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All Journal HAYATI Journal of Biosciences MANAJEMEN HUTAN TROPIKA Journal of Tropical Forest Management Jurnal Silvikultur Tropika (JST) Jurnal Sylva Lestari Indonesian Journal of Forestry Research
Rachmat, Henti Hendalastuti
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Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Earth & Planetary Sciences Energy Environmental Science Materials Science & Nanotechnology Social Sciences

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Optimizing DNA Extraction and Selecting Suitable Regions for Biodiversity Assessment: A Study on Shorea leprosula Rachmat, Henti Hendalastuti; Yulita, Kusumadewi Sri; Dwiyanti, Fifi Gus; Susilowati, Arida; Arrofaha, Nawwall; Susila, Susila; Kamal, Irsyad; Siregar, Iskandar Zulkarnaen
Jurnal Manajemen Hutan Tropika Vol. 30 No. 1 (2024)
Publisher : Institut Pertanian Bogor (IPB University)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.7226/144

Abstract

The extraction method plays a crucial role in obtaining high-quality DNA samples, which is indispensable for various molecular biology techniques and analyses, enabling a deeper comprehension of genetic information and biological processes. The objectives of the study were: a) to optimize the chloroplast DNA extraction protocol by comparing modified CTAB methods and GeneAid for both leaf and wood samples of Shorea leprosula, a major commercial timber species, and b) to identify a suitable cpDNA region that exhibits variability and universality across taxa. Total DNA was analyzed by gel electrophoresis followed by Sanger sequencing to determine the amplification success. The results revealed that trnL intron, trnL-trnF, and trnG yielded readable sequences of the expected length (maximum 586 bp, 480 bp, and 908 bp, respectively), while the rps 16 intron failed to assemble a contig. The petL-psbE region provided long readability for reverse sequences (769 bp) but not for the forward sequence (195 bp). Higher successful DNA extraction was achieved from the leaves compared to the woods. The lower sequencing quality may be attributed to suboptimal primer design, the structural features of the regions resulting from extensive repetitive sequences, and the suboptimal condition of the extraction method in eliminating wood chemical compounds.
Correlation between canopy density using NDVI and invasive species diversity in Gunung Dahu Research Forest Elsa Widyastuti; Istomo; Rachmat, Henti Hendalastuti
Journal of Tropical Silviculture Vol. 15 No. 02 (2024): Jurnal Silvikutur Tropika
Publisher : Departemen Silvikultur, Fakultas Kehutanan dan Lingkungan, Institut Pertanian Bogor (IPB)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29244/j-siltrop.15.02.153-161

Abstract

Gunung Dahu Research Forest is a forest area dominated by meranti species. The presence of human activity in forest areas has the potential to bring in invasive species. The presence of invasive plant species can have negative impacts on the ecosystem. This research aims to estimate canopy density in the Gunung Dahu Research Forest using the Normalized Difference Vegetation Index and its relationship with the diversity of invasive understory species to produce appropriate management recommendations. The canopy density class map was made using a desk study and the understorey data was taken using vegetation analysis. Correlation and regression tests were conducted to determine the relationship between NDVI values ​​and other variables. Based on the results of the NDVI analysis, three canopy density classes were obtained, low, medium, and high. The low canopy density class has the highest number of invasive species, while the high canopy density class has the least number of invasive plant species. The Poaceae family is the most found family with D. setigera as the dominant invasive species. There is a strong correlation between canopy density and NDVI values. Keywords: Dipterocarpaceae, Shorea sp., Poaceae
Evaluation of Phenotypic and Genetic Characteristics of Dryobalanops aromatica (Dipterocarpaceae) Seedlings Growing in Peat and Mineral Media Dwiyanti, Fifi Gus; Kustiyarini, Nur Fadila; Kamiya, Koichi; Rachmat, Henti Hendalastuti; Majiidu, Muhammad; Wati, Ridha; Siregar, Iskandar Zulkarnaen
HAYATI Journal of Biosciences Vol. 32 No. 1 (2025): January 2025
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.32.1.27-40

