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Annales Bogorienses
Published by Badan Riset dan Inovasi Nasional
ISSN : 05178452     EISSN : 24077518     DOI : https://doi.org/10.55981/ann.bogor
Core Subject :
Annales Bogorienses aims to disseminate high-quality scientific research in the field of life sciences, with a strong emphasis on advancing knowledge and applications in biotechnology, molecular biology, biochemistry, bioinformatics, and bioengineering. The journal serves as a platform for researchers, academicians, and practitioners to share original findings, innovative methodologies, and critical reviews that contribute to scientific progress and sustainable development. The journal covers research in biotechnology, molecular biology, biochemistry, bioinformatics, and bioengineering. It publishes original research articles, reviews, and short communications, and is committed to rigorous peer review and open access for the widest possible dissemination of scientific knowledge.
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Articles 203 Documents
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Conservation of Major L1 and Variability of Minor L2 Capsid Late Protein Genes in Human Papillomavirus of Indonesia Variants Sukma Nuswantara; Titik K. Prana; Dwi Wulandari; Henni Widyowati; Vera Anzela; Dea Levy; Petrus Cahyadi; Lukas D Tjandra
Annales Bogorienses Vol. 14 No. 2 (2010): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2010.v14.n2.1-8

Abstract

Human Papilloma Virus (HPV) has an outstanding feature for its vast intraspecies variability. Of all known 100 types or more, 15 types of them are classified as high risk because of their occurrence in more than 95% of cervical cancer cases. Among all genes in their genome, E6 and E7 genes are considered oncogenes and have close relevance with their pathogenicity, whilst L1 and L2 genes produce capsid proteins that directly interact with their host receptors. Considering the importance of L1 and L2 in host-receptor relationship, we tried to investigate their molecular variability thereby uncover their specificity as Indonesian variants. Here we reported about the conservation of L1 minor capsid protein and variability of L2 capsid protein among high-risk types Human Papilloma Virus (HPV). The results indicated that L1 DNA was relatively more conserved than its L2 counterpart. Also it was indicated that the middle part of either L1 or L2 CDS‟ showed more DNA variability than those at their upstream sequences. It is concluded that L2 middle sequences are important factors for intraspecific variations found in HPV of Indonesian variants.
The Development of A Bioassay Based on Heterologous Expression of M2 Ion-Channel Protein Anggia Prasetyoputri; Neti Yuliaty; Warda Tuharea; Alisin Febyanti; Bambang Sunarko; Ines I. C. Atmosukarto
Annales Bogorienses Vol. 14 No. 2 (2010): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2010.v14.n2.9-14

Abstract

Emerging resistant viral strains combined with the limited availability of antivirals in a pandemic scenario highlight the need for the development of novel influenza antivirals. A bioassay based on the M2 protein of influenza virus - a potential target for antivirals - was developed to screen endophytic microbial extracts. M2 can be synthesized using PCR, thus eliminating the need for the handling of infectious specimen. Following cloning of the M2 gene into a pET backbone, the resultant plasmid was transformed into BL21 (DE3) pLyss E. coli cells. Cultures of these cells were set up at 37C following inoculation with a starter culture, to reach an OD at 600nm (OD600) of 0.4-0.6. Once at the required OD, the culture was split in two aliquots and expression of the M2 protein was induced in one of the duplicates with the addition of isopropyl β-D-thiogalactopyranoside (IPTG). Bacterial growth was monitored at 60-minute intervals. Exogenous expression of the M2 protein has been reported to decrease host cells viability, resulting in lower OD600 values. Our results suggest that the M2 protein was expressed and that overexpression of this protein resulted in consistently lower OD600 values of induced cultures compared with that of uninduced cultures. Based on this principle, extracts can be screened for their ability to block M2 function as identified by increased OD600 values.
Construction of pY-Af Vector for Expression of Thermostable α-L-Arabinofuranosidase in Saccharomyces cerevisiae I Nengah Wirajana; Ni Nyoman Tri Puspaningsih; Eddy Bagus Wasito; Soekry Erfan Kusuma; Tetsuya Kimura; Kazuo Sakka
Annales Bogorienses Vol. 14 No. 2 (2010): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2010.v14.n2.15-20

