Species identification using sequences of the trnL intron and the trnL-trnF IGS of chloroplast genome among popular plants in Taiwan

Tsai, Li Chin; Yu, Yung Chien; Hsieh, Hsing Mei; Wang, Jenn Che; Linacre, Adrian; Lee, James Chun-I

doi:10.1016/j.forsciint.2006.01.007

Cited by 31 publications

(17 citation statements)

References 34 publications

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“…As underlined by other authors [17,43,44], forensic botanical comparison by nucleotide sequence data can be hampered by the lack of appropriate DNA databases as while DNA sequence databases for many mitochondrial loci have been established for animal species diagnosis, and the use of genetic markers has been validated in forensic laboratories for species identification [21,45,46], scientists have a poor knowledge of the genomes of plants [47].…”

Section: Resultsmentioning

confidence: 99%

“…Analysis of trace botanical evidence is a developing forensic discipline and techniques based on molecular biology should support and complement traditional forensic botany in the identification of evidence. The problem of reproducibility and standardization, especially from degraded specimens, prevents the use of classical methods in routine forensic investigations [9][10][11][12][13][14][15] but the use of genetic markers could have the potential to overcome shortcomings associated with traditional forensic botany, and it has been recently proposed in forensic applications [16][17][18].…”

Section: Introductionmentioning

confidence: 99%

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Forensic botany: species identification of botanical trace evidence using a multigene barcoding approach

et al. 2009

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Forensic botany can provide significant supporting evidence during criminal investigations. However, it is still an underutilized field of investigation with its most common application limited to identifying specific as well as suspected illegal plants. The ubiquitous presence of plant species can be useful in forensics, but the absence of an accurate identification system remains the major obstacle to the present inability to routinely and correctly identify trace botanical evidence. Many plant materials cannot be identified and differentiated to the species level by traditional morphological characteristics when botanical specimens are degraded and lack physical features. By taking advantage of a universal barcode system, DNA sequencing, and other biomolecular techniques used routinely in forensic investigations, two chloroplast DNA regions were evaluated for their use as "barcoding" markers for plant identification in the field of forensics. We therefore investigated the forensic use of two non-coding plastid regions, psbA-trnH and trnL-trnF, to create a multimarker system for species identification that could be useful throughout the plant kingdom. The sequences from 63 plants belonging to our local flora were submitted and registered on the GenBank database. Sequence comparison to set up the level of identification (species, genus, or family) through Blast algorithms allowed us to assess the suitability of this method. The results confirmed the effectiveness of our botanic universal multimarker assay in forensic investigations.

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Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Forensic botany: species identification of botanical trace evidence using a multigene barcoding approach

et al. 2009

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“…For analysis of botanical trace evidence in criminal and civil cases plant species identification would be reduced to a set of PCRs in a routine analysis based on the PCR technique reported here. Tsai et al [17] established a DNA database of local plants in Taiwan from sequences comprising the trn L intron and the trn L-F intergenic spacer, which could provide an additional basis for the development of new specific primers.…”

Section: Discussionmentioning

confidence: 99%

“…Taberlet et al [14] promoted the trn L intron as a plant barcode, harbouring its main power in ecological applications [7], i.e. when working with degraded DNA [15], [16], [17], [18].…”

Section: Introductionmentioning

confidence: 99%

Rapid Plant Identification Using Species- and Group-Specific Primers Targeting Chloroplast DNA

et al. 2012

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Plant identification is challenging when no morphologically assignable parts are available. There is a lack of broadly applicable methods for identifying plants in this situation, for example when roots grow in mixture and for decayed or semi-digested plant material. These difficulties have also impeded the progress made in ecological disciplines such as soil- and trophic ecology. Here, a PCR-based approach is presented which allows identifying a variety of plant taxa commonly occurring in Central European agricultural land. Based on the trnT-F cpDNA region, PCR assays were developed to identify two plant families (Poaceae and Apiaceae), the genera Trifolium and Plantago, and nine plant species: Achillea millefolium, Fagopyrum esculentum, Lolium perenne, Lupinus angustifolius, Phaseolus coccineus, Sinapis alba, Taraxacum officinale, Triticum aestivum, and Zea mays. These assays allowed identification of plants based on size-specific amplicons ranging from 116 bp to 381 bp. Their specificity and sensitivity was consistently high, enabling the detection of small amounts of plant DNA, for example, in decaying plant material and in the intestine or faeces of herbivores. To increase the efficacy of identifying plant species from large number of samples, specific primers were combined in multiplex PCRs, allowing screening for multiple species within a single reaction. The molecular assays outlined here will be applicable manifold, such as for root- and leaf litter identification, botanical trace evidence, and the analysis of herbivory.

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“…To date, no study has investigated the performance of Ageratum conyzoides L. and Ageratum houstonianum Mill. Population-two closely resembling and phylogenetically related taxa in its invaded ranges (Sharma 1987;Tsai et al 2006). We intend to explore that which species between these the two invasive alien congeners-A.…”

Section: Introductionmentioning

confidence: 99%

Eco-physiological performance of two invasive weed congeners (Ageratum conyzoides L. and Ageratum houstonianum Mill.) in the Indo-Gangetic plains of India

Singh

Sharma

et al. 2010

Environ Monit Assess

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Morphological (easily measureable) and physiological (hard to measure) traits of two closely related invasive alien congeners-Ageratum conyzoides L. and Ageratum houstonianum Mill. were studied with a perspective that which species will be potentially be more successful as an invader in the Indo-Gangetic plains of India. Leaf construction cost (LCC) is considered as a quantifiable measure of energy demand for biomass production and is related to energy use efficiency as it include component of both morphological and physiological traits. We hypothesised that a low LCC would give the invaders growth advantage by utilizing energy efficiently. Low LCC of A. houstonianum on mass basis (0.54 g glucose g( -1)) and area basis (20.48 g m( -2)) gives insight into the success of this invasive weed over A. conyzoides. The present study gives evidence that how the morphological traits are linked to physiological traits that could directly affect invasive attributes of the invader, which in turn would be crucial to prioritize species for ecosystem management.

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Species identification using sequences of the trnL intron and the trnL-trnF IGS of chloroplast genome among popular plants in Taiwan

Cited by 31 publications

References 34 publications

Forensic botany: species identification of botanical trace evidence using a multigene barcoding approach

Forensic botany: species identification of botanical trace evidence using a multigene barcoding approach

Rapid Plant Identification Using Species- and Group-Specific Primers Targeting Chloroplast DNA

Eco-physiological performance of two invasive weed congeners (Ageratum conyzoides L. and Ageratum houstonianum Mill.) in the Indo-Gangetic plains of India

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