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All Journal Journal of Tropical Life Science : International Journal of Theoretical, Experimental, and Applied Life Sciences International Journal of Biosciences and Biotechnology Jurnal Bios Logos Jurnal Natur Indonesia Jurnal Keteknikan Pertanian AL KAUNIYAH Jurnal Online Mahasiswa (JOM) Bidang Matematika dan Ilmu Pengetahuan Alam Jurnal Penelitian Kehutanan Sumatrana Jurnal Riau Biologia Jurnal Pengabdian UntukMu NegeRI BIOLINK (Jurnal Biologi Lingkungan, Industri, Kesehatan) Jurnal Biologi Tropis Biosaintifika: Journal of Biology & Biology Education Bio-Lectura Jurnal Agronomi Tanaman Tropika (JUATIKA) Dinamika Pertanian Biosaintifika: Journal of Biology & Biology Education
Dewi Indriyani Roslim
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Religion Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Computer Science & IT Economics, Econometrics & Finance Education Environmental Science Immunology & microbiology Law, Crime, Criminology & Criminal Justice Materials Science & Nanotechnology Mathematics Medicine & Pharmacology Social Sciences

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Carbon Sequestration Potential of Traditional Agroforestry System in Rimbo Panjang Village, Kampar Based on Tree Biomass Isda, Mayta Novaliza; Fatonah, Siti; Yulminarti, Yulminarti; Roslim, Dewi Indriyani
Jurnal Biologi Tropis Vol. 24 No. 3 (2024): July - September
Publisher : Biology Education Study Program, Faculty of Teacher Training and Education, University of Mataram, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29303/jbt.v24i3.7344

Abstract

The traditional agroforestry industry is part of the Forestry and Other Land Use Net Sink 2030 (FOLU Net Sink 2030) strategy for low carbon development and climate resilience in Indonesia. This study aims to estimate the value of biomass, carbon stock, and carbon sequestration in traditional agroforestry systems in Rimbo Panjang Village, Kampar. Six plots (each measuring 20 x 20 meters) are used; three of the plots are 15 years old and three are 9 years old, respectively, for the conventional agroforestry system.  Biomass, carbon stock and carbon sequestration were estimated at the tree, pole and sapling levels.  Biomass calculations used allometric equations based on diameter at breast height (DBH) data. The results showed that carbon sequestration in Dusun 2 (618.2 tons/ha) was greater than in Dusun 1 (399 tons/ha), with an average carbon sequestration in both dusun of 508.6 tons/ha.  Trees contribute the highest value of biomass, carbon stock, and carbon sequestration, which is 74%, The difference in the value of biomass, carbon stock, and carbon sequestration in traditional agroforestry systems in Rimbo Panjang Village is significantly influenced by the average stem diameter. The various trees that make up traditional agroforestry in Rimbo Panjang Kampar, which is generally in the yard, should ideally be maintained and developed because of their high carbon sequestration potential.
DNA Barcoding Analysis Kitolod (Hippobroma longiflora) from Riau Based on matk Gene Herman, Herman; Sari, Mayang; Multivasari, Nella; Roslim, Dewi Indriyani
Jurnal Biologi Tropis Vol. 25 No. 1 (2025): Januari - Maret
Publisher : Biology Education Study Program, Faculty of Teacher Training and Education, University of Mataram, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29303/jbt.v25i1.8479

Abstract

The kitolod plant (Hippobroma longiflora) is a traditional medicinal plant originating from the Campanulaceae family. DNA barcoding is a technique for identifying an organism using short nucleotide sequences known as DNA barcoding. One of the DNA barcodes in plants is matK. This research aims to analyze DNA barcode sequence in the matK region of the kitolod plant using the DNA barcode. Samples were taken from the area of Tarai Bangun Village, Kampar Regency, Riau Province, Indonesia as many as two different individuals. The research stages carried out are sampling, followed by DNA isolation using the Geneaid Mini Plant kit, PCR follow thermo scientific instructions, gel agarose electrophoresis, sequencing, and data analysis using the bioinformatics program, namely BioEdit, BLASTn, and MEGA 6.0. The matK sequence of the kitolod plant obtained was 841 bp. The result showed that no identity value was found to reached 100%. The highest identity value (99.88%) was found in H. longiflora NC_035361.1. 34 nucleotide variations were found with one critical nucleotide for H. longiflora from Riau and six critical nucleotides for the H. longiflora. The matK DNA sequence from Kitolod Riau in this study is the first sequence reported in database GenBank.
Molecular Characteristics of Lopang (Gymnopetalum cochinchinense) Originating from Riau Based on matK and trnL-trnF Intergenic Spacer Herman, Herman; Akmal, Fidia; Nurbaiti, Nurbaiti; Siahaan, Citra Winarni; Lestari, Wahyu; Adiwirman, Adiwirman; Altuhaish, Adeel Abdulkarim Fadhl; Roslim, Dewi Indriyani
Biosaintifika: Journal of Biology & Biology Education Vol. 17 No. 3 (2025): November 2025
Publisher : Universitas Negeri Semarang

