DNA barcoding will frequently fail in complicated groups: An example in wild potatoes

DNA barcoding ("barcoding") has been proposed as a rapid and practical molecular method to identify species via diagnostic variation in short orthologous DNA sequences from one or a few universal genomic regions. It seeks to address in a rapid and simple way the "taxonomic impediment&...

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Bibliographic Details
Published in:American journal of botany 2009-06, Vol.96 (6), p.1177-1189
Main Author: Spooner, David M
Format: Article
Language:English
Subjects:
Bar codes
Biological taxonomies
Botany
Deoxyribonucleic acid
DNA
DNA barcoding
Genomics
ITS
matK
molecular phylogeny
Plants
Plastids
Polymorphism
potato
Potatoes
Sequencing
Solanum sect. Petota
Species
Systematics and Phytogeography
Taxa
Taxonomy
trnH‐psbA intergenic spacer
We they distinction
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Summary:DNA barcoding ("barcoding") has been proposed as a rapid and practical molecular method to identify species via diagnostic variation in short orthologous DNA sequences from one or a few universal genomic regions. It seeks to address in a rapid and simple way the "taxonomic impediment" of a greater need for taxonomic identifications than can be supplied by taxonomists. Using a complicated plant group, Solanum sect. Petota (wild potatoes), I tested barcoding with the most variable and frequently suggested plant barcoding regions: the internal nontranscribed spacer of nuclear ribosomal DNA (ITS) and the plastid markers trnH-psbA intergenic spacer and matK. These DNA regions fail to provide species-specific markers in sect. Petota because the ITS has too much intraspecific variation and the plastid markers lack sufficient polymorphism. The complications seen in wild potatoes are common in many plant groups, but they have not been assessed with barcoding. Barcoding is a retroactive procedure that relies on well-defined species to function, is based solely on a limited number of DNA sequences that are often inappropriate at the species level, has been poorly tested with geographically well-dispersed replicate samples from difficult taxonomic groups, and discounts substantial practical and theoretical problems in defining species.
ISSN:0002-9122
1537-2197
DOI:10.3732/ajb.0800246