Abstract

In this research, construction of expression vector for thermostable α-L-arabinofuranosidase in Saccharomyces cerevisiae BJ1824 was conducted. The Escherichia coli/S. cerevisiae shuttle vector, pYES2 was used as parental vector in construction. The abfA gene encoding α-L-arabinofuranosidase from Geobacillus thermoleovorans IT-08 was amplified by PCR, in which the plasmid pTP510 was used as a template. The amplification product was treated with SacI and XhoI and then subcloned to the pYES2 vector, which was previously digested with SacI and XhoI. The recombinant plasmid was designated as pY-Af and propagated first in E. coli Top10, and then transformed into S. cerevisiae BJ1824. For α-Larabinofuranosidase (AbfA) production, the yeast transformants were grown in YNBG selective medium and YPG rich medium, using galactose as an inducer. The AbfA activity was assayed by measuring the amount of p-nitrophenol (pNP) released from p-nitrophenyl-α-L-arabinofuranoside (pNPA) substrate at pH 6.0 and 70oC for 30 min. The recombinant AbfA activity was detected in either of culture medium (0.98%), cellassociated (14.17%) and intracellular (84.85%) when recombinant yeast was grown in YPG rich medium.
Improvement of Genetic Transformation Efficiency in Vanda tricolor Orchid Using Acetosyringone Rindang Dwiyani; Azis Purwantoro; Ari Indrianto; Endang Semiarti
Annales Bogorienses Vol. 14 No. 2 (2010): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2010.v14.n2.27-32

Abstract

Vanda tricolor Lindl. var. suavis is an Indonesian wild orchid which is now extremely rare in nature due to its habitat destruction. Development of an appropriate method for improving Vanda orchid through genetic modification could be valuable for horticulture and, indirectly, also for conservation. In this research, a method of Agrobacterium-mediated transformation of two V. tricolor obtained from Salak Mount, West Java and Merapi Mount, Yogyakarta in Indonesia protocorms was improved using acetosyringone (AS). Concentrations of 0 and 25 ppm AS were used in transformation of pG35S binary vector containing kanamycin resistance geneinto V. tricolor protocorms. The result showed that 25 ppm AS was required on inoculation with Agrobacterium solution, without AS on cocultivation. Five weeks after treatment on the 300 ppm kanamicyn containing medium, green protocorms were obtained, that was 11.01% for V. tricolor from Salak Mount with pre-culture treatment prior to inoculation, 9.39% for V. tricolor from Merapi Mount with pre-culture treatment prior to inoculation, and 1.37% for V. tricolor from Merapi Mount without pre-culture treatment prior to inoculation. The best condition to set high efficiency of transformation is pre-culture protocorms prior inoculation, soaking protocorm on 25 ppm AS for 30 minutes, then co-cultivate its on AS-free callus induction medium.
Site-Directed Mutagenesis of Glu-269 L-Arabinose Isomerase from Geobacillus stearothermophilus Isolated from Tanjung Api Poso, Indonesia Dewi Fitriani; Puspita Suci Wulandari; Budi Saksono
Annales Bogorienses Vol. 14 No. 2 (2010): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2010.v14.n2.33-37

Abstract

Industrializing of tagatose requires enzymes that meet to industrial need such as thermophile, slightly acidic and metal independent. Previously, we cloned, sequenced and expressed L-arabinose isomerase from Geobacillus stearothermophilus isolated from Tanjung Api, Poso, Indonesia. Based on DNA alignment analysis, the gene had high homology with those of G. stearothermophilus T6 (Gene Bank Acc No: AAD45718) which has optimum activity at high temperature and alkaline condition. In this paper, we described site-directedmutagenesis approach to mutate Glu-269 (Q269) to Lys-269 (K269) to decrease the optimum pH of the strain. Sequencing result showed that mutagenesis had been successful to mutate amino acid at position 269 from glutamine (Q) into lysine (K). Expression of mutant Q269 showed protein with molecular mass ~56 kDa.
EDITOR's PREFACE Puspita Lisdiyanti
Annales Bogorienses Vol. 15 No. 1 (2011): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

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

Abstract

Protective Effect of CD4+CD25+ Regulatory T Cells on Mice Model of Rheumatoid Arthritis Muhaimin Rifa'i
Annales Bogorienses Vol. 15 No. 1 (2011): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2011.v15.n1.1-6

Abstract

Naturally occurring CD4+CD25+ regulatory T (Treg) cells, a component of the innate immune response which play a key role in the maintenance of self-tolerance, have become the focus of numerous studies over the last decade. These cells have the potential to be exploited to treat autoimmune disease. These cells inhibit the immune response in an antigen-nonspecific manner by interacting with other T cells. These T cell populations actively control the properties of other immune cells by suppressing their functional activity to prevent autoimmunity but also influence the immune response to allergens as well as against tumor cells and pathogens. In this experiment we showed that induced regulatory T cells have a protective effect on mice model of rheumatoid arthritis (RA). RA mice which were injected intraperitoneally with Andrographis paniculata substrate or injected with induced regulatory T cells showed the effects of recovery. We further showed that the generation of leukocyte including B cells can be promoted by the administration of A. paniculata substrate. Tissue damage from free radicals that arise due to imperfect metabolism can be prevented by such treatment in RA model mice. Recovery effects occurred in RA model mice involves the increasing number of CD4+CD25+ regulatory T cells.
In vitro Growth Response of Taraxacum officinale Weber ex F.H. Wigg Regenerated from Different Type of Explants Tri Muji Ermayanti; Andri Fadillah Martin
Annales Bogorienses Vol. 15 No. 1 (2011): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2011.v15.n1.7-13

