Tomato

Labate, Joanne A.; Grandillo, Silvana; Fulton, T. M.; Muños, Stéphane; Caicedo, Ana L.; Peralta, Iris Edith; Ji, Yuanfu; Chetelat, Roger T.; Scott, John W.; Gonzalo, María José; Francis, David M.; Yang, Wencai; Knaap, Esther van der; Baldo, Angela M.; Smith-White, Brian; Mueller, Lukas A.; Prince, James P.; Blanchard, N.; Storey, Dylan; Stevens, Mikel R.; Robbins, Matthew D.; Wang, Jaw‐Fen; Liedl, Barbara E.; O’Connell, Mary A.; Stommel, John R.; Aoki, Koh; Iijima, Yoko; Slade, Ann J.; Hurst, Susan R.; Loeffler, Dayna; Steine, Michael N.; Vafeados, Dionne; McGuire, Cate; Freeman, Carrie Packwood; Amen, Anna; Goodstal, John F; Facciotti, Daniel; Eck, Joyce Van; Causse, Mathilde

doi:10.1007/978-3-540-34536-7_1

Cited by 29 publications

(30 citation statements)

References 735 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…Tomato is commonly cultivated vegetables worldwide and a model species for fruit quality and development [21]. For years QTL mapping among cultivated accessions of tomato was hampered by the low polymorphisms in the species [22], but many progenies involving distant related species were characterized [23]. Several QTL controlling fruit weight or fruit composition were mapped and characterized [24,25].…”

Section: Introductionmentioning

confidence: 99%

Dissecting quantitative trait variation in the resequencing era: complementarity of bi-parental, multi-parental and association panels

et al. 2016

Self Cite

View full text Add to dashboard Cite

Quantitative trait loci (QTL) have been identified using traditional linkage mapping and positional cloning identified several QTLs. However linkage mapping is limited to the analysis of traits differing between two lines and the impact of the genetic background on QTL effect has been underlined. Genome-wide association studies (GWAs) were proposed to circumvent these limitations. In tomato, we have shown that GWAs is possible, using the admixed nature of cherry tomato genomes that reduces the impact of population structure. Nevertheless, GWAs success might be limited due to the low decay of linkage disequilibrium, which varies along the genome in this species. Multi-parent advanced generation intercross (MAGIC) populations offer an alternative to traditional linkage and GWAs by increasing the precision of QTL mapping. We have developed a MAGIC population by crossing eight tomato lines whose genomes were resequenced. We showed the potential of the MAGIC population when coupled with whole genome sequencing to detect candidate single nucleotide polymorphisms (SNPs) underlying the QTLs. QTLs for fruit quality traits were mapped and related to the variations detected at the genome sequence and expression levels. The advantages and limitations of the three types of population, in the context of the available genome sequence and resequencing facilities, are discussed.

show abstract

Section: Introductionmentioning

confidence: 99%

Dissecting quantitative trait variation in the resequencing era: complementarity of bi-parental, multi-parental and association panels

et al. 2016

Self Cite

View full text Add to dashboard Cite

show abstract

“…Two kinds of host plant resistance to P. infestans have been described in tomato (Labate et al 2007). Firstly there is the qualitative or racespecific resistance.…”

Section: Introductionmentioning

confidence: 99%

Identification and mapping of quantitative resistance to late blight (Phytophthora infestans) in Solanum habrochaites LA1777

Liu

Bai

et al. 2011

Euphytica

View full text Add to dashboard Cite

Late blight (Phytophthora infestans) can have devastating effects on tomato production over the whole world. Most of the commercial cultivars of tomato, Solanum lycopersicum, are susceptible. Qualitative and quantitative resistance has been described in wild relatives of tomato. In general qualitative resistance can more easily be overcome by newly evolved isolates. Screening of three S. habrochaites accessions (LA1033, LA2099 and LA1777) through a whole plant assay showed that accession LA1777 had a good level of resistance to several isolates of P. infestans. To explore the potential in this wild species, an introgression line (IL) population of S. habrochaites LA1777 was used to screen individual chromosome regions of the wild species by a detached leaf assay. Two major isolates (T 1,2 and T 1,2,4 ) were used and two parameters were measured: lesion size (LS), and disease incidence (DI). Substantial variation was observed between the individual lines. QTLs were identified for LS but not for DI.The presence of five QTLs derived from LA1777 (Rlbq4a, Rlbq4b, Rlbq7, Rlbq8 and Rlbq12) results in unambiguous higher levels of resistance. All QTLs co-localized with previously described QTLs from S. habrochaites LA2099 except QTL Rlbq4b, which is therefore a novel QTL.

show abstract

“…For this map, restriction fragment length polymorphism (RFLP) markers were employed. Since then, RFLP markers have been applied to construct more than 20 interspecific genetic linkage maps in tomato (reviewed in Foolad 2007;Labate et al 2007;Shirasawa et al 2013), and the number of RFLP markers has exceeded 1,000 (Tanksley et al 1992). Subsequently, several types of DNA markers have been developed, e.g., random amplified polymorphic DNA (RAPD), simple sequence repeat (SSR) or microsatellite, amplified fragment length polymorphism (AFLP), cleaved amplified polymorphic sequence (CAPS), and single nucleotide polymorphism (SNP) markers.…”

Section: Interspecific Mapsmentioning

confidence: 99%

Structural analyses of the tomato genome

Sato

Shirasawa

Tabata

2013

Plant Biotechnology

View full text Add to dashboard Cite

Over the last 10 years, considerable efforts have been undertaken to develop genomic resources in tomato, including genomic clones, physical maps, DNA markers, mapping populations, and genetic linkage maps. Such resources facilitate the investigation of genome structure and gene functions, and the identification of genes of agronomic importance. In parallel, an international project with the participation of over 90 groups from 14 countries has been utilizing these resources to proceed with the deciphering of all of the genetic information carried by tomato. With the aid of new sequencing technologies and sophisticated bioinformatics, sequencing of the whole genome of tomato was successfully completed and the results were published in May 2012. The resulting large number of DNA markers, high-density linkage maps, and information on the structure and function of almost all of the gene components in the tomato genome are expected to contribute to a wide variety of biological fields by accelerating the processes of identification, isolation, and functional assignment of genes of interest, understanding of the evolutional process of Solanaceae and other plants, and breeding of new varieties with better agronomic traits.

show abstract

Tomato

Cited by 29 publications

References 735 publications

Dissecting quantitative trait variation in the resequencing era: complementarity of bi-parental, multi-parental and association panels

Dissecting quantitative trait variation in the resequencing era: complementarity of bi-parental, multi-parental and association panels

Identification and mapping of quantitative resistance to late blight (Phytophthora infestans) in Solanum habrochaites LA1777

Structural analyses of the tomato genome

Contact Info

Product

Resources

About