HAYATI Journal of Biosciences
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Effect of Synthetic Fertilizer on Diazotrophic Bacteria in Secondary Forest and Oil Palm Soils in Central Kalimantan
Get PDFSoil microorganisms, especially diazotrophic bacteria, are vital for ecosystem sustainability, significantly contributing to nitrogen cycling and biodiversity conservation. Understanding the impact of different land-use practices on soil microorganisms, especially synthetic fertilizer addition, is essential for sustainable agriculture. This study compares soil properties, bacterial densities, and responses to fertilization in secondary forest soils and adjacent oil palm plantation soils located in PT Kerry Sawit Indonesia, Central Kalimantan. A greenhouse experiment was conducted using both secondary forest and oil palm plantation soils to evaluate the impacts of different synthetic fertilizers on nitrogen-fixing bacteria and soybean agronomic performance. Total soil bacteria and diazotrophic bacteria, essential for nitrogen fixation, were analyzed through microbiological assays and qPCR focusing on the nifH gene. Our findings show that oil palm plantation soils had higher levels of nitrogen, phosphate, and nitrate, while secondary forest soils had a higher abundance of diazotrophic bacteria. Furthermore, excessive nitrogen fertilization was found to reduce microbial density, negatively impacting plant sustainability, highlighting the importance of customized fertilizer management. The study highlights the intricate connections between land-use practices and microbial populations, providing valuable insights for balancing agricultural productivity with ecological sustainability
Cloning and Optimized Expression of Bst DNA Polymerase from Geobacillus stearothermophillus in Escherichia coli BL21
Get PDFBst DNA polymerase possesses strand displacement activity, enabling isothermal DNA amplification without requiring a thermal cycler. This enzyme is utilized in the Loop-Mediated Isothermal Amplification (LAMP) method, which offers advantages in speed and simplicity over Polymerase Chain Reaction (PCR) method. The growing demand for Bst DNA polymerase highlights the need for cost-effective in-house production, as a commercial option is economically challenging. For that purpose, this study aims to construct and optimize the expression of Bst DNA polymerase from Geobacillus stearothermophilus in Escherichia coli. The expression constructs pET16b.BstHF vector was constructed using Gibson Assembly and expressed in E. coli BL21 (DE3). Optimal expression was achieved with 1 mM IPTG, induction at OD600 0.8 and 6-hour induction time. The purified enzyme was achieved with a protein yield of 2,175 mg/L culture and demonstrated effective polymerase activity for LAMP
Identification of Garlic Viruses Associated with Seed Bulbs and Consumption Bulbs from Several Locations in Indonesia
Get PDFVirus infection is one of the major constraints in garlic production since the viruses are readily accumulated on vegetative propagation material (bulbs). This research aimed to detect garlic common latent virus (GCLV), shallot latent virus (SLV), onion yellow dwarf virus (OYDV), and leek yellow stripe virus (LYSV) infecting local garlic as seed bulb and imported garlic as consumption bulb. Seed bulb samples were obtained from seed breeders in several garlic growing centers in Indonesia. In contrast, consumption bulb samples were obtained from plant quarantine warehouses and three local markets in Bogor. Some bulb samples were used for morphological observations, and some were germinated in the laboratory until the leaves emerged. Leaves were collected for virus detection by RT-PCR using specific primers for GCLV, SLV, OYDV, and LYSV. Seed and consumption bulbs have differences in their morphological characteristics, especially in the type of neck hardness and the size of the bulb diameter. OYDV and LYSV infections were successfully detected in seed and consumption bulbs, while SLV was only found in consumption bulbs. Nucleotide sequence analysis showed that SLV from consumption bulbs formed one group, GCLV from seed bulbs formed one group, while OYDV and LYSV from seed and consumption bulbs were in different groups, indicating that the viruses came from different strains. Further research through high-throughput detection methods and providing virus-free planting material are needed to anticipate the spread of new strains of garlic viruses in Indonesia
Sustaining Biodiversity and Ecological Roles in a Heritage Landscape: The Role of Coffee Agroforestry in Kluncing, Indonesia
