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All Journal Journal of Tropical Life Science : International Journal of Theoretical, Experimental, and Applied Life Sciences BIOTROPIA - The Southeast Asian Journal of Tropical Biology The Journal of Experimental Life Sciences (JELS) Journal of Indonesian Tourism and Development Studies Biotropika Jurnal Pembangunan dan Alam Lestari AGRIVITA, Journal of Agricultural Science Journal of Tropical Biodiversity and Biotechnology JSMARTech : Journal of Smart Bioprospecting and Technology RISTEC : Research in Information Systems and Technology Edubiotik : Jurnal Pendidikan, Biologi dan Terapan
Nia Kurniawan
Brawijaya University
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Civil Engineering, Building, Construction & Architecture Computer Science & IT Control & Systems Engineering Decision Sciences, Operations Research & Management Economics, Econometrics & Finance Environmental Science Immunology & microbiology Materials Science & Nanotechnology Medicine & Pharmacology Neuroscience Social Sciences Veterinary

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Molecular characterization of genus Tor from Indonesia based on 16S rRNA Rahayu, Dwi Anggorowati; Nugroho, Endik Deni; Azrianingsih, Rodiyati; Kurniawan, Nia
Edubiotik : Jurnal Pendidikan, Biologi dan Terapan Vol. 7 No. 01 (2022): Edubiotik : Jurnal Pendidikan, Biologi dan Terapan
Publisher : Biology Education Department, Universitas Insan Budi Utomo, Malang, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.33503/ebio.v7i01.1880

Abstract

Genus Tor is Indonesia's endangered local fish however, the reports on this species from South East Asia is currently limited. This study conducted to characterize molecular genetics and phylogenetic relationship of Tor fish from East Java, West Kalimantan, Padang and North Sumatra from BPBAT Bogor collection using a partial sequence of mtDNA 16S rRNA. A total of ten samples of Genus Tor were collected, then identified based on morphological characters, and the identification was confirmed using molecular data. PCR amplicons at 542 bp in length. The construction of phylogenetic topology was made based on ML and NJ method using Kimura-2 parameter model. Based on the phylogenetic topology showed that Tor fish from Pasuruan are closely related to Tor duoronensis from Padang with a bootstrap value of 66%, while Tor duoronensis fish from North Sumatra and Tor tambra from West Kalimantan are in separated clusters. This finding also contributes to the differentiate Genus Tor from Indonesia based on polymorphic sites
The Use of Personal Inarisk Media in Improving the Concept of Disaster Information Literacy in social Studies Learning Kurniawan, Nia; Mulyana, Eldi; Nopharipaldi Rohman, Slamet; Widyanti, triani; Tetep; Supriyatna, Asep; Nugraha, Yopi
RISTEC : Research in Information Systems and Technology Vol. 1 No. 1 (2020): JURNAL RISTEC : Research in Information Systems and Technology
Publisher : RISTEC : Research in Information Systems and Technology

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

Abstract

The purpose of this study is to determine the improvement of the concept of disaster information litera cy using InaRisk Personal lea rning media in socia l studies learning. This research approa ch uses quantitative with quasi-experimenta l method with nonquivqlent control group design. The population of this resea rch is the seventh grade students of SMP Negeri 1 Ta rogong Ka ler. The sample wa s taken by purposive sampling technique with cla ss VII A as the experimental cla ss and class VII B as the control class. Based on the results of statistical ana lysis, the Asymp.sig.2-tailed value is 0.000 and a is 0.05, which means 0.000 <0.05, then Ho is rejected. From these data it can be concluded that the value of Asymp.sig. of 0.000 < 0.05, then there is a significant increase or lea rning that uses InaRisk Personal lea rning media is effective to be applied. Overa ll, the ability of the concept of disaster information litera cy affects the prepa redness of students in dealing with disasters in the surrounding environment. the ability of the concept of disaster information literacy in the experimental cla ss increased significantly in terms of seeking information, identifying information, evaluatinginformation, andusinginformation.
Insect as Biological Indicator from Protected to The Disturb Landscape in Central Java Indonesia Wicaksono, Karuniawan Puji; Suryanto, Agus; Nugroho, Agung; Nakagoshi, Nobukazu; Kurniawan, Nia
AGRIVITA Journal of Agricultural Science Vol 33, No 1 (2011)
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.v33i1.46

