Genomics tools available for unravelling mechanisms underlying agronomical traits in strawberry with more to come

Beatrice Denoyes, Iraida Amaya, Aron Liston, Jacob Tennessen, Tia-Lynn Ashman, Vance Whitaker, Timo Petteri Hytönen, Eric van de Weg, Sonia Osorio, Kevin Folta, Janet Slovin, Richard Harrison, Amparo Monfort, Nahla Bassil

Forskningsoutput: Kapitel i bok/rapport/konferenshandlingKonferensbidragVetenskapligPeer review

Sammanfattning

In the last few years, high-throughput genomics promised to bridge the gap between plant physiology and plant sciences. In addition, high-throughput genotyping technologies facilitate marker-based selection for better performing genotypes. In strawberry, Fragaria vesca was the first reference sequence obtained in the Rosoideae sub-family. This genome has a high level of synteny with genomes of other species of diploid and polyploid Fragaria, but it also provides a reference for species like Rubus and Rosa for functional genomics. Many tools for genetic, genomic and functional analyses were introduced over the last 10 years and these tools are still evolving. For genotyping, many studies have used simple sequence repeats (SSRs) but whole genome sequencing is now a mature technology and facilitates the development of genotyping chips and other genetic approaches such as genome wide association studies (GWAS). Furthermore, microarray-based technologies have been eclipsed by RNA-seq, the high-throughput sequencing of RNA. These new approaches have led to advances in our understanding of the genetically complex octoploid species, and have revolutionized functional genomics. For all genetic and genomic studies, novel material such as complex crosses such as NILs and EMS have appeared in addition to the classical segregating population. With all these tools, strawberry now emerges as a plant model, not only for studying fruit quality but also for deciphering the mechanisms controlling various aspects of plant biology. Selective examples will be described to illustrate the latest research on strawberry and what is coming from other model species.
Originalspråkengelska
Titel på gästpublikationActa Horticulture
RedaktörerY Desjardins
Volym1156
FörlagInternational Society for Horticultural Science
Utgivningsdatumapr 2017
Sidor13-24
ISBN (tryckt)978-94-6261-152-8
DOI
StatusPublicerad - apr 2017
MoE-publikationstypA4 Artikel i en konferenspublikation
Evenemang VIII International Strawberry Symposium - Quebec City, Kanada
Varaktighet: 13 aug 201617 aug 2016
http://www.iss2016-quebec.org

Publikationsserier

NamnActa Horticulturae
FörlagInternational Society for Horticultural Science
Volym1156
ISSN (tryckt)0567-7572

Vetenskapsgrenar

  • 1184 Genetik, utvecklingsbiologi, fysiologi
  • 414 Jordbruksbioteknologi

Citera det här

Denoyes, B., Amaya, I., Liston, A., Tennessen, J., Ashman, T-L., Whitaker, V., ... Bassil, N. (2017). Genomics tools available for unravelling mechanisms underlying agronomical traits in strawberry with more to come. I Y. Desjardins (Red.), Acta Horticulture (Vol. 1156, s. 13-24). (Acta Horticulturae; Vol. 1156). International Society for Horticultural Science. https://doi.org/10.17660/ActaHortic.2017.1156.3
Denoyes, Beatrice ; Amaya, Iraida ; Liston, Aron ; Tennessen, Jacob ; Ashman, Tia-Lynn ; Whitaker, Vance ; Hytönen, Timo Petteri ; van de Weg, Eric ; Osorio, Sonia ; Folta, Kevin ; Slovin, Janet ; Harrison, Richard ; Monfort, Amparo ; Bassil, Nahla. / Genomics tools available for unravelling mechanisms underlying agronomical traits in strawberry with more to come. Acta Horticulture. redaktör / Y Desjardins. Vol. 1156 International Society for Horticultural Science, 2017. s. 13-24 (Acta Horticulturae).
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title = "Genomics tools available for unravelling mechanisms underlying agronomical traits in strawberry with more to come",
abstract = "In the last few years, high-throughput genomics promised to bridge the gap between plant physiology and plant sciences. In addition, high-throughput genotyping technologies facilitate marker-based selection for better performing genotypes. In strawberry, Fragaria vesca was the first reference sequence obtained in the Rosoideae sub-family. This genome has a high level of synteny with genomes of other species of diploid and polyploid Fragaria, but it also provides a reference for species like Rubus and Rosa for functional genomics. Many tools for genetic, genomic and functional analyses were introduced over the last 10 years and these tools are still evolving. For genotyping, many studies have used simple sequence repeats (SSRs) but whole genome sequencing is now a mature technology and facilitates the development of genotyping chips and other genetic approaches such as genome wide association studies (GWAS). Furthermore, microarray-based technologies have been eclipsed by RNA-seq, the high-throughput sequencing of RNA. These new approaches have led to advances in our understanding of the genetically complex octoploid species, and have revolutionized functional genomics. For all genetic and genomic studies, novel material such as complex crosses such as NILs and EMS have appeared in addition to the classical segregating population. With all these tools, strawberry now emerges as a plant model, not only for studying fruit quality but also for deciphering the mechanisms controlling various aspects of plant biology. Selective examples will be described to illustrate the latest research on strawberry and what is coming from other model species.",
keywords = "1184 Genetics, developmental biology, physiology, 414 Agricultural biotechnology",
author = "Beatrice Denoyes and Iraida Amaya and Aron Liston and Jacob Tennessen and Tia-Lynn Ashman and Vance Whitaker and Hyt{\"o}nen, {Timo Petteri} and {van de Weg}, Eric and Sonia Osorio and Kevin Folta and Janet Slovin and Richard Harrison and Amparo Monfort and Nahla Bassil",
year = "2017",
month = "4",
doi = "10.17660/ActaHortic.2017.1156.3",
language = "English",
isbn = "978-94-6261-152-8",
volume = "1156",
series = "Acta Horticulturae",
publisher = "International Society for Horticultural Science",
pages = "13--24",
editor = "Y Desjardins",
booktitle = "Acta Horticulture",
address = "International",

