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DNA barcoding authentication for the wood of eight endangered Dalbergia timber species using machine learning approaches

  • Tuo He , Lichao Jiao , Min Yu , Juan Guo , Xiaomei Jiang and Yafang Yin
Published/Copyright: September 18, 2018
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Holzforschung
From the journal Holzforschung Volume 73 Issue 3

Abstract

Reliable wood identification and proof of the provenance of trees is the first step for combating illegal logging. DNA barcoding belongs to the promising tools in this regard, for which reliable methods and reference libraries are needed. Machine learning approaches (MLAs) are tailored to the necessities of DNA barcoding, which are based on mathematical multivaried analysis. In the present study, eight Dalbergia timber species were investigated in terms of their DNA sequences focusing on four barcodes (ITS2, matK, trnH-psbA and trnL) by means of the MLAs BLOG and WEKA for wood species identification. The data material downloaded from NCBI (288 sequences) and taken from a previous study of the authors (153 DNA sequences) was taken as dataset for calibration. The MLAs’ effectivity was verified through identification of non-vouchered wood specimens. The results indicate that the SMO classifier as part of the WEKA approach performed the best (98%~100%) for discriminating the eight Dalbergia timber species. Moreover, the two-locus combination ITS2+trnH-psbA showed the highest success rate. Furthermore, the non-vouchered wood specimens were successfully identified by means of ITS2+trnH-psbA with the SMO classifier. The MLAs are successful in combi- nation with DNA barcode reference libraries for the identification of endangered Dalbergia timber species.

Keywords: Dalbergia timber species; DNA barcoding; illegal logging; machine learning approaches (MLAs); reference library; SMO classifier; wood identification

Acknowledgments

We express our gratitude to Dr. Alex C. Wiedenhoeft and Dr. Prabu Ravindran of Forest Products Laboratory, USA, for their assistance and suggestions on machine learning analysis. We also wish to acknowledge the language editing work done by Kevin Austin of BizTech English AB (http://www.biztech.se).

  1. Author contributions: All the authors have accepted responsibility for the entire content of this submitted manuscript and approved submission.

  2. Research funding: This work was financially supported by National Natural Science Foundation of China, Funder Id: 10.13039/501100001809 (Grant No. 31600451), the Fundamental Research Funds of Chinese Academy of Forestry, Funder Id: 10.13039/501100004543 (Grant No. CAFYBB2017ZE003), and the China Scholarship Council (Grant No. 2017-3109).

  3. Employment or leadership: None declared.

  4. Honorarium: None declared.

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Supplementary Material

The online version of this article offers supplementary material (https://doi.org/10.1515/hf-2018-0076).

Received: 2018-04-06
Accepted: 2018-08-15
Published Online: 2018-09-18
Published in Print: 2019-03-26

©2019 Walter de Gruyter GmbH, Berlin/Boston

Articles in the same Issue

  1. Frontmatter
  2. Editorials
  3. Editorial changes at Holzforschung
  4. Goodbye to Holzforschung
  5. Thanks to Oskar Faix
  6. Original Articles
  7. Orthotropic mechano-sorptive creep behavior of Chinese fir during the moisture adsorption process determined in tensile mode via dynamic mechanical analysis (DMA)
  8. Differences in the viscoelastic properties between earlywood and latewood in the growth rings of Chinese fir as analyzed by dynamic mechanical analysis (DMA) in the temperature range between −120°C and 120°C
  9. Failure conditions of solid wood on off-axis compression testing
  10. Effect of knots and holes on the modulus of elasticity prediction and mapping of sugi (Cryptomeria japonica) veneer using near-infrared hyperspectral imaging (NIR-HSI)
  11. Quantification of slip planes in the stem wood of Eucalyptus grandis
  12. DNA barcoding authentication for the wood of eight endangered Dalbergia timber species using machine learning approaches
  13. Chemical analysis and antioxidant activities of bark extracts from four endemic species of Hyrcanian forests in Iran
  14. Isolation of natural flavoring compounds from cooperage woods by pressurized hot water extraction (PHWE)
  15. Volatile organic compounds (VOCs) from lauan (Shorea ssp.) plyboard prepared with kraft lignin, soy flour, gluten meal and tannin: emissions during hot pressing and from panels as a function of time
  16. Plasma treatment of plastic film or decorative veneer and its effects on the peel strength and curling deformation of plastic film-reinforced pliable decorative sliced veneer (PR-RP-DSV)
https://doi.org/10.1515/hf-2018-0076
Keywords for this article
Dalbergia timber species; DNA barcoding; illegal logging; machine learning approaches (MLAs); reference library; SMO classifier; wood identification

Articles in the same Issue

  1. Frontmatter
  2. Editorials
  3. Editorial changes at Holzforschung
  4. Goodbye to Holzforschung
  5. Thanks to Oskar Faix
  6. Original Articles
  7. Orthotropic mechano-sorptive creep behavior of Chinese fir during the moisture adsorption process determined in tensile mode via dynamic mechanical analysis (DMA)
  8. Differences in the viscoelastic properties between earlywood and latewood in the growth rings of Chinese fir as analyzed by dynamic mechanical analysis (DMA) in the temperature range between −120°C and 120°C
  9. Failure conditions of solid wood on off-axis compression testing
  10. Effect of knots and holes on the modulus of elasticity prediction and mapping of sugi (Cryptomeria japonica) veneer using near-infrared hyperspectral imaging (NIR-HSI)
  11. Quantification of slip planes in the stem wood of Eucalyptus grandis
  12. DNA barcoding authentication for the wood of eight endangered Dalbergia timber species using machine learning approaches
  13. Chemical analysis and antioxidant activities of bark extracts from four endemic species of Hyrcanian forests in Iran
  14. Isolation of natural flavoring compounds from cooperage woods by pressurized hot water extraction (PHWE)
  15. Volatile organic compounds (VOCs) from lauan (Shorea ssp.) plyboard prepared with kraft lignin, soy flour, gluten meal and tannin: emissions during hot pressing and from panels as a function of time
  16. Plasma treatment of plastic film or decorative veneer and its effects on the peel strength and curling deformation of plastic film-reinforced pliable decorative sliced veneer (PR-RP-DSV)
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