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Single primer enrichment technology as a tool for massive genotyping: a benchmark on black poplar and maize

Single primer enrichment technology as a tool for massive genotyping: a benchmark on black poplar and maize
Single primer enrichment technology as a tool for massive genotyping: a benchmark on black poplar and maize
The advent of molecular breeding is advocated to improve the productivity and sustainability of second-generation bioenergy crops. Advanced molecular breeding in bioenergy crops relies on the ability to massively sample the genetic diversity. Genotyping-by-sequencing has become a widely adopted method for cost-effective genotyping. It basically requires no initial investment for design as compared with array-based platforms which have been shown to offer very robust assays. The latter, however, has the drawback of being limited to analyse only the genetic diversity accounted during selection of a set of polymorphisms and design of the assay. In contrast, genotyping-by-sequencing with random sampling of genomic loci via restriction enzymes or random priming has been shown to be fast and convenient but lacks the ability to target specific regions of the genome and to maintain high reproducibility across laboratories.
SPET, Allegro, genotyping-by-sequencing, targeted genotyping, bioenergy crops, Zea mays, Populus nigra, SNP, GWAS
0305-7364
543-551
Scaglione, Davide
80e2008e-8185-4d2c-87fd-373a1ff7e2db
Pinosio, Sara
62a97cd2-ac02-4513-b5de-f6aaa29beb6c
Marroni, Fabio
d50e3f71-6411-461c-bf64-66a597e005f9
Di Centa, Eleonora
4e6f266a-149d-4cfe-b9f4-8b895fc352b7
Fornasiero, Alice
1ed113b3-af1f-408b-ba31-cd03617b2e71
Magris, Gabriele
4574112e-e651-4d2b-b2f8-6fc68360a736
Scalabrin, Simone
ff064b17-8e7a-406c-8cf1-b229f5008389
Cattonaro, Federica
6a321fde-0be2-4fcd-8b0f-6527f405b175
Morgante, Michele
f84ecbe7-98ba-4bd6-9278-94c77b867968
Taylor, Gail
f3851db9-d37c-4c36-8663-e5c2cb03e171
Scaglione, Davide
80e2008e-8185-4d2c-87fd-373a1ff7e2db
Pinosio, Sara
62a97cd2-ac02-4513-b5de-f6aaa29beb6c
Marroni, Fabio
d50e3f71-6411-461c-bf64-66a597e005f9
Di Centa, Eleonora
4e6f266a-149d-4cfe-b9f4-8b895fc352b7
Fornasiero, Alice
1ed113b3-af1f-408b-ba31-cd03617b2e71
Magris, Gabriele
4574112e-e651-4d2b-b2f8-6fc68360a736
Scalabrin, Simone
ff064b17-8e7a-406c-8cf1-b229f5008389
Cattonaro, Federica
6a321fde-0be2-4fcd-8b0f-6527f405b175
Morgante, Michele
f84ecbe7-98ba-4bd6-9278-94c77b867968
Taylor, Gail
f3851db9-d37c-4c36-8663-e5c2cb03e171

Scaglione, Davide, Pinosio, Sara, Marroni, Fabio, Di Centa, Eleonora, Fornasiero, Alice, Magris, Gabriele, Scalabrin, Simone, Cattonaro, Federica, Morgante, Michele and Taylor, Gail (2019) Single primer enrichment technology as a tool for massive genotyping: a benchmark on black poplar and maize. Annals of Botany, 124 (4), 543-551. (doi:10.1093/aob/mcz054).

Record type: Article

Abstract

The advent of molecular breeding is advocated to improve the productivity and sustainability of second-generation bioenergy crops. Advanced molecular breeding in bioenergy crops relies on the ability to massively sample the genetic diversity. Genotyping-by-sequencing has become a widely adopted method for cost-effective genotyping. It basically requires no initial investment for design as compared with array-based platforms which have been shown to offer very robust assays. The latter, however, has the drawback of being limited to analyse only the genetic diversity accounted during selection of a set of polymorphisms and design of the assay. In contrast, genotyping-by-sequencing with random sampling of genomic loci via restriction enzymes or random priming has been shown to be fast and convenient but lacks the ability to target specific regions of the genome and to maintain high reproducibility across laboratories.

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mcz054 - Accepted Manuscript
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More information

Accepted/In Press date: 25 March 2019
e-pub ahead of print date: 30 March 2019
Published date: 13 September 2019
Keywords: SPET, Allegro, genotyping-by-sequencing, targeted genotyping, bioenergy crops, Zea mays, Populus nigra, SNP, GWAS

Identifiers

Local EPrints ID: 432324
URI: http://eprints.soton.ac.uk/id/eprint/432324
ISSN: 0305-7364
PURE UUID: de572123-a36a-4f00-afc9-ce1c760a0b76
ORCID for Gail Taylor: ORCID iD orcid.org/0000-0001-8470-6390

Catalogue record

Date deposited: 10 Jul 2019 16:30
Last modified: 22 Nov 2021 07:29

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Contributors

Author: Davide Scaglione
Author: Sara Pinosio
Author: Fabio Marroni
Author: Eleonora Di Centa
Author: Alice Fornasiero
Author: Gabriele Magris
Author: Simone Scalabrin
Author: Federica Cattonaro
Author: Michele Morgante
Author: Gail Taylor ORCID iD

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