# Linking the International Wheat Genome Sequencing Consortium Bread Wheat Reference Genome Sequence to Wheat Genetic and Phenomic Data

Michael Alaux

► To cite this version:

Michael Alaux. Linking the International Wheat Genome Sequencing Consortium Bread Wheat Reference Genome Sequence to Wheat Genetic and Phenomic Data. PAG XXVII - Plant and Animal Genome Conference, Jan 2019, San Diego, United States. hal-04536576

HAL Id: hal-04536576

https://hal.inrae.fr/hal-04536576

Submitted on 8 Apr 2024

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entific research documents, whether they are pub-
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<figure><img src="image_1.png" /></figure>

Distributed under a Creative Commons Attribution 4.0 International License
# Linking the International Wheat Genome Sequencing Consortium Bread Wheat Reference Genome Sequence to Wheat Genetic and Phenomic Data

Michael Alaux

► To cite this version:

Michael Alaux. Linking the International Wheat Genome Sequencing Consortium Bread Wheat Reference Genome Sequence to Wheat Genetic and Phenomic Data. PAG XXVII - Plant and Animal Genome Conference, Jan 2019, San Diego, United States. hal-04536576

HAL Id: hal-04536576

https://hal.inrae.fr/hal-04536576v1

Submitted on 8 Apr 2024

HAL is a multi-disciplinary open access
archive for the deposit and dissemination of sci-
entific research documents, whether they are pub-
lished or not. The documents may come from
teaching and research institutions in France or
abroad, or from public or private research centers.

L'archive ouverte pluridisciplinaire HAL, est
destinée au dépôt et à la diffusion de documents
scientifiques de niveau recherche, publiés ou non,
émanant des établissements d'enseignement et de
recherche français ou étrangers, des laboratoires
publics ou privés.

<figure><img src="image_1.png" /></figure>

Distributed under a Creative Commons Attribution 4.0 International License
# Linking the IWGSC bread wheat reference genome sequence to wheat genetic and phenomic data

Michael Alaux

Triticeae Genetics and Genomics, Session 1: Progress in structural and functional genomics

<figure><img src="image_2.png" /></figure>

<figure><img src="image_3.png" /></figure>

<figure><img src="image_4.png" /></figure>

<figure><img src="image_5.png" /></figure>

<figure><img src="image_6.png" /></figure>

<figure><img src="image_7.png" /></figure>
# Linking the IWGSC bread wheat reference genome sequence to wheat genetic and phenomic data

Michael Alaux

Triticeae Genetics and Genomics, Session 1: Progress in structural and functional genomics

<figure><img src="image_2.png" /></figure>

<figure><img src="image_3.png" /></figure>

<figure><img src="image_4.png" /></figure>

<figure><img src="image_5.png" /></figure>

<figure><img src="image_6.png" /></figure>

<figure><img src="image_7.png" /></figure>
# Outline

<figure><img src="image_8.png" /></figure>

A. The wheat reference sequence

B. A wealth of data available

D. Data integration

<figure><img src="image_9.png" /></figure>

Wheat@URGI portal
## Outline

<figure><img src="image_8.png" /></figure>

A. The wheat reference sequence

B. A wealth of data available

D. Data integration

<figure><img src="image_9.png" /></figure>

Wheat@URGI portal
<figure><img src="image_10.png" /></figure>

# The wheat reference sequence
<figure><img src="image_10.png" /></figure>

# The wheat reference sequence
# IWGSC sequencing strategy

<figure><img src="image_11.png" /></figure>

DeNovoMAGIC™

NRGene Illumina:
IWGSC NRGene WGS

<figure><img src="image_12.png" /></figure>

IWGSC
WGA
v0.4
(2016)

+

HiC

BACs

WGP tags

Genetic maps

Bionano maps

Rad. hyb maps

<figure><img src="image_13.png" /></figure>

IWGSC
RefSeq
v1.0
(2017)

<figure><img src="image_14.png" /></figure>

sorted chromosomes

<figure><img src="image_15.png" /></figure>

<figure><img src="image_16.png" /></figure>

Illumina PE: CSS v2 (2014)
+MP libs: CSS v3 (2016)

<figure><img src="image_17.png" /></figure>

BACs

<figure><img src="image_18.png" /></figure>

<figure><img src="image_19.png" /></figure>

Physical maps: 100%
BAC-seq: 3B + 8 chr.

<figure><img src="image_20.png" /></figure>

<figure><img src="image_21.png" /></figure>
# IWGSC sequencing strategy

<figure><img src="image_11.png" /></figure>

DeNovoMAGIC™

NRGene Illumina:
IWGSC NRGene WGS

A

B

D

<figure><img src="image_12.png" /></figure>

sorted chromosomes

<figure><img src="image_13.png" /></figure>

<figure><img src="image_14.png" /></figure>

BACs

<figure><img src="image_15.png" /></figure>

<figure><img src="image_16.png" /></figure>

<figure><img src="image_17.png" /></figure>

IWGSC
WGA
v0.4
(2016)

+

HiC

BACs

WGP tags

Genetic maps

Bionano maps

Rad. hyb maps

<figure><img src="image_18.png" /></figure>

Illumina PE: CSS v2 (2014)

+MP libs: CSS v3 (2016)

<figure><img src="image_19.png" /></figure>

<figure><img src="image_20.png" /></figure>

IWGSC
RefSeq
v1.0
(2017)

<figure><img src="image_21.png" /></figure>

<figure><img src="image_22.png" /></figure>

Physical maps: 100%

BAC-seq: 3B + 8 chr.

<figure><img src="image_23.png" /></figure>

<figure><img src="image_24.png" /></figure>
# IWGSC RefSeq assembly metrics

total size 14.5 Gb (21 pseudomolecules = 14.1 Gb)
completeness 97-99%
superscaffold N50 23 Mb

<figure><img src="image_22.png" /></figure>
# IWGSC RefSeq assembly metrics

total size 14.5 Gb (21 pseudomolecules = 14.1 Gb)
completeness 97-99%
superscaffold N50 23 Mb

<figure><img src="image_25.png" /></figure>
# IWGSC RefSeq annotation

## Genes

* v1.0: automated

* v1.1: incorporate 3685 manually annotated genes

<figure><img src="image_23.png" /></figure>

IWGSC, Science 2018
https://doi.org/10.1126/science.aar7191
# IWGSC RefSeq annotation

## Genes

* v1.0: automated

* v1.1: incorporate 3685 manually annotated genes

<figure><img src="image_26.png" /></figure>

IWGSC, Science 2018
https://doi.org/10.1126/science.aar7191
# IWGSC RefSeq annotation

## Transposable Elements

4 million TEs

<figure><img src="image_24.png" /></figure>

+ ncRNA, markers, functional annotation, manually curated genes, etc.

<figure><img src="image_25.png" /></figure>

Wicker et al., Genome Biology 2018
https://doi.org/10.1186/s13059-018-1479-0
# IWGSC RefSeq annotation

## Transposable Elements

4 million TEs

<figure><img src="image_27.png" /></figure>

+ ncRNA, markers, functional annotation, manually curated genes, etc.

<figure><img src="image_28.png" /></figure>

Wicker et al., Genome Biology 2018
https://doi.org/10.1186/s13059-018-1479-0
# IWGSC RefSeq data availability

IWGSC WGA
v0.4

Toronto
agreement

* June 2016:

* Download

* BLAST

IWGSC RefSeq
v1.0 assembly

Toronto
agreement

* January 2017:

* Download

* BLAST

IWGSC RefSeq
v1.0 annotation

Toronto
agreement

* May 2017:

* Download

* July 2017:

* Browser

IWGSC RefSeq
v1.0

Open access

* July 2018:

* Assembly and annotations (v1.0 and v1.1) download, BLAST and browser

* August 2018:

* Publications

IWGSC Data Repository
hosted in the

Wheat@URGI portal

<figure><img src="image_26.png" /></figure>

https://wheat-urgi.versailles.inra.fr/Seq-Repository
# IWGSC RefSeq data availability

IWGSC WGA
v0.4
Toronto
agreement

* June 2016:

* Download

* BLAST

IWGSC Data Repository
hosted in the
**Wheat@URGI portal**

<figure><img src="image_29.png" /></figure>

https://wheat-urgi.versailles.inra.fr/Seq-Repository

IWGSC RefSeq
v1.0 assembly
Toronto
agreement

* January 2017:

* Download

* BLAST

IWGSC RefSeq
v1.0 annotation
Toronto
agreement

* May 2017:

* Download

* July 2017:

* Browser

IWGSC RefSeq
v1.0
Open access

* July 2018:

* Assembly and
    annotations (v1.0 and
    v1.1) download,
    BLAST and browser

* August 2018:

* Publications
Publications

<figure><img src="image_27.png" /></figure>

RESEARCH ARTICLE

Shifting the limits in wheat research and breeding using
a fully annotated reference genome

The International Wheat Genome Sequencing Consortium (IWGSC), IWGSC RefSeq principal investigators; Rudi Appels¹,³,⁶,*...

