Published November 5, 2021 | Version 1
Dataset Open

FASTA file containing the MYB encoding genes at the Aft locus with genomic sequences corresponding to wild and cultivated tomato accessions

Authors/Creators

  • 1. The Ohio State University, Department of Horticulture and Crop Science

Description

FASTA sequences correspond to the MYB encoding genes An2-like and Ant1. The genomic sequences were combined correspond to Solanum galagpagnese accession LA1141 (this study), S. lycopersicum variety OH8245 (this study), S. lycopersicum variety Heinz 1706 reference genome (Hosmani et al., 2019), LA1996 [MN242011.1, EF433417.1(Sapir et al., 2008; Colanero et al., 2020)], and 84 tomato accessions published as part of The 100 Tomato Genome Sequencing Consortium (The 100 Tomato Genome Sequencing Consortium et al., 2014). Local sequences databases were made and retrieved using BLAST version/2018-08 for 84 accessions from The 100 Tomato Genome Sequencing Consortium (The 100 Tomato Genome Sequencing Consortium et al., 2014). Sequences corresponding to Heinz 1706 (Hosmani et al., 2018), S. lycopersicum accession LA1996 [MN242011.1, EF433417.1 (Sapir et al., 2008; Colanero et al., 2020)], S. chilense accession LA1930 [MN242012.1 (Colanero et al., 2020)] were accessed using the Basic Local Alignment Search Tool (BLAST) tool available from the Sol Genomics Network (SGN) (available at https://solgenomics.net/tools/blast/) and the National Center for Biotechnology Information (NCBI) (available at NCBI: https://www.ncbi.nlm.nih.gov).

Notes

Raw FASTA files

Files

Aft_tomato_accessions.txt

Files (210.5 kB)

Name Size Download all
md5:789b448b2f734c07744ace50dd2bdfaf
210.5 kB Preview Download

Additional details

References

  • Colanero, S., Tagliani, A., Perata, P., & Gonzali, S. (2020). Alternative splicing in the anthocyanin fruit gene encoding an R2R3 MYB transcription factor affects anthocyanin biosynthesis in tomato fruits. Plant communications, 1(1), 100006.
  • Hosmani, P. S., Flores-Gonzalez, M., van de Geest, H., Maumus, F., Bakker, L. V., Schijlen, E., ... & Saha, S. (2019). An improved de novo assembly and annotation of the tomato reference genome using single-molecule sequencing, Hi-C proximity ligation and optical maps. BioRxiv, 767764.
  • Sapir, M., Oren-Shamir, M., Ovadia, R., Reuveni, M., Evenor, D., Tadmor, Y., ... & Levin, I. (2008). Molecular aspects of Anthocyanin fruit tomato in relation to high pigment-1. Journal of Heredity, 99(3), 292-303.
  • 100 Tomato Genome Sequencing Consortium, Aflitos, S., Schijlen, E., de Jong, H., de Ridder, D., Smit, S., ... & Peters, S. (2014). Exploring genetic variation in the tomato (Solanum section Lycopersicon) clade by whole‐genome sequencing. The Plant Journal, 80(1), 136-148.