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Microbiology Indonesia
Published by Perhimpunan Mikrobiologi Indonesia
ISSN : 19783477     EISSN : 20878575     DOI : -
Core Subject : Health, Science,
Biochemistry, Genetics & Molecular Biology Immunology & microbiology Medicine & Pharmacology
Microbiology Indonesia provides a unique venue for publishing original researches in microbiology (espesially from Indonesian reseachers), and ensures that authors could reach the widest possible audience. Microbiology Indonesia publishes a wide range of research disciplines on bacteria, archaea, fungi, protozoa, and virus as well as biotechnology related to microbiology. Topics include (but are not limited to): -methods in microbiology, -bioprocess, -environmental microbiology, -food microbiology, -plant-microbe interaction, -animal-microbe interactions, -microbial community, -microbial genetics, -virology, -comparative and functional microbial genomics, -and gene expression in microbes.
Arjuna Subject : Imunologi dan Mikrobiologi (semua kategori) - Mikrobiologi dan Bioteknologi Terapan
Articles 398 Documents
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Rapid Detection of Foodborne Pathogen Bacteria Vibrio parahaemolyticus in Seafood Using Gene ToxR with Real-Time Polymerase Chain Reaction Method Ismaya Krisdawati; Muktiningsih Nurjayadi; Jefferson Lynford Declan; Gladys Indira Putri; Dandy Akbar Juliansyah; Maharani Azka Azzahra; Irvan Maulana; Irma Ratna Kartika; Vira Saamia; Dwi Ana Oktaviani; I Made Wiranatha; Hesham Ali Al-Enshashy
Microbiology Indonesia Vol. 17 No. 1 (2023): March
Publisher : Indonesian Society for microbiology

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (1613.88 KB)

Abstract

Cases of food poisoning often occur due to food contamination caused by pathogenic bacteria. One of the pathogenic bacteria is Vibrio parahaemolyticus which is found in seafood. Thus, a fast, accurate and specific detection method is needed. The purpose of this study was to quickly detect Vibrio parahaemolyticus bacteria in seafood samples targeting the ToxR gene using Real Time PCR. In a previous study, gradient PCR was used to optimize ideal annealing temperature ranges from 53-62°C and revealed that 58°C produced the best outcomes for the ToxR primer with a size of 171 base pairs. Real-Time PCR was utilized to amplify, specify, and test for sensitivity under the ideal conditions from the PCR Gradient. The confirmation results show that the primer pairs could amplify ToxR of Vibrio parahaemolyticus with the amount of concentration as much as 50 ng/µL with Ct 10,69 and 10,32 and melting curve at temperature 82,18°C and 82,23°C. This primer pair can also distinguish non-target bacteria with different Ct and melting curve temperature. The sensitivity assay for this primer can amplify DNA templates at concentration 0,0032 ng/µL. Shrimp samples that are contaminated artificially can still be detected at Ct 13,02 and Ct 13,09. Based on these results, it can be concluded that Real Time PCR with ToxR primer can be applied to develop a detection kit for Vibrio parahaemolyticus in seafood.
Combination of Pseudomonas fluorescens and Liquid Organic Fertilizer on Growth and Production of Peanut (Arachis hypogaea L.) Listy Anggraeni; Desi Ribut Saputri; . Damanhuri; Tirto Wahyu Widodo; . Jumiatun; . Handoko; Diding Rachmawati
Microbiology Indonesia Vol. 17 No. 1 (2023): March
Publisher : Indonesian Society for microbiology

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (10587.623 KB) | DOI: 10.5454/mi.17.1.25-30

