DNA barcoding of Pericopsis mooniana from two different populations in Indonesia based on rDNA ITS (Internal Transcribed Spacer)

Prihatini, Istiana; Widyatmoko, Aypbc; Nurtjahjaningsih, I. L. G.; Yuskianti, Vivi; Danarto, Setyawan Agung

doi:10.1088/1757-899x/935/1/012024

Cited by 5 publications

(1 citation statement)

References 21 publications

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“…Amplification was carried out in 50 l of PCR mix, which included 10 l of genomic DNA, 25 l of 2x My Taq HS Red Mix (Bioline), 0.5 M of each primer, 0.2 g of bovine serum albumin (BSA), and sterile water. DNA amplification was carried out in an Applied Biosystem ProFlex PCR system using a program consisting of 5 minutes of denaturation at 94°C, 35 cycles of 94°C for 30 seconds, 55 °C for 30 seconds, 72 °C for 60 seconds, and a final extension at 72 °C for 7 minutes, as in a previous study [32]. The ITS DNA amplicon was observed by electrophoresis on agarose gel using 1x TBE buffer at 110 volts for approximately 45 minutes.…”

Section: Pcr Amplification and Sequencing Of The Internal Transcribed...mentioning

confidence: 99%

Species discrimination power of ITS DNA barcoding on Tristaniopsis species on Bangka Island, Indonesia

Prihatini,

Widyatmoko,

Nurtjahjaningsih

et al. 2023

IOP Conf. Ser.: Earth Environ. Sci.

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The rDNA ITS barcoding marker has been widely used for plant identification, along with other primers for the chloroplast sequence region. This study applied the ITS primer to discriminate Tristaniopsis spp. on Bangka Island. Twelve leaf samples were collected from five community forests in Bangka district. The pairwise distance between sequences calculated using Kimura’s two parameters in MEGA11 revealed that pelawan air is different from other pelawan specimens (1.58–2.1%), while pelawan orange and pelawan merah specimens showed low variation (0–0.78%). There is a barcoding gap in the application of the ITS markers (full-length ITS including 5.8s, ITS1, and ITS2) for Tristaniopsis, which is shown by the higher value of minimum interspecific divergence than the value of maximum interspecific divergence for all three regions. Phylogeny trees constructed from the nucleotide sequence of 12 pelawan and other related taxa clustered pelawan merah and pelawan orange together and separated them from pelawan air.

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Section: Pcr Amplification and Sequencing Of The Internal Transcribed...mentioning

confidence: 99%

Species discrimination power of ITS DNA barcoding on Tristaniopsis species on Bangka Island, Indonesia

Prihatini,

Widyatmoko,

Nurtjahjaningsih

et al. 2023

IOP Conf. Ser.: Earth Environ. Sci.

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Population, morphological, and genetic characteristics of pelawan trees on Bangka Island, Indonesia: implications for conservation

Wibisono,

Widyatmoko,

Nurtjahjaningsih

et al. 2023

Forest Science and Technology

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The genetic diversity of angsana (Pterocarpus indicus) in Purwodadi Botanical Garden Indonesia revealed by rDNA ITS

Danarto¹,

Qiptiyah²,

Prihatini³

et al. 2021

IOP Conf. Ser.: Earth Environ. Sci.

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Pterocarpus indicus or angsana is one of the tropical tree species that produce redwood. It has been listed as an endangered species by IUCN since 2018, as its natural population number has declined and possibly extinct in some countries. Therefore, conservation efforts to protect this species must be carried out based on the appropriate conservation strategy. This study aimed to assess molecular characters of Pterocarpus species in Purwodadi Botanical Garden using rDNA ITS (internal transcribed spacer) and its association with morphological characters. Information on genetic and morphological characters will precisely identify this species so that conservation strategy can be appropriately planned. Leaf samples of eighteen P. indicus trees were collected from Purwodadi Botanical Garden (PBG) and used in this study. Twelve specimens that provide clear DNA sequence were genetically assessed. The results showed that P. echinatus exhibited rDNA ITS character similar to that P. indicus, while P. indicus specimens from Morotai were very different from other P. indicus specimens. Morotai specimens showed 89% similarity to several Pterocarpus species, including P. acapulcensis, P. rohrii and P. indicus. The morphological characters were assessed along with molecular characters. The impacts of conservation strategies are discussed in this paper.

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DNA barcoding of Pericopsis mooniana from two different populations in Indonesia based on rDNA ITS (Internal Transcribed Spacer)

Cited by 5 publications

References 21 publications

Species discrimination power of ITS DNA barcoding on Tristaniopsis species on Bangka Island, Indonesia

Species discrimination power of ITS DNA barcoding on Tristaniopsis species on Bangka Island, Indonesia

Population, morphological, and genetic characteristics of pelawan trees on Bangka Island, Indonesia: implications for conservation

The genetic diversity of angsana (Pterocarpus indicus) in Purwodadi Botanical Garden Indonesia revealed by rDNA ITS

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