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All Journal Journal of Tropical Life Science : International Journal of Theoretical, Experimental, and Applied Life Sciences The Journal of Experimental Life Sciences (JELS) El-Hayah : Jurnal Biologi Biotropika Journal of Food and Life Sciences Jurnal Teknologi Pertanian Proceeding International Conference on Global Resource Conservation AGRIVITA, Journal of Agricultural Science Indonesian Journal of Halal Research Biopendix: Jurnal Biologi, Pendidikan dan Terapan JSMARTech : Journal of Smart Bioprospecting and Technology Medfarm: Jurnal Farmasi dan Kesehatan Indian Journal of Forensic Medicine & Toxicology Tri Dharma Mandiri: Diseminasi dan Hilirisasi Riset Kepada Masyarakat (Jurnal Pengabdian Kepada Masyarakat) Makara Journal of Science
Estri Laras Arumingtyas
Biology Study Program
Religion Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemistry Computer Science & IT Education Environmental Science Health Professions Immunology & microbiology Materials Science & Nanotechnology Medicine & Pharmacology Neuroscience Public Health Social Sciences Other

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Genetic Diversity of Porang (Amorphophallus muelleri Blume) in Malang, East Java based on Morphology and Molecular Markers (ITS2, trnL, and matK): Genetic Diversity of Amorphophallus muelleri Blume in Malang Nensy Marantika, Riza; Arumingtyas, Estri Laras; Azrianingsih , Rodiyati
Journal of Tropical Life Science Vol. 15 No. 1 (2025)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/jtls.15.01.07

Abstract

Porang (Amorphophallus muelleri) is an herbaceous plant belonging to the Araceae family that is distributed in Java, including the Malang region. This study aimed to determine the morphological and genetic variation of porang in the Malang region based on ITS2, trnL, and matK molecular markers. Porang samples were collected from seven populations in Malang district, i.e., Kasembon, Ngantang, Pujon, Dampit, Kalipare, Pagak, and Bantur. Observa-tions of porang included 27 morphological traits, and young leaves were ob-tained for DNA extraction. Then, ITS2, trnL, and matK were amplified using a specific primer pair. Morphological traits exhibited similarity in color, surface, shape, and petiole pattern, while differences were apparent in morphological size parameters. Porang petiole of all the populations in Malang is green with a white prismatic pattern and linear lines. The 438 bp ITS2 sequences con-tained 390 bp invariable sites and 48 bp variable sites, whereas the 555 bp trnL intron sequences consisted of 511 bp invariable sites and 44 bp variable sites, and the 738 bp matK sequences comprised 713 bp invariable sites and 25 bp variable sites. The ITS2 sequences of the seven porang populations had the highest number of variable sites compared with the trnL and matK sequences. The total number of haplotypes based on ITS2, trnL, and matK was 11, with a haplotype diversity value of 1.00. Haplotype 1–7 were A. muelleri, haplotype 8 was A. paeoniifolius, and haplotypes 9, 10, and 11 were A. bulbifer, A. konjac, and A. sumawongii, respectively (from Genbank). Fur-thermore, phylogenetic analysis using Maximum Likelihood, Neighbor Joining, and Maximum Parsimony based on the ITS2, trnL, and matK sequences showed consistent clades. Clade 1 comprises A. muelleri, which is divided into 3 subclades. Subclade 1 comprises Kasembon, Ngantang, Pagak, Dampit, subclade 2 comprises Kalipare and Pujon, and subclade 3 is Bantur. Clade 2 is A. bulbifer, and clade 3 consists of outgroups.
Pengayaan Materi Nanoteknologi dan Integrasi Artificial Intelligence dalam Penelitian Biologi kepada Guru SMA Arumingtyas, Estri Laras
TRI DHARMA MANDIRI: Dissemination and Downstreaming of Research to the Community (Journal of Community Engagement) Vol 5 No 1 (2025)
Publisher : SMONAGENES Research Center, Univeritas Brawijaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.jtridharma.2025.005.01.68