Abstract

In the biological science, invertebrate (especially insect) diversity is relatively well known. Yet, little study about their interaction with specific land use or specific system function. With the rapid changes of landscape, biodiversity is also changes in response to human impact; due to each organism have the specific interaction with certain environment. In this research, the assessment of insect order in the different landscape types was conducted using several method of trapping to understand the specific pattern of insect which are inhabited the landscape. The objectives of this research were monitored the Insect diversity, its ecological importance to agro-forestry ecosystem, and compare it with other forest type in this area. Another objective was determined the insect characteristic as the indicator of environmental quality on each land-use system (forest, agroforestry, plantation and monoculture). Monoculture agriculture has the largest number of Lepidoptera and Hemiptera order (herbivore insect dominated) while in agro-forest system has the largest number of Diptera and coleoptera order. Protected forest, plantation forest and agro-forestry showed the similar index number which shows the similar ecological services for the insect as their habitat. However, in the monoculture agriculture, there was an unbalance insect composition and high dominance.Keywords: landscape, biodiversity, environment indicator index
Anuran diversity and community structure in Lesti upriver across buffer zone habitat in Bromo Tengger Semeru National Park Fathoni, Muhammad; Hakim, Luchman; Kurniawan, Nia
Biotropika: Journal of Tropical Biology Vol. 10 No. 1 (2022)
Publisher : Universitas Brawijaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.biotropika.2022.010.01.10

Abstract

In Bromo Tengger Semeru National Park (BTSNP), buffer zone areas, one of which is the Lesti upstream rivers, play a critical role in sustaining biodiversity and community life. Frogs serve as a bioindicator of environmental change, particularly in the upstream rivers of the Lesti. The present study examines the diversity and community structure of Anura in the upstream rivers of Lesti, which are included in the BTSNP buffer zones. Throughout the surveys, up to 14 anuran species were encountered in four sites adjacent to the BTSNP border and crossed by the Lesti rivers. This study suggests that buffer zones may support herpetofaunal diversity by allowing humans to interact with them and sustainably utilize the resources in the areas. Urban development and conservation in these areas must be kept current in order to minimize environmental disruption caused by humans.
Identification of Mudskipper Species in Mangrove Area of Luwu Timur, Luwu Utara, and Wajo South Sulawesi Indonesia Darojat, Annisa Zakiyah; Marhendra, Agung Pramana Warih; Kurniawan, Nia
Biotropika: Journal of Tropical Biology Vol. 11 No. 2 (2023)
Publisher : Universitas Brawijaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.biotropika.2023.011.02.02

Abstract

Mudskipper is amphibious fish that inhabited sandy beaches, mudflat, and mangrove areas. This fish is euryhaline because of its tolerance to varying salinity as well as pH, temperature, conductivity, and dissolved oxygen. This study aimed to identify the taxonomy status of mudskipper in Banua Pangka Mangrove Ecotourism, Seta-Seta Beach, and Masiae River, it was expected to be additional information used as a basis for management and benefaction in taxonomic and ecological aspects. The sampling method of this study was purposive sampling. Morphological identification was carried out by observing morphometric and meristic character. The result found two mudskipper species from three sampling sites, namely Periophthalmus argentilineatus and Periophthalmodon freycineti. Water quality parameter values at three sampling locations were within the optimal range for mudskipper species according to the previous study. The temperatures ranged from 28-33 Celsius, the dissolved oxygen ranged from 2.04-6.74 mg/L, the pH ranged from 6.57-7.1, conductivity ranged from 3.47-41.2 mS/cm, and the salinity ranged from 1.7-2.58 per-mille.
In silico Exploration of Bioactive Compounds from Withania somnifera as Inhibitor for Alpha Delta Bungarotoxin of Bungarus candidus Venom Prabasari, Kartika; Kurnianingsih, Nia; Kurniawan, Nia
Biotropika: Journal of Tropical Biology Vol. 11 No. 2 (2023)
Publisher : Universitas Brawijaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.biotropika.2023.011.02.01