Abstract

Excessive and continuous use of synthetic chemicals results in a decrease in soil fertility, thereby reducing peanut production. Minimizing the use of synthetic chemicals can be done through the application of liquid organic fertilizers. This study aims to examine the use of Pseudomonas fluorescens and liquid organic fertilizer in the growth and production of peanuts (Arachis hypogaea L.). This research uses a factorial RBD with two factors. The first factor was the concentration of P. fluorescens, which consisted of 0 ml.l-1, 10 ml.l-1, 15 ml.l-1, and 20 ml.l-1. The second factor was the concentration of liquid organic fertilizer, consisting of 0 ml.l-1, 100 ml.l-1, and 250 ml.l-1. The results showed that the P. fluorescens 15 ml.l-1 treatment showed significant results in stem diameter (6.03 mm), number of root nodules (141.83), fresh biomass weight (355.97 g), dry biomass weight (75.87 g), fresh pod weight (62.39 g), dry pod weight (37.00 g), the total number of pods (25.30), and number of pithy pods (20.51). In the treatment of liquid organic fertilizer, 100 ml.l-1 showed significant results in fresh biomass weight (315.69 g), dry biomass weight (66.97 g), fresh pod weight (55.21 g), dry pod weight (32.82 g), number of pithy pods (17.60), and seed weight per sample with an average production yield of 17.01 g/sample (2.7 tons/ha). The use of P. fluorescens and liquid organic fertilizer simultaneously showed no interaction with all observed variables.
The Effect of Pili Protein of Klebsiella pneumoniae 65,5 kDa on Enhanced IFN- Gamma Levels in Mice Liver Dini Agustina
Microbiology Indonesia Vol. 17 No. 2 (2023): June
Publisher : Indonesian Society for microbiology

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.5454/mi.17.2.1

Abstract

Klebsiella pneumoniae develops antibiotic resistance by producing enzymes such as Extended-Spectrum Beta-Lactamase and Carbapenemase. Antibiotic resistance causes K. pneumoniae to have less antibiotic activity and more virulence factors. Capsule polysaccharides, lipopolysaccharide, Outer Membrane Protein, siderophores, and pili are all virulence factors in K. pneumoniae. This study aims to demonstrate the possibility of a host immunological response to the pili protein K. pneumoniae 65.5 kDa by injecting it into mice and measuring the levels of IFN-gamma cytokines in the mice's liver. This study used mice liver samples taken from 21 mice aged 6-8 weeks in the experimental investigation with a randomized post-test only controlled group design. Phosphate buffer saline was given to KI, pili protein antigen 65.5 kDa + Freunds' adjuvant was given to K2, and Freunds' adjuvant was given to K3. IFN-gamma concentration was measured using the sandwich ELISA method. The average concentration of IFN-gamma in the mice liver in this study was 247.68±47.67 pg m 'L ', 163.19±13.63 pg m'L', and 182.41 ±41.70 pg m'L'. The p-value of the Welch ANO VA test was 0.005 (p < 0.05), hence the Post Hoc Games-Howell test was used. The Games-Howell test showed a statistically significant difference in the mean value of IFN-gamma in KI compared to K2 and K3 of 0.007 and 0.046, respectively. There was no statistically significant difference between K2 and K3 with a p-value of 0.511. These findings revealed that intraperitoneal injection of Klebsiella pneumoniae pili protein 65.5 kDa did not increase IFN-gamma levels in the mice liver.
Effect of Cocoa Bean Fermentation Using Lactic Acid Bacteria and Yeast Starters on Flavonoid Formation and Antioxidant Activity Anja Meryandini; Irvan Anwar; Titi Candra Sunarti
Microbiology Indonesia Vol. 17 No. 1 (2023): March
Publisher : Indonesian Society for microbiology

