Submitted to: National Center for Biotechnology Information (NCBI)
Publication Type: Other
Publication Acceptance Date: 8/26/2014
Publication Date: 7/7/2015
Citation: Labate, J.A., Robertson, L.D. 2015. BioProject Number PRJNA254501: Total of 190 sampled plants from Physalis philadelphica (tomatillo) genome sequencing BioSamples SAMN02904339-SAMN02904528. National Center for Biotechnology Information (NCBI). 1.
Interpretive Summary: Tomatillo (Physalis philadelphica), also known as husk tomato or husk cherry, is native to Mexico and is a major commodity in Mexico and Guatemala. It is primarily consumed in the form of relishes or sauces such as green salsa which are part of a rapidly growing niche market in the USA. To promote usage of seed resources for tomatillo crop improvement, we characterized genetic diversity in the National Plant Germplasm System (NPGS) collection held at Geneva, NY. We discovered over 77,000 natural mutations in the tomatillo genome by DNA sequencing. This gave us a better understanding of the patterns of natural variation in this crop species. The results of this study will help breeders and other researchers to develop new commercial varieties, to support the expansion of production of fresh and processed tomatillo products for new markets.
Technical Abstract: This BioProject consists of raw genotyping-by-sequencing data collected in 96-plex format on an Illumina HiSeq 2000 sequencing system. There were 190 sampled plants from Physalis philadelphica (tomatillo). The experiment resulted in the development of more than 77,000 single nucleotide polymorphism (SNP) markers in tomatillo. Heterozygosity of nine inbred lines was reduced by 50% relative to other samples. These markers are now available for other applications such as association with morphological differences between genotypes, marker assisted breeding, germplasm characterization, taxonomy, and DNA fingerprinting