Project

GENE-SWitCH

Goal: GENE-SWitCH "The regulatory GENomE of SWine and CHicken: functional annotation during development" aims to deliver new underpinning knowledge on the functional genomes of two main monogastric farm species (pig and chicken) and to enable immediate translation to the pig and poultry sectors.
The activation status of functional genome sequences varies across time and space, and in response to environmental perturbations.
In full coordination and synergy with global effort and ongoing projects of the Functional Annotation of ANimal Genomes (FAANG) community, we will characterize the dynamics (“switches”) of the functional genome from embryo (chicken) and fetus (pig) to adult life by targeting a panel of tissues relevant to sustainable production.

New expression QTL data in pigs and existing high-resolution QTL data in chicken will be used for developing innovative genomic predictive models that integrate functional annotations, and these models will be validated in commercial pig and poultry populations. In addition, nutritional epigenetic data will allow evaluation of the influence
of maternal diet on the epigenome of the pig fetus and whether such effects persist until post-weaning. These openshared datasets will conform fully with FAANG standards and add valuable knowledge on genetic and epigenetic variation of functional elements to FAANG. A comprehensive plan of dissemination and outreach activities to a large
audience of stakeholders will be implemented.
The GENE-SWitCH consortium brings together partners representing
pan-European excellence (including the academic institutions which pioneered FAANG) and world-leading animal breeding and biotech industry in a true co-creation effort.
Overall, GENE-SWitCH will contribute to the global FAANG effort considerably, demonstrate how functional annotation of genomes can foster the advancement of genomic selection for immediate benefit to the breeding industry, and produce cutting-edge research paving the way to new studies and strategies for sustainable productions.

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Project log

Cagla Kaya
added an update
We are delighted to invite you to the upcoming GENE-SWitCH and GEroNIMO joint stakeholder event:
"Bitcoin or Genomics: Which brings more?" The event is hosted as a satellite to WCGALP 2022 in Rotterdam, The Netherlands, preceding the conference itself.
Therefore, no conference registration is needed to attend. However, please note that registration for the stakeholder event is mandatory even though it is a free-of-charge event.
Bitcoin or Genomics: Which brings more?
3rd JULY 2022 – 15.00h-17.00h (CEST)
De Doelen, ROTTERDAM
15:00 Opening and welcome – Çağla Kaya / European Forum of Farm Animal Breeders (EFFAB)
15:05 GENE-SWitCH introduction – Elisabetta Giuffra or Herve Acloque / INRAE
15:15 Showcasing GENE-SWitCH results for stakeholders:
Latest developments on functional annotation: Peter Harrison / EMBL & Marco Bink/Hendrix Genetics
15:35 GEroNIMO introduction – Tatiana Zerjal / INRAE
15:45 Linking GENE-SWitCH and GEroNIMO: New models – Mario Calus / WUR
15:55 The societal context of genetics and animal breeding – Franck Meijboom / UU
16:05 World café setting with 3/4 different tables based on topics and registrants:
“Focused on increasing the impact of project work and uptake of results by the sector companies”
TABLE 1: Development of new genetic models based on GENE-SWitCH & GEroNIMO research - Moderators: Mario Calus / WUR & Marco Bink / Hendrix Genetics
TABLE 2: Uptake of the exploitable results by sector – Moderator: Noelia Vilar / FEUGA
TABLE 3: Ethical and societal aspects of NGTs Moderator: Frank Meijboom / UU
17:05 Table pitches
17:20 Final words & Closing
Join us on the 3rd of July to find out which brings more!
To register for the event please fill in the form
!! We would appreciate it very much if you could also share the invitation within your network and from your social media accounts !! LinkedIn post
Twitter post
All the best,
Çağla Yüksel Kaya Kuyululu, DVM, PhD
Senior Project Manager
 
Cagla Kaya
added an update
We made good progress in 2021. We hope we will continue our research with lots of new results in 2022and more interactions with other projects and stakeholders. We wish you all a relaxing, healthy and happy holiday season with your loved ones.
 
Duru Eroglu van der Schoor
added an update
IRTA offers a new postdoc position for the animal breeding and genetics programme within the framework of the GENE-SWitCH project, to work on the identification of eQTL and the validation of predictive models to increase the accuracy of genomic predictions.
Deadline for application is 9 October. For more information please visit here: https://borsatreball.irta.cat/enlace_oferta.aspx?numero=2020&convocatoria=36&lengua=C
 
Duru Eroglu van der Schoor
added an update
A post-doc position on "developing reproducible pipelines and software infrastructure to analyse functional genomics data" is available at The Roslin Institute.
This position is available as a part of GENE-SWitCH project. Deadline for application is 21 September. For more information and application, please check the website: https://www.ed.ac.uk/roslin/work-study/opportunities/vacancies/research-fellow-bioinformatics?platform=hootsuite&utm_campaign=HSCampaign
 
Cagla Kaya
added an update
The COVID-19 pandemic did not stop our determination to disseminate knowledge on the latest discoveries related to Animal Science! The EAAP 2020 Annual Meeting will be held virtually from December 1st to 4th. Organisational and technical details are developed and will be provided next days.
Do not miss the chance to participate to the first EAAP Virtual Meeting
 
Cagla Kaya
added a project goal
GENE-SWitCH "The regulatory GENomE of SWine and CHicken: functional annotation during development" aims to deliver new underpinning knowledge on the functional genomes of two main monogastric farm species (pig and chicken) and to enable immediate translation to the pig and poultry sectors.
The activation status of functional genome sequences varies across time and space, and in response to environmental perturbations.
In full coordination and synergy with global effort and ongoing projects of the Functional Annotation of ANimal Genomes (FAANG) community, we will characterize the dynamics (“switches”) of the functional genome from embryo (chicken) and fetus (pig) to adult life by targeting a panel of tissues relevant to sustainable production.
New expression QTL data in pigs and existing high-resolution QTL data in chicken will be used for developing innovative genomic predictive models that integrate functional annotations, and these models will be validated in commercial pig and poultry populations. In addition, nutritional epigenetic data will allow evaluation of the influence
of maternal diet on the epigenome of the pig fetus and whether such effects persist until post-weaning. These openshared datasets will conform fully with FAANG standards and add valuable knowledge on genetic and epigenetic variation of functional elements to FAANG. A comprehensive plan of dissemination and outreach activities to a large
audience of stakeholders will be implemented.
The GENE-SWitCH consortium brings together partners representing
pan-European excellence (including the academic institutions which pioneered FAANG) and world-leading animal breeding and biotech industry in a true co-creation effort.
Overall, GENE-SWitCH will contribute to the global FAANG effort considerably, demonstrate how functional annotation of genomes can foster the advancement of genomic selection for immediate benefit to the breeding industry, and produce cutting-edge research paving the way to new studies and strategies for sustainable productions.