Abstract

Peningkatan kompetensi guru mutlak dilaksanakan untuk menjamin kualitas pendidikan. Pendidik harus mengikuti pengetahuan sesuai dengan perkembangan jaman dan teknologi terkini sehingga ilmu yang ditransfer kepada siswa adalah ilmu terkini. Nanoteknologi dan Artificial Intelligence (AI) adalah ilmu yang saat ini sedang berkembang pesat dan sangat diperlukan dalam pembelajaran. Tujuan kegiatan pengabdian kepada masyarakat yang dilaksanakan adalah untuk untuk meningkatkan pemahaman dan keterampilan guru tentang pemanfaatan AI dalam pembelajaran biologi dan pengetahuan tentang nanoteknologi bidang biologi. Metode pengabdian kepada masyarakat adalah Participatory Action Research yang melibatkan peserta secara aktif dalam kegiatan. Tahap kegiatan adalah identifikasi kebutuhan, perencanaan, pelaksanaan, dan evaluasi kegiatan. Peserta pelatihan sebanyak 22 orang guru SMA yang tergabung dalam Musyawarah Guru Mata Pelajaran Biologi Kota Malang. Materi yang disampaikan adalah materi nanoteknologi dan pemanfaatan AI dalam bidang biologi. Peserta mendapatkan materi AI tentang Chatbot yang dapat membantu dalam manajemen pembelajaran dan persiapan materi pembelajaran. Peserta melaksanakan praktik pemanfaatan AI menggunakan aplikasi Pl@ntNet. Pada akhir sesi pelatihan, peserta mendapatkan tugas untuk menguatkan pemahaman aplikasi AI dalam bidang biologi. Hasil pengabdian kepada masyarakat adalah terdapat peningkatan pengetahuan peserta tentang nanoteknologi dan AI sebesar 26% berdasarkan hasil kuesioner pre-test dan post-test. Peserta merasa sangat puas terhadap kinerja panitia dan fasilitas yang diberikan.
Employing SecA Recombinant Protein to Generate Polyclonal Antibodies for the Rapid Identification of Phytoplasma Fatinah, Arik Arubil; Rifa'i, Muhaimin; Arumingtyas, Estri Laras; Widyarti, Sri
Makara Journal of Science Vol. 29, No. 3
Publisher : UI Scholars Hub

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

Abstract

Phytoplasma, a plant pathogen that threatens plant health, can induce diseases such as yellow wilt, virescence, phyllody, and witches’ broom. Although early detection methods using polyclonal and monoclonal antibodies have been developed, synthetic peptides offer advantages such as higher titers, predictable antigenic characteristics and superior sensitivity and specificity. Epitope mapping plays a key role in designing peptide antigens and includes gene synthesis, transformation, expression assessment, large-scale production, and purification. A study using New Zealand male White rabbits was conducted to generate antibodies against phytoplasma. The SecA (395–470) sequence, obtained from the preprotein translocase meets the criteria of being non-homologous, nonallergic, and antigenic. The three-dimensional structure of SecA (395–470) has a sequential similarity of 77–97% with certain phytoplasma types, and the protein purity exceeds 90%. The production of polyclonal antibodies was successful, achieving titers greater than 1:512,000. The SWISS model was used to predict the 3D structure of SecA in phytoplasma species, revealing structural homology with other phytoplasma species. The recombinant protein antigen SecA was able to induce high-titer antibody formation (>1:512.000). The developed lateral flow immunoassay (LFA) detects phytoplasma in plants using purified and conjugated antibodies. The peptide design, derived from Aster yellows witches-broom (SrI), effectively detects phytoplasma from various groups, especially Cactus witches’ broom phytoplasma (SrII-C) and Peanut witches’ broom phytoplasma (SrII-A). The SrI group phytoplasma was chosen as a reference sequence due to its` ability to infect plants across the broadest host range. LFIA was tested on samples from both phytoplasma-infected and healthy plants using nested PCR. The SecA sequence was successfully produced and used as an immunogen candidate against phytoplasmas.
Variation of Fruit Color in Cakra Hijau, G1/M8 and HV-149 Chilli Pepper Cultivar: Physiology and Molecular Approach: Variation of Fruit Color in Cakra Hijau, G1/M8 and HV-149 Cultivar Arumingtyas, Estri Laras; Zakiyah, 'Ainun Sayyidah; Monica, Rosina; Siswanto, Dian
Journal of Tropical Life Science Vol. 13 No. 3 (2023)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/jtls.13.03.13

