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All Journal HAYATI Journal of Biosciences Microbiology Indonesia BIOTROPIA - The Southeast Asian Journal of Tropical Biology UNEJ e-Proceeding Indonesian Journal of Chemistry Jurnal Aplikasi Teknologi Pangan Abdimas Galuh: Jurnal Pengabdian Kepada Masyarakat
ADI YULANDI
Faculty Of Biotechnology Atma Jaya Catholic University Of Indonesia
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Earth & Planetary Sciences Economics, Econometrics & Finance Education Immunology & microbiology Law, Crime, Criminology & Criminal Justice Medicine & Pharmacology Nursing Veterinary

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Molecular Dynamic Simulation for Thermal Stability Properties of Endo β-Mannanase Enzyme Yulandi, Adi; Hermosaningtyas, A A; Sutanto, Sheila; Suwanto, Antonius
UNEJ e-Proceeding Indonesian Protein Society (IPS), International Seminar and Workshop 2014
Publisher : UNEJ e-Proceeding

Show Abstract | Download Original | Original Source | Check in Google Scholar

Abstract

Endo β-mannanase or mannanase hydrolyse the β-D-1,4 mannopyranoside linkages in β-mannan intomanno-oligosaccharides. Four mannanases, named MAN1, MAN2, MAN3 and MAN4, were isolated from palm kernel meal waste have potential as thermostable mannanases. Series of enzymatic assay to characterize enzyme properties may affect longer time and higher cost. Homology modeling and molecular dynamic simulation are reliable and faster alternative assay to determine enzyme properties by analyzing enzymes’ three-dimensional structure. The structureswere constructed using homology modeling approach using Modeller. Template 2QHA was chosen for having more than 98% sequence similarity with targets. The homology models and template were simulated using molecular dynamics software GROMACS 4.6 for 10 ns production time each at 300 K, 323 K and 353 K. Both targets share the same (β/α)8 TIM barrel folding type similar to template 2QHA The basic analysis of molecular dynamic simulation (root mean square deviation and root mean square fluctuation) showed that both enzymes were thermostable, albeit compared to template 2QHA amino acid residues substitution in samples contribute for different thermostable profile. However, MAN2 was appeared to be more stable at high temperature than other samples. Keywords: endo β-mananase, homology modeling, molecular dynamic simulation
Genotypic Characterization of Rhizopus Spp. Tempeh and Usar: Traditional Inoculum of Tempeh in Indonesia tati barus; Jason Wiranata Sanjaya; Anastasia Tatik Hartanti; Adi Yulandi; Vivitri Dewi Prasasty; David Tandjung
Microbiology Indonesia Vol. 14 No. 3 (2020): September 2020
Publisher : Indonesian Society for microbiology

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (1214.939 KB) | DOI: 10.5454/mi.14.3.3

Abstract

Abstract. Soybeans tempeh (tempeh) is processed by fermentation using Rhizopus spp. Tempeh is an important source of protein in Indonesia. The traditional inoculum in fermentation locally is known as Usar which is made from the leaves of Hibiscus tiliaceus. However, Rhizopus information from Usar is still limited. Therefore, this study aims to identify and investigate the genetic diversity of Rhizopus species from Usar and tempeh based on the Internal Transcribed Spacer (ITS) sequence and the Random Amplified Polymorphic DNA (RAPD) markers. Twenty-three Rhizopus strains were isolated from Usar and ten Rhizopus strains were isolated from tempeh. Based on ITS sequences, the isolates were similar to R Rhizopus microsporus (30 isolates) and Rhizopus delemar (3 isolates) with 98-99% similarity. The genetics of R. microsporus and R. delemar are varied and different from the genetics of R. microsporus from tempeh. The growth temperature of R. microsporus varies from 33 to 48°C and R. delemar can grow to a maximum at 33°C. The role of R. microsporus and R. delemar from Usar in determining the quality of tempeh is still limited. Therefore, it needs to be investigated further.
Genetic Diversity of Klebsiella spp. Isolated from Tempe based on Enterobacterial Repetitive Intergenic Consensus-Polymerase Chain Reaction (ERIC-PCR) TATI BARUS; IVAN HANJAYA; JOANITA SADELI; BIBIANA W LAY; ANTONIUS SUWANTO; ADI YULANDI
HAYATI Journal of Biosciences Vol. 20 No. 4 (2013): December 2013
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (625.021 KB) | DOI: 10.4308/hjb.20.4.171-176