+ See all authors and affiliations

Science 17 Aug 2018:
Vol. 361, Issue 6403, eara7191
DOI: 10.1126/science.aar7191

RESEARCH ARTICLE

The transcriptional landscape of polyploid wheat

R. H. Ramírez-González¹,*, P. Borrill¹,*,†, D. Lang², S. A. Harrington¹, J. Brinton¹, L. Venturini³, M. Davey⁴, J. Jacobs⁴, F. van...

+ See all authors and affiliations

Science 17 Aug 2018:
Vol. 361, Issue 6403, eara6089
DOI: 10.1126/science.aar6089

<figure><img src="image_28.png" /></figure>

RESEARCH ARTICLE | PLANT SCIENCES

Genome mapping of seed-borne allergens and
immunoresponsive proteins in wheat

Angéla Juhász¹,²,* Tatiana Belova³,*, Chris G. Florides¹, Csaba Maulis¹, Iris Fischer⁴, Gyöngyvér Gell², Zsófia Birinyi², Jami...

+ See all authors and affiliations

Science Advances 17 Aug 2018:
Vol. 4, no. 8, eara8602
DOI: 10.1126/sciadv.aar8602
Publications

<figure><img src="image_30.png" /></figure>

RESEARCH ARTICLE

Shifting the limits in wheat research and breeding using
a fully annotated reference genome

The International Wheat Genome Sequencing Consortium (IWGSC), IWGSC RefSeq principal investigators; Rudi Appels¹,³,⁶,*...

+ See all authors and affiliations

Science 17 Aug 2018:
Vol. 361, Issue 6403, eara7191
DOI: 10.1126/science.aar7191

RESEARCH ARTICLE

The transcriptional landscape of polyploid wheat

R. H. Ramírez-González¹,*, P. Borrill¹,*,†, D. Lang², S. A. Harrington¹, J. Brinton¹, L. Venturini³, M. Davey⁴, J. Jacobs⁴, F. van...

+ See all authors and affiliations

Science 17 Aug 2018:
Vol. 361, Issue 6403, eara6089
DOI: 10.1126/science.aar6089

<figure><img src="image_31.png" /></figure>

RESEARCH ARTICLE | PLANT SCIENCES

Genome mapping of seed-borne allergens and
immunoresponsive proteins in wheat

Angéla Juhász¹,²,* Tatiana Belova³,*, Chris G. Florides¹, Csaba Maulis¹, Iris Fischer⁴, Gyöngyvér Gell², Zsófia Birinyi², Jami...

+ See all authors and affiliations

Science Advances 17 Aug 2018:
Vol. 4, no. 8, eara8602
DOI: 10.1126/sciadv.aar8602
Publications

<figure><img src="image_29.png" /></figure>

Research

Chromosome
mechanisms

Recent improvement
novo assemblies of
...

Anupriya Kaur Thil
Wulff, Manuel Spa
G. Krattinger

Genome Biology 20
Published on: 17 Au

> Full Text > PDF

Research

Impact of tr
wheat

Transposable element
The most recent as

Thomas Wicker, H.
González, Romain

Genome Biology 20
Published on: 17 Au

> Full Text > PDF

Research

Optical and
resolution of

Numerous scaffolds
improving the over

Gabriel Keeble-Ga
Frenkel, Abraham
Konkin, Pierre Sou

Genome Biology 20
Published on: 17 Au

> Full Text > PDF

Database

Linking the
reference ge

The Wheat@URGI
with access to the

Alaux et al. Genome Biology (2018) 19:111
https://doi.org/10.1186/s13059-018-1491-4

Genome Biology

DATABASE

Open Access

<figure><img src="image_30.png" /></figure>

CrossMark

Linking the International Wheat Genome Sequencing Consortium bread wheat reference genome sequence to wheat genetic and phenomic data

Michael Alaux<fnref n="1" />*; Jane Rogers⁵, Thomas Letellier<fnref n="1" />, Raphaël Flores<fnref n="1" />, Françoise Alfama<fnref n="1" />, Cyril Pommier<fnref n="1" />, Nacer Mohellibi<fnref n="1" />, Sophie Durand<fnref n="1" />, Erik Kimmel<fnref n="1" />, Célia Michotey<fnref n="1" />, Claire Guerche<fnref n="1" />, Mikaël Loaec<fnref n="1" />, Mathilde Lainé<fnref n="1" />, Delphine Steinbach<fnref n="1" />,⁴, Frédéric Choulet³, Hélène Rimbert³, Philippe Leroy³, Nicolas Guihot³, Jérôme Salse³, Catherine Feuillet³,⁵, International Wheat Genome Sequencing Consortium⁵, Etienne Paux³, Kellye Eversole⁷, Anne-Françoise Adam-Blondon<fnref n="1" /> and Hadi Quesneville<fnref n="1" />

Abstract

The Wheat@URGI portal has been developed to provide the international community of researchers and breeders with access to the bread wheat reference genome sequence produced by the International Wheat Genome Sequencing Consortium. Genome browsers, BLAST, and InterMine tools have been established for in-depth exploration of the genome sequence together with additional linked datasets including physical maps, sequence variations, gene expression, and genetic and phenomic data from other international collaborative projects already stored in the GpnlS information system. The portal provides enhanced search and browser features that will facilitate the deployment of the latest genomics resources in wheat improvement.

Keywords: Data integration, Information system, Big data, Wheat genomics, genetics and phenomics

Background

The International Wheat Genome Sequencing Consortium (IWGSC) [1] is an international collaborative group of growers, academic scientists, and public and private breeders that was established to generate a high-quality reference genome sequence of the hexaploid bread wheat, and to provide breeders with state-of-the-art tools for wheat improvement. The vision of the consortium is that the high-quality, annotated ordered genome sequence integrated with physical maps will serve as a foundation for the accelerated development of improved varieties and will empower all aspects of basic and applied wheat science to address the important challenge of food security. A first analysis of the reference sequence produced by the consortium (IWGSC RefSeq v1.0) was recently published [2].

To ensure that wheat breeding and research programs can make the most of this extensive genomic resource, the IWGSC endorsed the establishment of a data repository at URGI (Unité de Recherche Génomique Info/research unit in genomics and bioinformatics) from INRA (Institut National de la Recherche Agronomique/French national institute for agricultural research) to develop databases and browsers with relevant links to public data available worldwide. The IWGSC data repository is thus hosted by URGI to support public and private parties in data management as well as analysis and usage of the sequence data. Wheat functional genomics (expression, methylation, etc.), genetic, and phenomic data have increased concurrently, requiring the development of additional tools and resources to integrate different data for biologists and breeders. To manage this escalation of data, URGI has built this data repository for the wheat community with the following specific aims: (1) to store resources for which no public archive exists (e.g. physical maps,

<figure><img src="image_31.png" /></figure>

BMC

© The Author(s) 2018 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

with access to the bread wheat reference genome sequence produced by the International Wheat Genome S...

Michael Alaux, Jane Rogers, Thomas Letellier, Raphaël Flores, Françoise Alfama, Cyril Pommier, Nacer Mohellibi, Sophie Durand, Erik Kimmel, Célia Michotey, Claire Guerche, Mikaël Loaec, Mathilde Lainé, Delphine Steinbach, Frédéric Choulet, Hélène Rimbert...

Genome Biology 2018 19:111
Published on: 17 August 2018

Alaux et al., Genome Biology 2018
https://doi.org/10.1186/s13059-018-1491-4

<footnote>* Correspondence: michael.alaux@inra.fr</footnote>

<footnote n="1">¹URGI, INRA, Université Paris-Saclay, 78026 Versailles, France
Full list of author information is available at the end of the article</footnote>
Publications

<figure><img src="image_32.png" /></figure>

Research

Chromosome
mechanisms

Recent improvement
novo assemblies of
...