Abstract

The fruit color of chili pepper is an important characteristic in identification and classification and is often used as the basis for determining consumer preferences. Information on the relationship between chili fruit color and its molecular profile is very important in supporting selection activities in plant breeding. This study aims to identify genetic diversity associated with the fruit color of three genotypes of chili (Capsicum frutescens L.): Cakra Hijau, HV-149 and G1/M8, using Random Amplified Polymorphic DNA (RAPD) and Simple Sequence Repeat (SSR). Morphological confirmation was carried out according to Capsicum descriptors. Nineteen RAPD markers and six SSR markers were used for genetic variability assessment. Genetic variation was analyzed using the unweighted pair group method with the arithmetic mean and the Jaccard similarity index. The three chili genotypes had different fruit colors at each maturation stage. The immature Cakra Hijau fruit is dark green and turns dark red as it ripens. The immature fruits of the G1/M8 line are light green and turn red when ripe. Finally, immature HV-149 fruits are dark green and yellow when ripe. The SSR markers used in this study were unable to show polymorphism. On the other hand, the RAPD marker successfully detected genetic variation in the three chili genotypes and resulted in a total of 49 alleles. The average value of polymorphic information content of the RAPD primers used ranged from 0 to 0.296, with the highest index indicated by OPA-1. The dendrogram shows the separation of the three genotypes into two main clusters, with the first cluster consisting of the HV-149 variety and the second cluster consisting of Cakra Hijau and G1/M8 lines. This study revealed that there are genetic variations based on the morphological characteristics of fruit color at each ripening stage and RAPD band profile. The RAPD marker was more effective than the SSR marker for identifying the genetic diversity of fruit color in the three chilies studied.
Design and Performance Test of Specific Primers to Detect Bovine DNA Fragments using Multiplex PCR Technique for Halal Authentification Kusnadi, Joni; Hernandi, Kevin Hohn; Al-Awwaly, Khotibul Umam; Arumingtyas, Estri Laras; Hakiki, Hilda Maghfirotu; Istianah, Nur
Indonesian Journal of Halal Research Vol. 4 No. 2 (2022): August
Publisher : UIN Sunan Gunung Djati Bandung

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15575/ijhar.v4i2.15573

Abstract

Adulterating meat products with several species, including non-halal species, is often found in commercial products. This study aims to design and validate the Cytochrome c oxidase subunit I (CO1) primers to detect the non-halal species. A pair of species-specific primers encoding the CO1 gene were designed to amplify bovine DNA, tested for specificity, and applied in multiplex polymerase chain reaction (PCR) technique with D-loop primers for pigs, Cyt-b for rats, and 12S rRNA for dogs. The CO1 primers, along with D-loop primers for porcine, Cyt-b primers for rats, and 12S rRNA primers for dogs can be used to detect specific bovine DNA with a size of 279 bp and sequence similarity of 96%. In addition, dog, rat, and porcine DNA were amplified at 101, 603, and 951 bp, respectively. These four primers are specific and can amplify the target DNA to detect non-halal meat component contamination in a single reaction process.
Effect of Bulbils Position on Leaf Branches to Plant Growth Responses and Corms Quality of Amorphophallus muelleri Blume Mastuti, Retno; Harijati, Nunung; Arumingtyas, Estri Laras; Widoretno, Wahyu
The Journal of Experimental Life Science Vol. 8 No. 1 (2018)
Publisher : Graduate School, Universitas Brawijaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (1140.975 KB) | DOI: 10.21776/ub.jels.2018.008.01.01