Abstract

Tempe is an Indonesian fermented food prepared by fermenting dehulled cooked soybeans with Rhizopus oligosporus. Many types of bacteria are also involved during tempe fermentation, and one of these is Klebsiella spp.  Some isolates of K.  pneumoniae produces vitamin B12 in tempe but it has also been classified as an opportunistic pathogen. For this reason Klebsiella spp. in tempe is important to be studied. The aim of this study was to investigate the genetic diversity of Klebsiella spp. from tempe employing ERIC-PCR method. Sixty-one isolates of Klebsiella have been isolated from sixteen tempe producers  in Bogor, Jakarta, Malang, Tengerang, Bandung and Cianjur. 63F and 1387R primers were used to amplify 16S rDNA sequences, and 1R and 1F primers were used for ERIC analysis. The results of this research showed that sixty-one strains of Klebsiella were clustered into 17 groups. Based on ERIC-PCR analysis, isolates of Klebsiella could be grouped into different profiles which some of these groups consisted of isolates with identical ERIC-PCR profiles. Several identical ERIC-PCR profiles were found in tempe from the same producer. There was no correlation observed between genetic similarity  among isolates with the origin of tempe.
Molecular Dynamic Simulation for Thermal Stability Properties of Endo β-Mannanase Enzyme Adi Yulandi; A A Hermosaningtyas; Sheila Sutanto; Antonius Suwanto
UNEJ e-Proceeding Indonesian Protein Society (IPS), International Seminar and Workshop 2014
Publisher : UPT Penerbitan Universitas Jember

Show Abstract | Download Original | Original Source | Check in Google Scholar

Abstract

Endo β-mannanase or mannanase hydrolyse the β-D-1,4 mannopyranoside linkages in β-mannan intomanno-oligosaccharides. Four mannanases, named MAN1, MAN2, MAN3 and MAN4, were isolated from palm kernel meal waste have potential as thermostable mannanases. Series of enzymatic assay to characterize enzyme properties may affect longer time and higher cost. Homology modeling and molecular dynamic simulation are reliable and faster alternative assay to determine enzyme properties by analyzing enzymes’ three-dimensional structure. The structureswere constructed using homology modeling approach using Modeller. Template 2QHA was chosen for having more than 98% sequence similarity with targets. The homology models and template were simulated using molecular dynamics software GROMACS 4.6 for 10 ns production time each at 300 K, 323 K and 353 K. Both targets share the same (β/α)8 TIM barrel folding type similar to template 2QHA The basic analysis of molecular dynamic simulation (root mean square deviation and root mean square fluctuation) showed that both enzymes were thermostable, albeit compared to template 2QHA amino acid residues substitution in samples contribute for different thermostable profile. However, MAN2 was appeared to be more stable at high temperature than other samples. Keywords: endo β-mananase, homology modeling, molecular dynamic simulation
Profil Bakteri Asam Laktat dan Evaluasi Sensori dari Tempe Bungkus Daun Jati yang Disuplementasi dengan Daun Kelor Stella Magdalena; Yogiara Yogiara; Adi Yulandi
Jurnal Aplikasi Teknologi Pangan Vol 10, No 1 (2021): February 2021
Publisher : Faculty of Animal and Agricultural Sciences, Diponegoro University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.17728/jatp.7330

