Development of a Reference Standard Library of Chloroplast Genome Sequences, GenomeTrakrCP

Ning Zhang; Padmini Ramachandran; Jun Wen; James A. Duke; Helen Metzman; William McLaughlin; Andrea R. Ottesen; Ruth E. Timme; Sara M. Handy

doi:10.1055/s-0043-113449

Planta Medica, Inhaltsverzeichnis

Planta Med 2017; 83(18): 1420-1430
DOI: 10.1055/s-0043-113449

Natural Product Chemistry and Analytical Studies

Original Papers

Georg Thieme Verlag KG Stuttgart · New York

Development of a Reference Standard Library of Chloroplast Genome Sequences, GenomeTrakrCP

Ning Zhang

¹Center for Food Safety and Applied Nutrition, Office of Regulatory Science, U. S. Food and Drug Administration, College Park, Maryland, United States

,

Padmini Ramachandran

¹Center for Food Safety and Applied Nutrition, Office of Regulatory Science, U. S. Food and Drug Administration, College Park, Maryland, United States

,

Jun Wen

²Department of Botany, National Museum of Natural History, Smithsonian Institution, Washington D. C., United States

,

James A. Duke

³Green Farmacy Garden, Fulton, Maryland, United States

,

Helen Metzman

³Green Farmacy Garden, Fulton, Maryland, United States

,

William McLaughlin

⁴United States Botanic Garden Conservatory, Washington D. C., United States

,

Andrea R. Ottesen

¹Center for Food Safety and Applied Nutrition, Office of Regulatory Science, U. S. Food and Drug Administration, College Park, Maryland, United States

,

Ruth E. Timme

¹Center for Food Safety and Applied Nutrition, Office of Regulatory Science, U. S. Food and Drug Administration, College Park, Maryland, United States

,

Sara M. Handy

¹Center for Food Safety and Applied Nutrition, Office of Regulatory Science, U. S. Food and Drug Administration, College Park, Maryland, United States

› Institutsangaben

Abstract

Precise, species-level identification of plants in foods and dietary supplements is difficult. While the use of DNA barcoding regions (short regions of DNA with diagnostic utility) has been effective for many inquiries, it is not always a robust approach for closely related species, especially in highly processed products. The use of fully sequenced chloroplast genomes, as an alternative to short diagnostic barcoding regions, has demonstrated utility for closely related species. The U. S. Food and Drug Administration (FDA) has also developed species-specific DNA-based assays targeting plant species of interest by utilizing chloroplast genome sequences. Here, we introduce a repository of complete chloroplast genome sequences called GenomeTrakrCP, which will be publicly available at the National Center for Biotechnology Information (NCBI). Target species for inclusion are plants found in foods and dietary supplements, toxin producers, common contaminants and adulterants, and their close relatives. Publicly available data will include annotated assemblies, raw sequencing data, and voucher information with each NCBI accession associated with an authenticated reference herbarium specimen. To date, 40 complete chloroplast genomes have been deposited in GenomeTrakrCP (https://www.ncbi.nlm.nih.gov/bioproject/PRJNA325670/), and this will be expanded in the future.

Key words

chloroplast genome - GenomeTrakrCP - dietary supplements - botanicals - DNA barcoding

Volltext

Referenzen

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