Table 2.
Virome analysis of 17 individual samples of unexplained acute gastroenteritis positive for smacoviruses
| Metagenome of individual sample |
Deep Sequencing / Viral metagenomics |
||||||||
|---|---|---|---|---|---|---|---|---|---|
| Virus (normalized to reads per million raw reads) |
|||||||||
| Collection info |
Sample info | NGS info | I | II | III | IV | V | ||
| City | State | Date | Sample Name | Raw reads | Smacovirus | Enteric pathogen | Picobirnavirus | Other human viruses | Likely dietary |
| USA | |||||||||
| Cottage Grove | Oregon | 6/6/2011 | B3 | 938,086 | Smacovirus (179) | ||||
| Albemarle | Virginia | 2/18/2012 | G16 | 674,106 | Smacovirus (16) | PBV(2820) | CAV (2) | ||
| Mecklenburg | Virginia | 1/16/2012 | H19 | 552,958 | Smacovirus (6988) | ||||
| Middlesex | Virginia | 2/27/2012 | I22 | 221,478 | Smacovirus (4,700) | ||||
| Chesapeake | Virginia | 2/27/2012 | J23 | 1,195,568 | Smacovirus (27,743) | PBV(323) | |||
| France | |||||||||
| Figeac | Midi-Pyrénées | Feb 2007 | E1668 | 547,428 | Smacovirus(18) | ||||
| Saint-Etienne | Rhone-Alpes | June 2007 | E2013 | 792,956 | ǂ | Anellovirus(10) | Duck circovirus(7),GyV(5),CAV(1) | ||
| Dijon | Bourgogne | Sept 2007 | E2074 | 642,246 | Smacovirus(114) | Astrovirus-MLB1(3) | |||
| Sevran | Ile de France | Feb 2008 | E2548 | 1,215,354 | Smacovirus(1674) | ||||
| Bergesserin | Bourgogne | March 2008 | E2623 | 308,786 | Smacovirus(21669) | Human polyomavirus (133) | CAV(42), GyV1(7) | ||
| Dieuze | Lorraine | Dec 2008 | E3454 | 817,894 | Smacovirus(375) | ||||
| Lutterbach | Alsace | Jan 2009 | E3804 | 1,032,400 | ǂ | Astrovirus-MLB1(6815) | PBV(4) | CAV(4),Ungulate protoparvovirus 1(2) | |
| Drulingen | Alsace | Feb 2009 | E3953 | 1,450,828 | Smacovirus(289) | PBV(2) | PCV(2) | ||
| Maisons | Ile de France | March 2009 | E4191 | 754,000 | Smacovirus(2273) | Human polyomavirus (28) | Po-Circo-like virus (28), Ungulate protoparvovirus 1 (7) | ||
| Maisons | Ile de France | March 2009 | E4192 | 930,822 | Smacovirus(2) | Duck circovirus(2) | |||
| Lormes | Bourgogne | Jun 2008 | E2871 | 765,378 | Smacovirus(534) | Astrovirus-MLB1(3) | |||
| Dijon | Bourgogne | Feb 2009 | E3976 | 1,743,222 | Smacovirus(3) | ||||
Abbreviations are the same as Table 1. ǂ Smacovirus DNA detected by PCR only.