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PHYLOGEOGRAPHIC STRUCTURE OF THE COMMERCIALLY IMPOR- TANT TROPICAL TREE SPECIES, DRYOBALANOPS AROMATICA GAERTN. F. (DIPTEROCARPACEAE) REVEALED BY MICROSATELLITE MARKERS Dwiyanti, Fifi Gus; Kamiya, Koichi; Harada, Ko
REINWARDTIA Vol 14, No 1 (2014): Vol. 14 No. 1
Publisher : Research Center for Biology

DWIYANTI, F.G., KAMIYA, K. & HARADA, K. 2014. Phylogeographic structure of the commercially important tropical tree species Dryobalanops aromatica Gaertn. F. (Dipterocarpaceae) revealed by microsatellite markers. Reinwardtia 14(1): 43 â 51. ? Dryobalanops aromatica Gaertn. F. (Kapur) is an economically important timber species in Southeast Asia that can serve as a good model for studying the impact of the Pleistocene glaciations on the genetic diversity and distribution of species in tropical regions. Seven polymorphic microsatellite markers were analyzed in five natural populations of D. aromatica (N = 120 individuals): Gunung Panti in Malay Peninsula, Lingga Island in Lingga Archipelago, Lambir Hills National Park, Limbang and Similajau National Park in Borneo. The level of gene diversity (HE) for the five populations was relatively high with a range from 0.571 (Similajau) to 0.729 (Gunung Panti). The high genetic diversity in the present study could be attributed to the larger refugia population sizes of D. aromatica than that of other species. The population genetic structure revealed two distinct groups: the Malay Peninsula-Lingga Archipelago and Borneo. This pattern suggests that populations in each geographical area might be the consequence of post-glacial expansion from one or two refugia, but that gene flow between different glacial refugia was fairly restricted.

Phenotypic and Genetic Diversity Evaluation of Sengon (Falcataria moluccana (Miq.) Barneby & JW Grimes) from Solomon Provenance on Progeny Trial in Cirangsad Experimental Forest, West Java Fifi Gus Dwiyanti; Iskandar Zulkarnaen Siregar; Ulfah Juniarti Siregar
Jurnal Manajemen Hutan Tropika Vol. 27 No. 3 (2021)
Publisher : Institut Pertanian Bogor (IPB University)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.7226/jtfm.27.3.174

Initial evaluation of phenotypic variability and genetic diversity was conducted on the progeny test of 2 years-old sengon from Solomon provenance, which derived from nine families of mother tree and were then planted in 4 blocks in the Cirangsad Experimental Forest. Phenotypic assessment on eight traits was conducted on 36 trees using a scoring system, while genetic diversity of 15 selected individuals which represented high and low-score phenotypic traits was analyzed using 5 selected RAPD primers. The result on phenotypic assessment showed that family 3 (57.25 points) has the highest average score of phenotypic quality and family 4 has the lowest average score (7.50 points). Furthermore, genetic analysis showed that the low-scoring sengon population had a greater mean genetic diversity (He = 0.2535) than the high-score population (He = 0.2345). The analysis of molecular variance (AMOVA) revealed a significant genetic differences (p-value < 0.001) among high and low-score populations and the dendrogram of genetic distance revealed clustering of individuals having similar superior phenotypic against those having non-superior, indicating the selection based on phenotypes in this study had succeeded in pooling the good quantitative alleles in the selected population. This evaluation results can be used as a reference in determining the best families to produce superior sengon (from Solomon provenance) offspring in the future that have desired adaptability, productivity, and diversity.

