The purpose of this study was to calculate the amount of CG methylation in each organ of Nymphaea minuta.
Materials and methods
By statistical bismark results, methylation context(CpG, CHH, CHG) information in all Reads compared to the genome was obtained.
Methylation
Sample
Total Cytosine
CpG
CHG
CHH
Unknown context
flower1
160070185
3868018
2455048
980040
3934
flower1
160070185
15321550
26943881
110501648
146132
flower1
160070185
20.2%
8.4%
0.9%
2.6%
flower2
190959333
4494454
2784990
1135847
4517
flower2
190959333
17958281
32149894
132435867
179371
flower2
190959333
20.0%
8.0%
0.9%
2.5%
flower3
192427525
4570372
2846109
1165566
5042
flower3
192427525
17634784
32135081
134075613
182106
flower3
192427525
20.6%
8.1%
0.9%
2.7%
fruit1
158875638
3562626
2218114
980306
3917
fruit1
158875638
14212234
26300105
111602253
152755
fruit1
158875638
20.0%
7.8%
0.9%
2.5%
fruit2
154529842
3584413
2295549
988517
4264
fruit2
154529842
13781434
25464167
108415762
149234
fruit2
154529842
20.6%
8.3%
0.9%
2.8%
fruit3
142385357
3271363
2067431
905047
3854
fruit3
142385357
12996724
23712604
99432188
134447
fruit3
142385357
20.1%
8.0%
0.9%
2.8%
leaf1
135687388
3386700
1858507
742840
3245
leaf1
135687388
12010340
22861681
94827320
130123
leaf1
135687388
22.0%
7.5%
0.8%
2.4%
leaf2
150737823
3805481
2135795
815675
3586
leaf2
150737823
14296323
25655471
104029078
139519
leaf2
150737823
21.0%
7.7%
0.8%
2.5%
leaf3
140363996
3524691
1944852
748915
3213
leaf3
140363996
12897994
23816846
97430698
131728
leaf3
140363996
21.5%
7.5%
0.8%
2.4%
root1
151963020
3852475
1967239
1158014
3688
root1
151963020
12589619
25715170
106680503
146663
root1
151963020
23.4%
7.1%
1.1%
2.5%
root2
157279297
3897645
1965692
1117807
3808
root2
157279297
13936511
26997828
109363814
147240
root2
157279297
21.9%
6.8%
1.0%
2.5%
root3
181462016
4790255
2508416
1398896
4543
root3
181462016
15806028
30996169
125962252
168793
root3
181462016
23.3%
7.5%
1.1%
2.6%
seed1
162828509
3947236
3056259
1202359
4806
seed1
162828509
14983056
26895234
112744365
152788
seed1
162828509
20.9%
10.2%
1.1%
3.0%
seed2
161631754
4003000
3119719
1209348
4684
seed2
161631754
15049427
26759466
111490794
149424
seed2
161631754
21.0%
10.4%
1.1%
3.0%
seed3
154986058
3741241
2881829
1139409
4347
seed3
154986058
14108165
25563033
107552381
145423
seed3
154986058
21.0%
10.1%
1.0%
2.9%
Sample: Name of the sample;
Total Cytosine: total number of C bases;
Type: Indicates the type of C base, which can be methylated or unmethylated. percentage indicates the proportion of methylation.
CpG, CHG, CHH, Unknown context: According to the difference between the last two bases of C, the context is determined: CpG indicates that G is after C; CHG means there is a non-G base between CG; CHH means that the last two digits of C are non-G bases; Unknown context indicates situations other than the above three, which are usually caused by N in the genome.
