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INDONESIA
Journal of Tropical Biodiversity and Biotechnology
Published by Universitas Gadjah Mada
ISSN : 25409573     EISSN : 25409581     DOI : -
Core Subject : Science, Agriculture, Social,
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Environmental Science Immunology & microbiology
Journal of Tropical Biodiversity and Biotechnology (JTBB) is an authoritative source of information concerned with the advancement of tropical biology studies in the Southeast Asia Region. It publishes original scientific work related to a diverse range of fields in tropical biodiversity, functional biology, and biotechnology.
Arjuna Subject : -
Articles 21 Documents
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Search results for , issue "Vol 9, No 3 (2024): September" : 21 Documents clear
Cryptic Diversity of Barred Mudskippers, Periophthalmus argentilineatus (Valenciennes, 1837), from the Southern Coast of Java and East Lombok, Indonesia inferred by COI Mitochondrial Gene Arisuryanti, Tuty; Aji, Katon Waskito; Herawati, Happy; Sari, Indah Paramita; Rha’ifa, Febrina Amaliya; Febriyanti, Diana; Priyono, Dwi Sendi
Journal of Tropical Biodiversity and Biotechnology Vol 9, No 3 (2024): September
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.84328

Abstract

The Barred Mudskipper (P. argentilineatus) is an amphibious fish species that displays fully terrestrial behaviour during low tides. Previous studies have indicated the existence of cryptic species of the barred mudskipper, leading to difficulties in taxonomic identification due to similarities in morphological characteristics. Therefore, this study aimed to generate DNA barcodes for Indonesian barred mudskipper populations. We collected ten specimens from Clungup Beach and Kondang Bandung Beach, representing our samples. Additionally, we incorporated 25 previously collected COI sequences from Indonesia into our analysis. The mitochondrial COI gene was amplified using PCR and analysed using various bioinformatics programs. This study provides evidence for the presence of three genetically distinct clades (A, B, and C) within the P. argentilineatus population in Indonesia, with a deep genetic divergence of 2.41% to 6.12%. Clade A showed a high genetic divergence of 5.51-6.12%, suggesting the presence of a cryptic species consistent with previous studies. The high level of haplotype diversity and low nucleotide diversity observed in each clade suggest a population bottleneck followed by a rapid expansion. The lack of geographical separation in the haplotype network analysis indicates that gene flow between populations may have been facilitated by glaciation events in the past. These findings contribute to a better understanding of the biodiversity of the barred mudskipper species in Indonesia and will aid in the accurate identification of cryptic species. This study highlights the importance of using molecular techniques to complement morphological identification in understanding the evolution and diversity of mudskipper fish species. 
Herpetofauna and Their Potential Threats in Karimata Island, Indonesia Pratama, Ferdian Wira; Fauzan, Opi; Luthfi, Muhammad
Journal of Tropical Biodiversity and Biotechnology Vol 9, No 3 (2024): September
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.85535

Abstract

Karimata Island is an island about 100 km west of Borneo, causes geographical isolation and generally always shows an impact on the diversity of animal communities that are less, one of the communities affected is herpetofauna. Herpetofauna is very important in an ecosystem so it is necessary to conduct a survey. The survey was conducted from April 1 to April 7, 2023 in Betok Jaya Village, Karimata Island which was divided in 3 observation areas based on habitat type using the Visual Encounter Survey method. Herpetofauna found consisted in 22 species divided into 5 species of amphibians and 17 species of reptiles with a total of 43 individuals. Herpetofauna located adjacent to human areas is vulnerable to various disturbances such as maritime transportation activities, household waste pollution and land clearing, which can be a threat to the herpetofauna community of Karimata Island. 
The Diversity of Ants (Hymenoptera: Formicidae) on Industrial Forest in Sungai Merah Village, Sarolangun, Jambi with Its Identification Key Fitriyani, Nur Laras; Soesilohadi, RC. Hidayat; Purwanto, Hari
Journal of Tropical Biodiversity and Biotechnology Vol 9, No 3 (2024): September
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.86022