DIFFERENTIALLY EXPRESSED GENES (DEGS) PADA Dryobalanops aromatica YANG DITUMBUHKAN PADA MEDIA GAMBUT DAN TANAH MINERAL Yosie Syadza Kusuma; Fifi Gus Dwiyanti; Deden Derajat Matra; Ulfah Juniarti Siregar; Iskandar Zulkarnaen Siregar
Jurnal Pemuliaan Tanaman Hutan Vol 15, No 2 (2021): Jurnal Pemuliaan Tanaman Hutan
Publisher : Center for Forest Biotechnology and Tree Improvement (CFBTI)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.20886/jpth.2021.15.2.115-128

Dryobalanops aromatica is a highly economic value resin-producing tree and has been known as an important international trade commodity that is widely used in the perfume, cosmetic, medicine, and wood industries. In natural habitats, this species has been found to grow well on peatland and mineral soils. The information regarding adaptive genes in Indonesian native trees to abiotic stress is still very limited. The research was conducted to analyse the differentially expressed genes (DGEs) that can elucidate the role of several upregulated and down-regulated genes under peat media and mineral soil treatments. DGE analysis was carried out using R software, Bioconductor package 'edgeR'. Using the Benjamini and Hochberg approach to control FDR (FDR 0.05), with a Log2FC 2 and p-value of 0.05, showed 320 contigs were up-regulated and 439 contigs were down-regulated, while 58129 contigs were not significantly expressed. Furthermore, this study also presents an overview of the genes involved in different pathways, such as photosynthesis, carbon and energy metabolism, hormone-related genes, nitrogen metabolism, reactive oxygen species, and transcription factor. This information will be useful in understanding D. aromatica molecular responses to stress condition that may be of use for selecting genotypes in the breeding programs or peatlands restoration

Metabolite Profiling of Ebony (Diospyros celebica Bakh) Leaves and Wood Extracts Using LC-MS/MS Dien Atin Boritnaban; Alfi Hudatul Karomah; Dewi Anggraini Septaningsih; Muhammad Majiidu; Fifi Gus Dwiyanti; Iskandar Zulkarnaen Siregar; Mohamad Rafi
Indonesian Journal of Chemistry Vol 22, No 2 (2022)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijc.68529

Ebony (Diospyros celebica Bakh) is an endemic forest tree species found in Sulawesi whose basic information on its metabolite profile is still lacking. The objective of this research was to separate and identify putatively metabolite present in the leaves and wood of ebony across Sulawesi. Separation and identification of ebony metabolites were carried out using UHPLC-Q-Orbitrap HRMS analysis. Using ultrasonication with ethanol as the extracting solvent, we used powdered ebony leaves and wood. The results showed that the metabolites contained in the leaves and wood of ebony were 59 metabolites. About 14 compounds were found in the leaves and wood, 21 compounds in the wood, and 24 compounds in the leaves. The identified metabolites are flavonoids, terpenoids, amino aldehydes, alkaloids, quinones, steroids, amino acids, fatty acids, and saccharides. Clustering of ebony using principal component analysis obtained leaves and wood groups using peak area of known compounds as the variable.

Generating Long-Read Sequences of Balsa (Ochroma pyramidale (Cav. ex Lam.) Urb.) Using Minion Oxford Nanopore Technology and Utilization for Phylogenetic Study Siska Nurfajri; Fifi Gus Dwiyanti; Rahadian Pratama; Muhammad Majiidu; Iskandar Z. Siregar
AGRIVITA Journal of Agricultural Science Vol 45, No 3 (2023)
Publisher : Faculty of Agriculture University of Brawijaya in collaboration with PERAGI

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.17503/agrivita.v41i0.3930

Balsa (Ochroma pyramidale) is fast-growing forest plant species introduced to Indonesia with limited genetic information. Genetic information can be obtained through molecular assessment which is now feasible due to sequencing technology development. This is supported by the third-generation sequencer technology, which has been developed using long-read sequencing technology. MinION Oxford Nanopore Technology is one of the long-read sequence-based sequencers with a real-time process and portable. This study aims to generate genomic data and analyze the phylogenetic relationship of balsa (O. pyramidale) based on long-read sequences with MinION Oxford Nanopore Technologies. Balsa long-read sequencing generated a partial chloroplast genome (cpDNA) sequence of 155,430 bp, which can be used for further DNA barcode-based phylogenetic analysis from the chloroplast genome. Phylogenetic analysis showed that the balsa species (O. pyramidale) was genetically grouped in one clade with other O. pyramidale species in phylogeny analysis based on rbcL, matK, and a combination of rbcL and matK genes indicated that those genes were a suitable marker for phylogenetic analysis in balsa species (O. pyramidale).

