Gene expression profiling for food safety assessment: Examples in potato and maize
Open accessAbstract
Since the mid 1990s, microarray analysis has become one of the few tools that can analyze the entire contents of a cell regarding a specific information type. Especially since the development of whole genome microarrays the technique can be considered truly holistic. Most DNA based microarrays are used for the analysis of the total of messenger RNAs (transcriptome) and provide a snap-shot of what's going on in a cell population at the time of sampling. Within the last few years also full genome plant microarrays have become available for several crop species. With these it has been shown that several growing conditions can be separated based on their transcriptome pattern, such as location, year of harvest and agricultural input system, but also different cultivars of the same crop species, including genetically modified ones. A database comprising expression levels of the transcriptome in many different circumstances with a history of safe use would be a good comparator for evaluation of new agricultural practices or cultivars, genetically modified or otherwise obtained. New techniques as next generation sequencing may overcome issues on throughput time and cost, standard operation procedures and array design for individual crops.
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There are statistically significant interactions between fertilisation and crop protection protocols with respect to gene and protein expression patterns.
“there were some statistically significant interactions between fertilisation and crop protection protocols with respect to gene and protein expression pattern”
The switch from mineral to organic fertilisers results in significant differences in gene and protein expression patterns and, as a result, in secondary metabolite profiles; approximately 10% of proteins have been found to be either up- or down-regulated in response to contrasting fertiliser inputs in potato and wheat.
“Recent studies have shown that the switch from mineral to organic fertilisers results in significant differences in gene and protein expression patterns and, as a result, in secondary metabolite profiles; for example, approximately 10 % of proteins have been found to be either up- or down-regulated in response to contrasting fertiliser inputs in potato and wheat( 10 – 15 ).”
A switch from pesticide-based conventional to organic crop protection protocols has a significant but more limited effect than fertilisation regimens on gene and protein expression patterns.
“Also, a switch from pesticide-based conventional to organic crop protection protocols has been shown to have a significant, but more limited effect than fertilisation regimens”
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- Authors
- Dijk, J. P. V., Leifert, C., Barros, E., & Kok, E. J.
- Affiliations
- Wageningen University & Research (NL)
- Newcastle University (GB)
- Council for Scientific and Industrial Research (ZA)
- Corresponding author
- Dijk, Jeroen P. van
- Venue
- Regulatory Toxicology and Pharmacology
- Publisher
- Elsevier BV
- Published
- 2010-12
- Volume
- 58
- Issue
- 3
- Pages
- S21-S25
- ISSN
- 0273-2300 (ISSN-L)
- OpenAlex
- W2136235580
- Cited by
- 23
- References
- 20
- Citations by year
- 2021: 1 · 2019: 1 · 2017: 4 · 2015: 3 · 2014: 4 · 2013: 5 · 2012: 3
- FWCI
- 3.85
- Type
- journal article
- Language
- en
- Open access
- green
- research.wur.nl
- Locations
- Regulatory Toxicology and Pharmacology (publishedVersion)
- PubMed (publishedVersion)
- Socio-Environmental Systems Modeling (acceptedVersion)
- Data Archiving and Networked Services (DANS) (submittedVersion)
- Newcastle University ePrints (Newcastle Univesity)
- Topics
- Life Sciences › Agricultural and Biological Sciences › Plant Science › Genetically Modified Organisms Research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gene expression and cancer classification
- Life Sciences › Agricultural and Biological Sciences › Food Science › Agricultural safety and regulations
- Keywords
- gene expression profiling, food safety assessment, transcriptome, microarray data analysis, potato, maize, genetically modified crops, cultivar comparison, growth conditions, next-generation sequencing
- MeSH terms
- Zea mays, Solanum tuberosum, Databases, Factual, Genes, Plant, Gene Expression Regulation, Plant, Crops, Agricultural, Genome, Plant, Gene Expression Profiling, Plants, Genetically Modified, Food, Genetically Modified, Microarray Analysis, Food Safety
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