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PotatoMASH SIGNED

Potato Multi-Allele Scanning Haplotags – a low cost, genome-scanning marker system for use in potato breeding

Total Cost €

0

EC-Contrib. €

0

Partnership

0

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 PotatoMASH project word cloud

Explore the words cloud of the PotatoMASH project. It provides you a very rough idea of what is the project "PotatoMASH" about.

reads    rate    breeding    tended    equations    patterns    deploying    ngs    portion    adoption    aggregate    fellowship    researcher    allelic    sequencing    genetic    seq    subsequently    populations    paired    young    linked    400    fry    spacing    markers    samples    potato    commercial    combining    multiplex    utilised    colour    euchromatic    burden    discriminate    faster    single    varieties    genome    mas    snps    yield    tetraploid    assisted    sustainability    employ    thousands    clusters    combined    restrict    simultaneous    haplotags    approximately    date    uses    strategies    variants    utilisation    covered    disequilibrium    training    action    unlike    annually    conjunction    genotyping    genomic    loci    plant    efficient    gt    multiple    scanning    distances    multiplexing    platform    traits    barcoding    marker    postdoctoral    equip    economic    bi    placed    gs    run    assayed    combinatorial    massively    1000    pcr    generation    combine    1mb    prediction    plants    profile    skills    breeder    linkage    gain   

Project "PotatoMASH" data sheet

The following table provides information about the project.

Coordinator
TEAGASC - AGRICULTURE AND FOOD DEVELOPMENT AUTHORITY 

Organization address
address: Oak Park
city: Carlow
postcode: R93
website: n.a.

contact info
title: n.a.
name: n.a.
surname: n.a.
function: n.a.
email: n.a.
telephone: n.a.
fax: n.a.

 Coordinator Country Ireland [IE]
 Total cost 175˙866 €
 EC max contribution 175˙866 € (100%)
 Programme 1. H2020-EU.1.3.2. (Nurturing excellence by means of cross-border and cross-sector mobility)
 Code Call H2020-MSCA-IF-2017
 Funding Scheme MSCA-IF-EF-ST
 Starting year 2018
 Duration (year-month-day) from 2018-09-24   to  2020-09-23

 Partnership

Take a look of project's partnership.

# participants  country  role  EC contrib. [€] 
1    TEAGASC - AGRICULTURE AND FOOD DEVELOPMENT AUTHORITY IE (Carlow) coordinator 175˙866.00

Map

 Project objective

'Potato breeding is a 10-year process that involves combining over 40 characteristics to produce varieties that have improved sustainability, utilisation and consumer characteristics. Genomic and marker assisted selection (GS and MAS) can make breeding faster/more efficient, increasing the rate of genetic gain and the ability to combine multiple traits. Strategies for GS to date have tended to employ many thousands of markers; however, the economic burden of deploying such approaches on thousands of plants annually in a breeding programme may restrict the adoption of GS. The objective of this action is to develop a novel, low cost, genome-scanning marker platform for use in simultaneous GS and MAS for multiple traits in potato breeding, by combining existing knowledge on the patterns of linkage disequilibrium in potato with recent advances in genotyping-by-sequencing approaches based on massively multiplex PCR. The marker system will target clusters of SNPs whose aggregate profile over distances covered by paired-end next generation sequencing (NGS) reads will allow them to be used as haplotags. Unlike bi-allelic SNPs, haplotags can discriminate multiple allelic variants in tetraploid potato. Approximately 400 loci at placed at 1Mb spacing throughout the euchromatic portion of the genome, and a further 100 SNPs linked to specific traits, will be targeted and assayed using an approach called GT-Seq, which uses combinatorial barcoding to allow multiplexing of thousands of samples in a single NGS run. The sequencing platform will be utilised in conjunction with 2 training populations to develop genomic prediction equations for yield and fry colour of potato. Subsequently, it will be deployed for combined GS and MAS on 1000 plants from the second field generation of a commercial potato breeding programme. The research and training activities in the fellowship proposal will equip a young postdoctoral researcher with the skills of a 'next generation plant breeder'.

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The information about "POTATOMASH" are provided by the European Opendata Portal: CORDIS opendata.

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