Anupriya Kaur Thil
Wulff, Manuel Spa
G. Krattinger

Genome Biology 20
Published on: 17 Au

> Full Text > PDF

Research

Impact of tr
wheat

Transposable element
The most recent as

Thomas Wicker, H.
González, Romain

Genome Biology 20
Published on: 17 Au

> Full Text > PDF

Research

Optical and
resolution of

Numerous scaffolds
improving the over

Gabriel Keeble-Ga
Frenkel, Abraham
Konkin, Pierre Sou

Genome Biology 20
Published on: 17 Au

> Full Text > PDF

Database

Linking the
reference ge

The Wheat@URGI

with access to the bread wheat reference genome sequence produced by the International Wheat Genome S...

Michael Alaux, Jane Rogers, Thomas Letellier, Raphaël Flores, Françoise Alfama, Cyril Pommier, Nacer Mohellibi, Sophie Durand, Erik Kimmel, Célia Michotey, Claire Guerche, Mikaël Loaec, Mathilde Lainé, Delphine Steinbach, Frédéric Choulet, Hélène Rimbert...

Genome Biology 2018 19:111

Published on: 17 August 2018

Alaux et al. Genome Biology (2018) 19:111
https://doi.org/10.1186/s13059-018-1491-4

Genome Biology

DATABASE

Open Access

<figure><img src="image_33.png" /></figure>

CrossMark

Linking the International Wheat Genome Sequencing Consortium bread wheat reference genome sequence to wheat genetic and phenomic data

Michael Alaux<fnref n="1" />*; Jane Rogers⁵, Thomas Letellier<fnref n="1" />, Raphaël Flores<fnref n="1" />, Françoise Alfama<fnref n="1" />, Cyril Pommier<fnref n="1" />, Nacer Mohellibi<fnref n="1" />, Sophie Durand<fnref n="1" />, Erik Kimmel<fnref n="1" />, Célia Michotey<fnref n="1" />, Claire Guerche<fnref n="1" />, Mikaël Loaec<fnref n="1" />, Mathilde Lainé<fnref n="1" />, Delphine Steinbach<fnref n="1" />,4, Frédéric Choulet³, Hélène Rimbert³, Philippe Leroy³, Nicolas Guilhot³, Jérôme Salse³, Catherine Feuillet³,5, International Wheat Genome Sequencing Consortium⁹, Etienne Paux³, Kellye Eversole⁷, Anne-Françoise Adam-Blondon<fnref n="1" /> and Hadi Quesneville<fnref n="1" />

Abstract

The Wheat@URGI portal has been developed to provide the international community of researchers and breeders with access to the bread wheat reference genome sequence produced by the International Wheat Genome Sequencing Consortium. Genome browsers, BLAST, and InterMine tools have been established for in-depth exploration of the genome sequence together with additional linked datasets including physical maps, sequence variations, gene expression, and genetic and phenomic data from other international collaborative projects already stored in the GpnlS information system. The portal provides enhanced search and browser features that will facilitate the deployment of the latest genomics resources in wheat improvement.

**Keywords:** Data integration, Information system, Big data, Wheat genomics, genetics and phenomics

Background

The International Wheat Genome Sequencing Consortium (IWGSC) [1] is an international collaborative group of growers, academic scientists, and public and private breeders that was established to generate a high-quality reference genome sequence of the hexaploid bread wheat, and to provide breeders with state-of-the-art tools for wheat improvement. The vision of the consortium is that the high-quality, annotated ordered genome sequence integrated with physical maps will serve as a foundation for the accelerated development of improved varieties and will empower all aspects of basic and applied wheat science to address the important challenge of food security. A first analysis of the reference sequence produced by the consortium (IWGSC RefSeq v1.0) was recently published [2].

To ensure that wheat breeding and research programs
can make the most of this extensive genomic resource,
the IWGSC endorsed the establishment of a data reposi-
tory at URGI (Unité de Recherche Génomique Info/re-
search unit in genomics and bioinformatics) from INRA
(Institut National de la Recherche Agronomique/French
national institute for agricultural research) to develop
databases and browsers with relevant links to public data
available worldwide. The IWGSC data repository is thus
hosted by URGI to support public and private parties in
data management as well as analysis and usage of the se-
quence data. Wheat functional genomics (expression,
methylation, etc.), genetic, and phenomic data have in-
creased concurrently, requiring the development of addi-
tional tools and resources to integrate different data for
biologists and breeders. To manage this escalation of data,
URGI has built this data repository for the wheat commu-
nity with the following specific aims: (1) to store resources
for which no public archive exists (e.g. physical maps,

<figure><img src="image_34.png" /></figure>

BMC

Alaux et al., Genome Biology 2018
https://doi.org/10.1186/s13059-018-1491-4

<footnote>* Correspondence: michael.alaux@inra.fr</footnote>

<footnote n="1">¹URGI, INRA, Université Paris-Saclay, 78026 Versailles, France
Full list of author information is available at the end of the article</footnote>

<footnote>© The Author(s) 2018 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.</footnote>
<figure><img src="image_32.png" /></figure>

A wealth of data available
<figure><img src="image_35.png" /></figure>

A wealth of data available
Physical maps

<figure><img src="image_33.png" /></figure>

<figure><img src="image_34.png" /></figure>

<figure><img src="image_35.png" /></figure>

LTC

Frenkel et al., BMC Bioinformatics 2010

https://doi.org/10.1186/1471-2105-11-584
Physical maps

<figure><img src="image_36.png" /></figure>

<figure><img src="image_37.png" /></figure>

<figure><img src="image_38.png" /></figure>

LTC

Frenkel et al., BMC Bioinformatics 2010
https://doi.org/10.1186/1471-2105-11-584
# Other IWGSC data hosted

## Expression data

Transcriptome atlas

RNA-seq mapping of 850 samples – 32 tissues

* 85% HC genes expressed

* 49% LC genes expressed

Ramírez-González et al., *Science* 2018
https://doi.org/10.1126/science.aar6089

## Variation data

SNPs

GBS

Exome capture

Varietal SNPs

<figure><img src="image_36.png" /></figure>

Rimbert et al., *PLOS ONE* 2018
https://doi.org/10.1371/journal.pone.0186329

Dubcovsky, Akhunov
# Other IWGSC data hosted

## Expression data

Transcriptome atlas

RNA-seq mapping of 850 samples – 32 tissues

* 85% HC genes expressed

* 49% LC genes expressed

Ramírez-González et al., *Science* 2018

https://doi.org/10.1126/science.aar6089

## Variation data

SNPs

GBS

Exome capture

Varietal SNPs

<figure><img src="image_39.png" /></figure>

Rimbert et al., *PLOS ONE* 2018

https://doi.org/10.1371/journal.pone.0186329

Dubcovsky, Akhunov
# Wheat gene pool

## Other CS assembly

TGACv1

<figure><img src="image_37.png" /></figure>

Clavijo et al., Genome Research 2017
https://doi.org/10.1101/gr.217117.116

## Other wheat species

- Diploid progenitor of Aegilops taushii

- Triticum durum

- etc.
## Other CS assembly

TGACv1

<figure><img src="image_40.png" /></figure>

Clavijo et al., Genome Research 2017
https://doi.org/10.1101/gr.217117.116

## Other wheat species

- Diploid progenitor of Aegilops taushii

- Triticum durum

- etc.
# Wheat genetic and phenomic data

from French and European projects since 2000

<table><thead><tr><th>Data type</th><th>Object</th><th>Total number</th><th>No. open access</th><th>No. restricted access to projects</th></tr></thead><tbody><tr><td rowspan="2">Genetic resources</td><td>Taxon</td><td>56</td><td>56</td><td>0</td></tr><tr><td>Accession</td><td>12,839</td><td>10,016</td><td>2823</td></tr><tr><td rowspan="3">Genetic maps</td><td>Map</td><td>30</td><td>29</td><td>1</td></tr><tr><td>Marker</td><td>704,822</td><td>34,164</td><td>670,658</td></tr><tr><td>QTL</td><td>749</td><td>465</td><td>284</td></tr><tr><td rowspan="2">SNP discovery</td><td>Sequence Variation</td><td>4,189,312,581</td><td>90</td><td>4,189,312,491</td></tr><tr><td>SNP, indel</td><td>724,132</td><td>95</td><td>724,037</td></tr><tr><td rowspan="3">Genotyping (high throughput)</td><td>Experiment</td><td>23</td><td>2</td><td>21</td></tr><tr><td>Sample</td><td>8885</td><td>47</td><td>8872</td></tr><tr><td>Marker</td><td>668,540</td><td>0</td><td>668,540</td></tr><tr><td rowspan="4">Phenotyping</td><td>Trial</td><td>850</td><td>821</td><td>29</td></tr><tr><td>Plot</td><td>3660</td><td>2985</td><td>901</td></tr><tr><td>Variable</td><td>282</td><td>89</td><td>195</td></tr><tr><td>Observation</td><td>1,171,172</td><td>527,981</td><td>643,191</td></tr><tr><td rowspan="5">GWAS</td><td>Analysis</td><td>1555</td><td>43</td><td>1512</td></tr><tr><td>Sample</td><td>2365</td><td>1839</td><td>526</td></tr><tr><td>Variable</td><td>359</td><td>37</td><td>322</td></tr><tr><td>Marker</td><td>123,866</td><td>4109</td><td>119,757</td></tr><tr><td>Association</td><td>824,217</td><td>48,596</td><td>775,621</td></tr></tbody></table>

