Trait discovery and editing in tomato

Summary Tomato (Solanum lycopersicum), which is used for both processing and fresh markets, is a major crop species that is the top ranked vegetable produced over the world. Tomato is also a model species for research in genetics, fruit development and disease resistance. Genetic resources available...

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Veröffentlicht in:The Plant journal : for cell and molecular biology 2019-01, Vol.97 (1), p.73-90
Hauptverfasser: Rothan, Christophe, Diouf, Isidore, Causse, Mathilde
Format: Artikel
Sprache:eng
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Zusammenfassung:Summary Tomato (Solanum lycopersicum), which is used for both processing and fresh markets, is a major crop species that is the top ranked vegetable produced over the world. Tomato is also a model species for research in genetics, fruit development and disease resistance. Genetic resources available in public repositories comprise the 12 wild related species and thousands of landraces, modern cultivars and mutants. In addition, high quality genome sequences are available for cultivated tomato and for several wild relatives, hundreds of accessions have been sequenced, and databases gathering sequence data together with genetic and phenotypic data are accessible to the tomato community. Major breeding goals are productivity, resistance to biotic and abiotic stresses, and fruit sensorial and nutritional quality. New traits, including resistance to various biotic and abiotic stresses and root architecture, are increasingly being studied. Several major mutations and quantitative trait loci (QTLs) underlying traits of interest in tomato have been uncovered to date and, thanks to new populations and advances in sequencing technologies, the pace of trait discovery has considerably accelerated. In recent years, clustered regularly interspaced short palindromic repeats (CRISPR)/Cas9 gene editing (GE) already proved its remarkable efficiency in tomato for engineering favorable alleles and for creating new genetic diversity by gene disruption, gene replacement, and precise base editing. Here, we provide insight into the major tomato traits and underlying causal genetic variations discovered so far and review the existing genetic resources and most recent strategies for trait discovery in tomato. Furthermore, we explore the opportunities offered by CRISPR/Cas9 and their exploitation for trait editing in tomato. Significance Statement The pace of trait discovery in tomato has considerably accelerated in recent years thanks to advances in deep sequencing and other ’omics technologies. Here we review the genetic resources and current powerful forward genetic strategies, allowing discovery of QTLs, genes and mutations underlying remarkable traits in tomato. We also show how CRISPR/Cas9 GE now provides unprecedented opportunities for candidate gene validation, creation of new genetic diversity and breeding of improved tomato varieties.
ISSN:0960-7412
1365-313X
DOI:10.1111/tpj.14152