Abstract

The antivenom for Malayan krait (Bungarus candidus) venom has not yet been available in Indonesia, leading to many fatal snakebite cases. Alternative treatment approaches using medicinal plants are needed to be explored. This study investigated the potential of medicinal plants’ natural bioactive compounds as toxic alpha-delta bungarotoxin protein inhibitors in B. candidus venom. The approach taken is using the 3D structure of the alpha-delta protein of bungarotoxin B. candidus predicted by SWISS-MODEL. Knapsack Family Database and PubChem were used for bioactive compounds datamining. ADME analysis and drug-likeness of the compounds were carried out with SWISS-ADME. Docking between alpha-delta-Bungarotoxin protein and bioactive compounds was carried out with Pyrx 0.9.5. Visualization of docking results was performed with PyMOL and Discovery Studio 2016 was used to evaluate docking interactions. The docking results showed that a compound with the potential inhibitor of alpha-delta bungarotoxin came from Ashwagandha (Withania somnifera) with a binding energy ranging from -6.6 to -6.9. The compound with the best inhibitor potential, namely withanolide D, was seen from the stability of the interaction based on hydrogen bonding at three amino acid residues: THR59, SER62, and THR63. The evaluation is supported by the results of molecular dynamics simulations which show stability in almost all aspects. Our results suggest the potential for exploratory research in the field of bioinformatics related to bioactive compounds from herbal plants as an alternative to antivenom.
Study of Flavonoid in Apium graveolens L. as a Kirsten Rat Sarcoma Protein Inhibitor in Colorectal Cancer Based on In Silico Study Abdullah, Abdullah; Putri, Nenis Try Melani; Rosyadah, Nuraini; Ramadhani, Putri; Putri, Siti Aqila Kharisma; Widyananda, Muhammad Hermawan; Kurniawan, Nia; Fatchiyah, Fatchiyah
Biotropika: Journal of Tropical Biology Vol. 11 No. 2 (2023)
Publisher : Universitas Brawijaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.biotropika.2023.011.02.07

Abstract

Colorectal cancer (CRC) is considered the second deadliest cancer, mainly caused by the mutation of Kirsten Rat Sarcoma (KRAS) type G12D; it’s still undruggable. Flavonoids are secondary metabolites in celery, consisting of apigenin, luteolin, quercetin, and kaempferol. This study aims to analyse the most potential flavonoid compounds in Apium graveolens L. as KRAS inhibitors in CRC with in-silico. This study starts by collecting the 3D structure, Compound ID, formula, and canonical SMILES of compounds from PubChem and the 3D structure of KRAS G12D from the RCSB-PDB. Ligand and protein preparations using OpenBabel PyRx and Biovia Discovery Studio 2019. The SwissADME web server is used to analyse drug-likeness, the PassOnline web server is used to analyse biological activity, docked using PyRx VinaWizard, and visualisation by Biovia Discovery Studio 2019. RMSD and RMSF values were obtained by analysing binding stability with the YASARA application. The molecular docking test showed that chrysoeriol, luteolin, and apigenin have the highest binding affinity and advance to molecular dynamic test. Results of the molecular dynamic showed that chrysoeriol could potentially inhibit the KRAS protein drug in CRC since it also had the lowest toxicity and the strongest binding affinity to the KRAS.
Computational Design of a Truncated Javan Spitting Cobra (Naja sputatrix) Venom Cardiotoxin Analogue as a Promising Insulinotropic Agent Dinana, Ichda Arini; Widodo, Widodo; Kurniawan, Nia
Biotropika: Journal of Tropical Biology Vol. 11 No. 3 (2023)
Publisher : Universitas Brawijaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.biotropika.2023.011.03.03