Get PDFThis study investigates the role of coffee agroforestry in sustaining biodiversity and ecosystem functions in Kluncing, Ijen, Indonesia. By quantifying bird, butterfly, and coffee insect diversity using the Shannon-Wiener index, it evaluates ecological dynamics and their implications for sustainable land management. Bird communities demonstrated the highest diversity (2.911), indicating ecosystem stability, while butterflies (2.481) and coffee insects (1.841) exhibited lower diversity, reflecting habitat and resource limitations. Trophic network modeling using NetworkX identified keystone species like Collocalia linchi (21.9% relative abundance) among birds and the Formicidae family (29.8% relative abundance) among coffee insects, emphasizing their critical roles in ecosystem balance. Canonical Correspondence Analysis (CCA) highlighted the influence of environmental factors on species distribution. Species such as Ariadne ariadne and Delias belisama were sensitive to humidity and temperature, while Collocalia linchi favored areas with higher light intensity. The findings underscore the importance of tailored management practices to address species-specific responses to microclimatic variations. Sustainable agroforestry management is vital for preserving biodiversity, maintaining ecosystem stability, and ensuring agricultural productivity. This study also highlights challenges posed by habitat degradation and climate change, emphasizing the need for adaptive strategies to safeguard this unique agroforestry landscape
The Potential of Clove Rhizospheric Bacteria to Produce Vanillin from Eugenol
Get PDFVanillin is one of the most important flavoring agents worldwide. Currently, consumers\u27 awareness and concern for biovanillin production has been increasing. This study aimed to screen the potential of clove rhizospheric bacteria isolates producing vanillin through a biotransformation process of eugenol and to conduct the preliminary optimization of the biotransformation condition. Twenty-eight bacteria isolates were screened for their capability to transform eugenol into vanillin. BKL 15 isolate, which was identified as Lysinibacillus xylanilyticus, was selected as the highest vanillin producer among the isolates. The optimum molar yield of vanillin produced by the selected isolate was 4.99% (1.11 g/L) after 168 hours of biotransformation process in the medium consisting of TSB (30 g/L), eugenol (24 g/L), yeast extract (20 g/L), and concentration of casamino acid (20 g/L). Throughout the publications we have read, this is the first report of L. xylanolyticus that produces vanillin
Genetic Diversity and Differentiation of Sand Crab (Albunea symmysta) (Crustacea: Decapoda: Hippoidea) from Java and Papua, Indonesia
Get PDFIn Indonesia, the sand crab Albunea symmysta distribution includes Java, Sumatra, and Moluccas. Populations are assumed to be differentiated between western and eastern Indonesia due to the Wallace line; however, no information on the genetic diversity and differentiation of A. symmysta in Indonesia is available. This study was conducted to clarify the genetic diversity and differentiation of A. symmysta in Indonesia. During the sampling campaign, A. symmysta specimens were found only in Java and Papua. Genetic analysis based on the 643-bp fragment of the partial COI gene from 32 individuals revealed significant genetic differentiation between the Java and Papua populations (FST = 0.94, p < 0.005). The haplotype connectivity of the five A. symmysta sampling sites revealed a two-clade network. Based on analysis of molecular variance, most of the variation was found among populations (94.21%) rather than within populations (5.79%). Tajima\u27s D and Fu\u27s FS values indicated a population expansion. Overall, the findings support a high level of differentiation between the Java and Papua A. symmysta populations, suggesting the separation of population stocks due to low connectivity
Enhancing Kojic Acid Production in Aspergillus oryzae: Leveraging Crude Cellulase from Achatina fulica for Strain Improvement via Protoplasting and UV Mutagenesis
Get PDFThis study aims to prove the ability of crude cellulase enzymes from snails for protoplasting Aspergillus oryzae cells and its application for strain improvement with UV mutagenesis. Snail enzyme was obtained from Achatina fulica by dissolving its digestion track and fractionating it with ammonium sulfate. The activity of fractions was measured Spectrophotometrically and used for cell protoplasting for 2 hours, then irradiated with UV for 10, 15, and 20 minutes, respectively, with 5 cm in the distance. Screening of mutants is carried out with 1% FeCl3, and the potential mutant strain was tested for kojic acid production in an aerobic state and determined by Spectrophotometry at 268 nm. The cellulase activity in crude snail enzyme was 11.5807 U/ml and increased to 16.3984 U/ml after fractionation. The best protoplast formation was obtained with a 60% fraction, which showed transparent performance under the microscope. The UV mutagenesis of protoplasts showed that the highest number of potential mutants was obtained from UV treatment for 15 minutes (41.67%). The potential mutants look dark brown (DBC), such as strain 10H3, and produced higher kojic acid concentration than the parent strain. In conclusion, UV mutagenesis of Aspergillus oryzae through protoplasting by crude cellulase of snail enzyme was effective and improved kojic acid concentration
