Table 1.
Small RNA categorization in sugarcane
| Categorization | Unique sRNA (%) | Total sRNA (%) | ||||||
|---|---|---|---|---|---|---|---|---|
| F0 (%) | F3 (%) | R0 (%) | R3 (%) | F0 (%) | F3 (%) | R0 (%) | R3 (%) | |
| miRNA | 67,373 (0.53) | 57,249 (0.56) | 59,960 (0.54) | 58,772 (0.58) | 2,386,352 (9.41) | 1,638,016 (7.89) | 2,635,873 (10.12) | 2,302,177 (9.52) |
| rRNA | 56,395 (0.44) | 80,912 (0.79) | 81,039 (0.73) | 98,210 (0.97) | 729,453 (2.88) | 1,613,788 (7.78) | 1,453,854 (5.58) | 2,451,555 (10.14) |
| repeat | 412 (0) | 345 (0) | 447 (0) | 376 (0) | 957 (0) | 799 (0) | 1019 (0) | 774 (0) |
| snRNA | 4811 (0.04) | 4600 (0.05) | 4096 (0.04) | 4259 (0.04) | 12,452 (0.05) | 12,260 (0.06) | 12,838 (0.05) | 13,164 (0.05) |
| snoRNA | 2152 (0.02) | 2197 (0.02) | 2584 (0.02) | 2396 (0.02) | 4567 (0.02) | 4583 (0.02) | 5840 (0.02) | 5522 (0.02) |
| srpRNA | 0 (0) | 2 (0) | 0 (0) | 0 (0) | 0 (0) | 2 (0) | 0 (0) | 0 (0) |
| tRNA | 9007 (0.07) | 13,069 (0.13) | 13,810 (0.12) | 15,819 (0.16) | 214,125 (0.84) | 17,084,377 (1.94) | 467,304 (1.79) | 696,897 (2.88) |
| unann | 12,602,337 (98.8) | 10,044,731 (98.45) | 10,917,735 (98.54) | 9,907,437 (98.22) | 22,010,746 (86.8) | 17,084,337 (1.94) | 21,461,967 (82.42) | 18,702,763 (77.37) |
| Clean reads | 12,742,487 (100) | 10,203,105 (100) | 11,079,671 (100) | 10,087,269 (100) | 25,358,652 (100) | 20,755,724 (100) | 26,038,695 (100) | 24,172,852 (100) |
| Raw reads | – | – | – | – | 25,556,975 | 20,959,989 | 26,243,698 | 24,392,550 |
The number represents the raw data generated directly from small RNA deep sequencing. F0 and F3 represent the bud sample from sugarcane cultivar FN39 with 0 h and 3 h cold (4 °C) treatment, respectively, while R0 and R3 represent the similar samples from cultivar ROC22, respectively