PHYLOGEOGRAPHIC STRUCTURE OF THE COMMERCIALLY IMPOR- TANT TROPICAL TREE SPECIES, DRYOBALANOPS AROMATICA GAERTN. F. (DIPTEROCARPACEAE) REVEALED BY MICROSATELLITE MARKERS Fifi Gus Dwiyanti; Koichi Kamiya; Ko Harada
REINWARDTIA Vol 14, No 1 (2014): Vol. 14 No. 1
Publisher : Research Center for Biology

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.55981/reinwardtia.2014.394

DWIYANTI, F.G., KAMIYA, K. & HARADA, K. 2014. Phylogeographic structure of the commercially important tropical tree species Dryobalanops aromatica Gaertn. F. (Dipterocarpaceae) revealed by microsatellite markers. Reinwardtia 14(1): 43 – 51. ? Dryobalanops aromatica Gaertn. F. (Kapur) is an economically important timber species in Southeast Asia that can serve as a good model for studying the impact of the Pleistocene glaciations on the genetic diversity and distribution of species in tropical regions. Seven polymorphic microsatellite markers were analyzed in five natural populations of D. aromatica (N = 120 individuals): Gunung Panti in Malay Peninsula, Lingga Island in Lingga Archipelago, Lambir Hills National Park, Limbang and Similajau National Park in Borneo. The level of gene diversity (HE) for the five populations was relatively high with a range from 0.571 (Similajau) to 0.729 (Gunung Panti). The high genetic diversity in the present study could be attributed to the larger refugia population sizes of D. aromatica than that of other species. The population genetic structure revealed two distinct groups: the Malay Peninsula-Lingga Archipelago and Borneo. This pattern suggests that populations in each geographical area might be the consequence of post-glacial expansion from one or two refugia, but that gene flow between different glacial refugia was fairly restricted.

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

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.

Toward a Vision of Sustainable University: Linkages between Commitment and Practices Qayim, Ibnul; Utami, Anisa Dwi; Putra, Heriansyah; Slamet, Alim S; Mardiana, Rina; Dwiyanti, Fifi Gus
Journal of Sustainability Perspectives Vol 4, No 1: June 2024
Publisher : Universitas Diponegoro

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14710/potensi.%Y.24793

Sustainability management plays a significant role in higher education. Development of a sustainable university involves integrating environmental, social, and economic considerations into various aspects of its operations, including campus infrastructure, curriculum, research, and community engagement. This urgently requires a strong commitment as a driving force behind sustainable initiatives, guiding actions, decisions, and investments toward achieving sustainability goals. IPB University as one of the most prominent universities in Indonesia is not only committed to becoming a sustainable university but also consistent in developing strategic plans to pursue its vision. Guided by this vision, IPB University has specifically established the Sustainable Campus Development Office (SCDO) to devise comprehensive sustainability plans outlining its goals, targets, and strategies for reducing environmental impact, promoting social equity, and ensuring economic viability. While it is still on progress, this commitment has played a significant role in encouraging sustainability practices at the university. It provides a foundation for leadership, governance, resources allocation, curriculum integration, student engagement, community partnerships, monitoring, reporting, and continuous improvement toward achieving sustainability goals. In addition, the university has established several sustainability values as guidance and indicators for maintaining sustainable practices. Integrating values and commitment is thus critical to realizing sustainable practices from generation to generation.