<figure><img src="image_38.png" /></figure>

<figure><img src="image_39.png" /></figure>

<figure><img src="image_40.png" /></figure>

<figure><img src="image_41.png" /></figure>

<figure><img src="image_42.png" /></figure>
# Wheat genetic and phenomic data

from French and European projects since 2000

<table><thead><tr><th>Data type</th><th>Object</th><th>Total number</th><th>No. open access</th><th>No. restricted access to projects</th></tr></thead><tbody><tr><td rowspan="2">Genetic resources</td><td>Taxon</td><td>56</td><td>56</td><td>0</td></tr><tr><td>Accession</td><td>12,839</td><td>10,016</td><td>2823</td></tr><tr><td rowspan="3">Genetic maps</td><td>Map</td><td>30</td><td>29</td><td>1</td></tr><tr><td>Marker</td><td>704,822</td><td>34,164</td><td>670,658</td></tr><tr><td>QTL</td><td>749</td><td>465</td><td>284</td></tr><tr><td rowspan="2">SNP discovery</td><td>Sequence Variation</td><td>4,189,312,581</td><td>90</td><td>4,189,312,491</td></tr><tr><td>SNP, indel</td><td>724,132</td><td>95</td><td>724,037</td></tr><tr><td rowspan="3">Genotyping (high throughput)</td><td>Experiment</td><td>23</td><td>2</td><td>21</td></tr><tr><td>Sample</td><td>8885</td><td>47</td><td>8872</td></tr><tr><td>Marker</td><td>668,540</td><td>0</td><td>668,540</td></tr><tr><td rowspan="4">Phenotyping</td><td>Trial</td><td>850</td><td>821</td><td>29</td></tr><tr><td>Plot</td><td>3660</td><td>2985</td><td>901</td></tr><tr><td>Variable</td><td>282</td><td>89</td><td>195</td></tr><tr><td>Observation</td><td>1,171,172</td><td>527,981</td><td>643,191</td></tr><tr><td rowspan="5">GWAS</td><td>Analysis</td><td>1555</td><td>43</td><td>1512</td></tr><tr><td>Sample</td><td>2365</td><td>1839</td><td>526</td></tr><tr><td>Variable</td><td>359</td><td>37</td><td>322</td></tr><tr><td>Marker</td><td>123,866</td><td>4109</td><td>119,757</td></tr><tr><td>Association</td><td>824,217</td><td>48,596</td><td>775,621</td></tr></tbody></table>

<figure><img src="image_41.png" /></figure>

<figure><img src="image_42.png" /></figure>

<figure><img src="image_43.png" /></figure>

<figure><img src="image_44.png" /></figure>

<figure><img src="image_45.png" /></figure>
<figure><img src="image_43.png" /></figure>

# Data integration
<figure><img src="image_46.png" /></figure>

# Data integration
Make your data great

<figure><img src="image_44.png" /></figure>

FINDABLE

<figure><img src="image_45.png" /></figure>

Persistent identifier
(e.g. URI, DOI)
Metadata
Indexed

<figure><img src="image_46.png" /></figure>

ACCESSIBLE

<figure><img src="image_47.png" /></figure>

Data portal
Open data

<figure><img src="image_48.png" /></figure>

INTER-
OPERABLE

<figure><img src="image_49.png" /></figure>

Web API
Metadata
DMP
Ontologies

<figure><img src="image_50.png" /></figure>

REUSABLE

<figure><img src="image_51.png" /></figure>

Standards
Licence
Documentation
Publication
Make your data great

<figure><img src="image_47.png" /></figure>

FINDABLE

<figure><img src="image_48.png" /></figure>

Persistent identifier
(e.g. URI, DOI)
Metadata
Indexed

<figure><img src="image_49.png" /></figure>

ACCESSIBLE

<figure><img src="image_50.png" /></figure>

Data portal
Open data

<figure><img src="image_51.png" /></figure>

INTER-
OPERABLE

<figure><img src="image_52.png" /></figure>

Web API
Metadata
DMP
Ontologies

<figure><img src="image_53.png" /></figure>

REUSABLE

<figure><img src="image_54.png" /></figure>

Standards
Licence
Documentation
Publication
<figure><img src="image_52.png" /></figure>
<figure><img src="image_55.png" /></figure>
# Integration using key data

Key data are interoperability « pivots »

<figure><img src="image_53.png" /></figure>
# Integration using key data

Key data are interoperability « pivots »

<figure><img src="image_56.png" /></figure>
# Data integration in GnpIS

<figure><img src="image_54.png" /></figure>

JBrowse

BLAST

InterMine

GBrowse
# Data integration in GnpIS

<figure><img src="image_57.png" /></figure>

JBrowse

BLAST

InterMine

GBrowse
<figure><img src="image_55.png" /></figure>

Wheat@URGI portal
<figure><img src="image_58.png" /></figure>

Wheat@URGI portal
<figure><img src="image_56.png" /></figure>
<figure><img src="image_59.png" /></figure>
## IWGSC Data Repository

Webpages + File Download
including README, MD5

<figure><img src="image_57.png" /></figure>

27k downloads in 2018

## Index of /download/iwgsc/IWGSC_RefSeq_Annotations/v1.0

<table><thead><tr><th>[ICO]</th><th>Name</th><th>Last modified</th><th>Size</th><th>Description</th></tr></thead><tbody><tr><td>[DIR]</td><td>Parent Directory</td><td></td><td></td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 FunctionalAnnotation_v1.zip</td><td>06-Dec-2017 14:49</td><td>19M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 FunctionalAnnotation_v1.zip.md5.txt</td><td>25-Jan-2018 16:36</td><td>81</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 HighConf_2017Mar13.gff3.zip</td><td>24-Mar-2017 17:26</td><td>11M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 HighConf_2017Mar13.gff3.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>79</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 HighConf_CDS_2017Mar13.fa.zip</td><td>24-Mar-2017 17:27</td><td>43M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 HighConf_CDS_2017Mar13.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>81</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 HighConf_PROTEIN_2017Mar13.fa.zip</td><td>24-Mar-2017 17:27</td><td>26M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 HighConf_PROTEIN_2017Mar13.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>85</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 HighConf_REPR_CDS_2017Apr03.fa.zip</td><td>11-Apr-2017 15:45</td><td>40M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 HighConf_REPR_CDS_2017Apr03.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>86</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 HighConf_REPR_PROTEIN_2017Apr03.fa.zip</td><td>11-Apr-2017 15:45</td><td>25M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 HighConf_REPR_PROTEIN_2017Apr03.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>90</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 HighConf_UNTR_2017May05.gff3.zip</td><td>09-May-2017 09:53</td><td>18M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 HighConf_UNTR_2017May05.gff3.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>83</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 ISBP.fa.zip</td><td>03-Jan-2018 18:06</td><td>209M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 ISBP.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>64</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 LowConf_2017Mar13.gff3.zip</td><td>24-Mar-2017 17:27</td><td>7.3M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 LowConf_2017Mar13.gff3.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>78</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 LowConf_CDS_2017Mar13.fa.zip</td><td>24-Mar-2017 17:27</td><td>30M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 LowConf_CDS_2017Mar13.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>80</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 LowConf_PROTEIN_2017Mar13.fa.zip</td><td>24-Mar-2017 17:27</td><td>18M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 LowConf_PROTEIN_2017Mar13.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>84</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 LowConf_REPR_CDS_2017Apr03.fa.zip</td><td>11-Apr-2017 15:45</td><td>30M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 LowConf_REPR_CDS_2017Apr03.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>85</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 LowConf_REPR_PROTEIN_2017Apr03.fa.zip</td><td>11-Apr-2017 15:45</td><td>18M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 LowConf_REPR_PROTEIN_2017Apr03.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>89</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 LowConf_UNTR_2017May05.gff3.zip</td><td>09-May-2017 09:53</td><td>10M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 LowConf_UNTR_2017May05.gff3.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>82</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 Marker_mapping_summary_2017Mar13.zip</td><td>24-Mar-2017 17:27</td><td>39M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 Marker_mapping_summary_2017Mar13.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>88</td><td></td></tr></tbody></table>
## IWGSC Data Repository