Abstract

Ants have a very important role in an ecosystem. The insects act as decomposers, pollinators, soil aerators, pest controllers, and predators. Their role is very varied so that they can be easily found in various ecosystems, one of which is the rubber and oil palm ecosystem. The ant’s diversity in this forest eventually will affect the productivity of the land. The aim of this study is to determine the diversity and role of ants in the rubber and oil palm plantations in Sungai Merah Village. Both of the plantations dominate the industrial forest in Jambi. The method used in this study was purposive random sampling. Observation plots were installed in the ecosystem of rubber and oil palm plantations; each ecosystem had 4 plots consisting of 9 units of pitfall traps, and 9 units of bait traps. The results of this study show that 15 species of ants are found in the ecosystem of rubber and oil palm plantations. Furthermore, the collected ants consisted of 39.972 individual ants belonging to 12 genera and 5 subfamilies. Ants establish in the ecosystem of rubber and oil palm plantations in Sungai Merah Village have an important role either as predators (Crematogaster spp., Odontomachus rixosus, Odontoponera tranversa, Pheidole huberi, Tetraponera rufonigra, Tapinoma melanocephalum, Camponotus spp. and Colobopsis moeschi), or foragers such as ants from the genera Anoplolepis, Camponotus, Monomorium and Polyrhachis. As predators, Oecophylla smaragdina, Camponotus spp. and Crematogaster spp. also play a role as biological control agents in the ecosystem. 
Detection of Entomological Origin of Honey Sold in Indonesia Based on 16S rRNA Gene Analysis Indahsari, Anita Nur; Purwanto, Hari
Journal of Tropical Biodiversity and Biotechnology Vol 9, No 3 (2024): September
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.86256

Abstract

Honey is known for its various benefits for health, cosmetic ingredients, and other industrial materials. Especially, during the Covid-19 pandemic, many people consume honey to maintain body endurance. In Indonesia, the honey produced is dominated by Apis mellifera honey. With a cheaper price and a larger quantity, A. mellifera honey is often offered as forest honey or stingless bee honey to get more profit. Therefore, this study aims to determine the entomological origin of honey claimed as forest honey and stingless bee honey sold in the Indonesian market using the detection of 16S rRNA gene amplicon. This study tested 30 samples of forest honey and 30 samples of stingless bee honey. DNA that has been isolated from honey samples was amplified by PCR using 16S rRNA primers. The results from the sequence analysis showed that nine of honey samples were identified as honey fraud. Two samples were confirmed as falsification of the origin of honey-producing bees and four honey samples were confirmed as honey mislabelling. From this study it can be concluded that, it is possible to determine the entomological origin of honey molecularly by sequencing the 16S rRNA gene. Therefore, this method can be used to identify honey fraud that may occur on the market. 
Bioprospecting and Molecular Identification of Amylase and Cellulase Producing Thermophilic Bacteria from Sediment of Nglimut Hot Springs, Kendal Regency Budiharjo, Anto; Wulandari, Dyah; Shabrina, Jauhara; Mawarni, Risa Arum; Maulana, Anand Reyna; Nurhayati, Nurhayati; Wijanarka, Wijanarka; Hartajanie, Laksmi; Lindayani, Lindayani
Journal of Tropical Biodiversity and Biotechnology Vol 9, No 3 (2024): September
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.86756

