Assembly of the Lactuca sativa, L. cv. Tizian draft genome sequence reveals differences within major resistance complex 1 as compared to the cv. Salinas reference genome

作者：Verwaaijen Bart; Wibberg Daniel; Nelkner Johanna; Gordin Miriam; Rupp Oliver; Winkler Anika; Bremges Andreas; Blom Jochen; Grosch Rita; Puehler Alfred; Schlueter Andreas

来源：Journal of Biotechnology, 2018, 267: 12-18.

DOI：10.1016/j.jbiotec.2017.12.021

• Ultra-fast sequencing
• Plant genomics
• Dual RNAseq approach
• Lettuce
• R-genes

Lettuce (Lactuca sativa, L.) is an important annual plant of the family Asteraceae (Compositae). The commercial lettuce cultivar Tizian has been used in various scientific studies investigating the interaction of the plant with phytopathogens or biological control agents. Here, we present the de novo draft genome sequencing and gene prediction for this specific cultivar derived from transcriptome sequence data. The assembled scaffolds amount to a size of 2.22 Gb. Based on RNAseq data, 31,112 transcript isoforms were identified. Functional predictions for these transcripts were determined within the GenDBE annotation platform. Comparison with the cv. Salinas reference genome revealed a high degree of sequence similarity on genome and transcriptome levels, with an average amino acid identity of 99%. Furthermore, it was observed that two large regions are either missing or are highly divergent within the cv. Tizian genome compared to cv. Salinas. One of these regions covers the major resistance complex 1 region of cv. Salinas. The cv. Tizian draft genome sequence provides a valuable resource for future functional and transcriptome analyses focused on this lettuce cultivar.

• 出版日期2018-2-10