Webpages + File Download
including README, MD5

<figure><img src="image_60.png" /></figure>

27k downloads in 2018

## Index of /download/iwgsc/IWGSC_RefSeq_Annotations/v1.0

<table><thead><tr><th>[ICO]</th><th>Name</th><th>Last modified</th><th>Size</th><th>Description</th></tr></thead><tbody><tr><td>[DIR]</td><td>Parent Directory</td><td></td><td></td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 FunctionalAnnotation_v1.zip</td><td>06-Dec-2017 14:49</td><td>19M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 FunctionalAnnotation_v1.zip.md5.txt</td><td>25-Jan-2018 16:36</td><td>81</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 HighConf_2017Mar13.gff3.zip</td><td>24-Mar-2017 17:26</td><td>11M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 HighConf_2017Mar13.gff3.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>79</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 HighConf_CDS_2017Mar13.fa.zip</td><td>24-Mar-2017 17:27</td><td>43M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 HighConf_CDS_2017Mar13.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>81</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 HighConf_PROTEIN_2017Mar13.fa.zip</td><td>24-Mar-2017 17:27</td><td>26M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 HighConf_PROTEIN_2017Mar13.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>85</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 HighConf_REPR_CDS_2017Apr03.fa.zip</td><td>11-Apr-2017 15:45</td><td>40M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 HighConf_REPR_CDS_2017Apr03.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>86</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 HighConf_REPR_PROTEIN_2017Apr03.fa.zip</td><td>11-Apr-2017 15:45</td><td>25M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 HighConf_REPR_PROTEIN_2017Apr03.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>90</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 HighConf_UNTR_2017May05.gff3.zip</td><td>09-May-2017 09:53</td><td>18M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 HighConf_UNTR_2017May05.gff3.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>83</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 ISBP.fa.zip</td><td>03-Jan-2018 18:06</td><td>209M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 ISBP.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>64</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 LowConf_2017Mar13.gff3.zip</td><td>24-Mar-2017 17:27</td><td>7.3M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 LowConf_2017Mar13.gff3.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>78</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 LowConf_CDS_2017Mar13.fa.zip</td><td>24-Mar-2017 17:27</td><td>30M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 LowConf_CDS_2017Mar13.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>80</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 LowConf_PROTEIN_2017Mar13.fa.zip</td><td>24-Mar-2017 17:27</td><td>18M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 LowConf_PROTEIN_2017Mar13.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>84</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 LowConf_REPR_CDS_2017Apr03.fa.zip</td><td>11-Apr-2017 15:45</td><td>30M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 LowConf_REPR_CDS_2017Apr03.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>85</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 LowConf_REPR_PROTEIN_2017Apr03.fa.zip</td><td>11-Apr-2017 15:45</td><td>18M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 LowConf_REPR_PROTEIN_2017Apr03.fa.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>89</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 LowConf_UNTR_2017May05.gff3.zip</td><td>09-May-2017 09:53</td><td>10M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 LowConf_UNTR_2017May05.gff3.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>82</td><td></td></tr><tr><td>[]</td><td>iwgsc_refseqv1.0 Marker_mapping_summary_2017Mar13.zip</td><td>24-Mar-2017 17:27</td><td>39M</td><td></td></tr><tr><td>[TXT]</td><td>iwgsc_refseqv1.0 Marker_mapping_summary_2017Mar13.zip.md5.txt</td><td>05-Dec-2017 15:01</td><td>88</td><td></td></tr></tbody></table>
# Tools - developed by URGI

## GnpIS-coreDB

Information System to manage genetic and phenomic data

<figure><img src="image_58.png" /></figure>

GnpIS-coreDB

+ Synteny data

<figure><img src="image_59.png" /></figure>

18k visits in 2018

<figure><img src="image_60.png" /></figure>

### Phenotypes

- GxE

- QTLs

- GWAS

<figure><img src="image_61.png" /></figure>

### Genetics

- Genetic maps

- Markers, Polymorphisms, Genotyping

- Genetic resources

<figure><img src="image_62.png" /></figure>

<figure><img src="image_63.png" /></figure>

<figure><img src="image_64.png" /></figure>

BrAPI

<figure><img src="image_65.png" /></figure>

Equisetum Accessible Interoperable

<figure><img src="image_66.png" /></figure>
# Tools - developed by URGI

## GnpIS-coreDB

Information System to manage genetic and phenomic data

<figure><img src="image_61.png" /></figure>

GnpIS-coreDB

+ Synteny data

<figure><img src="image_62.png" /></figure>

18k visits in 2018

<figure><img src="image_63.png" /></figure>

Phenotypes

• GxE

• QTLs

• GWAS

<figure><img src="image_64.png" /></figure>

Genetics

• Genetic maps

• Markers, Polymorphisms, Genotyping

• Genetic resources

<figure><img src="image_65.png" /></figure>

<figure><img src="image_66.png" /></figure>

<figure><img src="image_67.png" /></figure>

BrAPI

<figure><img src="image_68.png" /></figure>

E

A

A

I

I

R

R

<figure><img src="image_69.png" /></figure>

<figure><img src="image_70.png" /></figure>

<figure><img src="image_71.png" /></figure>

<figure><img src="image_72.png" /></figure>
# Tools – instantiated by URGI

<figure><img src="image_67.png" /><figcaption>## BLAST</figcaption></figure>

<figure><img src="image_68.png" /></figure>

280k searches in 2018
# Tools - instantiated by URGI

## BLAST

<figure><img src="image_73.png" /></figure>

<figure><img src="image_74.png" /></figure>

280k searches in 2018

<table><thead><tr><th rowspan="2">Query</th><th rowspan="2">Databanks</th><th rowspan="2">Subject</th><th colspan="2">HSP</th><th rowspan="2">Score</th><th rowspan="2">Identities (Query length)</th><th rowspan="2">Percentage</th><th rowspan="2">Expect</th><th rowspan="2">Start</th><th rowspan="2">End</th></tr><tr><th>HSP</th><th>Browse</th></tr></thead><tbody><tr><td>Synth12</td><td>IWGSC RefSeq v1.0 chromosome 3B only</td><td>chr3B</td><td>HSP</td><td>Browse</td><td>2805</td><td>1559/1560 (1560)</td><td>99</td><td>0.0</td><td>10949433</td><td>10950991</td></tr><tr><td>Synth12</td><td>IWGSC RefSeq v1.0 chromosome 4A only</td><td>chr4A</td><td>HSP</td><td>Browse</td><td>848</td><td>630/731 (1560)</td><td>86</td><td>0.0</td><td>589960558</td><td>589961274</td></tr><tr><td>Synth12</td><td>IWGSC RefSeq v1.0 chromosome 7D only</td><td>chr7D</td><td>HSP</td><td>Browse</td><td>845</td><td>633/732 (1560)</td><td>86</td><td>0.0</td><td>73268459</td><td>73269168</td></tr><tr><td>Synth12</td><td>IWGSC RefSeq v1.0 chromosome 5A only</td><td>chr5A</td><td>HSP</td><td>Browse</td><td>836</td><td>625/731 (1560)</td><td>85</td><td>0.0</td><td>651285927</td><td>651286633</td></tr><tr><td>Synth12</td><td>IWGSC RefSeq v1.0 chromosome 3D only</td><td>chr3D</td><td>HSP</td><td>Browse</td><td>816</td><td>631/752 (1560)</td><td>84</td><td>0.0</td><td>600648937</td><td>600649643</td></tr><tr><td>Synth12</td><td>IWGSC RefSeq v1.0 chromosome 7A only</td><td>chr7A</td><td>HSP</td><td>Browse</td><td>814</td><td>634/744 (1560)</td><td>85</td><td>0.0</td><td>637182879</td><td>637182163</td></tr><tr><td>Synth12</td><td>IWGSC RefSeq v1.0 chromosome 5B only</td><td>chr5B</td><td>HSP</td><td>Browse</td><td>809</td><td>623/735 (1560)</td><td>85</td><td>0.0</td><td>28361821</td><td>28361109</td></tr><tr><td>Synth12</td><td>IWGSC RefSeq v1.0 chromosome 4D only</td><td>chr4D</td><td>HSP</td><td>Browse</td><td>809</td><td>629/749 (1560)</td><td>84</td><td>0.0</td><td>87367538</td><td>87366825</td></tr><tr><td>Synth12</td><td>IWGSC RefSeq v1.0 chromosome 2A only</td><td>chr2A</td><td>HSP</td><td>Browse</td><td>809</td><td>622/730 (1560)</td><td>85</td><td>0.0</td><td>458531602</td><td>458530889</td></tr><tr><td>Synth12</td><td>IWGSC RefSeq v1.0 chromosome 1D only</td><td>chr1D</td><td>HSP</td><td>Browse</td><td>798</td><td>631/750 (1560)</td><td>84</td><td>0.0</td><td>416979484</td><td>416978759</td></tr><tr><td>Synth12</td><td>IWGSC RefSeq v1.0 chromosome 5D only</td><td>chr5D</td><td>HSP</td><td>Browse</td><td>796</td><td>603/706 (1560)</td><td>85</td><td>0.0</td><td>343115315</td><td>343115996</td></tr><tr><td>Synth12</td><td>IWGSC RefSeq v1.0 chromosome 3A only</td><td>chr3A</td><td>HSP</td><td>Browse</td><td>796</td><td>605/710 (1560)</td><td>85</td><td>0.0</td><td>555399983</td><td>555399288</td></tr></tbody></table>
<figure><img src="image_69.png" /><figcaption>## JBrowse</figcaption></figure>

