Location: Corn Insects and Crop Genetics ResearchTitle: Dataset: RNA-seq reads from Ostrinia nubilalis Cry1F resistant and susceptible larvae from Cry1F resistant DAS colony x susceptible parental backcross pedigrees
Submitted to: National Center for Biotechnology Information (NCBI)
Publication Type: Database / Dataset
Publication Acceptance Date: 2/12/2021
Publication Date: 10/1/2021
Citation: Coates, B.S. 2021. Dataset: RNA-seq reads from Ostrinia nubilalis Cry1F resistant and susceptible larvae from Cry1F resistant DAS colony x susceptible parental backcross pedigrees. National Center for Biotechnology Information (NCBI). https://www.ncbi.nlm.nih.gov/sra/SRX7668340?report=Full.
Interpretive Summary: The development of resistance by pest insect species to Bacillus thuringiensis (Bt) pesticidal proteins expressed by transgenic corn is a threat to the sustainability of current production practices. Laboratory colonies of the European corn borer (ECB) with resistance to the Bt protein Cry1F are a model for investigating genetic mechanisms involved in Bt resistance. An ARS scientist generated RNA sequence data from full siblings that showed either resistant or susceptible phenotypes in each of four different pedigrees. These data were deposited in a sequence read archive that allows for data redundancy and integrity, and facilitates public access pending future publication of analytical results. These data will be of interest to university and industry stakeholders interested in understanding the mechanisms of Bt resistance in pest insects.
Technical Abstract: The molecular basis of resistance to Bacillus thuringiensis (Bt) pesticidal proteins expressed by transgenic crops among lepidopteran pest insects is not fully understood, but is hypothesized to involve difference in the expression of genes that function as Bt receptors in the midgut tissue. RNA sequencing (RNAseq) reads are composed of short lengths of nucleotide data derived from RNA transcripts in a biological sample and are applied for quantitative estimation of differences among samples. A set of reciprocal backcross pedigrees were established within an experiment investigating the genetic basis of Bt Cry1F resistance in the European corn borer (ECB), Ostrinia nubilalis, and registered under the National Center for Biotechnology Information (NCBI) BioProject PRJNA682737, "Ostrina nubilalis raw sequence reads from backcross pedigrees with segregating Cry1F resistance trait". Specifically, the four initial genetic crosses involved crossing a parent derived from the laboratory DAS colony that is homozygous for a recessive Cry1F resistance trait that is determined by a single genetic locus (rr genotype) to a corresponding mate from a susceptible laboratory strain (Susc; SS genotype). Within each pedigree, individual F1 progeny (rS genotype) were backcrossed to the Cry1F resistant DAS colony, and their larval backcross (BC) progeny were fed diet containing Cry1F protein in order to select resistant individuals able to feed and grow (rr genotype) or susceptible counterparts that did not (rS genotype). The sample metadata for BC progeny were accessioned in the NCBI BioSample SAMN17006355, "Ostrinia nubilalis Cry1F resistant and susceptible larvae from DAS x Susc backcross pedigree". RNAseq reads were then generated from midgut tissues for 84 BC progeny and deposited in the NCBI sequence read archive (SRA) database under accessions ranges SRR13242896 to SRR13242910, SRR13243735 to SRR13243756, and SRR13244596 to SRR13244642. These will be applied for the normalized estimation of transcript quantity differences between Cry1F resistant and susceptible BC progeny within the same pedigree that share the same genetic background, as well as transcripts consistently differentially regulated among resistant and susceptible BC progeny from different pedigrees.