Abstract

The selection of tree species suitable for restoration in diverse site conditions is still a challenge. Therefore, this study aimed to analyze the phenotypic and genetic characteristics of Dryobalanops aromatica seedlings growing in mineral soil media and peat media. Phenotypic characteristics were evaluated by analyzing the growth performance, leaf morphological characteristics, leaf color, and chlorophyll content, while genetic characteristics were evaluated by using microsatellite markers. The study revealed that seedlings planted in peat media exhibited greater height and shoot length growth, although the difference was not statistically significant compared to those in mineral soil media. However, seedlings in mineral soil media displayed a significantly higher survival rate than those in peat media. Peat-grown seedlings had higher chlorophyll content in their leaves, while mineral soil-grown seedlings displayed a lighter green leaf color based on digital analysis. Genetic analysis indicated a high genetic diversity of overall D. aromatica seedlings (He = 0.635) and unclear genetic structure between the two media. Overall, these findings demonstrate the successful adaptation of D. aromatica seedlings to peat media, positioning them as a promising choice for peatland restoration.
GROWTH AND WOOD TRAITS EVALUATION OF 15-YEAR-OLD TENGKAWANG (Shorea spp.) TREE STANDS IN GUNUNG WALAT UNIVERSITY FOREST, WEST JAVA, INDONESIA Fifi Gus Dwiyanti; Rosdayanti, Henti; Yulita, Kusumadewi Sri; Rachmat, Henti Hendalastuti; Ayyasy, Yahya; Muharam, Karima Fauziah; Rahman, Mohamad Miftah; Adzkia, Ulfa; Siregar, Iskandar Zulkarnaen
Indonesian Journal of Forestry Research Vol. 11 No. 2 (2024): Indonesian Journal of Forestry Research
Publisher : Association of Indonesian Forestry and Environment Researchers and Technicians

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.59465/ijfr.2024.11.2.243-258

Abstract

Gunung Walat University Forest (GWUF) in Sukabumi Regency, Indonesia, plays a crucial role in providing various ecosystem services. Five important Shorea trees, i.e., S. stenoptera, S. mecisopteryx, S. pinanga, S. palembanica, and Shorea leprosula have been planted in GWUF as an effort for its conservation and object of research. An evaluation of the adaptability and suitability of these species to the GWUF ecosystem, as well as their wood characteristics, needs to be carried out regularly. Therefore, the study aimed to examine the growth performances and physical wood properties of five Shorea species, i.e., Shorea stenoptera, S. mecisopteryx, S. pinanga, S. palembanica, and S. leprosula at the age of 15-year-old planted in GWUF. The results indicated that S. leprosula exhibited the best growth performance in terms of average diameter (19.64 cm), volume (0.27 m3), slenderness (126.58), and wood density (0.94 g/cm3), and S. stenoptera showed the best performance in average height (23.35 m). While the poor performance was shown by S. palembanica in terms of average diameter (6.73 cm), height (11.15 m), volume (0.02 m3), wood density (0.87 g/cm3), and specific gravity (0.45), and S. stenoptera in terms of average slenderness (202.73). In addition, significant differences in tree height, diameter, volume, wood density, specific gravity, and moisture content were found in S. palembanica compared with other species. The relationship between the growth and physical wood properties parameters varied between species. The study revealed that planting the five Shorea species in GWUF is suitable for increasing vegetation cover and conserving the species.
Potential Use of Shorea leprosula for Rehabilitation of Degraded Tropical Production Forest Ecosystems Attarik, Nuriskia; Pamoengkas, Prijanto; Rachmat, Henti Hendalastuti; Susilowati, Arida
Jurnal Sylva Lestari Vol. 12 No. 2 (2024): May
Publisher : Department of Forestry, Faculty of Agriculture, University of Lampung

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.23960/jsl.v12i2.861

Abstract

The diverse forests in Indonesia require proper management to preserve their delicate ecosystems. Limited production forests (HPT) are prone to damage and require careful rehabilitation to restore them to their original state. Native tree species such as Shorea leprosula are essential for the success of land and forest rehabilitation in HPT areas. This study aimed to assess the potential of S. leprosula species for HPT rehabilitation by examining its growth in the Gunung Dahu Research Forest (GDRF) by measuring the percentage of live plants, tree growth, and soil improvements under S. leprosula stand in sloping land. The results showed that S. leprosula had fast (1.25 cm/year) to very fast (1.79 cm/year) diameter growth, a dense canopy cover with a leaf area index of 2.88, and improved soil physical (soil moisture of 55.54%, topsoil thickness of 6.2 cm, and litter thickness of 16 cm) and chemical properties (pH of 5.2, soil organic carbon of 3.85, total nitrogen of 0.3, carbon-to-nitrogen ratio of 12.8, available phosphorus of 35.3, and exchangeable potassium of 0.76). Therefore, the successful rehabilitation of S. leprosula in GDRF indicates that it can potentially rehabilitate other HPT areas with similar environmental and site conditions. Keywords: Dipterocarpaceae, fast growing, Gunung Dahu Research Forest, limited production forest, land slope
PARTICIPATORY SELECTION OF PLANT SPECIES TO ENHANCE THE SUCCESS OF FOREST REHABILITATION IN BULUSARAUNG FOREST MANAGEMENT UNIT Hayati, Nur; Prasetyawati, C. Andriyani; Dewi, Indah Novita; Yuliantoro, Isdomo; Tata, Hesti Lestari; Suharti, Sri; Dharmawan, I Wayan Susi; Rachmat, Henti Hendalastuti; Windyoningrum, Ayun; Khotimah, Husnul
Indonesian Journal of Forestry Research Vol. 12 No. 2 (2025): Indonesian Journal of Forestry Research
Publisher : Association of Indonesian Forestry and Environment Researchers and Technicians