The Potential of Bacillus altitudinis B538 and Alcaligenes faecalis B947 in PET and PCL Plastic Degradation
Get PDFPolyethylene terephthalate (PET) plastic is the most widely used type of plastic that produces waste and causes various environmental and health problems. The treatment of PET plastic waste with chemically and mechanically recycling approaches still has shortcomings, so biological processing using microorganisms or enzymes has new potential. Two bacterial isolates from the Indonesian Culture Collection of National Research and Innovation Agency (InaCC, BRIN), namely isolate InaCC B538 and InaCC B947, were further observed for their potential in PET plastic degradation. Firstly, both isolates were determined by the molecular marker 16S rDNA. The potential of both isolates was measured with following method: 10 days of degradation using PET and PCL substrates, esterase enzyme activity assay, and observation of the PET plastic surface using Scanning Electron Microscope (SEM). Species identification was performed using DNA sequencing of 16S rDNA. InaCC B538 and InaCC B947 were closely related to Bacillus altitudinis TBMAX41 and Alcaligenes faecalis AN-13, respectively. InaCC B947 isolate has a better potential in degrading PET plastic and PCL with a degradation percentage of 0.32% for PET plastic and 3.22% for PCL film for 10 days, respectively, and esterase activity of 0.06 U/ml; while InaCC B538 did not cause weight loss of PET and 2.49% for PCL, respectively, with esterase activity of 0.04 U/ml. The degradation of PET plastic by the isolates InaCC B947 was able to cause damage to the plastic surface leading to the degradation of PET plastic
The Unpopular Edible Bolete (Phlebopus portentosus) in Indonesia
Get PDFPhlebopus portentosus (Berk. and Broome) Boedijn was firstly constructed from the collection of Indonesia in 1951. To date, the subsequent collection of this ectomycorrhizal (ECM) fungi has not been done in Indonesia. In addition, the utilization information of this edible mushroom as food is not popular for the country. The goal of our work was to update the current collection, provide the morphological and molecular data, and promote the utilization of this edible mushroom in Indonesia. Fresh fruiting bodies were evaluated for morphological and molecular evidence. The basidiomata were analysis on the basis of the morphological and molecular evidence. The phylogenetic tree was constructed following the rDNA-ITS 1/2 sequence. P. portentosus was verified by morphological and phylogenetic studies combined. The indigenous people in the research site use this wild edible mushroom for self-consumption and sell it to local market. Phlebopus portentosus BO24626 was solitary to connate, boletoid basidioma, yellowish to greenish brown pileus and stipe, yellowish hymenophore, clavate stipe, club shaped basidia, oval to subglobose basidiospores, cystidia present. The absence of sponge-like tissues and the occurrence of sterigmata distinguished our specimens from the similar morphological species P. spongious. The lack of reddish stipe distinguished our specimen from P. roseus. In addition, the presence of hymenial cystidia delimits our specimens from P. colossus. The inferred phylogenetic tree nested our specimen in the group of P. portentosus (sister to P. spongiosus). The ITS sequence of our specimen is now deposited at GenBank and can be applied to upcoming research of P. portentosus
Distribution and Utilization of Musa spp. by Nocte Tribe in Tirap District, Arunachal Pradesh, India
Get PDFThe present study emphasized the distribution and utilization of both wild and domesticated Musa spp. of the Nocte tribe from Tirap district, Arunachal Pradesh. An extensive field survey was conducted from July to October 2023. A total of 62 households were surveyed randomly with the help of a semi-constructed questionnaire and personal interview. About 69% of the informants were from the age group of 31-60 years. About 84% live in a nuclear family type. Maximum informants were male (74.19%) and were married (80.64%). Only 17.75% of the informants were illiterate and were farmers (46.77%). In this study, 13 wild Musa spp. were reported from Tirap district, and 4 Musa spp. were found to be cultivated by the tribe. Of these, 76.47% were wild, and the rest were domesticated. M. itinerens had a widespread distribution range and occurred in various habitats between 155 and 1,711 masl altitudes. The highest use percentage was found in the Edible use category with 33%, followed by Ceremonies and Rituals (19%), Commercial uses (12%), and both Other and Packing purposes (10% each). Among the plant parts, inflorescences had the highest usage with 30%, followed by leaf (24%), pseudo stem (21%), etc. Among all Musa spp., M. itinerens had the highest number of usages (14 uses), followed by M. nagensium (12 uses)