Abstract

Bulbil (corm leaf) is one material source of vegetative propagation in Amorphophallus muelleri Blume. Based on the position in branches there are two types of bulbil, middle and edge bulbils, which are different in shape and size. It has been reported that bulbil size affected not only the growth response of seedlings and plants but also the quality of the produced corms. Therefore, the objectives of this experiment were to study the effect of bulbils origin on A. muelleri Blume (Porang) growth and the quality of harvested corms. The quality of corms was assessed based on glucomannan and (CaOx) content. Bulbils from the middle and edge of branches were grown in polybag (f 5 cm) containing compost:fertilizer (1:1) mixed media under 40% shade. Each bulbil origin was repeated 8 times. The results showed that growth responses of plant from middle bulbil were significantly better than that from edge bulbil. However, at the harvesting time, the weight and diameter of corms derived from both types of bulbils were not significantly different. The glucomannan and calcium oxalate (CaOx) content of harvested corms grown from middle bulbil tends to be higher than that from edge bulbil.Keywords: branching, calcium oxalate (CaOx), germination, glucomannan, Porang.
Physiological and Genetic Variations of Amorphophallus variabilis in Bojonegoro based on Glucomannan Content, Calcium Oxalate and RAPD Markers Pambudi, Achmad Yogi; Harijati, Nunung; Arumingtyas, Estri Laras
The Journal of Experimental Life Science Vol. 10 No. 1 (2020)
Publisher : Graduate School, Universitas Brawijaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (1169.253 KB) | DOI: 10.21776/ub.jels.2019.010.01.09

Abstract

This study had purpose to determine the glucomannan and calcium oxalate content in 7 variants of A. variabilis and their genetic relationships based on RAPD markers. Amorphophallus variabilis Tuber samples were taken from Karangdowo village, Sumberrejo Sub-district, Bojonegoro District, East Java. Each variant was analyzed for its glucomannan content by the spectrophotometric method using 3,5-DNS reagents and calcium oxalate by the 0.1N KMnO4 titration method. Leaf DNA extraction was carried out using the CTAB method. Relationship analysis used RAPD markers with 5 primers (OPA-11, OPC-04, OPU-06, OPC-07, and OPN-1). The obtained data were analyzed using the Numerical Taxonomy and Multivariate System (NTSYS-pc) version 2.1. The grouping of glucomannan content or oxalium oxalate used hierarchical clustering analysis (SPSS 16.0). This research found that the calcium oxalate content in seven variants of A. variabilis ranged from 0.01 to 0.03 g, where the variant with the lowest calcium oxalate is V6 with a value of 0.01 g and the highest is the V7 variant with a value of 0.03 g, while the glucomannan content ranges from 9 - 38%. The highest glucomannan content is V3, while the lowest is V6. Phenograms formed based on RAPD markers showed the formation of two groups of A. variabilis. Group one has two subgroups. Subgroup one consists of variants V1 and V4, while subgroup two consists of V6 and V7. Meanwhile, the second group consists of variants V2, V3, and V5. The seven variant grouping pattern of A. variabilis based on RAPD markers has no similarity to the grouping pattern based on the results of glucomannan or calcium oxalate analysis.
The Genetic and Morphoagronomy Character Diversity of Black Soybean Plant (Glycine soja (L.)): Responses to Mutation Induction by Gamma Rays Irradiation and Ethyl Methane Sulfonate Fauziah, Shaddiqah Munawaroh; Savitri, Evika Sandi; Arumingtyas, Estri Laras
The Journal of Experimental Life Science Vol. 10 No. 3 (2020)
Publisher : Graduate School, Universitas Brawijaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.jels.2020.010.03.02

Abstract

Indonesia has a high dependence on imports of black soybeans. National black soybean needs continue to increase. Therefore, some efforts are needed to increase soybean production. Genetic resources of Black Soybeans with high diversity is also needed to develop superior varieties. One of the ways to increase soybean production is by mutation induction. Therefore, genetic resources of Black Soybeans with high diversity is needed to develop superior varieties. Mutagenesis using gamma rays and EMS can be used to increase genetic diversity. Doses used in this research were 1000 Gy gamma rays, 1% EMS, and combinations. This research was using a completely randomized design with morphoargonomy and molecular parameters. Morphoagronomy parameters observed were plant height, leaf area, seed weight, number of leaves, number of pods, and number of branches. ISSR markers with four primers (UBC 888, ISSR3, UBC876, and UBC889) were used to determine genetic variation of Black Soybeans. Based on the analysis of variance (ANOVA), it was shown that all parameters were able to give an effect on the morphoagronomy of black soybean plants. Gamma rays 1000 Gy were more effective in improving morphoagronomy of the plant in terms of plant height, seed weight, number of leaves, number of pods, leaf area, and number of branches. UBC 888 was the most effective primer to identify the genetic diversity of black soybeans that have been given mutation treatments.   Keywords: Black soybean, EMS, gamma rays, genetic variation, morphoagronomy.
Genetic Variation Analysis of Four Local Varieties of Indonesian Black Rice (Oryza sativa L.) Based on Partially rbcL cpDNA Gene Sequence Basith, Abdul; Arumingtyas, Estri Laras; Widodo, Widodo
The Journal of Experimental Life Science Vol. 11 No. 1 (2021)
Publisher : Graduate School, Universitas Brawijaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.jels.2021.011.01.01

