Dataset: T-DNA characterization of genetically modified 3-R-gene late blight resistant potato events with a novel procedure utilizing the Samplix Xdrop® Enrichment Technology

Before commercialization of genetically modified crops, the events carrying the novel DNA must be thoroughly evaluated for agronomic, nutritional, and molecular characteristics. Over the years, Polymerase Chain Reaction-based methods, Southern blot, and short-read sequencing techniques have been utilized for collecting molecular characterization data. Multiple genomic applications are necessary to determine the insert location, flanking sequence analysis, characterization of the inserted DNA, and determination of any interruption of native genes. These techniques are time-consuming and labor-intensive, making it difficult to characterize multiple events. Current advances in sequencing technologies are enabling whole genomic sequencing of modified crops to obtain full molecular characterization. However, in polyploids, such as the tetraploid potato, it is a challenge to obtain whole genomic sequencing coverage that meets regulatory approval of the genetic modification. Here we describe a..., Plasmid and T-DNA Materials
The plasmid pSIM4392 was developed by Simplot Plant Sciences (Boise, ID). The genetic elements within the T-DNA are in the supplementary data (S2. Table 1). To summarize, pSIM4392 has a T-DNA that contains four cassettes. The first cassette (elements 5 to 11, S2. Table 1) contains the selectable marker nptII gene and the expression of the gene confers kanamycin resistance used for the selection of plants containing the T-DNA. The second cassette (elements 13-15, S2. Table 1) contains Rpi-vnt1 (vnt1) gene from Solanum venturi (Foster, S.J., 2009). The third cassette (elements 17-19, S2. Table 1) contains Rpi-mcq1 (mcq1) gene from Solanum mochiquense (Aguilera-Galvez, C., 2020). The fourth cassette (elements 21-23, S2. Table 1) contains Rpi-blb2 (blb2) gene from Solanum bulbocastanum (van der Vossen, E.A., 2005). The gene products from the last three cassettes, VNT1, MCQ1 and BLB2, are R-proteins involved in the plant immune response that protects potato from f..., , This README.txt file was generated by Kelly Zarka

**GENERAL INFORMATION**

Title of Dataset:

Dataset: T-DNA Characterization of Genetically Modified 3-R-Gene Late Blight Resistant Potato Events with a Novel Procedure Utilizing the Samplix Xdrop® Enrichment Technology

**Description of the data and file structure**

**Plasmid Sequence**\
The plasmid pSIM4392 was developed and sequenced by Simplot Plant Sciences (Boise, ID). The genetic elements within the T-DNA are in the supplementary data (S2. Table 1).  A GenBanK file is provided and was used to analyze the integrity of the inserted T-DNA in each plant event described in the manuscript.

**Plasmid files**

pSIM4392_v2020_simplot.gbk: A GenBanK file of the pSIM4392 plasmid                

pSIM4392_TDNA_LBtoRb.ape: A FASTA file of the T-DNA portion of the plasmid that  was transferred into each potato event
   

**Inserted T-DNA analysis**

Nanopore Genomic Sequencing and Bioinformatic Analysis\\\
Minion Oxford Nanopore Sequencing ...