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Genomic Selection in the Era of Next Generation Sequencing for Complex Traits in Plant Breeding
Genomic selection (GS) is a promising approach exploiting molecular genetic markers to design novel breeding programs and to develop new markers-based models for genetic evaluation. In plant breeding, it provides opportunities to increase genetic gain of complex traits per unit time and cost. The co...
Autores principales: | , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2016
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5186759/ https://www.ncbi.nlm.nih.gov/pubmed/28083016 http://dx.doi.org/10.3389/fgene.2016.00221 |
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author | Bhat, Javaid A. Ali, Sajad Salgotra, Romesh K. Mir, Zahoor A. Dutta, Sutapa Jadon, Vasudha Tyagi, Anshika Mushtaq, Muntazir Jain, Neelu Singh, Pradeep K. Singh, Gyanendra P. Prabhu, K. V. |
author_facet | Bhat, Javaid A. Ali, Sajad Salgotra, Romesh K. Mir, Zahoor A. Dutta, Sutapa Jadon, Vasudha Tyagi, Anshika Mushtaq, Muntazir Jain, Neelu Singh, Pradeep K. Singh, Gyanendra P. Prabhu, K. V. |
author_sort | Bhat, Javaid A. |
collection | PubMed |
description | Genomic selection (GS) is a promising approach exploiting molecular genetic markers to design novel breeding programs and to develop new markers-based models for genetic evaluation. In plant breeding, it provides opportunities to increase genetic gain of complex traits per unit time and cost. The cost-benefit balance was an important consideration for GS to work in crop plants. Availability of genome-wide high-throughput, cost-effective and flexible markers, having low ascertainment bias, suitable for large population size as well for both model and non-model crop species with or without the reference genome sequence was the most important factor for its successful and effective implementation in crop species. These factors were the major limitations to earlier marker systems viz., SSR and array-based, and was unimaginable before the availability of next-generation sequencing (NGS) technologies which have provided novel SNP genotyping platforms especially the genotyping by sequencing. These marker technologies have changed the entire scenario of marker applications and made the use of GS a routine work for crop improvement in both model and non-model crop species. The NGS-based genotyping have increased genomic-estimated breeding value prediction accuracies over other established marker platform in cereals and other crop species, and made the dream of GS true in crop breeding. But to harness the true benefits from GS, these marker technologies will be combined with high-throughput phenotyping for achieving the valuable genetic gain from complex traits. Moreover, the continuous decline in sequencing cost will make the WGS feasible and cost effective for GS in near future. Till that time matures the targeted sequencing seems to be more cost-effective option for large scale marker discovery and GS, particularly in case of large and un-decoded genomes. |
format | Online Article Text |
id | pubmed-5186759 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2016 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-51867592017-01-12 Genomic Selection in the Era of Next Generation Sequencing for Complex Traits in Plant Breeding Bhat, Javaid A. Ali, Sajad Salgotra, Romesh K. Mir, Zahoor A. Dutta, Sutapa Jadon, Vasudha Tyagi, Anshika Mushtaq, Muntazir Jain, Neelu Singh, Pradeep K. Singh, Gyanendra P. Prabhu, K. V. Front Genet Genetics Genomic selection (GS) is a promising approach exploiting molecular genetic markers to design novel breeding programs and to develop new markers-based models for genetic evaluation. In plant breeding, it provides opportunities to increase genetic gain of complex traits per unit time and cost. The cost-benefit balance was an important consideration for GS to work in crop plants. Availability of genome-wide high-throughput, cost-effective and flexible markers, having low ascertainment bias, suitable for large population size as well for both model and non-model crop species with or without the reference genome sequence was the most important factor for its successful and effective implementation in crop species. These factors were the major limitations to earlier marker systems viz., SSR and array-based, and was unimaginable before the availability of next-generation sequencing (NGS) technologies which have provided novel SNP genotyping platforms especially the genotyping by sequencing. These marker technologies have changed the entire scenario of marker applications and made the use of GS a routine work for crop improvement in both model and non-model crop species. The NGS-based genotyping have increased genomic-estimated breeding value prediction accuracies over other established marker platform in cereals and other crop species, and made the dream of GS true in crop breeding. But to harness the true benefits from GS, these marker technologies will be combined with high-throughput phenotyping for achieving the valuable genetic gain from complex traits. Moreover, the continuous decline in sequencing cost will make the WGS feasible and cost effective for GS in near future. Till that time matures the targeted sequencing seems to be more cost-effective option for large scale marker discovery and GS, particularly in case of large and un-decoded genomes. Frontiers Media S.A. 2016-12-27 /pmc/articles/PMC5186759/ /pubmed/28083016 http://dx.doi.org/10.3389/fgene.2016.00221 Text en Copyright © 2016 Bhat, Ali, Salgotra, Mir, Dutta, Jadon, Tyagi, Mushtaq, Jain, Singh, Singh and Prabhu. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Genetics Bhat, Javaid A. Ali, Sajad Salgotra, Romesh K. Mir, Zahoor A. Dutta, Sutapa Jadon, Vasudha Tyagi, Anshika Mushtaq, Muntazir Jain, Neelu Singh, Pradeep K. Singh, Gyanendra P. Prabhu, K. V. Genomic Selection in the Era of Next Generation Sequencing for Complex Traits in Plant Breeding |
title | Genomic Selection in the Era of Next Generation Sequencing for Complex Traits in Plant Breeding |
title_full | Genomic Selection in the Era of Next Generation Sequencing for Complex Traits in Plant Breeding |
title_fullStr | Genomic Selection in the Era of Next Generation Sequencing for Complex Traits in Plant Breeding |
title_full_unstemmed | Genomic Selection in the Era of Next Generation Sequencing for Complex Traits in Plant Breeding |
title_short | Genomic Selection in the Era of Next Generation Sequencing for Complex Traits in Plant Breeding |
title_sort | genomic selection in the era of next generation sequencing for complex traits in plant breeding |
topic | Genetics |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5186759/ https://www.ncbi.nlm.nih.gov/pubmed/28083016 http://dx.doi.org/10.3389/fgene.2016.00221 |
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