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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
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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 189 Documents
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PCR Amplification of Ornithine Decarboxylase (ODC) Gene Fragment from Tobacco (Nicotiana tabacum L.) cv. Temanggung Djajanegara, Ira; Pambudi, Sabar; Lestari, Retno; Artanti, Nina
Annales Bogorienses Vol. 9 No. 2 (2004): Annales Bogorienses
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Abstract

In order to create an antisense construct of the gene encoding Ornithine Decarboxylase (ODC) from tobacco (Nicoticum tabacum L.) cv. Temanggung, the target gene must be isolated. In this paper. we present the PCR amplification of a fragment from putative gene encoding ODC from tobacco cv. Temanggung. Leaf genomic DNA was isolated and used as the template for PCR. PCR optimization was done by adjusting the annealing temperature and the cycle number. Verification of the fragment obtained was also done using the second primer pairs.
EDITOR'S PREFACE Lisdiyanti, Puspita
Annales Bogorienses Vol. 10 No. 1 (2005): Annales Bogorienses
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Investigation of Functional Difference between TecIII and TecIV in Mammals COS-1 Cells Using GFP Fusion Proteins Atmosukarto, Ines I. C.; Booker, Grant W,
Annales Bogorienses Vol. 10 No. 1 (2005): Annales Bogorienses
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Abstract

Signal transduction cascades are critical components of intra-and inter-cellular communication. Key component of such cascades includes tyrosine kinases. One such family of tyrosine kinase is the Tec family of tyrosine kinases. This family of tyrosine kinases is expressed mainly in cells of the hematopoietic lineage, and mutations in at least one of its one member of this family, Btk, has so far been associated with the human immunodeficiency disorder X-Linked Agammaglobulinemia. Two major isoforms of the Tec transcript, referred to as TecIII and TecIV have been detected in various mouse embryonic and adult tissues, as well as in a number of different hematopoietic cell lines: TecIV is the full length Tec protein with functional PH, TH, SH3, SH2, and Kinase domains, while TecIII is gen rated by the splicing out of exon 8 sequences to yield a shorter peptide with a non-functional SH3 domain. Using GFP-TecIII fusion proteins, this shorter isoform of Tec was shown to have biological characteristics that differed from TecIV.
Identification of Degradation Pathway of Vinyl Acetate Using Bacterial Isolate V2 and Characterization of The Involved Enzymes Soenarko, Bambang; Sulistinah, Nunik; Nieder, Maria; Meyer, Ortwin
Annales Bogorienses Vol. 10 No. 1 (2005): Annales Bogorienses
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Vinyl acetate is a toxic substance, but has a high commercial value. In this study we show that vinyl acetate is subject to microbial degradation at rates of up to 6.38 and 1 mmol 1 per g (dry weight) under aerobic and anaerobic conditions, respectively. It was hydrolyzed by bacterium V2 to ethanol, acetaldehyde and acetate. The enzymes involved in the metabolism of vinyl acetate were vinyl acetate esterase, aldehyde dehydrogenase, and alcohol dehydrogenase, which localized in the cytoplasmic fraction. The Km values of vinyl acetate esterase and alcohol dehydrogenase were 6.13 mM and 0.24 mM. respectively. Vinyl acetate esterase hydrolyzed the ester to acetate and vinyl alcohol. The latter isomerized spontaneously to acetaldehyde and was then converted to acetate. The acetaldehyde was disproportionated into ethanol and acetate. The acetate was then converted to acetyl coenzyme A and oxidized through the tricarboxylic acid cycle and the glyoxylate bypass.
Construction of A Recombinant Virus Between Poliovirus and Coxsackie A Virus 11 Utama, Andi; Shimizu, Hiroyuki
Annales Bogorienses Vol. 10 No. 1 (2005): Annales Bogorienses
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Recent outbreaks of circulating vaccine-derived poliovirus (cVDPV) revealed the possibility of recombination between vaccine strains poliovirus (PV) and cluster C enterovirus. Based on genetic analysis, it is assumed that coxsackie A virus 11 (CAV-11), one f the cluster C enterovirus, may naturally recombine with PV. To elucidate this hypothesis, the chimeric virus between PJ156, a type I cVDPV isolate isolated from an acute flaccid paralysis (AFP) case in the Philippines in 2001, and CAV-11 (PJ156/CAV-11) was constructed by using long-PCR method. As the result , PJ156/CAV-11 was viable in HEp-2 cell line. The PJ156/CAV-11 exhibited mostly similar phenotype with parental PJ156 in term of plaque size, viral growth and neuroviruJence. These results suggested that recombination between PV and CAV-11 might naturally occur during transmission of vaccine strains in the community. The effect of recombination on the viral phenotype is significantly depending on the counterpart virus.
Subcloning, Expression, and Characterisation of A Recombinant Antibody Fab-Fragment Specific Towards 2,4-D Kusharyoto, Wien
Annales Bogorienses Vol. 10 No. 1 (2005): Annales Bogorienses
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A generic strategy was established for subcloning the VH and VL gene of antibody variable domains into the piasmid pASK85 for the expression of Fab antibody fragments. pASK85 bear coding sequences for murine constant domains including a His6-tag at the carboxy-terminal end of the constant heavy-chain domain. The VH and YL gene derived from the monoclonal antibody E2/B5 specific towards 2,4-dichlorophenoxyacetic acid (2,4-D) were used in this study. Escherichia coli was used as host cells for the biosynthesis of the Fab-fragment. The Fab-fragment was subsequently purified from the periplasmic extract in a single step by immobilised metal-ion affinity chromatography (IMAC). The production level obtained were 0.5-0.8 mg purified Fab-fragments per liter E. coli culture. The sensitivity and cross-reactivity of the Fab-fragment determine by direct competitive ELISA were similar to those of the parental monoclonal antibody E2/B5.
The Effect of Honey on Bacterial Growth, Protein Degradation, Amino Acids Contents, and Volatile Compounds of Milks at Storage Khusniati, Tatik; Widyastuti, Yantyati
Annales Bogorienses Vol. 10 No. 1 (2005): Annales Bogorienses
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Pasteurized milks spoiled at refrigerated storage due to growth of psychrotrophic bacteria. Honey which contain antibacterial and aromatic compounds may be used as supplement to inhibit psychrotrophic bacterial activities. To know nutritional and flavor compounds of milks with and without honey, effect of honey on bacterial growth protein degradation, amino acids, and volatile compounds of stored milk were detected. Bacterial growth, protein degradation, amino acids, and favor compounds were detected by total plate counts. formol titration, HPLC, and GCMS, respectively. The results how that bacterial growth and protein degradations in honey milks were lower than that without honey. Bacterial growth (5.2x103 -9.3x106 cfu/mL) and protein degradation (2.37-2.59%) in honey whole milks were lower than that (6.2x104-6.5x107 cfu/mL) (2.54-2.88%) in skim milks, respectively P<0.05). At 10 days after use by date, changing between amino acids contents in whole milks with and without honey were more significant than that or skim milk (P<0.05); and volatile compounds percentages in honey whole milks were higher than that without honey. While that in honey skim milks vice versa. Honey caused decreasing bacterial growth and protein degradation, changing amloo a id 'contents and producing volatile compounds of stored milk, and honey whole milk were better than honey skim milks.
Agrobacterium-Mediated Transformation of Javanica Rice Plants With A Cry1b Gene Under The Control of Wound-Inducible Gene Promoter Estiati, Amy; Rachmawati, Syamsidah; Astuti, Dwi; Loedin, Inez Hortenza Slamet
Annales Bogorienses Vol. 11 No. 1 (2007): Annales Bogorienses
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Abstract