Abstract

Tempe bungkus daun jati merupakan produk pangan fermentasi tradisional Indonesia yang kaya protein, serat, dan vitamin yang sangat popular di Kabupaten Blora, Jawa Tengah. Penelitian ini bertujuan mengetahui pengaruh penambahan daun kelor pada tahapan perendaman dan peragian dalam proses produksi tempe terhadap profil bakteri asam laktat (BAL) dan tingkat kesukaan. Daun kelor segar dan serbuk disuplementasikan dengan variasi konsentrasi pada proses produksi tempe kacang kedelai. Hasil penelitian menunjukkan bahwa daun kelor tidak menghambat aktivitas pertumbuhan dari kapang Rhizopus. Penambahan serbuk daun kelor sebanyak 1x dan 2x (b/b) dari total jumlah ragi pada proses peragian menghasilkan tekstur tempe yang kompak. Semakin tinggi konsentrasi air perasan daun kelor dalam proses perendaman, jumlah total bakteri asam laktat menurun hingga 103 CFU/g. Profil BAL dari tempe bungkus daun jati dengan ataupun tanpa suplementasi daun jati mengandung BAL dari genus Weissella. Tempe bungkus daun jati dengan suplementasi 1x (b/b) serbuk daun kelor sangat berpotensi untuk disosialisasikan sebagai pangan fungsional kepada masyarakat.Lactic Acid Bacteria Profile and Sensory Evaluation of Teak Leaf-Wrapped Tempeh Supplemented with Moringa LeavesAbstractTempeh wrapped in teak leaves is a traditional Indonesian fermented food product that is rich in protein, fiber, and vitamins which is very popular in Kabupaten Blora, Central Java. This study aimed to investigate the effect of Moringa leaves addition in the soaking and fermentation stages of tempeh production towards the profile of lactic acid bacteria (LAB) and the level of respondent acceptance. Fresh and powdered leaf was supplemented in various doses to soybean tempeh production. As results, Moringa leaves did not inhibit the growth of Rhizopus. The addition of Moringa leaf powder as much as 1x and 2x (w/w) of the total amount of yeast in the fermentation process produced a compact tempeh texture. The higher the concentration of Moringa leaf juice in the soaking process reduced total number of lactic acid bacteria to 103 CFU/g. LAB profile of teak leaf-wrapped tempeh with or without teak leaf powder supplementation contained LAB that belongs to the genus Weissella. Teak leaf-wrapped tempeh supplemented by 1x (w/w) Moringa leaf powder has a potential value to be socialized as functional food to the community.
Computational Evaluation of Intermolecular Interaction in Poly(Styrene-Maleic Acid)-Water Complexes Using Density Functional Theory Daru Seto Bagus Anugrah; Laura Virdy Darmalim; Permono Adi Putro; Liana Dewi Nuratikah; Nurwarrohman Andre Sasongko; Parsaoran Siahaan; Adi Yulandi
Indonesian Journal of Chemistry Vol 21, No 6 (2021)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijc.67961

Abstract

The high application of Poly(styrene-maleic acid) (PSMA) in an aqueous environment, such as biomedical purposes, makes the interaction between PSMA and water molecules interesting to be investigated. This study evaluated the conformation, the hydrogen bond network, and the stabilities of all the possible intermolecular interactions between PSMA with water (PSMA−(H2O)n, n = 1–5). All calculations were executed using the density functional theory (DFT) method at B3LYP functional and the 6–311G** basis set. The energy interaction of PSMA–(H2O)5 complex was –56.66 kcal/mol, which is classified as high hydrogen bond interaction. The Highest Occupied Molecular Orbital (HOMO) – Lowest Unoccupied Molecular Orbital (LUMO) energy gap decreased with the rise in the number of H2O molecules, representing a more reactive complex. The strongest hydrogen bonding in PSMA–(H2O)5 wasformed through the interaction on O72···O17–H49 with stabilizing energy of 50.32 kcal/mol, that analyzed by natural bond orbital (NBO) theory. The quantum theory atoms in molecules (QTAIM) analysis showed that the hydrogen bonding (EHB) value on O72···O17–H49 was –14.95 kcal/mol. All computational data revealed that PSMA had moderate to high interaction with water molecules that indicated the water molecules were easily transported and kept in the PSMA matrix.
Diversity of Amylase-Producing Bacillus spp. from “Tape” (Fermented Cassava) BARUS, TATI; KRISTANI, AMANDA; YULANDI, ADI
HAYATI Journal of Biosciences Vol. 20 No. 2 (2013): June 2013
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (58.662 KB) | DOI: 10.4308/hjb.20.2.94