Abstract

The utilisation of enzymes in the industry has brought numerous benefits and advantages to production processes. Enzymes serve as biocatalysts, efficiently catalyzing reactions and hydrolysis in biochemical processes. However, there are challenges in applying enzymes in the industry, particularly concerning enzyme stability. The obstacle encountered in the production processes involving industrial enzyme applications is the low stability of enzymes when used at high temperatures. Heat-sensitive enzymes undergo damage or denaturation. Thermophilic microorganisms are chosen because they hold the potential to produce thermophilic enzymes. The thermophilic enzymes exhibit better heat stability compared to other enzymes, making them an effective alternative for future industrial production processes. This study aims to isolate thermotolerant bacteria from Nglimut Hot Spring sediment, screen for cellulase- and amylase-producing isolates, and molecularly identify the best isolate using 16S rRNA barcode. The results show that 22 bacterial isolates were found in the sediment of a hot spring; TS-14 was the best isolate in producing amylase, with the highest average amylolytic index of 2.38, whereas TS-15 had the highest cellulolytic index of 2.11. Based on 16S rRNA identification, TS-14 showed an homological identity of 79% with Bacillus amyloliquefaciens, while TS-15 had a 100% homological identity with Bacillus licheniformis. These results were important as the first step of screening bacterial potential to produce thermophilic enzymes that could be applied in the downstream processing in future industrial and biotechnology companies. 
Fern Species-Area Relationship in Urban Anthropogenic Islands in Slawi, Tegal, Central Java Sedayu, Agung; Putri, Novita; Aminudin, Aminudin; Mawardi, Muchtar; Noer, M. Isnin; Maulana, Lana
Journal of Tropical Biodiversity and Biotechnology Vol 9, No 3 (2024): September
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.87781

Abstract

In anthropogenic islands as urban parks, the fern species richness and composition may be determined ecologically by the quality of habitat, including area greenness, or biogeographically by area size. As the development of the theory of island biogeography also includes man-made parks, it is feasible to test whether area-species relationship applies in these urban parks, and is more pronouncedly evident compared to another ecological factor, such as NDVI. Total species number and composition of 8 urban parks in a kecamatan in Tegal Regency were collected and arranged in clustering methods to understand the similarity between parks. The similarity analysis result is important for the management of the parks in Slawi. The species richness data is subsequently tested using Pearson correlation and regression against NDVI and area sizes. The relation between NDVI and species richness is non-significant (p=0.058), while area size and species richness is significant (p=0.003). This signifies that the urban fern species richness is determined by area as biogeographical factor, compared to NDVI as ecological factor. This result is important for the purpose of designing and managing urban parks as evidently size is important in the effort of attracting native biodiversity into urban parks and in turn enhancing the well-being of urban population. 
Mining GATA Transcription Factor Encoding Genes in The Cocoa Tree (Theobroma cacao L.) Suggests Their Potential Roles in Embryo Development and Biotic Stress Response Chu, Ngoc Thi Bich; Le, Thi Man; Chu, Ha Duc; Tran, Huyen Thi Thanh; Tran, Lan Thi Mai; La, Hong Viet; Vu, Quyen Thi Xuan; Phung, Huynh Huy; Cao, Phi Bang
Journal of Tropical Biodiversity and Biotechnology Vol 9, No 3 (2024): September
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.88015

Abstract

GATA transcription factors (TFs) are widely recognized as significant regulators, characterized by a DNA-binding domain that consists of a type IV zinc finger motif. This TF family has been widely investigated in numerous higher plant species. The purpose of the present work was to comprehensively analyze the GATA TF in cocoa plant (Theobroma cacao L.) by using various bioinformatics tools. As a result, a total of 24 members of the GATA TFs have been identified and annotated in the assembly of the cocoa plant. According to phylogenetic analysis, these TcGATA proteins were classified into four distinct groups, including groups I (10 members), II (seven members), III (five members), and IV (two members). Next, our investigation indicated that the TcGATA proteins in different groups exhibited a high variation in their physic-chemical features due to their different protein lengths, gene structures, and conserved motif distributions, whereas the TcGATA proteins in the same clade might share the common conserved motifs. Additionally, the gene duplication of the TcGATA genes in the cocoa plant was also investigated. Of our interest, the relative expression levels of the TcGATA genes were investigated according to available transcriptome databases. The results exhibited differential expression patterns of all TcGATA genes in various developmental stages of zygotic and somatic embryogenesis, indicating that these TcGATA genes divergently function during various developmental stages of the zygotic and somatic embryos. Moreover, TcGATA genes were differently expressed under Phytophthora megakarya treatment across different points of treatment and cocoa varieties. To sum up, our findings could provide a basis for a further deep understanding of the GATAs in the cocoa plant.  
Ecological Study of Bidens pilosa in Bandung, West Java, Indonesia Oktaviant, Dimas Panji; Rosleine, Dian
Journal of Tropical Biodiversity and Biotechnology Vol 9, No 3 (2024): September
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.88675