40k visits in 2018

<figure><img src="image_70.png" /></figure>
<figure><img src="image_75.png" /></figure>

<figure><img src="image_76.png" /></figure>
# Tools - instantiated by URGI

## InterMine

<figure><img src="image_71.png" /></figure>

4k visits in 2018

<figure><img src="image_72.png" /></figure>
# Tools - instantiated by URGI

## InterMine

<figure><img src="image_77.png" /></figure>

4k visits in 2018

<figure><img src="image_78.png" /></figure>
## WheatIS data discovery

<figure><img src="image_73.png" /></figure>
## WheatIS data discovery

<figure><img src="image_79.png" /></figure>
# Tools - collaborative development

<figure><img src="image_74.png" /></figure>

WheatIS

How To Join

<figure><img src="image_75.png" /></figure>

Clear

<figure><img src="image_76.png" /></figure>

fhb

<figure><img src="image_77.png" /></figure>

<figure><img src="image_78.png" /></figure>

<figure><img src="image_79.png" /></figure>

1-10 of 583

<figure><img src="image_80.png" /></figure>

<figure><img src="image_81.png" /></figure>

<figure><img src="image_82.png" /></figure>

10 results per page

<figure><img src="image_83.png" /></figure>

<figure><img src="image_84.png" /></figure>

<figure><img src="image_85.png" /></figure>

### Database

- [ ] TRITICEAE TOOLBOX (437)

- [ ] OPENMINTED (126)

- [ ] WHEAT GENE CATALOG AT KOMUGI (10)

- [ ] GRAINGENES (7)

- [ ] GNPIIS (2)

- [ ] PLANTPHENODB (1)

### Type

- [ ] ACCESSION (361)

- [ ] BIBLIOGRAPHY (126)

- [ ] EXPERIMENT (60)

- [ ] PHENOTYPE (17)

- [ ] GENE (10)

- [ ] GENETIC MAP (6)

- [ ] PHENOTYPE (1)

- [ ] PHYSICAL MAP (1)

- [ ] QTL (1)

### Species

- [ ] TRITICUM AESTIVUM (454)

- [ ] TRITICUM (126)

- [ ] LEYMUS RACEMOSUS (1)

- [ ] TRITICUM DURUM (1)

- [ ] TRITICUM TURGIDUM SSP. DURUM; TRITICUM TURGIDUM SSP. DICOCCOIDES (1)

- [ ] TRITICUM TURGIDUM VAR. DICOCCOIDES (1)

### URGI (UP):

* IWGSC@GnplS: 19241077

* GnplS: 156843

* SouthGreen AgroLD: 137060

* KNetMiner: 110775

* OpenMinTeD: 3398

* WheatIS File Repository: 6

### EBI (UP):

* Ensembl Plants: 2391552

<table><thead><tr><th>Link to source</th><th>Source</th><th>Type</th><th>Taxon</th><th>Description</th></tr></thead><tbody><tr><td>10.1007/s10681-006-9153-0</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>Resistance gene analogs associated with Fusarium head blight resistance in wheat Fusarium head blight (FHB) is one of the most destructive [...]</td></tr><tr><td>10.1111/j.1364-3703.2006.00349.x</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>Characterization of Arabidopsis thaliana-Fusarium graminearum interactions and identification of variation in resistance among ecotypes Fusarium graminearum causes fusarium head blight (FHB) of wheat lines for resistance to Fusarium head blight The major quantitative trait locus (QTL) on 3[...]</td></tr><tr><td>10.1139/G06-010</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>A resistance-like gene identified by EST mapping and its association with a QTL controlling Fusarium head blight infection on wheat chromosome 3BS Fusarium head blight (FHB) is a ma[...]</td></tr><tr><td>10.1007/s00122-006-0249-7</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>Fine mapping Fhb1, a major gene controlling fusarium head blight resistance in bread wheat (Triticum[...]</td></tr><tr><td>10.1007/s10681-005-9047-6</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>Genetic diversity of resistance genes controlling fusarium head blight with simple sequence repeat markers in thirty-six wheat accessions from east asian origin Fusarium head blight[...]</td></tr><tr><td>10.1007/s00299-005-0059-4</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>A model wheat cultivar for transformation to improve resistance to Fusarium head blight Fusarium head blight (FHB), caused primarily by Fu[...]</td></tr><tr><td>10.1270/jsbbs.56.25</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>QTL analysis of fusarium head blight severity in recombinant inbred population derived from a cross between two-rowed barley varieties Fusarium head blight (FHB) severity was evalu[...]</td></tr><tr><td>10.1111/j.1439-0523.2006.01182.x</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>Validation of two major quantitative trait loci for fusarium head blight resistance in Chinese wheat line W1[...]</td></tr><tr><td>10.1007/s00122-005-0156-3</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>Mapping QTL associated with resistance to Fusarium head blight in the Nanda2419 x Wangshuibai population. II: Type I resistance Fusari[...]</td></tr></tbody></table>

<figure><img src="image_86.png" /></figure>

27k searches in 2018
# Tools - collaborative development

WheatIS

How To Join

<figure><img src="image_80.png" /></figure>

Clear

**Database**

☐ TRITICEAE TOOLBOX (437)

☐ OPENMINTED (126)

☐ WHEAT GENE CATALOG AT KOMUGI (10)

☐ GRAINGENES (7)

☐ GNPIS (2)

☐ PLANTPHENODB (1)

**Type**

☐ ACCESSION (361)

☐ BIBLIOGRAPHY (126)

☐ EXPERIMENT (60)

☐ PHENOTYPE (17)

☐ GENE (10)

☐ GENETIC MAP (6)

☐ PHENOTYPE (1)

☐ PHYSICAL MAP (1)

☐ QTL (1)

**Species**

☐ TRITICUM AESTIVUM (454)

☐ TRITICUM (126)

☐ LEYMUS RACEMOSUS (1)

☐ TRITICUM DURUM (1)

☐ TRITICUM TURGIDUM SSP.

☐ DURUM; TRITICUM TURGIDUM SSP.

☐ DICOCCOIDES (1)

☐ TRITICUM TURGIDUM VAR.

