Genic microsatellite loci of a critically endangered dipterocarp, Dipterocarpus cornutus (Keruing Gombang), derived from transcriptome sequences

Nurul Farhanah Zakaria, . and Ng, Kevin Kit Siong and Lee, Chai Ting and Aliyah Djusman, . and Hazwani Humaira' Zakaria, . and Ng, Chin Hong and Nur Nabilah Alias, . and Nur Iylia Yusliza, . and Tnah, Lee Hong and Lee, Soon Leong (2023) Genic microsatellite loci of a critically endangered dipterocarp, Dipterocarpus cornutus (Keruing Gombang), derived from transcriptome sequences. International Journal of Agriculture, Forestry and Plantation (Malaysia), 13. pp. 158-163. ISSN 2462-1757

Dipterocarpus cornutus is an important timber tree in Southeast Asia. Population decline of the species due to habitat loss and conversion has threatened its existence and it is listed as Critically Endangered in the IUCN Red List. To aid in the assessment of the species’ genetic diversity, we developed microsatellite loci mined from transcriptome sequence data. Specific microsatellite primer pairs obtained after agarose electrophoresis screening were further evaluated for polymorphism through fragment analysis using 24 wild individuals from Pasoh Forest Reserve, Negeri Sembilan. Nineteen loci were isolated for D. cornutus. These loci showed specific amplification and are polymorphic (DcoT01, DcoT02, DcoT03, DcoT04, DcoT06, DcoT14, DcoT22, DcoT25, DcoT26, DcoT27, DcoT28, DcoT31, DcoT32, DcoT35, DcoT36, DcoT44, DcoT45, DcoT59 and DcoT60). The number of alleles ranged from 2 to 19, and the observed and expected heterozygosity ranged from 0.208 to 1.000 and from 0.191 to 0.948, respectively. Null allele was detected at two loci, namely DcoT06 and DcoT26. Excluding these two loci, we have successfully developed 17 microsatellite loci in D. cornutus, readily available to be applied for its conservation genetics.

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Abstract

Dipterocarpus cornutus is an important timber tree in Southeast Asia. Population decline of the species due to habitat loss and conversion has threatened its existence and it is listed as Critically Endangered in the IUCN Red List. To aid in the assessment of the species’ genetic diversity, we developed microsatellite loci mined from transcriptome sequence data. Specific microsatellite primer pairs obtained after agarose electrophoresis screening were further evaluated for polymorphism through fragment analysis using 24 wild individuals from Pasoh Forest Reserve, Negeri Sembilan. Nineteen loci were isolated for D. cornutus. These loci showed specific amplification and are polymorphic (DcoT01, DcoT02, DcoT03, DcoT04, DcoT06, DcoT14, DcoT22, DcoT25, DcoT26, DcoT27, DcoT28, DcoT31, DcoT32, DcoT35, DcoT36, DcoT44, DcoT45, DcoT59 and DcoT60). The number of alleles ranged from 2 to 19, and the observed and expected heterozygosity ranged from 0.208 to 1.000 and from 0.191 to 0.948, respectively. Null allele was detected at two loci, namely DcoT06 and DcoT26. Excluding these two loci, we have successfully developed 17 microsatellite loci in D. cornutus, readily available to be applied for its conservation genetics.

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Item Type:	Article
AGROVOC Term:	timber trees
AGROVOC Term:	forest genetic resources
AGROVOC Term:	endangered species
AGROVOC Term:	population genetics
AGROVOC Term:	microsatellites
AGROVOC Term:	transcriptome
AGROVOC Term:	primers
AGROVOC Term:	genetic markers
Geographical Term:	Malaysia
Depositing User:	Mr. Khoirul Asrimi Md Nor
Date Deposited:	11 Jun 2026 03:05
Last Modified:	11 Jun 2026 03:05
URI:	http://webagris.upm.edu.my/id/eprint/4000

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