Abstract

Bidens pilosa has been widely distributed from tropical to temperate regions and is often reported as a weed in agriculture. It readily thrives in various environments, naturally spreading to open areas and artificial ecosystems, establishing new populations, emphasising the need for ecological studies to prevent its invasive potential. In this study, we focused on population study of B. pilosa and its distribution in Bandung as urban area. Survey was conducted using 1x1 m quadrate plots in eight locations (24 plots). Individual number of B. pilosa, the number of flowers in each individual, coordinates, and altitude of each plot were recorded to describe population structure and map this population in Bandung. Air temperature (°C), humidity (%), light intensity (Lux), and soil water content (%) were measured. Individual number and environmental condition are analysed using cluster analysis and PCA, then mapped using IDW (Inverse Distance Weighting). The highest population in AR (652 ind), followed by CG (626 ind), TR (253 ind), PA (135 ind), CW (78 ind), NR (39 ind), PU (28 ind), and PR (20 ind). On average, each B. pilosa individual produces 61 inflorescences, indicating a mature population with all developmental stages present across all locations. Ordination plots shows that B. pilosa has wide range of environmental condition from open to shade area with various environmental condition. Open areas, settlements, and agriculture host dense B. pilosa populations, and its biological traits suggest it may become invasive without proper control. 
Fantastic Macrofungi in Poncokusumo District, Bromo Tengger Semeru National Park (TNBTS) Area and Their Habitat Characteristics Amelia, Aquinita Shinta Setya; Dewi, Rosita Fitrah; Setyawati, Heni; Hafazallah, Khalid; Putrie, Rahayu Fitriani Wangsa; Mubarok, Husni
Journal of Tropical Biodiversity and Biotechnology Vol 9, No 3 (2024): September
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.88778

Abstract

Bromo Tengger Semeru National Park (TNBTS) is a conservation area in East Java with an abundance of biodiversity, including macrofungi. This study aims to identify the macrofungal species existing in Poncokusumo district, TNBTS area, and their habitat characteristics for a further sustainable study of fungi. This study used a purposive sampling method by opportunistic exploration. Identification of macrofungi is conducted by morphological analysis and habitat characterization. The study identified 15 macrofungal species categorized as Ascomycota and Basidiomycota, that were distinct in their habitat characteristics. The 15 macrofungal species inhabited leaf litter, wood litter, soil, and bamboo. 
Diversity of Orchid species in the Tilu Mountains Region of Indonesia and the Potential for Phytochemistry Prapitasari, Bela; Rezaldi, Taufiq; Kenza, Masfufah Lutvita; Aliwafa, Ahmad; Gunawan, Dwi Ariya; Nuraini, Latifa
Journal of Tropical Biodiversity and Biotechnology Vol 9, No 3 (2024): September
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.89174

Abstract

Orchids are one of the largest and globally distributed plant families. Indonesia has the most types of orchids, estimated around 20% from the total species across the world. Mainly orchids used as an ornamental plant. This research aimed to elucidate another potential of orchids as possibly for herbal medicine plant. The potential of orchids as herbal medicine has been known for a long time, but there is lack of well-documented research. The research method used in this research is exploration on predetermined research sites that were conducted in Mount Tilu, West Java on 2022. Observation data of orchids were collected on the sites and the analysis was carried out in a qualitative descriptive approach by describing the data from the research results and comparisons were made through a literature review. Based on the research results, we found about 31 species from 28 genera consisting of 24 epiphytic orchids and 7 terrestrial orchids in the Mount Tilu Kuningan area, West Java. There are 4 endemic species categorised in Java; Chilochista javanica, Crepidium koordesii, Crepidium junghuhnii, and Taeniophyllum biocellatum.

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