A cry1B synthetic gene of Bacillus thuringiensis has been used for the transformation of the javanica rice plants cv. Rojolele to confer resistance to an important pest yellow stem borer (Scirpophaga incertulas). Embryogenic callus were co-cultivated with the EHA105 strain of Agrobacterium tumefaciens harbouring binary vector pCAMBIA I301 containing cry1B gene under the control of wound inducible gene promoter (mpi), hygromycin resistance gene (hpt) as a selectable marker and intron-containing b-glucuronidase (gus intron) gene as a reporter gene driven by CaMV35S promoter. Previously. our histochemical assay and PCR analysis had proved the integration of cry1B gene into the genome of rice plants at first generation. However, the existence of the gene should remain stable throughout generation. In this study, the presence of the cry1B transgene in rice transgenic plants at second generation was confirmed by Polymerase Chain Reaction (PCR). Insertion of the cry1B gene in the genome of PCR positive plants was verified by Southern blot analysis and showed that integration of cry1B into the genomic DNA of javanica rice plants cv. Rojolele. An effective resistance of transgenic plants against stem borer was verified in bioassays.
Motif II of Japanese Encephalitis Virus NS3 Protein is Not Essential for RNA Binding Activity Utama, Andi; Shimidzu, Hiroyuki
Annales Bogorienses Vol. 11 No. 1 (2007): Annales Bogorienses
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The role of motif II (DEAH; Asp285-Glu286-Ala287-His288) of Japanese encephalitis virus (JEV) NS3 protein on RNA binding activity was studied. A point mutation was introduced to the motif and the RNA binding activity of each mutant protein was analyzed. Truncated form of each protein with a His-tag was expressed m Escherichia coli BL21(DE3)pLysS and purified by metal affinity resin. Asp-285 and Glu-286 was respectively substituted with Ala. Ala-287 was replaced by Cys, Gly, or Ser. His-288 was mutated to other 19 amino acids. In total, 24 mutant proteins were produced and analyzed. As results, all mutants showed quite similar RNA binding activity indicating that motif II of JEV NS3 is not related to RNA binding activity. The same finding was reported for hepatitis C viruc (HVC) NS3 protein, suggesting lhe similar structure of NS3 protein in the flavivirus.
Identification and Activity of The Retrotranposon Tos17 in Indonesian Javanica Rice CV. Rojolele and Japonica Rice CV. Gajahmungkur Nugroho, Satya; Loedin, Inez Hortenza Slamet; Ouwerkerk, Pieter B. F.
Annales Bogorienses Vol. 11 No. 1 (2007): Annales Bogorienses
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Abstract

Retrotransposons are mobile genetic elements that transpose via an RNA intermediate that is revers transcribed before integration into a new location within the host genome. They are ubiquitous in eukaryotic organisms and constitute a major portion of the nuclear genome (often more than half of the total DNA) in plants. Tos17 is a rice endogenous retrotransposon that has been studied thoroughly. Tos17 has been shown to be an efficient insertional mutagen and saturation mutagenesis tool for gene tagging and functional genomics in Japonica rice cv nipponbare. In Javanica rice, however, the presence and activity of Tos17 has not been described thus far. while in some Indica rice Tos17 has been found to be inactive. Javanica rice, also known as tropical Japonica rice, has many cultivars which may serve as potential genetic resources of great interest for breeding programmes. Here, the presence and activities of retrotransposon Tos17 in Javanica rice cv Rojolele was described and compared to those of Japonica rice and Japonica rice cv Gajahmungkur. We identified five and three copies of Tos17 in Rojolele and Gajahmungkur, respectively, with different activities.

Page 7 of 19 | Total Record : 189

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