Table 10.
Conserved non-synonymous mutations in root-related genes among wild soybean varieties
| S. No | Gene ID/Annotation* | SNP position | W82 (Ref. genome) | V71-370 | PI407162 | AA change | Similar non-Synonymous SNPs in other wild soybeans + |
|---|---|---|---|---|---|---|---|
| 1 | Glyma06g46210 NEDD8-activating complex | 48869473 | A | A | C | Lysine to Asparagine | W09 |
| 48872310 | C | C | T | Arginine to Cysteine | W05, W06, W08, W12, W13, W14, W16 | ||
| 48873032 | C | C | G | Alanine to Glycine | W05, W08, W09, W12, W13, W14, W16, W17 | ||
| 48873041 | C | C | A | Threonine to Asparagine | W05, W08, W09, W12, W13, W14, W16 | ||
| 48874136 | A | A | G | Lysine to Arginine | W05, W06, W08, W09, W12, W13, W14, W16,W17 | ||
| 2 | Glyma06g45510 G1/S-specific cyclin D | 48234941 | G | G | A | Aspartic Acid to Asparagine | All lines except W12 |
| 48235772 | A | G | A | Methionine to Valine | W01, W10, W12, W17 | ||
| 48236876 | C | C | A | Histidine to Asparagine | W01, W02, W03, W04, W05, W07, W08, W09, W11, W13, W15, W16, W17 | ||
| 3 | Glyma06g45610 Leucine rich repeat | 48346924 | C | T | C | Glycine to Aspartic acid | W01, W02, W03, W04, W05, W06, W07, W08, W12, W13, W15, W16, W17 |
| 48353134 | G | G | T | Threonine to Asparagine | W05, W09, W12, W11, W16 | ||
| 4 | Glyma06g46490 TPR Transcription factor | 49095540 | G | A | G | Aspartic Acid to Asparagine | All except W07, W09 and W10 |
| 49095620 | T | A | T | Serine to Arginine | W10 | ||
| 49095627 | A | G | A | Asparagine to Aspartic Acid | W01, W03, W06, W08, W09 | ||
| 49095824 | A | G | A | Threonine to Alanine | All except W10, W13, W17 | ||
| 49096075 | A | G | A | Isoleucine to Methionine | All except W10 | ||
| 5 | Glyma06g46730 C3HC4 type (RING finger) | 49310698 | T | T | C | Phenylalanine to Serine | W10, W13, W14, W16 |
| 49310719 | C | C | T | Alanine to Valine | W09, W10, W12, W13, W14, W16, W17 | ||
| 49310842 | G | G | A | Arginine to Glutamine | All except W07, W10, W09, W13, W14, W17 | ||
| 49311027 | A | A | G | Isoleucine to Valine | All except W07, W09, W10, W12, W13, W14, W17 | ||
| 49311204 | C | C | G | Glutamine to Glutamic Acid | W12, W13, W14, W16, W17 |
+The wild soybean designations were derived from Lam et al. [35].