Development of a diagnostic DNA marker for the geographic origin of <i>Shorea leprosula</i>

Nuroniah, Hani Sitti; Gailing, Oliver; Finkeldey, Reiner

doi:10.1515/hf-2016-0086

Cited by 4 publications

(2 citation statements)

References 53 publications

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“…AFLPs are dominant (presence/absence) markers and their location in the genome is unknown. AFLP fragments can be gel-extracted, cloned, and sequenced to develop sequence characterized amplified region (SCAR) markers, but the method is technically demanding and time-consuming (Gailing and Bachmann 2003 ; Nuroniah et al 2010 , 2017 ). AFLPs have been widely used in genetic diversity assessments and genetic mapping in plants, including forest trees (Cao et al 2009 ; Gailing et al 2008 , 2013 ; Meudt and Clarke 2007 ; Wang et al 2014 ; Wehenkel et al 2020 ).…”

Section: Classical Genetic Markers and Methodsmentioning

confidence: 99%

“…The PCR–RFLP technique is a cost-effective method to characterize chloroplast haplotype distribution across species ranges and has been used to reconstruct postglacial recolonization routes of major forest tree species in Europe and North America (Heuertz et al 2004 ; Laricchia et al 2015 ; Palme et al 2003 ; Petit et al 2002a , 2002b , 2003 ). Due to the pronounced phylogeographic structure generally observed at uniparentally inherited cpDNA markers, PCR–RFLP of cpDNA can be used to pinpoint the geographic origin of forest reproductive material or wood products (Jiao et al 2019 ; Nuroniah et al 2017 ; Rachmayanti et al 2009 ).…”

Section: Classical Genetic Markers and Methodsmentioning

confidence: 99%

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Applying molecular and genetic methods to trees and their fungal communities

Müller

Kües

Budde

et al. 2023

Appl Microbiol Biotechnol

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Forests provide invaluable economic, ecological, and social services. At the same time, they are exposed to several threats, such as fragmentation, changing climatic conditions, or increasingly destructive pests and pathogens. Trees, the inherent species of forests, cannot be viewed as isolated organisms. Manifold (micro)organisms are associated with trees playing a pivotal role in forest ecosystems. Of these organisms, fungi may have the greatest impact on the life of trees. A multitude of molecular and genetic methods are now available to investigate tree species and their associated organisms. Due to their smaller genome sizes compared to tree species, whole genomes of different fungi are routinely compared. Such studies have only recently started in forest tree species. Here, we summarize the application of molecular and genetic methods in forest conservation genetics, tree breeding, and association genetics as well as for the investigation of fungal communities and their interrelated ecological functions. These techniques provide valuable insights into the molecular basis of adaptive traits, the impacts of forest management, and changing environmental conditions on tree species and fungal communities and can enhance tree-breeding cycles due to reduced time for field testing. It becomes clear that there are multifaceted interactions among microbial species as well as between these organisms and trees. We demonstrate the versatility of the different approaches based on case studies on trees and fungi. Key points • Current knowledge of genetic methods applied to forest trees and associated fungi. • Genomic methods are essential in conservation, breeding, management, and research. • Important role of phytobiomes for trees and their ecosystems.

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Section: Classical Genetic Markers and Methodsmentioning

confidence: 99%

Section: Classical Genetic Markers and Methodsmentioning

confidence: 99%

Applying molecular and genetic methods to trees and their fungal communities

Müller

Kües

Budde

et al. 2023

Appl Microbiol Biotechnol

Self Cite

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DNA barcoding for wood identification: global review of the last decade and future perspective

Jiao

et al. 2020

IAWA J.

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DNA barcoding technology has emerged as one of the most promising tools available to identify timber at the species level, contributing to the monitoring of the timber trade and the conservation of forestry sources. This paper reviews the progress, challenges, and existing problems in the development of DNA barcoding for wood identification in the last ten years. There is a focus on the optimization of DNA extraction methods for processed or ancient wood, the strategy of screening high-resolution DNA barcodes suitable for wood identification, the development of a wood DNA reference database especially for priority taxa, and the comparison and comprehensive application of sequence analytical methods to achieve accurate identification. In addition to DNA barcoding, the feasibility of other genetic methods for wood identification is also discussed. Furthermore, future research orientation and strategy of wood DNA barcoding are presented. We argue that wood DNA barcoding integrated with other methodologies including wood anatomy can offer an effective approach and a new perspective to promote legal logging for timber trade custody and global biodiversity conservation.

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Determination of the country of origin of true mahogany (Swietenia macrophylla King) wood in five Latin American countries using handheld NIR devices and multivariate data analysis

Silva

Pastore²,

Soares

et al. 2018

Holzforschung

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A rapid and reliable identification of the country of origin of protected timbers is one of the measures for combating illegal logging. Mahogany (Swietenia macrophyllaKing) trees are distributed from Mexico to Bolivia and the Brazilian Amazon and are included in Appendix II of the Convention on International Trade in Endangered Species of Wild Fauna and Flora (CITES). Near-infrared spectroscopy (NIRS) has been proven to be a promising technique for calibration based and rapid species identification. There are only a few studies concerning the origin determination of mahogany wood. The present study is dedicated to trace back mahogany wood from Bolivia, Brazil, Guatemala, Mexico and Peru by means of two different handheld NIR spectrometers. The spectra were obtained directly from the wood samples, and soft independent modeling of class analogy (SIMCA) and partial least squares for discriminant analysis (PLS-DA) models were developed for data evaluation. The SIMCA model was efficient and 67–100% and 70–98% of the origins were identified based on the spectral ranges from 1595 to 2396 nm and 950 to 1650 nm, respectively. The best results were obtained by the PLS-DA approach, in which the efficiency rates (EFR) vary from 90 to 100% with both spectrometers. In summary, both instruments were highly effective and are suitable for preliminary identification of the country of origin for mahogany wood.

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Development of a diagnostic DNA marker for the geographic origin of Shorea leprosula

Cited by 4 publications

References 53 publications

Applying molecular and genetic methods to trees and their fungal communities

Applying molecular and genetic methods to trees and their fungal communities

DNA barcoding for wood identification: global review of the last decade and future perspective

Determination of the country of origin of true mahogany (Swietenia macrophylla King) wood in five Latin American countries using handheld NIR devices and multivariate data analysis

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