Abstract

Black rice (Oryza sativa L.) varieties i.e. Toraja (South Sulawesi), Cempo Ireng (Yogyakarta), Wojalaka (East Nusa Tenggara), and Manggarai (East Nusa Tenggara) are four local black rice varieties in Indonesia whose character has not been widely studied, especially the character of genetic variation. Research aimed to determine the variation of the rbcL gene in the four local black rice varieties. The sample for testing the variation of the rbcL gene sequence in the form of black rice leaves six weeks after planting. Dendogram was carried out using the UPGMA method with the Kimura 2-parameter algorithmic calculation model using the MEGA5 version 5.2.2 program. The results showed that partially the rbcL gene sequence was successfully amplified on four black rice varieties with a sequence length of 487 bp. The partial rbcL sequence of black rice consisted of 26.58% tyrosine, 21.38% cytosine, 28.86% adenine, and 23.18% guanine. The value of G + C content was 0.446, with the frequency of invariable sites of 97.13%. The frequency of informative parsimony sites was 1.43% with a nucleotide diversity (Pi) value of 42-10, the number of haplotypes was 5, and the total number of mutations and polymorphic sites was 14. The ratio between transition and transversion (ts/tv ratio k) for purine bases was 1.741 and pyrimidine was 3.571, with the estimated overall ratio between transition and transversion (R) of 1.31. Based on the dendogram, the farthest genetic distance was found in Wojalaka and Manggarai varieties, which were 0.019 respectively.Keywords: black rice, genetic variation, local varieties, rbcL gen
Co-Authors A.A. Ketut Agung Cahyawan W Abdul Basith Achmad Yogi Pambudi Andayani, Dian Wuri Andy Soegianto Andy Soegianto Anggraeni In Oktavia Apriyono Rahadiantoro Apriyono Rahadiantoro, Apriyono Arik Arubil Fatinah Azrianingsih , Rodiyati Badiul Ulum Badiul Ulum Brian Rahardi Catur Retnaningdyah Dedi Dedi Dian Siswanto Dr.Ir. Yunianta, DEA Dwinianti, Edia Fitri Edi Priyo Utomo Elok Zubaidah Evika Sandi Savitri Fatinah, Arik Arubil Filza Yulina Ade Hakiki, Hilda Maghfirotu Hermalina Sinay Hernandi, Kevin Hohn Ihwan Ihwan Joni Kusnadi Juliandari, Ria Reinnata Khotibul Umam Al-Awwaly Luchman Hakim Mahmudi, Wayan Firdaus Mochammad Roviq Mochammad Roviq Monica, Rosina Nensy Marantika, Riza Nia Kurniawan Noor Hidayat, Noor Nunung Harijati Nur Basuki Nur Basuki Nur Istianah Retno Mastuti Ria Reinnata Juliandari Rifa'i, Muhaimin Rikza Hakin Rodiyati Azrianingsih Rodiyati Azrianingsih Rosyidah, A’liyatur Sari, Dewi Ratih Tirto Serafinah Indriyani Shaddiqah Munawaroh Fauziah Siti Muslichah Sri Widyarti Sundari Sundari Tatik Wardiyati Tatik Wardiyati Wahyu Widoretno Wayan Firdaus Mahmudi Widodo Widodo Zakiyah, 'Ainun Sayyidah