Abstract

Fermented cassava or “Tape” is one of traditional Indonesian fermented food. The quality of “Tape” is determined by microorganisms involved during fermentation process. It was reported that Bacillus subtilis determined the quality of cassava “Tape”. The most common way to identify species is by using 16S rRNA gene.  This gene contains conserved regions as unique sequence which is relative among species. It has been widely used as a reliable molecular marker for phylogeny identification. Therefore, the aim of this research was to study diversity of amylase-producing Bacillus spp. from “Tape” based on 16S rRNA gene sequences. Bacillus spp. were isolated from “Tape” from several area in Indonesia i.e. Jakarta, Bandung, Cianjur, Subang, Rangkas Bitung, and Kediri. Amplification of 16S rRNA gene used 63f and 1387r primers. This research showed that based on 16S rRNA gene sequences, twenty-six of amylase-producing Bacillus spp. isolates were divided into four groups. All isolates were identified as species either B. megaterium, B. subtilis, B. amyloliquefaciens, or B. thuringiensis.
Edukasi Keamanan Pangan dan Gizi Bagi Warga RPTRA Amanah Bunda Tanjung Duren Jakarta Lestari, Diana; Waturangi, Diana Elizabeth; Yulandi, Adi; Wijaya, Laura; Sabrina, Feliciana; Vanessa, Valencia
Abdimas Galuh Vol 6, No 2 (2024): September 2024
Publisher : Universitas Galuh

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.25157/ag.v6i2.14218

Abstract

Penyakit bawaan pangan masih merupakan masalah penting di negara berkembang termasuk Indonesia.  Penyakit ini berdampak terhadap keamanan pangan serta kesehatan masyarakat. Diare masih merupakan penyebab mortalitas tertinggi diantara berbagai penyakit lain untuk anak-anak di bawah usia lima tahun. Kontrol terhadap penyakit bawaan pangan dapat dilakukan melalui peningkatan sanitasi serta gizi dalam kehidupan anak-anak sehari-hari. Namun sayangnya, pengetahuan yang terbatas dari para ibu rumah tangga tentang bagaimana menyiapkan pangan yang aman dan bergizi berkontribusi besar terhadap permasalahan ini.  Karena itu, sangat diperlukan untuk melakukan edukasi publik terkait keamanan pangan dan gizi. Dalam kegiatan ini, kami membagikan pengetahuan kepada warga di RPTRA Amanah Bunda Tanjung Duren Jakarta, sebagai salah satu pencegahan dan strategi untuk mengurangi permasalahan penyakit bawaan pangan. Tujuan dari kegiatan ini adalah untuk meningkatkan pemahaman IRT di lingkungan RPTRA Amanah Bunda tentang pangan aman dan bergizi. Dari kegiatan ini terdapat peningkatan pengetahuan peserta setelah pemaparan materi mengenai pangan dan gizi.
Morphological and Molecular Identification of Culturable Arbuscular Mycorrhizal Fungi (AMF) Associated with Pternandra azurea from Martabe Batang Toru Forest, North Sumatra, Indonesia Maulani, Nail Izzatul; Sukarno, Nampiah; Yulandi, Adi; Listiyowati, Sri; Kramadibrata, Kartini; Subagya, Mahmud; Anwar, Syaiful
HAYATI Journal of Biosciences Vol. 32 No. 5 (2025): September 2025
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.32.5.1240-1250