Abstract

Dandelion (Taraxacum officinale Weber ex F.H. Wigg) is a medicinal plant species, reported to have some active compounds useful as anti-cancer, anti-inflammatory, antioxidants, and diuretics. Study on in vitro secondary metabolic production and tissue culture of these plants has been reported. This research was aimed to investigate plant regeneration from leaf blade, petiole and root as explants grown in selected media. Three different type of explants were cultured in MS solid medium supplemented with BAP (0, 0.5, and 1.0 mg/l) combined with NAA (0, 0.5, 1.0, and 2.0 mg/l) to select the best medium for spontaneous regeneration. Explants were grown for 6 weeks, the viability of explants, and formation of callus, shoots as well as roots were recorded. The results showed BAP at 1 mg/l combined with at 0.5 mg/l of NAA was suitable for shoot formation, whereas NAA alone was suitable for root formation from leaf blade and petiole. Root was the best explant for shoot regeneration, callus was grown at the first two weeks, and multiple shoots were grown after 3 weeks. No roots were found from root explant. The best medium for multiple shoot regeneration was MS containing 1 mg/l BAP without or with addition of 0.5 mg/l NAA.
Comparison of the Reduction Effect of Sucrose and Table Sugar Concentration on Growth Characteristics of Red Ginger (Zingiber officinale Rocs.) Cultured in Liquid Medium Betalini Widhi Hapsari; Tri Muji Ermayanti; Deritha E. Rantau; Rudiyanto Rudiyanto
Annales Bogorienses Vol. 15 No. 1 (2011): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2011.v15.n1.15-20

Abstract

The aim of this research was to compare the reduction effect of sucrose or table sugar concentration on growth characteristics of red ginger cultured in MS liquid medium. Shoots of red ginger was cultured on MS liquid medium without addition of plant growth regulators, supplemented with 5, 10, and 20 g/l of sucrose or table sugar for 8 weeks. Resulted plantlets were acclimatized in a greenhouse to investigate their growth and survival rate. Numbers of stomata, chlorophyll concentration as well as cross section of leaves from plantlets grown in vitro were compared to those of transplants grown in the greenhouse. The results showed that the use of table sugar at concentration of 20 g/l gave the best growth of red ginger. Meanwhile, the reduction of table sugar from 20 to 10 g/l reduced growth and survival rate of in vitro shoots as well as that of transplants in the greenhouse. Only few shoots formed roots when they were grown on the medium containing 5 g/l of table sugar, and transplants failed to grow in the greenhouse. It found that the chlorophyll content of in vitro plantlets was lower than those of transplants grown in the glasshouse. However, the number of stomata of the in vitro plantlets was higher than that of transplants grown in the glasshouse. There was no anatomical abnormalities found on the cross section of leaves between in vitro plantlets and transplants grown in the greenhouse. The replacement of sucrose with table sugar may reduce the production cost of plantlets.
Phenotypic Screening of Ds Transposon and Activation-tag Insertional Mutant Rice Population for Drought and Salinity Tolerant Related Traits Satya Nugroho; Anky Zannati; Apriadi Situmorang; Vincentia Esti Windiastri; Dwi Widyajayanti; Carla Frieda Pantouw; Dwi Astuti; Sri Indrayani; Syamsidah Rachmawati; Enung Sri Mulyaningsih; Tri Joko Santoso; Kurniawan Rudi Trijatmiko
Annales Bogorienses Vol. 15 No. 1 (2011): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2011.v15.n1.21-25

Abstract

The studies of rice genes through functional genomics are greatly facilitated by the availability of the complete genome sequences, including the complete physical map of the japonica rice cv. nipponbare. Using the Ac and Ds transposon, that are capable of transposition in various heterologous plants including the monocotyledon rice, combined with the enhancer element for generating activation taged lines, it is possible to discover and isolate functional genes involved in various important agronomical traits; such as those involved in abiotic stress tolerance (drought, high salt) and biotic stresses diseases and pests. We have developed 1,785 first (T0) generation of mutant nipponbare rice by transposons Ac/Ds insertions containing activation-tag, generated by transformation using Agrobacterium-mediated method. Currently, we have generated approximately 1,000 stable lines with transposon Ds and activation-tag insertion ready for screening. Efficient screening methods for mutant Nipponbare rice lines have been established for agronomically important mutant traits. Among the new phenotypes related to important agronomical traits observed were drought and salt tolerant or sensitive, stunted and robust growth, variable root penetration and other interesting traits such as reduced tillering, rolled leaf and thin tiller. 

Page 10 of 21 | Total Record : 203

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