PANOMICS meets germplasm

Autor(en)

Wolfram Weckwerth, Arindam Ghatak, Anke Bellaire, Palak Chaturvedi, Rajeev K. Varshney

Abstrakt

Genotyping-by-sequencing has enabled approaches for genomic selection to improve yield, stress resistance and nutritional value. More and more resource studies are emerging providing 1000 and more genotypes and millions of SNPs for one species covering a hitherto inaccessible intraspecific genetic variation. The larger the databases are growing, the better statistical approaches for genomic selection will be available. However, there are clear limitations on the statistical but also on the biological part. Intraspecific genetic variation is able to explain a high proportion of the phenotypes, but a large part of phenotypic plasticity also stems from environmentally driven transcriptional, post-transcriptional, translational, post-translational, epigenetic and metabolic regulation. Moreover, regulation of the same gene can have different phenotypic outputs in different environments. Consequently, to explain and understand environment-dependent phenotypic plasticity based on the available genotype variation we have to integrate the analysis of further molecular levels reflecting the complete information flow from the gene to metabolism to phenotype. Interestingly, metabolomics platforms are already more cost-effective than NGS platforms and are decisive for the prediction of nutritional value or stress resistance. Here, we propose three fundamental pillars for future breeding strategies in the framework of Green Systems Biology: (i) combining genome selection with environment-dependent PANOMICS analysis and deep learning to improve prediction accuracy for marker-dependent trait performance; (ii) PANOMICS resolution at subtissue, cellular and subcellular level provides information about fundamental functions of selected markers; (iii) combining PANOMICS with genome editing and speed breeding tools to accelerate and enhance large-scale functional validation of trait-specific precision breeding.

Organisation(en)

Department für Funktionelle und Evolutionäre Ökologie, Forschungsplattform Vienna Metabolomics Center

Externe Organisation(en)

International Crops Research Institute for the Semi-Arid Tropics (ICRISAT) India

Journal

Plant Biotechnology Journal

Band

18

Seiten

1507-1525

Anzahl der Seiten

19

ISSN

1467-7644

DOI

https://doi.org/10.1111/pbi.13372

Publikationsdatum

07-2020

Peer-reviewed

Ja

ÖFOS 2012

106008 Botanik

Schlagwörter

ASJC Scopus Sachgebiete

Agronomy and Crop Science, Biotechnology, Plant Science

Link zum Portal

https://ucris.univie.ac.at/portal/de/publications/panomics-meets-germplasm(dab3afa3-e376-4369-b474-209d16a13501).html