Toward a Vision of Sustainable University: Linkages between Commitment and Practices Qayim, Ibnul; Utami, Anisa Dwi; Putra, Heriansyah; Slamet, Alim S; Mardiana, Rina; Dwiyanti, Fifi Gus
Journal of Sustainability Perspectives Vol 4, No 1: June 2024
Publisher : Universitas Diponegoro

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14710/potensi.%Y.24793

Sustainability management plays a significant role in higher education. Development of a sustainable university involves integrating environmental, social, and economic considerations into various aspects of its operations, including campus infrastructure, curriculum, research, and community engagement. This urgently requires a strong commitment as a driving force behind sustainable initiatives, guiding actions, decisions, and investments toward achieving sustainability goals. IPB University as one of the most prominent universities in Indonesia is not only committed to becoming a sustainable university but also consistent in developing strategic plans to pursue its vision. Guided by this vision, IPB University has specifically established the Sustainable Campus Development Office (SCDO) to devise comprehensive sustainability plans outlining its goals, targets, and strategies for reducing environmental impact, promoting social equity, and ensuring economic viability. While it is still on progress, this commitment has played a significant role in encouraging sustainability practices at the university. It provides a foundation for leadership, governance, resources allocation, curriculum integration, student engagement, community partnerships, monitoring, reporting, and continuous improvement toward achieving sustainability goals. In addition, the university has established several sustainability values as guidance and indicators for maintaining sustainable practices. Integrating values and commitment is thus critical to realizing sustainable practices from generation to generation.

Wujudkan Kampus Berkelanjutan melalui Regenerative Waste Governance IPB, BPKB; Mardiana, Rina; Yuwono, Arief Sabdo; Putra, Heriansyah; Febrita, Joana; Amperanoto, Agus; Ekayani, Meti; Purwanto, Budi; Hudaya, Aang; Dwiyanti, Fifi Gus; Qayim, Ibnul; Utami, Annisa Dwi; Sita, Rai; Mustika, Aulia Andi; Abidin, Zaenal; Sari, Windi Mayang; Rifnadhi, Bayu; Rukmana, Adi
Policy Brief Pertanian, Kelautan, dan Biosains Tropika Vol 6 No 3 (2024): Policy Brief Pertanian, Kelautan dan Biosains Tropika
Publisher : Direktorat Kajian Strategis dan Reputasi Akademik IPB University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29244/agro-maritim.0603.959-966

IPB University dalam mengimplementasikan visi sebagai perguruan tinggi inovatif dan berkelanjutan, mengadopsi pendekatan regenerative waste governance (tata kelola sampah regeneratif). Pendekatan ini tidak sekedar menitikberatkan pada pengelolaan sampah sebagai beban masalah, melainkan bertujuan menciptakan dampak positif yang bersifat regeneratif terhadap lingkungan dan masyarakat. Beberapa aspek kunci meliputi penerapan model tiga lini tata kelola, pengembalian bahan, desain berkelanjutan, restorasi ekosistem, pemberdayaan komunitas, inovasi teknologi berkelanjutan, siklus hidup produk, dan upaya edukasi peningkatan kesadaran. Tata kelola sampah IPB didukung oleh regulasi dan kebijakan yang telah diimplementasikan, mencakup larangan penggunaan kemasan styrofoam dan plastik, pengurangan sampah kertas, pemilahan sampah, dan program Green Campus. Analisis SWOT (Strengths, Weakness, Opportunities, and Threats) telah mengidentifikasi kekuatan, kelemahan, peluang, dan ancaman dalam pengelolaan sampah IPB. Rendahnya penegakan hukum dan kesadaran warga IPB terkait pemilahan sampah merupakan aspek kelemahan dalam tata kelola sampah IPB saat ini. Peluang peningkatan tata kelola sampah IPB melalui budidaya maggot dan pengembangan produk bernilai bisnis dari sampah anorganik memiliki potensi tinggi untuk dikembangkan. Sementara itu, ancaman terkait kesehatan, penurunan kualitas lingkungan, dan reputasi keberlanjutan IPB memerlukan perhatian khusus. Perbaikan pada pengelolaan limbah B3, pembaruan landasan hukum, dan peningkatan kesadaran warga IPB menjadi hal penting dalam upaya IPB meningkatkan tata kelola sampah regeneratif.

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