Genotyping by sequencing advancements in barley
Barley is considered an ideal crop to study cereal genetics due to its close relationship with wheat and diploid ancestral genome. It plays a crucial role in reducing risks to global food security posed by climate change. Genetic variations in the traits of interest in crops are vital for their impr...
| Autores principales: | , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
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Frontiers Media
2022
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| Acceso en línea: | https://hdl.handle.net/10568/129085 |
| _version_ | 1855528903788986368 |
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| author | Rajendran, Nirmal Raj Qureshi, Naeela Pourkheirandish, Mohammad |
| author_browse | Pourkheirandish, Mohammad Qureshi, Naeela Rajendran, Nirmal Raj |
| author_facet | Rajendran, Nirmal Raj Qureshi, Naeela Pourkheirandish, Mohammad |
| author_sort | Rajendran, Nirmal Raj |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Barley is considered an ideal crop to study cereal genetics due to its close relationship with wheat and diploid ancestral genome. It plays a crucial role in reducing risks to global food security posed by climate change. Genetic variations in the traits of interest in crops are vital for their improvement. DNA markers have been widely used to estimate these variations in populations. With the advancements in next-generation sequencing, breeders could access different types of genetic variations within different lines, with single-nucleotide polymorphisms (SNPs) being the most common type. However, genotyping barley with whole genome sequencing (WGS) is challenged by the higher cost and computational demand caused by the large genome size (5.5GB) and a high proportion of repetitive sequences (80%). Genotyping-by-sequencing (GBS) protocols based on restriction enzymes and target enrichment allow a cost-effective SNP discovery by reducing the genome complexity. In general, GBS has opened up new horizons for plant breeding and genetics. Though considered a reliable alternative to WGS, GBS also presents various computational difficulties, but GBS-specific pipelines are designed to overcome these challenges. Moreover, a robust design for GBS can facilitate the imputation to the WGS level of crops with high linkage disequilibrium. The complete exploitation of GBS advancements will pave the way to a better understanding of crop genetics and offer opportunities for the successful improvement of barley and its close relatives. |
| format | Journal Article |
| id | CGSpace129085 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2022 |
| publishDateRange | 2022 |
| publishDateSort | 2022 |
| publisher | Frontiers Media |
| publisherStr | Frontiers Media |
| record_format | dspace |
| spelling | CGSpace1290852025-12-08T10:29:22Z Genotyping by sequencing advancements in barley Rajendran, Nirmal Raj Qureshi, Naeela Pourkheirandish, Mohammad barley genotyping restriction enzymes single nucleotide polymorphism Barley is considered an ideal crop to study cereal genetics due to its close relationship with wheat and diploid ancestral genome. It plays a crucial role in reducing risks to global food security posed by climate change. Genetic variations in the traits of interest in crops are vital for their improvement. DNA markers have been widely used to estimate these variations in populations. With the advancements in next-generation sequencing, breeders could access different types of genetic variations within different lines, with single-nucleotide polymorphisms (SNPs) being the most common type. However, genotyping barley with whole genome sequencing (WGS) is challenged by the higher cost and computational demand caused by the large genome size (5.5GB) and a high proportion of repetitive sequences (80%). Genotyping-by-sequencing (GBS) protocols based on restriction enzymes and target enrichment allow a cost-effective SNP discovery by reducing the genome complexity. In general, GBS has opened up new horizons for plant breeding and genetics. Though considered a reliable alternative to WGS, GBS also presents various computational difficulties, but GBS-specific pipelines are designed to overcome these challenges. Moreover, a robust design for GBS can facilitate the imputation to the WGS level of crops with high linkage disequilibrium. The complete exploitation of GBS advancements will pave the way to a better understanding of crop genetics and offer opportunities for the successful improvement of barley and its close relatives. 2022-08-08 2023-02-28T08:48:47Z 2023-02-28T08:48:47Z Journal Article https://hdl.handle.net/10568/129085 en Open Access application/pdf Frontiers Media Rajendran, N. R., Qureshi, N., & Pourkheirandish, M. (2022). Genotyping by Sequencing Advancements in Barley. Frontiers in Plant Science, 13. https://doi.org/10.3389/fpls.2022.931423 |
| spellingShingle | barley genotyping restriction enzymes single nucleotide polymorphism Rajendran, Nirmal Raj Qureshi, Naeela Pourkheirandish, Mohammad Genotyping by sequencing advancements in barley |
| title | Genotyping by sequencing advancements in barley |
| title_full | Genotyping by sequencing advancements in barley |
| title_fullStr | Genotyping by sequencing advancements in barley |
| title_full_unstemmed | Genotyping by sequencing advancements in barley |
| title_short | Genotyping by sequencing advancements in barley |
| title_sort | genotyping by sequencing advancements in barley |
| topic | barley genotyping restriction enzymes single nucleotide polymorphism |
| url | https://hdl.handle.net/10568/129085 |
| work_keys_str_mv | AT rajendrannirmalraj genotypingbysequencingadvancementsinbarley AT qureshinaeela genotypingbysequencingadvancementsinbarley AT pourkheirandishmohammad genotypingbysequencingadvancementsinbarley |