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JRC GMO-Amplicons: a collection of nucleic acid sequences related to genetically modified organisms.

Petrillo M, Angers-Loustau A, Henriksson P, Bonfini L, Patak A, Kreysa J - Database (Oxford) (2015)

Bottom Line: Notably, the JRC GMO-Amplicons database allows the retrieval and characterization of GMO-related sequences included in patents documentation.Finally, it can help annotating poorly described GM sequences and identifying new relevant GMO-related sequences in public databases.The JRC GMO-Amplicons is freely accessible through a web-based portal that is hosted on the EU-RL GMFF website.

View Article: PubMed Central - PubMed

Affiliation: Molecular Biology and Genomics Unit, Joint Research Centre, European Commission, Ispra, Italy mauro.petrillo@ec.europa.eu.

No MeSH data available.


Related in: MedlinePlus

Use of JRC GMO-Amplicons to assist interpretation of screening results. A case-study of detection and identification of unauthorized GM maize event in food/feed products. A maize sample was found positive to specific methods QL-CON-00-011 (junction between the Cauliflower Mosaic Virus 35S promoter and the S. viridochromogenes pat gene), QT-CON-00-005 (junction region between the pat gene from and the Cauliflower Mosaic Virus 35S terminator) and to two element detection methods, QT-ELE-00-001 (Cauliflower Mosaic Virus 35S promoter) and QL-ELE-00-021 (pat gene). The JRC GMO-Matrix (A) predicts 5 GM maize events as potential events positive to all of them, but the sample is negative for the corresponding event-specific methods. By querying the database with these methods and focusing on the unique records of the patnt, sequence, JC285244.1 from patent WO2011084632 (33) is found (B). According to the annotation, this sequence corresponds to the ‘complete sequence of the insert and flanking regions of event DP-032316-8’, a good candidate for which the sample can be easily tested, as the patent describes also a detection method for this event. JC285244.1 was fully characterized (C), confirming that it is the full sequence of DP-032316-8 maize event.
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bav101-F5: Use of JRC GMO-Amplicons to assist interpretation of screening results. A case-study of detection and identification of unauthorized GM maize event in food/feed products. A maize sample was found positive to specific methods QL-CON-00-011 (junction between the Cauliflower Mosaic Virus 35S promoter and the S. viridochromogenes pat gene), QT-CON-00-005 (junction region between the pat gene from and the Cauliflower Mosaic Virus 35S terminator) and to two element detection methods, QT-ELE-00-001 (Cauliflower Mosaic Virus 35S promoter) and QL-ELE-00-021 (pat gene). The JRC GMO-Matrix (A) predicts 5 GM maize events as potential events positive to all of them, but the sample is negative for the corresponding event-specific methods. By querying the database with these methods and focusing on the unique records of the patnt, sequence, JC285244.1 from patent WO2011084632 (33) is found (B). According to the annotation, this sequence corresponds to the ‘complete sequence of the insert and flanking regions of event DP-032316-8’, a good candidate for which the sample can be easily tested, as the patent describes also a detection method for this event. JC285244.1 was fully characterized (C), confirming that it is the full sequence of DP-032316-8 maize event.

Mentions: Using the JRC GMO-Amplicons, it is possible to identify GM-related sequences that are positive for the elements detected in the analysed samples but negative for the event-specific methods included into the GMOMETHODS database. A case-study example is shown in Figure 5, where a maize sample was found positive for two construct specific methods, QL-CON-00-011 (30) and QT-CON-00-005 (29) and to two element detection methods, QT-ELE-00-001 (31) and QL-ELE-00-021 (32). Through the JRC GMO-Amplicons it was possible to identify a new patent sequence record (33) and to download it for further characterization.Figure 5.


JRC GMO-Amplicons: a collection of nucleic acid sequences related to genetically modified organisms.

Petrillo M, Angers-Loustau A, Henriksson P, Bonfini L, Patak A, Kreysa J - Database (Oxford) (2015)

Use of JRC GMO-Amplicons to assist interpretation of screening results. A case-study of detection and identification of unauthorized GM maize event in food/feed products. A maize sample was found positive to specific methods QL-CON-00-011 (junction between the Cauliflower Mosaic Virus 35S promoter and the S. viridochromogenes pat gene), QT-CON-00-005 (junction region between the pat gene from and the Cauliflower Mosaic Virus 35S terminator) and to two element detection methods, QT-ELE-00-001 (Cauliflower Mosaic Virus 35S promoter) and QL-ELE-00-021 (pat gene). The JRC GMO-Matrix (A) predicts 5 GM maize events as potential events positive to all of them, but the sample is negative for the corresponding event-specific methods. By querying the database with these methods and focusing on the unique records of the patnt, sequence, JC285244.1 from patent WO2011084632 (33) is found (B). According to the annotation, this sequence corresponds to the ‘complete sequence of the insert and flanking regions of event DP-032316-8’, a good candidate for which the sample can be easily tested, as the patent describes also a detection method for this event. JC285244.1 was fully characterized (C), confirming that it is the full sequence of DP-032316-8 maize event.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4589694&req=5

bav101-F5: Use of JRC GMO-Amplicons to assist interpretation of screening results. A case-study of detection and identification of unauthorized GM maize event in food/feed products. A maize sample was found positive to specific methods QL-CON-00-011 (junction between the Cauliflower Mosaic Virus 35S promoter and the S. viridochromogenes pat gene), QT-CON-00-005 (junction region between the pat gene from and the Cauliflower Mosaic Virus 35S terminator) and to two element detection methods, QT-ELE-00-001 (Cauliflower Mosaic Virus 35S promoter) and QL-ELE-00-021 (pat gene). The JRC GMO-Matrix (A) predicts 5 GM maize events as potential events positive to all of them, but the sample is negative for the corresponding event-specific methods. By querying the database with these methods and focusing on the unique records of the patnt, sequence, JC285244.1 from patent WO2011084632 (33) is found (B). According to the annotation, this sequence corresponds to the ‘complete sequence of the insert and flanking regions of event DP-032316-8’, a good candidate for which the sample can be easily tested, as the patent describes also a detection method for this event. JC285244.1 was fully characterized (C), confirming that it is the full sequence of DP-032316-8 maize event.
Mentions: Using the JRC GMO-Amplicons, it is possible to identify GM-related sequences that are positive for the elements detected in the analysed samples but negative for the event-specific methods included into the GMOMETHODS database. A case-study example is shown in Figure 5, where a maize sample was found positive for two construct specific methods, QL-CON-00-011 (30) and QT-CON-00-005 (29) and to two element detection methods, QT-ELE-00-001 (31) and QL-ELE-00-021 (32). Through the JRC GMO-Amplicons it was possible to identify a new patent sequence record (33) and to download it for further characterization.Figure 5.

Bottom Line: Notably, the JRC GMO-Amplicons database allows the retrieval and characterization of GMO-related sequences included in patents documentation.Finally, it can help annotating poorly described GM sequences and identifying new relevant GMO-related sequences in public databases.The JRC GMO-Amplicons is freely accessible through a web-based portal that is hosted on the EU-RL GMFF website.

View Article: PubMed Central - PubMed

Affiliation: Molecular Biology and Genomics Unit, Joint Research Centre, European Commission, Ispra, Italy mauro.petrillo@ec.europa.eu.

No MeSH data available.


Related in: MedlinePlus