Title |
Flexible and scalable genotyping-by-sequencing strategies for population studies
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Published in |
BMC Genomics, November 2014
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DOI | 10.1186/1471-2164-15-979 |
Pubmed ID | |
Authors |
Christopher Heffelfinger, Christopher A Fragoso, Maria A Moreno, John D Overton, John P Mottinger, Hongyu Zhao, Joe Tohme, Stephen L Dellaporta |
Abstract |
Many areas critical to agricultural production and research, such as the breeding and trait mapping in plants and livestock, require robust and scalable genotyping platforms. Genotyping-by-sequencing (GBS) is a one such method highly suited to non-human organisms. In the GBS protocol, genomic DNA is fractionated via restriction digest, then reduced representation is achieved through size selection. Since many restriction sites are conserved across a species, the sequenced portion of the genome is highly consistent within a population. This makes the GBS protocol highly suited for experiments that require surveying large numbers of markers within a population, such as those involving genetic mapping, breeding, and population genomics. We have modified the GBS technology in a number of ways. Custom, enzyme specific adaptors have been replaced with standard Illumina adaptors compatible with blunt-end restriction enzymes. Multiplexing is achieved through a dual barcoding system, and bead-based library preparation protocols allows for in-solution size selection and eliminates the need for columns and gels. |
Mendeley readers
Geographical breakdown
Country | Count | As % |
---|---|---|
United States | 5 | 3% |
Belgium | 3 | 2% |
Italy | 2 | 1% |
France | 1 | <1% |
Netherlands | 1 | <1% |
Colombia | 1 | <1% |
Sweden | 1 | <1% |
Switzerland | 1 | <1% |
Brazil | 1 | <1% |
Other | 1 | <1% |
Unknown | 173 | 91% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Student > Ph. D. Student | 50 | 26% |
Researcher | 45 | 24% |
Student > Master | 21 | 11% |
Student > Doctoral Student | 15 | 8% |
Student > Bachelor | 13 | 7% |
Other | 29 | 15% |
Unknown | 17 | 9% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 109 | 57% |
Biochemistry, Genetics and Molecular Biology | 34 | 18% |
Environmental Science | 8 | 4% |
Earth and Planetary Sciences | 3 | 2% |
Chemistry | 2 | 1% |
Other | 8 | 4% |
Unknown | 26 | 14% |