Characterization of GM events by insert knowledge adapted re-sequencing approaches

Detection methods and data from molecular characterization of genetically modified (GM) events are needed by stakeholders of public risk assessors and regulators. Generally, the molecular characteristics of GM events are incomprehensively revealed by current approaches and biased towards detecting t...

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Bibliographic Details
Published in:Scientific reports 2013-10, Vol.3 (1), p.2839, Article 2839
Main Authors: Yang, Litao, Wang, Congmao, Holst-Jensen, Arne, Morisset, Dany, Lin, Yongjun, Zhang, Dabing
Format: Article
Language:English
Subjects:
631/1647/514/2254
631/337/149
631/449/1659
631/61/447/2311
Automation
Bioinformatics
Biology
Computational Biology
Computer Simulation
Crops
Data processing
DNA, Plant - genetics
Expression vectors
Genes
Genetic transformation
Genetic Vectors - genetics
Genomes
Genomics
Humanities and Social Sciences
Knowledge
Localization
multidisciplinary
Mutagenesis, Insertional - genetics
Oryza - genetics
Plants, Genetically Modified - genetics
Polymerase Chain Reaction
R&D
Research & development
Rice
Risk assessment
Science
Sequence Analysis, DNA - methods
Southern blotting
Transgenes - genetics
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Summary:Detection methods and data from molecular characterization of genetically modified (GM) events are needed by stakeholders of public risk assessors and regulators. Generally, the molecular characteristics of GM events are incomprehensively revealed by current approaches and biased towards detecting transformation vector derived sequences. GM events are classified based on available knowledge of the sequences of vectors and inserts (insert knowledge). Herein we present three insert knowledge-adapted approaches for characterization GM events (TT51-1 and T1c-19 rice as examples) based on paired-end re-sequencing with the advantages of comprehensiveness, accuracy and automation. The comprehensive molecular characteristics of two rice events were revealed with additional unintended insertions comparing with the results from PCR and Southern blotting. Comprehensive transgene characterization of TT51-1 and T1c-19 is shown to be independent of a priori knowledge of the insert and vector sequences employing the developed approaches. This provides an opportunity to identify and characterize also unknown GM events.
ISSN:2045-2322
2045-2322
DOI:10.1038/srep02839