Extraction and amplification of DNA from aged and archaeological Populus euphratica wood for species identification

Abstract

Abstract:The wood samples of Populus euphratica Oliv. (Salicaceae) are common archaeological plant remains in the hot and arid regions of western China. However, it is difficult to identify P. euphratica wood based on traditional wood anatomical methods alone. DNA barcoding might provide a higher security for species identification. In this study, aged wood specimens stored for approximately 30, 60, and 80 years and archaeological wood up to 3600 years old were in focus to explore the potential of DNA extraction and PCR amplification for different-sized fragments, ranging between 100 and 800 bp, taken from wood stored for different periods. The results indicated that DNA fragments of more than 100 bp could be successfully retrieved from a wood specimen stored for about 80 years based on a modified Qiagen kit protocol. However, it was impossible to obtain DNA segments from the 3600-year-old wood according to the current extraction protocol. Moreover, it was deduced that two-stage PCR amplification could play a significant role in the analysis of DNA retrieved from aged wood materials. With the aid of phylogenetic analysis, based on the short DNA barcode rbcL-2 of 202 bp in length, it was possible to differentiate P. euphratica from the other species of the Populus genus.

PeCHYR1, a ubiquitin E3 ligase from Populus euphratica, enhances drought tolerance via ABA‐induced stomatal closure by ROS production in Populus

“…Total DNA was extracted from every line using the CTAB method (Jiao et al ., ; Verbylaite et al ., ). We identified transformation lines by PCR using a forward primer (CAMV 35S promoter) and reverse primer ( PeCHYR1 ).…”

Tracking the geographical origin of timber by DNA fingerprinting: a study of the endangered species Cinnamomum kanehirae in Taiwan

“…Examples of these kind of research include Intsia palembanica Miq (Lowe et al 2010), Entandrophragma cylindricum (Sprague) Sprague (Jolivet and Degen 2012), Swietenia macrophylla King (Degen et al 2013), Populus euphratica Oliv. (Jiao et al 2015), P. tremula L. (Verbylaitė et al 2010), Picea abies (L.) H. Karst. (Sandak et al 2015;Nowakowska et al 2015), Pinus sylvestris L. (Nowakowska et al 2015), Abies alba Mill.…”

DNA extraction and amplification from Pinaceae dry wood

“…* Corresponding authors: Francisco Javier Gallego, Email: fjgalleg@ucm.es, and Juan Carlos Linares, Email: jclincal@upo.es wood (White et al, 2000;Jiao et al, 2012;Fatima et al, 2018), fossil plants (Liepelt et al, 2006;Sønstebø et al, 2010;Parducci et al, 2018) or dry and processed wood (Asif & Cannon, 2005;Jiao et al, 2012Jiao et al, , 2015Almeida de Souza et al, 2017). In this work, two species belonging to the Family Pinaceae have been used as models to test the effectiveness of a modified CTAB method (based on Kistler 2012) for dry wood DNA extraction in conifers: Abies pinsapo Boiss (Spanish fir) and Cedrus atlantica (Endl.)…”