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.5454/mi.17.1.7-14

Abstract

This study investigates the effect of fermentation using lactic acid bacteria and yeast as starters on the formation of flavonoid compounds and the antioxidant activity of cacao beans. The fermentation process were divided into 4 groups: F1: spontaneous fermentation, F2: fermentation using Lactic Acid Bacteria (LAB), F3: fermentation using yeast and F4: fermentation using LAB and yeast. The extraction process was done using ethanol. Flavonoid content was analysis using spectrophotometer assay. The antioxidant activity was analyzed by 1,1-difenil-2-pikrilhidrazil (DPPH) method. All ethanol extract samples of fermented cacao beans contained alkaloids, polyphenols, flavonoids, and tannins. The flavonoid compounds from ethanol extract of cacao beans in F1 is 4.35 ± 0.20 mg L-1, F2 (5.64 ± 0.05), F3 (5.37 ± 0.17), and F4 (5.99 ± 0.23 mg L-1). The antioxidant activity of cacao bean fermentation extracts using starter were increase compared to the spontaneous fermentation extract (F1). The antioxidant activity in F2 increased to 46.45 ± 2.00%, F3 (49.05 ± 0.58%), and F4 (50.33 ± 0.43%), while the antioxidant activity of F1 was 42.31 ± 0.66%. IC50 value as the ability of the extract to reduce 50% DPPH radical on the ethanol extract of cacao beans from spontaneous fermentation (F1) was 141.67 mg L-1. The IC50 value of the fermented cacao bean extract with the addition of starter was obtained at F2 at 109.30 mg L-1, F3 (97.51), and F4 is 88.15 mg L-1.
Rapid Detection of Foodborne Pathogen Bacteria Vibrio parahaemolyticus in Seafood using Gene ToxR with Real-Time Polymerase Chain Reaction Method Ismaya Krisdawati; Muktiningsih Nurjayadi; Jefferson Lynford Decan
Microbiology Indonesia Vol. 17 No. 1 (2023): March
Publisher : Indonesian Society for microbiology

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.5454/mi.17.1.15-23

Abstract

Cases of food poisoning often occur due to food contamination caused by pathogenic bacteria. One of the pathogenic bacteria is Vibrio parahaemolyticus which is found in seafood. Thus, a fast, accurate and specific detection method is needed. The purpose of this study was to quickly detect Vibrio parahaemolyticus bacteria in seafood samples targeting the ToxR gene using Real Time PCR. In a previous study, gradient PCR was used to optimize ideal annealing temperature ranges from 53-62°C and revealed that 58°C produced the best outcomes for the ToxR primer with a size of 171 base pairs. Real-Time PCR was utilized to amplify, specify, and test for sensitivity under the ideal conditions from the PCR Gradient. The confirmation results show that the primer pairs could amplify ToxR of Vibrio parahaemolyticus with the amount of concentration as much as 50 ng ?L-1 with Ct 10.69 and 10.32 and melting curve at temperature 82.18°C and 82.23°C. This primer pair can also distinguish non- target bacteria with different Ct and melting curve temperature. The sensitivity assay for this primer can amplify DNA templates at concentration 0.0032 ng ?L-1. Shrimp samples that are contaminated artificially can still be detected at Ct 13.02 and Ct 13.09. Based on these results, it can be concluded that Real Time PCR with ToxR primer can be applied to develop a detection kit for Vibrio parahaemolyticus in seafood.
Combination of Pseudomonas fluorescens and Liquid Organic Fertilizer on Growth and Production of Peanut (Arachis hypogaea L.) Listy Anggraeni
Microbiology Indonesia Vol. 17 No. 1 (2023): March
Publisher : Indonesian Society for microbiology