Abstract

Arbuscular Mycorrhizal Fungi (AMF) form a mutualistic symbiosis with almost all host plant species and exist in various ecosystems. Studies of AMF diversity in Sumatra tropical rainforest plants are still limited. This research aimed to isolate and identify AMF associated with Pternandra azurea from Martabe Batang Toru forest, North Sumatra. The spores were obtained from the rhizosphere of P. azurea and propagated by trap culture using Pueraria javanica, Sorghum vulgare, and Zea mays. AMF spores were isolated using wet sieving and decanting techniques, then inoculated into roots of P. javanica grown in sterile zeolite to obtain a single-species culture. The AMF were identified based on spore morphology and molecular analysis using AML1/AML2 specific primers. A total of 13 AMF single-species cultures were obtained, and based on morphological characteristics, they were identified as Claroideoglomus lamellosum, C. claroideum, Acaulospora rehmii, A. longula, and Glomus ambisporum. Further identification using molecular analysis, the cultures were identified as C. etunicatum, A. spinosa, A. longula, and G. ambisporum. Molecular identification resulted in different AMF species from morphological identification. Claroideoglomus was dominant AMF observed. All cultures formed internal hyphae, arbuscules, and vesicles within the roots. The AMF cultures obtained can be used as biofertilizers to restore degraded ecosystems.
An SNP Marker Potentially Linked to Somatic Embryogenesis of Oil Palm (Elaeis guineensis) Wahyunanto, Irang; Waturangi, Diana E; Toruan-Mathius, Nurita; Yulandi, Adi
BIOTROPIA Vol. 24 No. 2 (2017): BIOTROPIA Vol. 24 No. 2 August 2017
Publisher : SEAMEO BIOTROP

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11598/btb.2017.24.2.678

Abstract

Oil palm (Elaeis guineensis) is one of the most important oil-bearing crops in the world. This crop can be vegetatively propagated only using tissue culture technique. Oil palm tissue culture technique has low efficiency, with callogenesis and embryogenesis stages as the limiting factors. Genetic factor has a major role in determining the success rate of these two stages. The use of molecular markers which represent the rate of embryogenesis or callogenesis has the potential to improve the efficiency of oil palm tissue culture process. In this study, SNP mining was conducted on embryogenesis transcriptome data, oil palm cDNA database, oil palm genome database, and oil palm SNP marker database in NCBI. The objective of this study was to obtain SNP marker which represents the embryogenesis potential, to be further used in marker-assisted selection of oil palm ortets. One SNP (EMB6) showed significant association with embryogenesis rate. This SNP was found in one of Auxin Response Factor (ARF) family genes. The nucleotide replacement from adenine to guanine changed the 307ⁿᵈ amino acid from isoleucine to methionine. Oil palms with adenine homozygote (A/A) pattern on EMB6 showed an 8-fold higher chance to produce significantly higher embryogenesis rate than adenine–guanine heterozygote (A/G).
Co-Authors A A Hermosaningtyas A A Hermosaningtyas, A A AMANDA KRISTANI Anastasia Tatik Hartanti Antonius Suwanto Anugrah, Daru Seto Bagus BIBIANA W LAY David Tandjung DIANA ELIZABETH WATURANGI Diana Lestari, Diana IVAN HANJAYA Jason Wiranata Sanjaya JOANITA SADELI Kartini Kramadibrata Laura Virdy Darmalim Liana Dewi Nuratikah Maulani, Nail Izzatul Nampiah Sukarno Nurita Toruan-Mathius Nurwarrohman Andre Sasongko Parsaoran Siahaan Permono Adi Putro Sabrina, Feliciana Sheila Sutanto Sheila Sutanto, Sheila Sri Listiyowati Stella Magdalena Subagya, Mahmud Syaiful Anwar Tati Barus Vanessa, Valencia Vivitri Dewi Prasasty Wahyunanto, Irang Waturangi, Diana E Wijaya, Laura Yogiara Yogiara