A minimalist barcode can identify a specimen whose DNA is degraded

By Mehrdad Hajibabaei, M. Smith, D. Janzen, Josephine J. Rodriguez, J. Whitfield, Paul D. N. Hebert. 2006

584 citations recorded by the source corpus.

Subfields: Ecology, Genetics, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/23118db11a0808c33fda0650bcef318748f4678d

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Citations in the corpus

Identifying Rattus species using mitochondrial DNA. (2007, background): “Species of fish and insects have been identified by others using similarly short COI fragments (Hajibabaei et al. 2006).”
Italian market fish species identification and commercial frauds revealing by DNA sequencing (2014, methodology): “To allow the analysis, indeed, the target material must be still detectable even after many industrial treatments currently used in food processing: smoking, curing, heating, acidification (Hajibabaei et al., 2006).”
Identification of the larval and juvenile stages of the Cubera Snapper, Lutjanus cyanopterus, using DNA barcoding (2009, methodology): “One of the larval specimens had degraded DNA (after 25 years in ethanol) and one of us (JH) applied a “minibarcode” technique to obtain a shorter mtDNA sequence that spanned 249 bp of the COI barcoding sequence (Hajibabaei et al. 2006).”
DNA barcoding detects market substitution in North American seafood (2008, background): “Degradation of samples caused by processing, or otherwise poor quality DNA extractions, may also be addressed by the application of mini-barcodes (Hajibabaei et al., 2006).”
The campaign to DNA barcode all fishes, FISH-BOL. (2009, background): “Given the large amount of sequence divergence separating most species, internal barcode regions as short as 100 or 200 bp retain much discriminatory ability (Hajibabaei et al., 2006b).”
Wildlife DNA forensics—bridging the gap between conservation genetics and law enforcement (2009, background): “Minimizing the size of the genetic marker targeted is often necessary to obtain results from samples that are either degraded or have been highly processed, fragmenting the DNA (Butler et al. 2003, Hajibabaei et al. 2006).”
Environmental DNA (2012, background): “2003), and two 500–800-bp plastid fragments of the large subunit of ribulose 1,5-bisphosphate carboxylase gene (rbcL) and the maturase K gene (matK) for plants (CBoL Plant Working Group 2009)) or a much shorter DNA fragment, a mini-barcode (Hajibabaei et al. 2006), which permits the amplification of”
A universal DNA mini-barcode for biodiversity analysis (2008, background): “food products) often prevents the recovery of PCR fragments longer than 200 bp, impeding barcode recovery [7-9].”
How will the ‘molecular revolution’ contribute to biological recording? (2015, background): “Mini-barcodes are typically a 90-250 bp long portion of the primary barcoding genes (e.g. for COI Hajibabaei et al., 2006; Meusnier et al., 2008 and rbcL Little, 2014).”
Barcoding diatoms: evaluation of the V4 subregion on the 18S rRNA gene, including new primers and protocols (2011, background): “This is one reason why Hajibabaei et al. (2006b) proposed a 100 bp barcode, which would also work with high-throughput technologies that only produce shorter read length such as Illumina.”
Current progress in DNA barcoding and future implications for entomology (2011, background): “An inventory of the Área de Conservación Guanacaste, a World Heritage Site in Costa Rica, is one such project that includes barcoding, with a focus on insects (Janzen et al. 2005, 2009; Hajibabaei et al. 2006a).”
Testing the reliability of genetic methods of species identification via simulation. (2008, methodology): “More recently, as sequence data have accumulated, the emphasis has shifted to sequence comparison, with tree-based analyses used as confirmation (Hajibabaei et al., 2006).”