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.59465/ijfr.2025.12.2.169-187

Abstract

The success of forest area rehabilitation requires community involvement. The selection of plant species that are suitable to community preferences will substantially influence the success of rehabilitation efforts. Communities’ preferences for specific plant species may increase their willingness to care the plant. This research explored the importance of participatory plant species selection in supporting forest rehabilitation success of Cahaya Tala-Tala Forest Farmers Group (FFG) in the Bulusaraung Forest Management Unit (FMU), South Sulawesi, Indonesia by applying the agroforestry technique. The study employed the participatory rural appraisal approach in one village and involved 50 respondents. The results indicated that the FFG members’ preferences for specific plant species were categorized as being in the “affected” stage and positioned at the “preference” stage according to the hierarchy of effects model. The participation of the FFG members in forest rehabilitation activities at the Bulusaraung FMU is categorized as the “partnership” level. The selected multipurpose tree species are expected to substantially contribute to the community’s income and help the success of forest rehabilitation activities in Indonesia.
CROSS-AMPLIFICATION OF AQUILARIA CRASSNA MICROSATELLITE DNA MARKERS IN TWO OTHER CLOSELY RELATED AGARWOOD SPECIES (A. MALACCENSIS AND A. MICROCARPA) Irmayanti, Laswi; Dwiyanti, Fifi Gus; Rachmat, Henti Hendalastuti; Yulita, Kusumadewi Sri; Siregar, Iskandar Z.
Indonesian Journal of Forestry Research Vol. 12 No. 2 (2025): Indonesian Journal of Forestry Research
Publisher : Association of Indonesian Forestry and Environment Researchers and Technicians

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.59465/ijfr.2025.12.2.209-219

Abstract

Agarwood is a distinctive wood resin product extracted from the important genus of Aquilaria, but the population of agarwood-producing trees from natural forests in Indonesia is threatened due to over-exploitation, leading to an urgent call for conservation and sustainable uses. Molecular techniques such as DNA profiling have been used to ensure the legality, conservation, and sustainability of species from this genus. In this study, cross-species amplification of microsatellite markers initially developed for Aquilaria crassna was developed on two other closely related agarwood species (Aquilaria malaccensis and A. microcarpa), and their genetic variation was evaluated. The four loci (6pa18, 10pa17, 16pa17, and 71pa17) were used to amplify leaf genomic DNA from 55 trees across three Aquilaria species. The results showed that the four loci could successfully be amplified in A. malaccensis, A. microcarpa, and A. crassna. In addition, A. crassna exhibited higher genetic variation (Na=2.75, Ne=2.35, He= 0.5672, and F=-0.727) than A. malaccensis (Na=2.75, Ne=2.19, He=0.5424, and F=-0.598) and A. microcarpa (Na=2.50, Ne=2.11, He= 0.5234, and F=-0.734) indicated the transferability of microsatellite markers in closely related agarwood species, possibly due to the flanking region in these four microsatellite regions being well-conserved in several agarwood species. These findings indicated that the markers tested here can be considered an effective tool for future studies in population and conservation genetics to support the management of agarwood genetic resources and track its supply chain to prevent overexploitation.
Co-Authors Adzkia, Ulfa Arida Susilowati Iswanto Arrofaha, Nawwall Attarik, Nuriskia Ayyasy, Yahya Elsa Widyastuti Fifi Gus Dwiyanti Henti Rosdayanti, Henti Hesti Lestari Tata, Hesti Lestari Husnul Khotimah I Wayan Susi Dharmawan Indah Novita Dewi Irsyad Kamal ISKANDAR ZULKARNAEN SIREGAR Istomo . Koichi Kamiya Kustiyarini, Nur Fadila KUSUMADEWI SRI YULITA Laswi Irmayanti, Laswi Majiidu, Muhammad Muharam, Karima Fauziah Nur Hayati PRASETYAWATI, C. ANDRIYANI Prijanto Pamoengkas Rahman, Mohamad Miftah Suharti, Sri Susila, Susila Wati, Ridha Windyoningrum, Ayun Yuliantoro, Isdomo