Table 1. Summary of patients and virus detection with next-generation sequencing.
| Patient no. | Age/Sex | Fever/Convulsions | Abnormality in brain imaging | Day specimens were obtained* | CSF cell count (/μl) | Virus detection (reads)/total reads |
|||
|---|---|---|---|---|---|---|---|---|---|
| CSF |
Serum |
||||||||
| DNA sequencing | RNA sequencing | DNA sequencing | RNA sequencing | ||||||
| 1 | 3 m/M | yes/no | no | 0 | 379 | ND | Coxsackievirus A9 (2,783)/2,808,998 | NA | NA |
| 2 | 4 m/F | no/no | yes | 1 | 65 | none/8,083,731 | none/4,042,588 | TTV (13)/10,869,222 | none/12,825,812 |
| 3 | 6 m/F | no/yes | yes | 2 | 2 | ND | none†/9,631,224 | none/14,029,721 | none/13,057,234 |
| 4 | 1 y/F | yes/yes | yes | 0 | 2 | ND | none†/6,126,780 | none/7,511,583 | none/6,503,784 |
| 5 | 1 y/F | yes/yes | no | 1 | 42 | ND | none†/9,409,404 | none/8,761,917 | none/9,382,070 |
| 6 | 1 y/F | yes/yes | no | 2 | 2 | NA | NA | none/5,534,632 | none/9,901,028 |
| 7 | 2 y/F | yes/yes | no | 0 | 175 | none/7,986,561 | none/3,729,914 | NA | NA |
| 8 | 2 y/M | yes/yes | yes | 1 | 1 | ND | none†/10,469,992 | none/8,551,602 | none/16,207,392 |
| 9 | 3 y/M | yes/no | no | 0 | 151 | ND | Mumps virus (1,598)/6,342,942 | ND | none/9,858894 |
| 10 | 3 y/M | yes/yes | no | 1 | 3 | ND | none†/9,903,654 | none/10,173,039 | none/7,157,566 |
| 11 | 4 y/M | yes/yes | yes | 1 | 2 | NA | NA | none/6,160,773 | none/8,588,056 |
| 12 | 7 y/M | yes/no | no | 2 | 25 | ND | Coxsackievirus A9 (316)/5,017,612 | NA | NA |
| 13 | 8 y/M | yes/yes | yes | 0 | 2 | ND | none†/10,693,530 | none/5,161,481 | none/8,437,476 |
| 14 | 10 y/F | yes/yes | no | 2 | 1 | ND | none†/21,903,050 | none/6,165,412 | Pepper mild mottle virus (298)/10,001,178 |
| 15 | 12 y/F | yes/yes | no | 2 | 1 | ND | none†/5,319,1116 | none/2,790,344 | none/9,769,956 |
| 16 | 13 y/M | yes/no | yes | 2 | 1044 | none/11,177,479 | none/4,416,258 | none/9,583,470 | none/9,092,904 |
| 17 | 14 y/M | yes/yes | yes | 1 | 162 | none/4,037,654 | none/2,229,247 | none/26,686,548 | none/6,830,980 |
| 18 | 15 y/M | yes/no | no | 1 | 2 | ND | none†/7,971,760 | none/6,818,809 | none/9,851,214 |
Metagenome analysis for virus identification was performed using the MePIC pipeline. The number of reads mapping to viral sequences was analyzed with the CLC workbench.
CSF, cerebrospinal fluid; ND, not done; NA, samples not available; TTV, Torque teno virus; *, days after onset of illness; †, RNA was extracted using carrier RNA.