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.5454/mi.17.1.31-36

Abstract

Excessive and continuous use of synthetic chemicals results in a decrease in soil fertility, thereby reducing peanut production. Minimizing the use of synthetic chemicals can be done through the application of liquid organic fertilizers. This study aims to examine the use of Pseudomonas fluorescens and liquid organic fertilizer in the growth and production of peanuts (Arachis hypogaea L.). This research uses a factorial RBD with two factors. The first factor was the concentration of P. fluorescens, which consisted of 0 ml.l-1, 10 ml.l-1, 15 ml.l-1, and 20 ml.l-1. The second factor was the concentration of liquid organic fertilizer, consisting of 0 ml.l-1, 100 ml.l-1, and 250 ml.l-1. The results showed that the P. fluorescens 15 ml.l-1 treatment showed significant results in stem diameter (6.03 mm), number of root nodules (141.83), fresh biomass weight (355.97 g), dry biomass weight (75.87 g), fresh pod weight (62.39 g), dry pod weight (37.00 g), the total number of pods (25.30), and number of pithy pods (20.51). In the treatment of liquid organic fertilizer, 100 ml.l-1 showed significant results in fresh biomass weight (315.69 g), dry biomass weight (66.97 g), fresh pod weight (55.21 g), dry pod weight (32.82 g), number of pithy pods (17.60), and seed weight per sample with an average production yield of 17.01 g/sample (2.7 tons/ha). The use of P. fluorescens and liquid organic fertilizer simultaneously showed no interaction with all observed variables.
Diversity of Bacterial Phenol Hydroxylase-encoding Genes from Fuel- contaminated Silt Soil Suraj Rajan Vasandani
Microbiology Indonesia Vol. 17 No. 1 (2023): March
Publisher : Indonesian Society for microbiology

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.5454/mi.17.1.1

Abstract

Phenol is an aromatic compound often used as a raw material or intermediate in various industries. Improper handling and disposal may lead to the accumulation of this hazardous compound. Bioremediation is the most viable method to remove phenol from contaminated environment. In this study, the diversity of genes that encode for phenol hydroxylase, a key enzyme in phenol degradation, was assessed in gasoline-contaminated soil in a commercial gas station in Central Jakarta, Indonesia. Partial phenol hydroxylase-encoding gene library was constructed using a pair of universal primer in the pGEM-Teasy vector. A total of 30 recombinant clones were obtained and sequenced to analyze the genetic diversity of this gene. Obtained clones were 86–99% identical to phenol hydroxylase-related proteins. Phylogenetic tree analysis on amino acid sequences derived from our library revealed that 56.67% of the cloned fragments were closely related to Proteobacteria, while 20% of the clones were clustered with Actinobacteria. The rest 23.33% of the clones formed a cluster separate from any of the reference sequences, possibly indicating the presence of novel phenol hydroxylase genes.
In Silico Study of Splicing Variations on Angiotensin-Converting Enzyme 2 (ACE2) and Its Effects on Infection from SARS-CoV-2 Ihsan Fauzan
Microbiology Indonesia Vol. 17 No. 2 (2023): June
Publisher : Indonesian Society for microbiology

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.5454/mi.17.2.6

Abstract

Several factors can influence SARS-CoV-2 infection. Alternative Splicing is thought to correlate with the differences of affinity value for interactions with the SARS-CoV-2 spike protein so that the infection may be influenced. This phenomenon can be happened by generating various kinds of protein expression variations with different isoform variants. So far, the difference in interaction affinity with the SARS-CoV-2 spike protein in Alternative Splicing has not been widely reported. Therefore, this study aimed to determine the isoform resulting from Alternative Splicing in the ACE2 transcript and its effect on SARS-CoV-2 infection. Molecular docking was used to determine the binding affinity between ACE2 proteins isoforms and SARS-CoV-2 spike protein. The 3D protein model of ACE2 isoforms obtained from the database was validated by evaluating the model quality of each ACE2 isoform. Based on docking results, there are variations in the docking scores of 8 isoform variants. However, there was no interaction between the ACE2_205 variant and SARS-CoV-2 spike protein while ACE2_206 and ACE2_207 showed a lower docking score than the other variants. In addition, essential residues in the interaction of each variant were also analyzed. Q42 and A384 are residues on the ACE2 protein that appear in interactions in more than two variants. These results indicate the possibility that splicing variations can cause differences in a person's level of susceptibility to SARS-CoV-2 infection, especially in the ACE2_205 variant that cannot interact with the SARS-CoV-2 spike protein.

Page 40 of 40 | Total Record : 398

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