☐ DICOCCOIDES (1)

fhb

<figure><img src="image_81.png" /></figure>

<figure><img src="image_82.png" /></figure>

<figure><img src="image_83.png" /></figure>

1-10 of 583

<figure><img src="image_84.png" /></figure>

<figure><img src="image_85.png" /></figure>

<figure><img src="image_86.png" /></figure>

10 results per page

<figure><img src="image_87.png" /></figure>

<figure><img src="image_88.png" /></figure>

<figure><img src="image_89.png" /></figure>

<table><thead><tr><th>Link to source</th><th>Source</th><th>Type</th><th>Taxon</th><th>Description</th></tr></thead><tbody><tr><td>10.1007/s10681-006-9153-0</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>Resistance gene analogs associated with Fusarium head blight resistance in wheat Fusarium head blight (FHB) is one of the most destructive [...]</td></tr><tr><td>10.1111/j.1364-3703.2006.00349.x</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>Characterization of Arabidopsis thaliana-Fusarium graminearum interactions and identification of variation in resistance among ecotypes Fusarium graminearum causes fusarium head blight (FHB) of wheat lines for resistance to Fusarium head blight The major quantitative trait locus (QTL) on 3[...]</td></tr><tr><td>10.1139/G06-010</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>A resistance-like gene identified by EST mapping and its association with a QTL controlling Fusarium head blight infection on wheat chromosome 3BS Fusarium head blight (FHB) is a ma[...]</td></tr><tr><td>10.1007/s00122-006-0249-7</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>Fine mapping Fhb1, a major gene controlling fusarium head blight resistance in bread wheat (Triticum[...]</td></tr><tr><td>10.1007/s10681-005-9047-6</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>Genetic diversity of resistance genes controlling fusarium head blight with simple sequence repeat markers in thirty-six wheat accessions from east asian origin Fusarium head blight[...]</td></tr><tr><td>10.1007/s00299-005-0059-4</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>A model wheat cultivar for transformation to improve resistance to Fusarium head blight Fusarium head blight (FHB), caused primarily by Fu[...]</td></tr><tr><td>10.1270/jsbbs.56.25</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>QTL analysis of fusarium head blight severity in recombinant inbred population derived from a cross between two-rowed barley varieties Fusarium head blight (FHB) severity was evalu[...]</td></tr><tr><td>10.1111/j.1439-0523.2006.01182.x</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>Validation of two major quantitative trait loci for fusarium head blight resistance in Chinese wheat line W1[...]</td></tr><tr><td>10.1007/s00122-005-0156-3</td><td>OpenMinTeD</td><td>Bibliography</td><td>Triticum</td><td>Mapping QTL associated with resistance to Fusarium head blight in the Nanda2419 x Wangshuibai population. II: Type I resistance Fusari[...]</td></tr></tbody></table>

**URGI (UP):**

o IWGSC@GnplS: 19241077

o GnplS: 156843

o SouthGreen AgroLD: 137060

o KNetMiner: 110775

o OpenMinTeD: 3398

o WheatIS File Repository: 6

**EBI (UP):**

o Ensembl Plants: 2391552

<figure><img src="image_90.png" /></figure>

27k searches in 2018
# Use case: From a gene to genetic studies

https://wheat-urgi.versailles.inra.fr/

<figure><img src="image_87.png" /></figure>
# Use case:
## From a gene to genetic studies

https://wheat-urgi.versailles.inra.fr/

<figure><img src="image_91.png" /></figure>
# Use case:
## From a gene to genetic studies

https://urgi.versailles.inra.fr/blast_iwgsc

<figure><img src="image_88.png" /></figure>
## Use case:
# From a gene to genetic studies

https://urgi.versailles.inra.fr/blast_iwgsc

<figure><img src="image_92.png" /></figure>
# Use case: From a gene to genetic studies

<figure><img src="image_89.png" /></figure>
<figure><img src="image_93.png" /><figcaption># Use case: From a gene to genetic studies</figcaption></figure>
# Use case: From a gene to genetic studies

Marker: wPt4131

<figure><img src="image_90.png" /></figure>
# Use case: From a gene to genetic studies

Marker: wPt4131

MARKER

Marker

Taxon :

Marker

Marker

Target :

Associa

MAPPED

Mapped k

Locus

XwPt-4

XwPt-4

## Association results

DETAILS

<table><tr><td>Number of association analyses:</td><td>24</td></tr><tr><td>Number of panels:</td><td>2</td></tr><tr><td>Number of chromosomes:</td><td>0</td></tr><tr><td>Number of associated markers:</td><td>1</td></tr><tr><td>Number of associated traits:</td><td>24</td></tr><tr><td>Number of phenotyping treatments:</td><td>0</td></tr><tr><td>Number of phenotyping years:</td><td>2</td></tr><tr><td>Number of phenotyping sites:</td><td>2</td></tr></table>

Filters:

Traits

Treatments

Locations

Years

<figure><img src="image_94.png" /></figure>

Dough quality: M-Consistency

<figure><img src="image_95.png" /></figure>

Dough quality: M-Elasticity

<figure><img src="image_96.png" /></figure>

Dough quality: M-Peak Time

<figure><img src="image_97.png" /></figure>

Dough quality: M-Chr 4B

<figure><img src="image_98.png" /></figure>

Grain Hardness

8

6

## ASSOCIATION RESULTS

<figure><img src="image_99.png" /></figure>

1-10 of 24

<figure><img src="image_100.png" /></figure>

Boxplot

Experimer

4

2

<figure><img src="image_101.png" /></figure>

Association

<figure><img src="image_102.png" /></figure>

Association

1

<figure><img src="image_103.png" /></figure>

Association_Qualité 366

<figure><img src="image_104.png" /></figure>

Association_SDD 196

<figure><img src="image_105.png" /></figure>

Association_Qualité 366

<figure><img src="image_106.png" /></figure>

Association_SDD 196

<figure><img src="image_107.png" /></figure>

Association_SDD 196

<figure><img src="image_108.png" /></figure>

Association_SDD 196

<figure><img src="image_109.png" /></figure>

Association_Qualité 366

<figure><img src="image_110.png" /></figure>

Association_Qualité 366

DETAILS ON ITEM

Marker

cfn0655053

## Trait card

TRAIT DETAILS

Trait name

grain yield

Trait code

WIPO:0000217

Trait description

grain yield

Unit

qx/ha

Short remark

Theme

Quality

Genoplante classification

Agronomic

MetaQTLs

-

ASSOCIATED MEASURES

Number of measures: 14

Measure

Description

Experimentation

GY_RER-F7 MO_99

grain yield

RER-F7 MO_99

GY_cf 9 Np

grain yield

cf 9 Np

GY_ms 9 Np

grain yield

ms 9 Np

GY_ms 9 NI

grain yield

ms 9 NI

GY_sb 9 NI

grain yield

sb 9 NI

GY_nw 9 Np

grain yield

nw 9 Np

GY_nw 9 NI

grain yield

nw 9 NI

GY_ml 8 Np

grain yield

ml 8 Np

GY_cf 8 Np

grain yield

cf 8 Np

GY_RER-F7 RN_99

grain yield

RER-F7 RN_99

GY_RER-F7 LM_99

grain yield

RER-F7 LM_99

GY_RER-F7 CVIL_99

grain yield

RER-F7 CVIL_99

GY_RER-F7 CHAL_99

grain yield

RER-F7 CHAL_99

GY_RER-F7 CF_99

grain yield

RER-F7 CF_99

ASSOCIATED PHENOTYPES

See phenotypes for trait WIPO:0000217

CC_Qualité

Wholemeal Flour color

ColFa-a*

Clermont-F

## Phenotypes

Back to Form

Search parameters(s):

Variable(s): WIPO:0000217

<figure><img src="image_111.png" /></figure>

Geolocation

DATA SETS: 3

Network Data Set :

INRA Wheat Network BRC accession I/A series)

Network Data Set :

INRA Small Grain Cereals Network

DOI: http://dx.doi.org/10.15454/1.4489668216568333E12

Network Data Set :

<figure><img src="image_112.png" /></figure>

Origin site Collecting site Evaluation site

Leaflet | Map data © OpenStreetMap contributors, CC-BY-SA, Imagery © Mapbox

Phenotyping campaign(s)

