An analysis of Echinacea chloroplast genomes: Implications for future botanical identification

Abstract Echinacea is a common botanical used in dietary supplements, primarily to treat upper respiratory tract infections and to support immune function. There are currently thought to be nine species in the genus Echinacea. Due to very low molecular divergence among sister species, traditional DN...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Ning Zhang, David L. Erickson, Padmini Ramachandran, Andrea R. Ottesen, Ruth E. Timme, Vicki A. Funk, Yan Luo, Sara M. Handy
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/ad11f8ddb08f46e1ba022109cc5c4781
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:ad11f8ddb08f46e1ba022109cc5c4781
record_format	dspace
spelling	oai:doaj.org-article:ad11f8ddb08f46e1ba022109cc5c47812021-12-02T12:32:50ZAn analysis of Echinacea chloroplast genomes: Implications for future botanical identification10.1038/s41598-017-00321-62045-2322https://doaj.org/article/ad11f8ddb08f46e1ba022109cc5c47812017-03-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-00321-6https://doaj.org/toc/2045-2322Abstract Echinacea is a common botanical used in dietary supplements, primarily to treat upper respiratory tract infections and to support immune function. There are currently thought to be nine species in the genus Echinacea. Due to very low molecular divergence among sister species, traditional DNA barcoding has not been successful for differentiation of Echinacea species. Here, we present the use of full chloroplast genomes to distinguish between all 9 reported species. Total DNA was extracted from specimens stored at the National Museum of Natural History, Smithsonian Institution, which had been collected from the wild with species identification documented by experts in the field. We used Next Generation Sequencing (NGS) and CLC Genomics Workbench to assemble complete chloroplast genomes for all nine species. Full chloroplasts unambiguously differentiated all nine species, compared with the very few single nucleotide polymorphisms (SNPs) available with core DNA barcoding markers. SNPs for any two Echinacea chloroplast genomes ranged from 181 to 910, and provided robust data for unambiguous species delimitation. Implications for DNA-based species identification assays derived from chloroplast genome sequences are discussed in light of product safety, adulteration and quality issues.Ning ZhangDavid L. EricksonPadmini RamachandranAndrea R. OttesenRuth E. TimmeVicki A. FunkYan LuoSara M. HandyNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-9 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Ning Zhang David L. Erickson Padmini Ramachandran Andrea R. Ottesen Ruth E. Timme Vicki A. Funk Yan Luo Sara M. Handy An analysis of Echinacea chloroplast genomes: Implications for future botanical identification
description	Abstract Echinacea is a common botanical used in dietary supplements, primarily to treat upper respiratory tract infections and to support immune function. There are currently thought to be nine species in the genus Echinacea. Due to very low molecular divergence among sister species, traditional DNA barcoding has not been successful for differentiation of Echinacea species. Here, we present the use of full chloroplast genomes to distinguish between all 9 reported species. Total DNA was extracted from specimens stored at the National Museum of Natural History, Smithsonian Institution, which had been collected from the wild with species identification documented by experts in the field. We used Next Generation Sequencing (NGS) and CLC Genomics Workbench to assemble complete chloroplast genomes for all nine species. Full chloroplasts unambiguously differentiated all nine species, compared with the very few single nucleotide polymorphisms (SNPs) available with core DNA barcoding markers. SNPs for any two Echinacea chloroplast genomes ranged from 181 to 910, and provided robust data for unambiguous species delimitation. Implications for DNA-based species identification assays derived from chloroplast genome sequences are discussed in light of product safety, adulteration and quality issues.
format	article
author	Ning Zhang David L. Erickson Padmini Ramachandran Andrea R. Ottesen Ruth E. Timme Vicki A. Funk Yan Luo Sara M. Handy
author_facet	Ning Zhang David L. Erickson Padmini Ramachandran Andrea R. Ottesen Ruth E. Timme Vicki A. Funk Yan Luo Sara M. Handy
author_sort	Ning Zhang
title	An analysis of Echinacea chloroplast genomes: Implications for future botanical identification
title_short	An analysis of Echinacea chloroplast genomes: Implications for future botanical identification
title_full	An analysis of Echinacea chloroplast genomes: Implications for future botanical identification
title_fullStr	An analysis of Echinacea chloroplast genomes: Implications for future botanical identification
title_full_unstemmed	An analysis of Echinacea chloroplast genomes: Implications for future botanical identification
title_sort	analysis of echinacea chloroplast genomes: implications for future botanical identification
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/ad11f8ddb08f46e1ba022109cc5c4781
work_keys_str_mv	AT ningzhang ananalysisofechinaceachloroplastgenomesimplicationsforfuturebotanicalidentification AT davidlerickson ananalysisofechinaceachloroplastgenomesimplicationsforfuturebotanicalidentification AT padminiramachandran ananalysisofechinaceachloroplastgenomesimplicationsforfuturebotanicalidentification AT andrearottesen ananalysisofechinaceachloroplastgenomesimplicationsforfuturebotanicalidentification AT ruthetimme ananalysisofechinaceachloroplastgenomesimplicationsforfuturebotanicalidentification AT vickiafunk ananalysisofechinaceachloroplastgenomesimplicationsforfuturebotanicalidentification AT yanluo ananalysisofechinaceachloroplastgenomesimplicationsforfuturebotanicalidentification AT saramhandy ananalysisofechinaceachloroplastgenomesimplicationsforfuturebotanicalidentification AT ningzhang analysisofechinaceachloroplastgenomesimplicationsforfuturebotanicalidentification AT davidlerickson analysisofechinaceachloroplastgenomesimplicationsforfuturebotanicalidentification AT padminiramachandran analysisofechinaceachloroplastgenomesimplicationsforfuturebotanicalidentification AT andrearottesen analysisofechinaceachloroplastgenomesimplicationsforfuturebotanicalidentification AT ruthetimme analysisofechinaceachloroplastgenomesimplicationsforfuturebotanicalidentification AT vickiafunk analysisofechinaceachloroplastgenomesimplicationsforfuturebotanicalidentification AT yanluo analysisofechinaceachloroplastgenomesimplicationsforfuturebotanicalidentification AT saramhandy analysisofechinaceachloroplastgenomesimplicationsforfuturebotanicalidentification
_version_	1718393939069763584

An analysis of Echinacea chloroplast genomes: Implications for future botanical identification

Ejemplares similares