}

Denoyes, B, Amaya, I, Liston, A, Tennessen, J, Ashman, T-L, Whitaker, V, Hytönen, TP, van de Weg, E, Osorio, S, Folta, K, Slovin, J, Harrison, R, Monfort, A & Bassil, N 2017, Genomics tools available for unravelling mechanisms underlying agronomical traits in strawberry with more to come. i Y Desjardins (red.), Acta Horticulture. vol. 1156, Acta Horticulturae, vol. 1156, International Society for Horticultural Science, s. 13-24, VIII International Strawberry Symposium, Quebec City, Kanada, 13/08/2016. https://doi.org/10.17660/ActaHortic.2017.1156.3

Genomics tools available for unravelling mechanisms underlying agronomical traits in strawberry with more to come. / Denoyes, Beatrice; Amaya, Iraida; Liston, Aron; Tennessen, Jacob; Ashman, Tia-Lynn; Whitaker, Vance; Hytönen, Timo Petteri; van de Weg, Eric; Osorio, Sonia ; Folta, Kevin; Slovin, Janet; Harrison, Richard; Monfort, Amparo; Bassil, Nahla.

Acta Horticulture. red. / Y Desjardins. Vol. 1156 International Society for Horticultural Science, 2017. s. 13-24 (Acta Horticulturae; Vol. 1156).

Forskningsoutput: Kapitel i bok/rapport/konferenshandlingKonferensbidragVetenskapligPeer review

TY - GEN

T1 - Genomics tools available for unravelling mechanisms underlying agronomical traits in strawberry with more to come

AU - Denoyes, Beatrice

AU - Amaya, Iraida

AU - Liston, Aron

AU - Tennessen, Jacob

AU - Ashman, Tia-Lynn

AU - Whitaker, Vance

AU - Hytönen, Timo Petteri

AU - van de Weg, Eric

AU - Osorio, Sonia

AU - Folta, Kevin

AU - Slovin, Janet

AU - Harrison, Richard

AU - Monfort, Amparo

AU - Bassil, Nahla

PY - 2017/4

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N2 - In the last few years, high-throughput genomics promised to bridge the gap between plant physiology and plant sciences. In addition, high-throughput genotyping technologies facilitate marker-based selection for better performing genotypes. In strawberry, Fragaria vesca was the first reference sequence obtained in the Rosoideae sub-family. This genome has a high level of synteny with genomes of other species of diploid and polyploid Fragaria, but it also provides a reference for species like Rubus and Rosa for functional genomics. Many tools for genetic, genomic and functional analyses were introduced over the last 10 years and these tools are still evolving. For genotyping, many studies have used simple sequence repeats (SSRs) but whole genome sequencing is now a mature technology and facilitates the development of genotyping chips and other genetic approaches such as genome wide association studies (GWAS). Furthermore, microarray-based technologies have been eclipsed by RNA-seq, the high-throughput sequencing of RNA. These new approaches have led to advances in our understanding of the genetically complex octoploid species, and have revolutionized functional genomics. For all genetic and genomic studies, novel material such as complex crosses such as NILs and EMS have appeared in addition to the classical segregating population. With all these tools, strawberry now emerges as a plant model, not only for studying fruit quality but also for deciphering the mechanisms controlling various aspects of plant biology. Selective examples will be described to illustrate the latest research on strawberry and what is coming from other model species.

AB - In the last few years, high-throughput genomics promised to bridge the gap between plant physiology and plant sciences. In addition, high-throughput genotyping technologies facilitate marker-based selection for better performing genotypes. In strawberry, Fragaria vesca was the first reference sequence obtained in the Rosoideae sub-family. This genome has a high level of synteny with genomes of other species of diploid and polyploid Fragaria, but it also provides a reference for species like Rubus and Rosa for functional genomics. Many tools for genetic, genomic and functional analyses were introduced over the last 10 years and these tools are still evolving. For genotyping, many studies have used simple sequence repeats (SSRs) but whole genome sequencing is now a mature technology and facilitates the development of genotyping chips and other genetic approaches such as genome wide association studies (GWAS). Furthermore, microarray-based technologies have been eclipsed by RNA-seq, the high-throughput sequencing of RNA. These new approaches have led to advances in our understanding of the genetically complex octoploid species, and have revolutionized functional genomics. For all genetic and genomic studies, novel material such as complex crosses such as NILs and EMS have appeared in addition to the classical segregating population. With all these tools, strawberry now emerges as a plant model, not only for studying fruit quality but also for deciphering the mechanisms controlling various aspects of plant biology. Selective examples will be described to illustrate the latest research on strawberry and what is coming from other model species.

KW - 1184 Genetics, developmental biology, physiology

KW - 414 Agricultural biotechnology

U2 - 10.17660/ActaHortic.2017.1156.3

DO - 10.17660/ActaHortic.2017.1156.3

M3 - Conference contribution

SN - 978-94-6261-152-8

VL - 1156

T3 - Acta Horticulturae

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EP - 24

BT - Acta Horticulture

A2 - Desjardins, Y

PB - International Society for Horticultural Science

ER -

Denoyes B, Amaya I, Liston A, Tennessen J, Ashman T-L, Whitaker V et al. Genomics tools available for unravelling mechanisms underlying agronomical traits in strawberry with more to come. I Desjardins Y, redaktör, Acta Horticulture. Vol. 1156. International Society for Horticultural Science. 2017. s. 13-24. (Acta Horticulturae). https://doi.org/10.17660/ActaHortic.2017.1156.3