<table><tr><td>2000</td><td>2001</td><td>2002</td><td>2003</td><td>2004</td><td>2005</td><td>2006</td><td>2007</td><td>2008</td></tr><tr><td>2009</td><td>2010</td><td>2011</td><td>2012</td><td>2013</td><td>2014</td><td>2015</td><td></td><td></td></tr></table>

remove all add all

Trial list Phenotypic data

Data table view

Default

<figure><img src="image_113.png" /></figure>

LEVEL: TRIAL

1-10 of 41,278

<figure><img src="image_114.png" /></figure>

<figure><img src="image_115.png" /></figure>

<figure><img src="image_116.png" /></figure>

<figure><img src="image_117.png" /></figure>

<figure><img src="image_118.png" /></figure>

<figure><img src="image_119.png" /></figure>

<figure><img src="image_120.png" /></figure>

<figure><img src="image_121.png" /></figure>

<figure><img src="image_122.png" /></figure>

<figure><img src="image_123.png" /></figure>

<figure><img src="image_124.png" /></figure>

<figure><img src="image_125.png" /></figure>

<figure><img src="image_126.png" /></figure>

<figure><img src="image_127.png" /></figure>

<figure><img src="image_128.png" /></figure>

<figure><img src="image_129.png" /></figure>

GENOTYPE ID

TREATMENT

Lot Number

Accession Number

Accession Name

itk

Trial Name

Trial Site

<table><tr><td>EM99006</td><td>37403</td><td>EM99006</td><td>treated</td><td>BTH Colmar 2000 SetA</td><td>Colmar</td></tr><tr><td>EM00002</td><td>23832</td><td>EM00002</td><td>low inputs</td><td>BTH Le Moulon 2000 SetB1</td><td>Le Moulon</td></tr><tr><td>CF00189</td><td>20362</td><td>CF00189</td><td>treated</td><td>BTH Le Moulon 2000 SetB1</td><td>Le Moulon</td></tr><tr><td>RE99123</td><td>29184</td><td>RE99123</td><td>low inputs</td><td>BTH Estries-Mons 2000 SetB2</td><td>Estries-Mons</td></tr><tr><td>CF99306</td><td>CF99306</td><td>CF99306</td><td>treated</td><td>BTH Clermont-Ferrand 2000 SetB3</td><td>Clermont-Ferrand</td></tr><tr><td>CF99276</td><td>CF99276</td><td>CF99276</td><td>treated</td><td>BTH Estries-Mons 2000 SetB3</td><td>Estries-Mons</td></tr><tr><td>Tremie</td><td>7043</td><td>TREMIE</td><td>treated</td><td>BTH Lusignan 2000 SetB3</td><td>Lusignan</td></tr><tr><td>RE99134</td><td>RE99134</td><td>RE99134</td><td>treated</td><td>BTH Lusignan 2000 SetB3</td><td>Lusignan</td></tr><tr><td>EM99017</td><td>37776</td><td>EM99017</td><td>low inputs</td><td>BTH Le Moulon 2001 SetA1</td><td>Le Moulon</td></tr><tr><td>EM99003</td><td>29160</td><td>EM99003</td><td>treated</td><td>BTH Origeval 2001 SetA1</td><td>Origeval</td></tr></table>

<figure><img src="image_130.png" /></figure>

<figure><img src="image_131.png" /></figure>

<figure><img src="image_132.png" /></figure>

Ephesis data export

<figure><img src="image_133.png" /></figure>

Ephesis MIAPPE ISA-Tab export
# Acknowledgements

<figure><img src="image_91.png" /></figure>

Alaux M.

Letellier T.

Flores R.

Alfama F.

Pommier C.

Mohellibi N.

Durand S.

Kimmel E.

Michotey C.

Guerche C.

Loaec M.

Lainé M.

Steinbach D.

Adam-Blondon A.F.

Quesneville H.

Jamilloux V., Amselem J.,
Charruaud D., Cornut G., Burlot
L., Philippe F., Francillonne N.,
Couderc L., Verdelet D., Brault
B., Chennen K.

<figure><img src="image_92.png" /></figure>

International
Wheat Genome
Sequencing
Consortium

Rogers J.

Eversole K.

Caugant I.

<figure><img src="image_93.png" /></figure>

Choulet F.

Rimbert H.

Leroy P.

Guilhot N.

Salse J.

Feuillet C.

Paux E.

Le Gouis J.

Charmet G.

Balfourier F.

Sourdille P.

Ravel C.

Oury F.X.

Didier A.

<figure><img src="image_94.png" /></figure>

Dzale E.

Aubin S.

Hologne O.

<figure><img src="image_95.png" /></figure>
# Acknowledgements

<figure><img src="image_134.png" /></figure>

Alaux M.
Letellier T.

Flores R.

Alfama F.

Pommier C.

Mohellibi N.

Durand S.

Kimmel E.

Michotey C.

Guerche C.

Loaec M.

Lainé M.

Steinbach D.

Adam-Blondon A.F.

Quesneville H.

Jamilloux V., Amselem J.,
Charruaud D., Cornut G., Burlot
L., Philippe F., Francillonne N.,
Couderc L., Verdelet D., Brault
B., Chennen K.

<figure><img src="image_135.png" /></figure>

International
Wheat Genome
Sequencing
Consortium

Rogers J.
Eversole K.

Caugant I.

<figure><img src="image_136.png" /></figure>

Choulet F.
Rimbert H.

Leroy P.
Guilhot N.

Salse J.
Feuillet C.
Paux E.

Le Gouis J.
Charmet G.
Balfourier F.
Sourdille P.
Ravel C.
Oury F.X.
Didier A.

<figure><img src="image_137.png" /></figure>

Dzale E.
Aubin S.
Hologne O.

<figure><img src="image_138.png" /></figure>
# Acknowledgements

<figure><img src="image_96.png" /></figure>

## All data submitters

<figure><img src="image_97.png" /></figure>

<figure><img src="image_98.png" /></figure>

<figure><img src="image_99.png" /></figure>

<figure><img src="image_100.png" /></figure>

<figure><img src="image_101.png" /></figure>

Part of the
transPLANT
European Plant
Genomics Infrastructure

<figure><img src="image_102.png" /></figure>

<figure><img src="image_103.png" /></figure>

<figure><img src="image_104.png" /></figure>

International
Wheat Genome
Sequencing
Consortium

<figure><img src="image_105.png" /></figure>

openMINED
Open Mining Infrastructure for Text & Data

IWGSC Coordinating Committee
IWGSC Sequencing team
IWGSC Analysis team

WheatIS Expert Working Group

<figure><img src="image_106.png" /></figure>

RDA Wheat Data Interoperability Group

<figure><img src="image_107.png" /></figure>

<figure><img src="image_108.png" /></figure>

<figure><img src="image_109.png" /></figure>

<figure><img src="image_110.png" /></figure>

<figure><img src="image_111.png" /></figure>
# Acknowledgements

<figure><img src="image_139.png" /></figure>

## All data submitters

<figure><img src="image_140.png" /></figure>

<figure><img src="image_141.png" /></figure>

<figure><img src="image_142.png" /></figure>

<figure><img src="image_143.png" /></figure>

<figure><img src="image_144.png" /></figure>

Part of the
transPLANT
European Plant
Genomics Infrastructure

<figure><img src="image_145.png" /></figure>

<figure><img src="image_146.png" /></figure>

openMINED
Open Mining Infrastructure for Text & Data

<figure><img src="image_147.png" /></figure>

International
Wheat Genome
Sequencing
Consortium

<figure><img src="image_148.png" /></figure>

WHEAT
INITIATIVE

IWGSC Coordinating Committee
IWGSC Sequencing team
IWGSC Analysis team

WheatIS Expert Working Group

<figure><img src="image_149.png" /></figure>

RDA Wheat Data Interoperability Group

<figure><img src="image_150.png" /></figure>

<figure><img src="image_151.png" /></figure>

<figure><img src="image_152.png" /></figure>

<figure><img src="image_153.png" /></figure>

<figure><img src="image_154.png" /></figure>
Questions

Alaux et al., Genome Biology 2018

https://doi.org/10.1186/s13059-018-1491-4

<figure><img src="image_112.png" /></figure>

Linking the International Wheat Genome Sequencin...

The Wheat@URGI portal has been developed to provide the international community of researchers and breeders with access to the bread wheat reference genome se...

genomebiology.biomedcentral.com

Wheat@URGI portal

https://wheat-urgi.versailles.inra.fr/

<figure><img src="image_113.png" /></figure>

Contact me at michael.alaux@inra.fr

<figure><img src="image_114.png" /></figure>

@michaelalaux
# Questions

Alaux et al., Genome Biology 2018

https://doi.org/10.1186/s13059-018-1491-4

<figure><img src="image_155.png" /></figure>

Linking the International Wheat Genome Sequencin...

The Wheat@URGI portal has been developed to provide the international community of researchers and breeders with access to the bread wheat reference genome se...

genomebiology.biomedcentral.com

Wheat@URGI portal

https://wheat-urgi.versailles.inra.fr/

<figure><img src="image_156.png" /></figure>

Contact me at michael.alaux@inra.fr

<figure><img src="image_157.png" /></figure>

@michaelalaux