Genome skimming reveals novel plastid markers for the molecular identification of illegally logged African timber species.

Tropical forests represent vast carbon stocks and continue to be key carbon sinks and buffer climate changes. The international policy constructed several mechanisms aiming at conservation and sustainable use of these forests. Illegal logging is an important threat of forests, especially in the trop...

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Autores principales:	Maurizio Mascarello, Mario Amalfi, Pieter Asselman, Erik Smets, Olivier J Hardy, Hans Beeckman, Steven B Janssens
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/3b5ae8346fc0430489964b25d8551e6b
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spelling	oai:doaj.org-article:3b5ae8346fc0430489964b25d8551e6b2021-11-25T06:23:33ZGenome skimming reveals novel plastid markers for the molecular identification of illegally logged African timber species.1932-620310.1371/journal.pone.0251655https://doaj.org/article/3b5ae8346fc0430489964b25d8551e6b2021-01-01T00:00:00Zhttps://doi.org/10.1371/journal.pone.0251655https://doaj.org/toc/1932-6203Tropical forests represent vast carbon stocks and continue to be key carbon sinks and buffer climate changes. The international policy constructed several mechanisms aiming at conservation and sustainable use of these forests. Illegal logging is an important threat of forests, especially in the tropics. Several laws and regulations have been set up to combat illegal timber trade. Despite significant enforcement efforts of these regulations, illegal logging continues to be a serious problem and impacts for the functioning of the forest ecosystem and global biodiversity in the tropics. Microscopic analysis of wood samples and the use of conventional plant DNA barcodes often do not allow to distinguish closely-related species. The use of novel molecular technologies could make an important contribution for the identification of tree species. In this study, we used high-throughput sequencing technologies and bioinformatics tools to obtain the complete de-novo chloroplast genome of 62 commercial African timber species using the genome skimming method. Then, we performed a comparative genomic analysis that revealed new candidate genetic regions for the discrimination of closely-related species. We concluded that genome skimming is a promising method for the development of plant genetic markers to combat illegal logging activities supporting CITES, FLEGT and the EU Timber Regulation.Maurizio MascarelloMario AmalfiPieter AsselmanErik SmetsOlivier J HardyHans BeeckmanSteven B JanssensPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 16, Iss 6, p e0251655 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Maurizio Mascarello Mario Amalfi Pieter Asselman Erik Smets Olivier J Hardy Hans Beeckman Steven B Janssens Genome skimming reveals novel plastid markers for the molecular identification of illegally logged African timber species.
description	Tropical forests represent vast carbon stocks and continue to be key carbon sinks and buffer climate changes. The international policy constructed several mechanisms aiming at conservation and sustainable use of these forests. Illegal logging is an important threat of forests, especially in the tropics. Several laws and regulations have been set up to combat illegal timber trade. Despite significant enforcement efforts of these regulations, illegal logging continues to be a serious problem and impacts for the functioning of the forest ecosystem and global biodiversity in the tropics. Microscopic analysis of wood samples and the use of conventional plant DNA barcodes often do not allow to distinguish closely-related species. The use of novel molecular technologies could make an important contribution for the identification of tree species. In this study, we used high-throughput sequencing technologies and bioinformatics tools to obtain the complete de-novo chloroplast genome of 62 commercial African timber species using the genome skimming method. Then, we performed a comparative genomic analysis that revealed new candidate genetic regions for the discrimination of closely-related species. We concluded that genome skimming is a promising method for the development of plant genetic markers to combat illegal logging activities supporting CITES, FLEGT and the EU Timber Regulation.
format	article
author	Maurizio Mascarello Mario Amalfi Pieter Asselman Erik Smets Olivier J Hardy Hans Beeckman Steven B Janssens
author_facet	Maurizio Mascarello Mario Amalfi Pieter Asselman Erik Smets Olivier J Hardy Hans Beeckman Steven B Janssens
author_sort	Maurizio Mascarello
title	Genome skimming reveals novel plastid markers for the molecular identification of illegally logged African timber species.
title_short	Genome skimming reveals novel plastid markers for the molecular identification of illegally logged African timber species.
title_full	Genome skimming reveals novel plastid markers for the molecular identification of illegally logged African timber species.
title_fullStr	Genome skimming reveals novel plastid markers for the molecular identification of illegally logged African timber species.
title_full_unstemmed	Genome skimming reveals novel plastid markers for the molecular identification of illegally logged African timber species.
title_sort	genome skimming reveals novel plastid markers for the molecular identification of illegally logged african timber species.
publisher	Public Library of Science (PLoS)
publishDate	2021
url	https://doaj.org/article/3b5ae8346fc0430489964b25d8551e6b
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Genome skimming reveals novel plastid markers for the molecular identification of illegally logged African timber species.

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