Table 1 Characterization of the detected nucleoside adducts (A1‒A23), and the 4 unmodified nucleosides, using a HRAM adductomics approach.

From: DNA epigenetic marks are linked to embryo aberrations in amphipods

Detected nucleosides

Molecular ion, m/z [M]+

Specific fragment, m/z [M-dR]+

Retention time, min

Identified nucleosides

A1

295.1203

179.0739

3.51

 

A2

278.1605

162.1126

3.59

 

dC

228.0978

112.0507

3.81

2′-Deoxycytidine, dCa

A3

242.1146

126.0664

3.97

5-Methyl-2′-deoxycytidine, 5-me-dCa

A4

264.0961

148.0484

3.97

Na adduct of 5-me-dCb

A5

244.0932

128.0457

4.48

5-Hydroxy-2′-deoxycytidine, 5-OH-dC

A6

229.0818

113.0348

5.49

2′-Deoxyuridine, dU

A7

289.1758

173.1288

5.60

 

A8

268.1043

152.0569

6.41

8-Hydroxy-2′-deoxyadenosine, 8-OH-dA

dA

252.1094

136.0620

6.41

2′-Deoxyadenosine, dAa

A9

239.1139

123.0667

6.41

 

A10

274.0915

158.0440

6.42

Na adduct of dAb

A11

284.1358

168.0883

6.43

 

A12

300.1299

184.0832

6.43

 

A13

275.0753

159.0280

7.29

Na adduct of dIb

A14

253.0931

137.0460

7.30

2′-Deoxyinosine, dI

dG

268.1033

152.0568

7.51

2′-Deoxyguanosine, dGa

A15

274.1148

158.0676

7.51

Guanidinohydantoin, Gh

A16

290.0852

174.0389

7.52

Na adduct of dGb

A17

306.0603

190.0129

7.61

 

T

243.0970

127.0504

7.99

Thymidine, Ta

A18

265.0798

149.0324

7.99

Na adduct of Tb

A19

327.0504

211.0029

8.03

 

A20

236.1281

120.0809

8.48

 

A21

284.0989

168.0518

8.75

8-Oxo-7, 8-dihydro-2′-deoxyguanosine, 8-oxo-dGa

A22

266.1257

150.0777

9.42

N6-Methyl-2′-deoxyadenosine, N6-me-dAa

A23

252.1228

136.0759

11.34

 
  1. Observed mass-to-charge ratio of molecular ion and that of its specific fragment with loss of dR, and retention time under the employed chromatographic conditions are given for each detected nucleoside, along with names of those identified.
  2. For the identified compounds, the mass difference between that observed (reported in this table) and calculated m/z was less than 3 ppm. Empty space indicates adduct not identified.
  3. aIdentification confirmed by comparison with respective standards.
  4. bThese were assigned as sodiated adducts of the respective compounds (based on retention time and molecular masses), with molecular ion and specific fragment represented as [M+Na]+ and [M-dR + Na]+, respectively. All others are assigned as protonated adducts with molecular ion and specific fragment represented as [M + H]+ and [M-dR + H]+, respectively.