Abstract

Treatment options for diabetes may vary widely, however, around 50% of all diabetic patients do not reach the minimum glycemic target. Therefore, drugs that are able to lower glucose levels through unconventional targets are still needed for the treatment of type 2 diabetes. This study aimed to investigate the activity of cardiotoxins from Naja sputatrix towards Kv channels as potential targets for glucose level reduction. Molecular docking analysis was conducted using the ClusPro web server, and the resulting protein-ligand interactions were visualized using BioVia Discovery Studio and LigPlus v.4.5.3. The stability of the docking structures was further examined through molecular dynamics simulations. The CTX-1, CTX-3, CTX-4, CTX-5, and CTX-KJC3 sequences from N. sputatrix were aligned and modeled, focusing on the 62-81 amino acid residues. The CTX-3, CTX-4, and CTX-5 models demonstrated interactions with the binding site of the KcsA receptor. Additionally, substituting the Val73 residue in the CTX62-81 fragment with Lys73 resulted in reduced binding energy and mitigated the cytotoxic effects of CTX while maintaining its insulinotropic activity.
FURTHER STUDY ON TWO SPECIES OF LOACH FISHES (Cypriniformes: Nemacheilidae: Nemacheilus) BASED ON MORPHOLOGY AND MOLECULAR DATA Rahayu, Dwi Anggorowati; Kuntjoro, Sunu; Budijastuti, Widowati; Winarsih, Winarsih; Ambarwati, Reni; Nugroho, Endik Deni; Basith, Abdul; Kurniawan, Nia; Haryono, Haryono
BIOTROPIA Vol. 30 No. 3 (2023): BIOTROPIA Vol. 30 No. 3 December 2023
Publisher : SEAMEO BIOTROP

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11598/btb.2023.30.2.1942

Abstract

The identities of two local loaches, Nemacheilus chrysolaimos (Valenciennes, 1846) and N. fasciatus (Valenciennes, 1846) from six rivers, were obtained through a comprehensive examination of their morphology and molecular characteristics in Biltar Regency, East Java, Indonesia. Therefore, this study identified Nemacheilus spp. from Blitar based on morphology and partial sequence of COI. The meristic data obtained for N. chrysolaimos included DII. 7–8 (dorsal fin), AI. 3–5 (anal fin), PI. 9 (pectoral fin), VI. 6–7 (ventral fin), and C. 17 (caudal fin). On the other hand, N. fasciatus exhibited the following meristic data, namely D II 7–8 (dorsal fin), AI. 6 (anal fin), PI. 9–10 (pectoral fin), VI. 6–7 (ventral fin), and C. 17 (caudal fin). A significant difference was observed in the morphometric characteristics of N. fasciatus across various sampling sites, as determined by the Kruskal-Wallis Test. Furthermore, the nucleotide base composition sequences of Nemacheilus spp. consisted of Thiamine (T), Cytosine (C), Adenine (A), and Guanine (G) with a mean of 29.565%, 32.023%, 23.88%, and 16.244%. Maximum Likelihood (ML) and Minimum Evolution (ME) phylogenetic analysis was also conducted using the Kimura 2 Parameter model to establish two major clades on Nemacheilus spp. and one out-group significantly different from the Nemacheilus spp. The results showed that these major clades exhibited a close relationship at 100% bootstrap support and were grouped under the genus Nemacheilus. The study on Nemacheilus spp. from the Blitar locality differentiated COI sequences between N. fasciatus and N. chrysolaimos. Additionally, N. chrysolaimos, as inferred from reference sequences, was identified as the ancestral species to N. chrysolaimos MZB 26540 and MZB 26539. ABGD analyses, employing a prior maximal distance of 0.025, also indicated the separation of these species into distinct partitions. The integration of morphology and genetic data for Nemacheilus spp. should provide valuable insights for future genetic population studies and conservation initiatives.
The Potential of Butterflies in Tourism Diversification Product: Case Study at Coban Rais Waterfall, Batu, East Java Kurnianto, Agung Sih; Wafa, Imti Yazil; Alifianto, Faldy; Kurniawan, Nia
Journal of Indonesian Tourism and Development Studies Vol. 4 No. 3 (2016)
Publisher : Graduate School, Universitas Brawijaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.jitode.2016.004.03.04