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15294/biosaintifika.v17i3.24522

Abstract

Lopang (Gymnopetalum cochinchinense) is a herbaceous plant traditionally consumed as a vegetable by communities in Riau Province, Indonesia. However, DNA barcode sequence data for this species remain limited. These findings underscore the importance of analyzing DNA barcode sequences of matK and trnL-trnF intergenic spacer (IGS) lopang from Riau. This study highlights the analysis of DNA barcode sequences matK and trnl-trnf intergenic spacer (IGS) in lopang from Riau province. This study applies sampling, DNA extraction, Polymerase Chain Reaction (PCR), electrophoresis, sequencing, and bioinformatics data analysis using BioEdit 7, BLASTn (Basic Local Alignment Search Tool) to find sequence similarities with the GenBank database, Management and analyzed DNA sequences with MESQUITE, Multiple alignments using ClustalW and MEGA11 to create dendrograms. Fresh leaves were collected from Rokan Hulu Regency in Riau Province. The results showed that matK and trnL-trnF IGS DNA sequences of lopang measured 752 bp and 410 bp, respectively. BLASTn analysis revealed that lopang has 99.73% similarity with G. chinense based on the matK sequence and 99.76% similarity based on the trnL-trnF IGS sequence. The analysis revealed a variation of 13 nucleotides, 1 critical nucleotide and no indels in the matK sequence, while in the trnL-trnF IGS sequence there were 19 nucleotide variations, 1 critical nucleotides and 5 indels. As a final point, lopang from Riau is closely related to G. chinense. The findings of this research contribute to the molecular identification of this species and benefit science, such as providing an understanding of plant evolution, species identification, genetic analysis, and the development of molecular markers in the Cucurbitaceae family.
DNA Barcoding Analysis Areca Nut from Riau Based on matk Gene Herman, Herman; Fitriadi, Zul; Jumin, Hasan Basri; Nurbaiti, Nurbaiti; Roslim, Dewi Indriyani
Jurnal Biologi Tropis Vol. 25 No. 4a (2025): Special Issue
Publisher : Biology Education Study Program, Faculty of Teacher Training and Education, University of Mataram, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29303/jbt.v25i4a.10689

Abstract

Areca nut (Areca catechu) is a monocotyledonous plant and belongs to the Arecaceae family. Areca nut trees have an important role in the economic, religious, cultural, and traditional medicine sectors. The use of matK sequence DNA barcodes to identify areca nut species from Riau has never been done before. This study aims to analyze the potential of matK sequences as DNA barcodes for areca nut plants from Riau. Areca nut samples were taken from the Indrigiri Hilir Regency, Riau Province, Indonesia. The samples consisted of five varieties, each represented by seven different individuals. The research stages carried out were fresh leaves colleting, DNA isolation using the Geneaid Mini Plant kit, PCR following Thermo Scientific instructions, agarose gel electrophoresis, sequencing, and data analysis using bioinformatics programs such asBioEdit, BLASTn, and MEGA 11. The results showed that the highest identity value (99.87%) was found in A. catechu (MW785259.1). Six nucleotide variations were found with one critical nucleotide for A. catechu. The matK DNA sequence of areca nut from Riau from this study is the first sequence reported in the GenBank database.
Analysis of matK and trnL-trnF Intergenic Spacer on Pandan (Benstonea sp.) From Kualu Village, Riau Province, Indonesia Nugraha, Fadel; Sofhya, Putri Tri; Putri, Fatma Jumaita; Herman, Herman; Roslim, Dewi Indriyani
Jurnal Biologi Tropis Vol. 25 No. 4a (2025): Special Issue
Publisher : Biology Education Study Program, Faculty of Teacher Training and Education, University of Mataram, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29303/jbt.v25i4a.10731

