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Background  Genomic characterization of rotavirus (RoV) has not been adopted at large-scale due to the complexity of obtaining sequences for all 11 segments, particularly when feces are used as starting material.    Methods  To overcome these limitations, we developed a novel RoV capture and genome sequencing method combining commercial enzyme immunoassay plates and a set of routinely used reagents.    Results  Our approach had a 100% success rate, producing >90% genome coverage for diverse RoV present in fecal samples (Ct < 30).    Conclusions  This method provides a novel, reproducible and comparatively simple approach for genomic RoV characterization and could be scaled-up for use in global RoV surveillance systems.    Trial registration (prospectively registered)  Current Controlled Trials  ISRCTN88101063 . Date of registration: 14/06/2012    Electronic supplementary material  The online version of this article (doi:10.1186/s12864-017-3714-6) contains supplementary material, which is available to authorized users.

A universal genome sequencing method for rotavirus A from human fecal samples which identifies segment reassortment and multi-genotype mixed infection