Abstract

The diversity of Butterfly in Coban Rais is one of the potential resources for tourism product diversification and development. The aims of this paper are to determine the magnitude of the butterfly potential as a form of tourism products diversification and development in a sustainable tourism industry. There are 107 species of butterfly that come from six families was found in Coban Rais waterfall. Some species have a very large population in a specified activity, such as mud-puddling and mating. Udara akasa has the highest potential to make colony and Cyrestis lutea is a species that have the potential as a major attraction in the mud-puddling activity. Sector 3, the location of riparian with sand and gravel, is the site of the largest butterfly visits. The dry season is the highlight of a butterfly visit in Coban Rais. Development of human resources is important for the tourism products diversification in Coban Rais, i.e. the butterflies observer and visitors services. We recommend establishing a breeding center for butterfly population recovery and educational goals for visitors.Keywords: butterflies, Coban Rais, product diversification.
Co-Authors Abdul Basith Abdullah Abdullah Achmad Dadang Burhanuddin Agung Pramana W.M Agung Pramana W.M Agung Pramana Warih Marhendra, Agung Pramana Warih Agung S. Kurnianto Agung Sih Kurnianto Agung Sih Kurnianto Agung Sih Kurnianto Agus Nurrofik Agus Suryanto Aguung Sih Kurnianto Ahmad Muammar Kadafi Alvionita, Cicin Vinolia Amin Setyo Leksono Aminuddin Affandi AMIR HAMIDY Ananda, Alif Aulia Andri Maulidi Andri Maulidi Andyni, Regina Shania Anggun Sausan Firdaus Aninnas, Afina Annisa Zakiyah Darojat Ardiansyah, Franky Ardiantoro, Ari Ardyah Ramadhina Irsanti Putri Arief Sugiharto Arifianto, Adityas Asmaul Khusnah Asmaul Khusnah Assiddiqy, Miftah Farid Azrianingzih, Rodiyati Azrianingzih, Rodliyati Badiul Ulum Badiul Ulum Bagaskara, Satria Wira Bagus Priambodo Bagyo Yanuwiadi Bayu Hendra Prakosa Catur Retnaningdyah Chomsy, Indah Nur Chrestella, Dea J. Darojat, Mas Khoirud Dinana, Ichda Arini Djong Hon Tjong Dwi Anggorowati Rahayu Eldi Mulyana, Eldi Endik Deni Nugroho Estri Laras Arumingtyas Fahmi, Muhamad Faldy Alifianto Faldy Alifianto fatchiyah . Fauzi, Muhammad A. Fauzi, Muhammad Alif Firdaus, Anggun Sausan Firmansyah, Richo Fitra Arya Dwi Nugraha Fitra Arya Dwi Nugraha Franky Ardiansyah Gigih Setia Wibawa Haryanti Haryanti Haryono Haryono Herlin Aprilia Kartini Herlin Aprilia Kartini Hermanto, Feri Eko Imti Yazil Wafa Jati Batoro Kadafi, Ahmad M. Kamila, Fatiha Karina hanum wardany Karina hanum wardany Kartika Prabasari Karuniawan Puji Wicaksono Kholilah, Tsaniyah Nur Kurnianingsih, Nia Kurnianto, Aguung Sih Lekatompessy, Vanela Chatrin Lingga Nugraha Liu, Fu-Guo Robert Luchman Hakim Lutfita Fitriana Lutviyana Rahman Lutviyana Rahman Maharani, Tri Mahmudul Hasan, Mahmudul Maisuroh, Dalilatul Masayuki Sumida, Masayuki Mufti, Elsa Muhammad Fathoni, Muhammad Mumpuni Mumpuni Narwasthu, Sekararum Nashi Widodo Nasirudin, Mohamad Nobukazu Nakagoshi Nopharipaldi Rohman, Slamet Nugraha, Yopi Nugroho, Agung Nurrofik, Agus Pramudya, Muhammad Alif Imam Putri Ramadhani, Putri Putri, Mulyadiane M. Putri, Nenis Try Melani Putri, Siti Aqila Kharisma Qothrun Izza Qothrun Izza Ramadani, Shima Reni Ambarwati Rijalullah, Muhammad Asyraf Rikardo, Novy Kurnia Riyanto, Awal Robiatul Adawiyah Rodiyati Azrianingsih Rosyada, Nabila Nur Rosyadah, Nuraini Rudi Candra Aditama Rudi Candra Aditama Septiadi, Luhur Shahroni, Abdul Mutholib Smith, Eric Nelson SRI RAHAYU Sugiharto, Arief Suharjono Sunu Kuntjoro Suparno, Kelik Supriyatna, Asep Takeshi Igawa, Takeshi Tesri Maideliza Tetep Tri Maharani Triani Widyanti, Triani Vendy Adrinanda Vendy Adrinanda Wafa, Imti Yazil Wardani, Erintha Eka Wibi Riawan Widodo Widodo WIDOWATI BUDIJASTUTI Widyananda, Muhammad Hermawan Winarsih Winarsih Zain, Dhiyaa Syahlaa Bianca Febrinnisa