Abstract

Molecular characterization using DNA barcodes is essential for clarifying taxonomic relationships and confirming species identity within the genus Benstonea. Pandan (Benstonea sp.) has potential as a source of bioactive compounds, a subject of genetic and taxonomic studies, and a component of biodiversity that supports conservation and the development of tissue culture for secondary metabolite production. This study aims to analyze the DNA barcode regions matK and trnL-trnF intergenic spacer (IGS) on Benstonea sp. collected from Kualu Village, Riau Province, Indonesia. The fresh leaves of this plant were used for DNA extraction using the Geneaid Mini Plant kit, PCR following Thermo Scientific protocols, agarose gel electrophoresis, sequencing, and data analysis using BioEdit, BLASTn, and MEGA 11.0. In this study had been obtained DNA sequences of matK and trnL-trnF IGS with the size of 846 bp and 964, respectively. Based on BLASTn analysis of the sequences, it showed that the pandan species originating from Kualu Village (Kampar Regency) and Langgam Village (Pelalawan Regency) have similarities with accessions from other genera of the Pandanaceae family (average query cover value reaches 100%). Phylogenetic analysis of the trnL-trnF IGS showed that the pandan plants studied were in the same group as Benstonea sp. 'Kajuik Lake' DIR01 and were clearly separated from the Pandanus and Martellidendron groups. The trnL-trnF IGS can be used to differentiate and group species of the genera Benstonea and Pandanus into distinct clades, whereas the matK was only effective for classification at the genus level. The sequences were submitted to GenBank and were available for use in the molecular identification of this plant.
Comparative Analysis of DNA Barcodes in The Fabaceae Family Tsany, Haura Fikriyyah; Indriyani Roslim, Dewi
Jurnal Biologi Tropis Vol. 26 No. 2 (2026): April - Juni
Publisher : Biology Education Study Program, Faculty of Teacher Training and Education, University of Mataram, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29303/jbt.v26i2.11696

Abstract

In identifying plants, people are confused about choosing the appropriate barcode for identification. For that reason, this study aims to analyze four DNA barcode rbcL, matK, trnL-trnF IGS, and ITS in the Fabaceae family. DNA sequence were taken and collected from Genbank through the NCBI website, which is 30 species from 6 genera each consisting of 5 species and the outgroup (Acacia auriculiformis). DNA sequence analysis was performed using MEGA 11. Phylogenetic analysis were performed using the Neighbor Joing Tree (NJ) and Maximum Likehood (ML) methods. The results of the analysis sequence variation showed that the highest conserved site was found in rbcL (83.72%) and variable site was found in ITS (62.03%). The number of segregation sites, substitution rates and diversity values in the Fabaceae family were highest in the ITS, respectively (451), (0.155284), and (0.219148). In conclusion, the four DNA barcodes analyzed in the Fabaceae family, namely rbcL, matK, trnL-trnF IGS and ITS, were able to separate the genera in the Fabaceae family. Among the four DNA barcodes analyzed, ITS was superior in identifying the Fabaceae family. The results of this study can be used as information in identifying plants in the Fabaceae family.
Multilocus Analysis of DNA Barcodes of matK, rbcL, and ITS in the Asteraceae Family Rosa, Vita; Roslim, Dewi Indriyani; Herman, Herman
Jurnal Biologi Tropis Vol. 26 No. 2 (2026): April - Juni
Publisher : Biology Education Study Program, Faculty of Teacher Training and Education, University of Mataram, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29303/jbt.v26i2.11745

Abstract

Asteraceae is known as compositae which is a cosmopolitan plant group consisting of approximately 1,250 genera and 25,000 species distributed in various regions. Similar morphological characters among species pose challenges in taxonomy and phylogenetics, making the identification process difficult. These limitations of morphological identification can be overcome through a molecular approach using DNA barcoding to reduce errors in species grouping and in determining phylogenetic relationships among plant species in the Asteraceae family through multilocus DNA barcode analysis of matK, rbcL and ITS. This study aims to analyze DNA barcodes matK, rbcL and ITS in the Asteraceae family. DNA sequence exploration were obtained from GenBank through the NCBI website. Analysis of DNA sequence was performed using MEGA11, and phylogenetic tree reconstruction was carried out using the Neighbor Joining (NJ) method in MEGA11 with the p-distance evolutionary model and rapid bootstrap analysis conducted with 1000 replicates. The rbcL sequence had the lowest number of variable sites (13.6%) compared to single sequences and other combinations, while ITS showed the highest number of variable sites (59.3%), and the matK+rbcL+ITS combination produced the most informative phylogenetic grouping because it provided more consistent bootstrap support at the main branches. The multilocus approach increases the resolution in describing phylogenetic relationships among genera within the family Asteraceae.
Analysis of Three DNA Barcoding (matK, rbcL, ITS) in the Anacardiaceae Family Ningrum, Olivi Aruanda; Roslim, Dewi Indriyani; Herman, Herman
Jurnal Biologi Tropis Vol. 26 No. 2 (2026): April - Juni
Publisher : Biology Education Study Program, Faculty of Teacher Training and Education, University of Mataram, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29303/jbt.v26i2.11746

