A multiplex PCR for rapid identification of Brassica species in the triangle of U
| Autor: | Denise M. Barbulescu, Joshua C. O. Koh, Sally L. Norton, Noel O. I. Cogan, Phil Salisbury, Sukhjiwan Kaur, Anthony Slater, Bob Redden |
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| Rok vydání: | 2017 |
| Předmět: |
0106 biological sciences
0301 basic medicine Germplasm Brassica Plant Science Computational biology lcsh:Plant culture 01 natural sciences Genome 03 medical and health sciences Genebank Multiplex polymerase chain reaction Genetics lcsh:SB1-1110 lcsh:QH301-705.5 Species identification Genetic diversity biology business.industry fungi food and beverages Brassicaceae biology.organism_classification Biotechnology Triangle of U 030104 developmental biology lcsh:Biology (General) business Germplasm management 010606 plant biology & botany SNP array |
| Zdroj: | Plant Methods, Vol 13, Iss 1, Pp 1-8 (2017) |
| ISSN: | 1746-4811 |
| DOI: | 10.1186/s13007-017-0200-8 |
| Popis: | Background Within the Brassicaceae, six species from the genus Brassica are widely cultivated throughout the world as oilseed, condiment, fodder or vegetable crops. The genetic relationships among the six Brassica species are described by U’s triangle model. Extensive shared traits and diverse morphotypes among Brassica species make identification and classification based on phenotypic data alone challenging and unreliable, especially when dealing with large germplasm collections. Consequently, a major issue for genebank collections is ensuring the correct identification of species. Molecular genotyping based on simple sequence repeat (SSR) marker sequencing or the Illumina Infinium Brassica napus 60K single nucleotide polymorphism (SNP) array has been used to identify species and assess genetic diversity of Brassica collections. However, these methods are technically challenging, expensive and time-consuming, making them unsuitable for routine or rapid screening of Brassica accessions for germplasm management. A cheaper, faster and simpler method for Brassica species identification is described here. Results A multiplex polymerase chain reaction (MPCR) consisting of new and existing primers specific to the Brassica A, B and C genomes was able to reliably distinguish all six Brassica species in the triangle of U with 16 control samples of known species identity. Further validation against 120 Brassica accessions previously genotyped showed that the MPCR is highly accurate and comparable to more advanced techniques such as SSR marker sequencing or the Illumina Infinium B. napus 60K SNP array. In addition, the MPCR was sensitive enough to detect seed contaminations in pooled seed samples of Brassica accessions. Conclusion A cheap and fast multiplex PCR assay for identification of Brassica species in the triangle of U was developed and validated in this study. The MPCR assay can be readily implemented in any basic molecular laboratory and should prove useful for the management of Brassica germplasm collections in genebanks. |
| Databáze: | OpenAIRE |
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