論文 - 詳細
| RRC ID | 78519 |
|---|---|
| 著者 | Amanda J. Burridge, Mark Winfield, Alexandra Przewieslik‐Allen, Keith J. Edwards, Imteaz Siddique, Ruth Barral‐Arca, Simon Griffiths, Shifeng Cheng, Zejian Huang, Cong Feng, Susanne Dreisigacker, Alison R. Bentley, Gina Brown‐Guedira, Gary L. Barker |
| タイトル |
Development of a next generation |
| ジャーナル | Plant Biotechnology Journal |
| Abstract |
SummaryHigh‐throughput genotyping arrays have provided a cost‐effective, reliable and interoperable system for genotyping hexaploid wheat and its relatives. Existing, highly cited arrays including our 35K Wheat Breeder's array and the Illumina 90K array were designed based on a limited amount of varietal sequence diversity and with imperfect knowledge of SNP positions. Recent progress in wheat sequencing has given us access to a vast pool of SNP diversity, whilst technological improvements have allowed us to fit significantly more probes onto a 384‐well format Axiom array than previously possible. Here we describe a novel Axiom genotyping array, the ‘Triticum aestivum Next Generation’ array (TaNG), largely derived from whole genome skim sequencing of 204 elite wheat lines and 111 wheat landraces taken from the Watkins ‘Core Collection’. We used a novel haplotype optimization approach to select SNPs with the highest combined varietal discrimination and a design iteration step to test and replace SNPs which failed to convert to reliable markers. The final design with 43 372 SNPs contains a combination of haplotype‐optimized novel SNPs and legacy cross‐platform markers. We show that this design has an improved distribution of SNPs compared to previous arrays and can be used to generate genetic maps with a significantly higher number of distinct bins than our previous array. We also demonstrate the improved performance of TaNGv1.1 for Genome‐wide association studies (GWAS) and its utility for Copy Number Variation (CNV) analysis. The array is commercially available with supporting marker annotations and initial genotyping results freely available. |
| 公開日 | 2024-3-23 |
| DOI | 10.1111/pbi.14341 |
| PMID | 38520342 |
| PMC | PMC11258986 |
| MeSH | Genome, Plant / genetics Genotype Genotyping Techniques* / methods Haplotypes / genetics Oligonucleotide Array Sequence Analysis Polymorphism, Single Nucleotide* / genetics Triticum* / genetics |
| IF | 8.154 |
| オルトメトリクス指標 |
オルトメトリクス指標項目
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| 最多言及媒体 | X(Twitter) |
| 各媒体での言及数の合計 | 8 |
| 過去6か月間でのオルトメトリクス指標の変動値 | 0.0 |
| リソース情報 | |
| コムギ | KT020-112 |