Abstract

The Anacardiaceae family is a group of tropical plants that have important economic value, but the identification of its species is often hampered by morphological similarities. Molecular approaches through DNA barcoding are an alternative to improve the accuracy of identification and kinship analysis. The purpose of this study was to analyze the combination of three DNA barcodes, namely (matK, rbcL and ITS) in the Anacardiaceae family. The materials used in this study were DNA sequence databases (rbcL, matK, ITS) from the Anacardiaceae family consisting of eight genera and one outgroup used, namely Pometia pinnata, downloaded from GenBank through the NCBI website. Sequences were aligned using MAFFT v.7, edited using BioEdit v.7.2, and analyzed using MEGA 11 to calculate nucleotide frequencies, nucleotide base pairs, diversity, and phylogenetic tree reconstruction using the Neighbor-joining method with 1000 bootstrapping times. The results showed that the matK sequence, a combination of matK+rbcL sequences, and a combination of matK+rbcL+ITS sequences were the most optimal barcodes for grouping species of the same genus in the Anacardiaceae family and separating out-group species. The ITS sequence, a combination of matK+ITS sequences, and a combination of rbcL+ITS sequences were able to group species of the same genus well but could not separate out-group species. The rbcL sequence was not optimal for use as a single DNA barcode.
Co-Authors ', Herman ', Tasiah , Deviona, , , HERMAN . Hadiwiyono Abd. Rasyid Syamsuri Adiwirman Adiwirman, Adiwirman Akmal, Fidia Al Khairi, Hapiz Aldri Frinaldi ALEX HARTANA Altuhaish, Adeel Abdulkarim Fadhl Andariyusti, Felly Andriani, Lestari Anna Safarrida, Anna Arief Priyadi Ashfira Ashfira Ashfira, Ashfira Asih, Hastini Aslim Rasyad Aslim Rasyad At-Thahirah At-Thahirah Awitdrus Awitdrus, Awitdrus Azrial Azrial Azrial, Azrial Baehaqi Budiono, Deanne Yoshe Fidela Cahyati, Isa Endar Ciska Vivian Sianturi Daniel Happy Putra Defrianto Defrianto Desriani Ritawati Hutagalung Dilla Mutiarawati Dini Septya Nastiti Dita Deanesia Dodi Frianto, Dodi Endah Budi Lestari ENNIE CHAHYADI, ENNIE Fadel Nugraha Faizah, Niswah Fifi Puspita Fitriadi, Zul Fitriani, Ana Fitriyatun Nisa, Fitriyatun Frederika Sinuraya Furqoni, Aries Tri HAJRIAL ASWIDINNOOR Hasibuan, Aldy Riau Wansyah Herman Herman Herman - Herman - Herman Herman Herman Herman Herman Herman Hestia Hairima Hutagalung, Desriani Ritawati Imra Atul Uswah Ingga Yurisna Fitriani Intan Sari Nuraini Jumin, Hasan Basri Lambok Nia Natalya Larissa Anggisti Lestari Andriani Linda Novita Liza Aulia Yusfi Martupa Nainggolan Mayang Sari Mayta Novaliza Isda Miftahudin . Miftahul Rahmah Muhamad Fauzan Multivasari, Nella Mutiarawati, Dilla Nery Sofiyanti Ningrum, Olivi Aruanda Niswah Faizah Nur Aisyah Nurin Nuryani NURKHAIRANI, PUTRI Nurwijayanti Nuryani Nuryani PATMASARI, MUDRIKA Putri Agustina PUTRI PANJAITAN, KHAIRIZA UMAMI Putri, Fatma Jumaita Putri, Shalsadila Rahmadani Rahmi Anandia Rio Riduan Rosa, Vita Rosmeilinda, Tio Fanny Roza Elvyra Saktioto Saktioto SARAGIH, JESSICA RODEARNI Siahaan, Citra Winarni Siti Fatonah Siti Khumairoh, Siti Siti Nurhayati Sofhya, Putri Tri Sri Wahyuningsih Sugeng Santoso Suha Maudina Berampu Suhardi Suhardi Suharyanto Suharyanto Susilo Hambeg Poromarto Tio Fanny Rosmeilinda Tisha Melia Tsany, Haura Fikriyyah Utut Suharsono Vera Magdaleni Manullang Wahyu Lestari Wahyu Lestari Yolla Putri Ardilla Yolla Putri Ardilla YULMINARTI, YULMINARTI Yundari, Yundari