Value | p-value | ||
FST | 0.006 | 0.121 | ||
FIS | 0.045 | 0.003 | ||
FIT | 0.051 | 0.001 | ||
FST max. | 0.014 | |||
F’ST | 0.460 |
Sl. No. | Antioxidant Enzymes | Marker | Position (cM) | GLM | MLM | ||||||
---|---|---|---|---|---|---|---|---|---|---|---|
Marker_F | Marker_p | Marker_R2 | q-Value | Marker_F | Marker_p | Marker_R2 | q-Value | ||||
1 | Catalase | RM1341 | 80.2 | 9.99747 | 0.00204 | 0.08016 | 0.00564 | 7.8566 | 0.006 | 0.07179 | 0.00994 |
2 | Catalase | RM3231 | 32.7 | 10.55577 | 0.00154 | 0.08424 | 0.00564 | 8.16013 | 0.00514 | 0.07457 | 0.009638 |
3 | DPPH | RM247 | 32.3 | 10.72025 | 0.00142 | 0.08855 | 0.00966 | 10.07384 | 0.00196 | 0.09162 | 0.006125 |
4 | DPPH | RM3701 | 45.3 | 11.90813 | 7.99 × 10−4 | 0.09738 | 0.00564 | 11.09733 | 0.00118 | 0.10093 | 0.006125 |
5 | DPPH | RM13600 | 110.2 | 9.40651 | 0.00273 | 0.0779 | 0.00652 | 6.88723 | 0.00994 | 0.06264 | 0.00994 |
6 | FRAP | RM247 | 32.2 | 9.40651 | 0.00273 | 0.0779 | 0.00617 | 7.14597 | 0.00868 | 0.06551 | 0.00994 |
7 | FRAP | RM3701 | 45.3 | 9.11231 | 0.00317 | 0.06781 | 0.00617 | 8.98419 | 0.00338 | 0.08236 | 0.007243 |
8 | FRAP | RM309 | 74.5 | 12.35495 | 6.44 × 10−4 | 0.08946 | 0.00617 | 7.35763 | 0.00777 | 0.06745 | 0.00994 |
9 | CUPRAC | RM3701 | 45.3 | 14.56812 | 2.26 × 10−4 | 0.10344 | 0.00771 | 9.65365 | 0.00241 | 0.08678 | 0.006125 |
10 | CUPRAC | RM235 | 101.8 | 9.11231 | 0.00317 | 0.06781 | 0.00564 | 10.03931 | 0.00199 | 0.09024 | 0.006125 |
11 | CUPRAC | RM148 | 142.3 | 12.35495 | 6.44 × 10−4 | 0.08946 | 0.00966 | 7.03523 | 0.0092 | 0.06324 | 0.00994 |
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Sanghamitra, P.; Barik, S.R.; Bastia, R.; Mohanty, S.P.; Pandit, E.; Behera, A.; Mishra, J.; Kumar, G.; Pradhan, S.K. Detection of Genomic Regions Controlling the Antioxidant Enzymes, Phenolic Content, and Antioxidant Activities in Rice Grain through Association Mapping. Plants 2022, 11, 1463. https://doi.org/10.3390/plants11111463
Sanghamitra P, Barik SR, Bastia R, Mohanty SP, Pandit E, Behera A, Mishra J, Kumar G, Pradhan SK. Detection of Genomic Regions Controlling the Antioxidant Enzymes, Phenolic Content, and Antioxidant Activities in Rice Grain through Association Mapping. Plants. 2022; 11(11):1463. https://doi.org/10.3390/plants11111463
Chicago/Turabian StyleSanghamitra, Priyadarsini, Saumya Ranjan Barik, Ramakrushna Bastia, Shakti Prakash Mohanty, Elssa Pandit, Abhisarika Behera, Jyotirmayee Mishra, Gaurav Kumar, and Sharat Kumar Pradhan. 2022. "Detection of Genomic Regions Controlling the Antioxidant Enzymes, Phenolic Content, and Antioxidant Activities in Rice Grain through Association Mapping" Plants 11, no. 11: 1463. https://doi.org/10.3390/plants11111463