Confirmation of Tuntun Angin (Elaeocarpus floribundus) Taxonomic Status Using matK and ITS Sequences

Roslim, Dewi Indriyani; Khumairoh, Siti; Herman, Herman

doi:10.15294/biosaintifika.v8i3.7406

Cited by 13 publications

(13 citation statements)

References 32 publications

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“…The parameters values obtained were max score = 937, E-value = 0.0, identity value = 100%, and query cover = 100% (Roslim et al, 2016a). This success was supported by the availability of the matK and the ITS sequences for Elaeocarpus floribundus in GenBank.…”

Section: Discussionmentioning

confidence: 77%

“…Some parameters in BLASTn program need to be considered to make a decission, for instances, the values of max score and total score should be high, the values of query cover dan the ident should be 100%, and E-value should be zero (Madden, 2013;Fassler & Cooper, 2008;Roslim, 2017;Roslim et al, 2016a).…”

Section: Analysis Of the Trnl-trnf Intergenic Spacer Sequencementioning

confidence: 99%

“…In addition, the trees also contribute by maintaining erosion, to maintain water quality, and provide nutrients to the lake. Rengas is one of the trees that are growing there (Elvyra & Yus, 2012;Roslim, 2017).…”

Section: Introductionmentioning

confidence: 99%

“…At that time, the DNA barcode sequences for Gluta renghas was available in GenBank is rps16 intron and trnL-trnF intergenic spacer (Roslim, 2017). Therefore, the next research to determine the identity of Gluta sp clone Riau would be better off if it uses those DNA barcode sequences.…”

Section: Introductionmentioning

confidence: 99%

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Application of rps16 Intron and trnL-trnF Intergenic Spacer Sequences to Identify Rengas clone Riau

Roslim

Herman

2017

J Bio Bio Edu

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Rengas clone Riau has been identified using morphological characters and molecular technique with a psbA-trnH intergenic spacer, however, this method can only determine its taxonomic status at genus level, namely Gluta sp. This study reports application two DNA barcodes, i.e. rps16 intron and trnL-trnF intergenic spacer, to identify Rengas clone Riau. The methods included collection of the leaves from Kajuik Lake, total DNA isolation, electrophoresis, PCR (polymerase chain reaction), gel purification and sequencing. The rps16 intron size was 659 bp and the trnL-trnF intergenic spacer was 527 bp. The BLASTn analysis showed that sequences of the rps16 intron and the trnL-trnF intergenic spacer of Gluta sp clone Riau had 100% similarity to those of G. renghas deposited in GenBank. These results were supported by high max score, high total score, query cover = 100%, and E-value = 0. The dendrograms also showed the closest relationship of Gluta sp clone Riau with G. renghas deposited in GenBank compared to other species of Gluta. In conclusion, this study succeeded in identifying Rengas clone Riau as Gluta renghas by using sequences of the rps16 intron and the trnL-trnF intergenic spacer. A combination of DNA barcodes could be applied to identify various plants as long as the database for the DNA barcodes is available in public database such as GenBank.

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Section: Discussionmentioning

confidence: 77%

Section: Analysis Of the Trnl-trnf Intergenic Spacer Sequencementioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Application of rps16 Intron and trnL-trnF Intergenic Spacer Sequences to Identify Rengas clone Riau

Roslim

Herman

2017

J Bio Bio Edu

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“…Some other plants that grow in and around Kajuik Lake are trees, such as tuntun angin (Elaeocarpus floribundus), rengas (Gluta renghas), durik-durik (Syzygium sp. ), and putat (Planchonia valida); rotan (Calamus sp); ferns; and grasses [9,10,11,12].…”

Section: Introductionmentioning

confidence: 99%

The DNA Sequence Encoding Actin (ACT1) of Pandan (Benstonea sp.)

Wahyuningsih

Elyani²,

Damayanti³

et al. 2019

J.Trop.Life.Science

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One of housekeeping genes is actin gene. This gene is frequently used in gene expression studies as an internal control. The DNA sequence encoding actin from Pandan (Benstonea sp.) clone Riau has not been reported, therefore, this study investigated the DNA sequence encoding actin isolated from Benstonea sp. clone Riau. Total DNA isolation was performed in fresh leaves, total RNA isolation from stem, total cDNA synthesis, polymerase chain reaction using degenerate actin primer, electrophoresis, cloning, transformation, blue white colony selection, colony PCR, sequencing, data analysis using BioEdit and MEGA6 softwares and BLASTn program. The partial DNA sequence encoding actin from Benstonea sp. clone Riau obtained was 1,403 bp. The sequence was grouped as part of actin1 (ACT1) and it was consisted of two exons and one intron. The predicted coding and peptide sequences were 616 bp and 205 amino acids, respectively. The predicted coding sequence had 90% similarity to some ACT1 mRNA from some plants species but none of which belongs to Benstonea genus or Pandanaceae family. The deduced peptide sequence had similarity to some ACT1 peptide from some plant species of up to 99% and also none of them belongs to Benstonea genus or Pandanaceae family. Thus, the partial ACT1 gene obtained in this study was the first sequence reported from Benstonea genus. Furthermore, this sequence can be used as a reference to isolate actin genes from other species within Benstonea genus for gene expression analysis purposes.

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Elaeocarpus floribundus (Indian olive)

2019

CABI Compendium

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Confirmation of Tuntun Angin (Elaeocarpus floribundus) Taxonomic Status Using matK and ITS Sequences

Cited by 13 publications

References 32 publications

Application of rps16 Intron and trnL-trnF Intergenic Spacer Sequences to Identify Rengas clone Riau

Application of rps16 Intron and trnL-trnF Intergenic Spacer Sequences to Identify Rengas clone Riau

The DNA Sequence Encoding Actin (ACT1) of Pandan (Benstonea sp.)

Elaeocarpus floribundus (Indian olive)

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