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ANNALES BOGORIENSES

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Published by Lembaga Ilmu Pengetahuan Indonesia

ISSN : 05178452 EISSN : 24077518 DOI : -

Core Subject : Health, Science, Agriculture, Engineering,

Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Immunology & microbiology Medicine & Pharmacology

The Annales Bogorienses (ISSN: 0517-8452, E-ISSN: 2407-7518) is a peer-reviewed Journal that is published biannually. First published in 1955, it is now one of the oldest scientific journal in the nation. The Annales Bogorienses publishes original articles in basic and applied research as well as critical reviews and short communication in the fields of life sciences with the emphasis in biotechnology, molecular biology, and biochemistry.

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Articles 540 Documents

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Editor's Preface AB Vol 22 No 1 (2018) Syamsidah Rahmawati
ANNALES BOGORIENSES Vol 22, No 1 (2018): Annales Bogorienses
Publisher : Research Center for Biotechnology - Indonesian Institute of Sciences (LIPI)

Insect Bioassay in Biosafety Containment to Select Transgenic Rice (Oryza sativa L.) Harboring Cry1B Gene Resistant to Yellow Stem Borer (Scrirpophaga incertulas Walk.) Amy Estiati; Ade Nena; Satya Nugroho
ANNALES BOGORIENSES Vol 17, No 2 (2013): Annales Bogorienses
Publisher : Research Center for Biotechnology - Indonesian Institute of Sciences (LIPI)

Development of rice varieties resistant to yellow stem borer (YSB) is very crucial. Agrobacterium-mediated transformation of Cry1B gene under wound inducible gene promoter mpi (maize proteinase inhibitor) into a local rice variety Rojolele had been conducted. PCR analysis proved that Cry1B gene had been integrated into plant genome of 3R25 and 3R5 rice lines. Segregation analysis using PCR for Cry1B gene of the two putative transgenic rice lines at third (T2), fourth (T3), fifth (T4) and sixth (T5) generations of 3R25 and 3R5 lines proved that 3R25.7.27, 3R25.7.13.8.2, 3R25.7.13.8.6, 3R25.7.13.8.8, 3R5.26.2 and 3R5.26.5 are homozygous lines for Cry1B. Insect bioassay on three randomly picked homozygous transgenic rice lines to study the efficacy of Cry1B gene toward YSB was conducted in biosafety containment by infestingYSB larvae at first instar into 3R25.7.27, 3R25.7.13.8.6 and 3R5.26.5 transgenic rice lines, using non-transgenic Rojolele, IR64 and IR74 as susceptible controls. The results showed that the precentages of deadhearts symptoms of 3R25.7.27, 3R5.26.2 and 3R25.7.13.8.6 rice lines were lower than those of the susceptible control lines with scores of 0,1 and 0, respectively. While the scores of all three susceptible control plants were 9. The results proved that lines 3R25.7.27, 3R25.7.13.8.6 and 3R5.26.2 were categorized as resistant lines while the non-transgenic Rojolele, IR64 and IR74 were categorized as susceptible lines. The results also showed that the Cry1B gene was expressed and produced insecticidal protein CRY1B which were active against YSB to protect rice plant toward YSB infestation

Characterization Of Zygotic And Nucellar Embryo Of Six Indonesian Mango Cultivars Using Molecular Markers Fatimah Fatimah; Ali Husni; Mia Kosmiatin; Karsinah Karsinah; Mushlihatun Baroya
ANNALES BOGORIENSES Vol 20, No 2 (2016): Annales Bogorienses
Publisher : Research Center for Biotechnology - Indonesian Institute of Sciences (LIPI)

Breeding mangoes is a long term activity and complicated. One of difficulties is polyembryonic seeds. These factors make genetic improvement through conventional parental selection and breeding slow and unpredictable. Adoption of molecular markers and genomics-based breeding strategies will likely improve predictability and breeding efficiency. The objective of this study was to evaluate the occurrence of zygotic or nucellar in polyembryony mango cultivars Garifta Merah, Lalijiwo, Manalagi, Madu, Saigon Kuning, and Saigon Merah using RAPD and SSR markers. The type of embryo (zygotic or nucellar) was evaluated by comparing the exhibiting amplification patterns, if different from the mother plant considered as zygotic and identified as nucellar if they exhibited the same banding pattern as the mother plant. Out of the 16 SSR and 16 RAPD primers evaluated, 9 primers each amplified the largest number of allele and sharply defined band. Dendogram of the SSR primers divide into three groups while RAPD primers distinguish clearly into two major groups, zygotic group and nucellar group. Based on zygotic and nucellar size, number and position, indicating no relationship between the type of embryo and embryo size, number and the position.

Screening and Optimization of Cellulase Production of Bacillus subtilis TD6 Isolated from Takifugu rubripes Fish Dian Andriani; Don Hee Park
ANNALES BOGORIENSES Vol 14, No 1 (2010): Annales Bogorienses
Publisher : Research Center for Biotechnology - Indonesian Institute of Sciences (LIPI)

Cellulase enzymes have attracted considerable attention in recent years due to their great biotechnological and industrial potential. Cellulase enzymes provide a key opportunity for achieving tremendous benefits of biomass utilization through the bioconversion of the most abundant cellulosic material into the simplest carbohydrate monomer, glucose. Nowadays, the sources of cellulase-producing bacteria have been broadened into thepresence of symbiotic bacteria in herbivorous animal and also from marine. Takifugu rubripes or known as puffer fish is a unique poisonous vertebrate but nevertheless is considered a delicacy in Korea. The diet of the puffer fish includes mostly algae. This dietary habit considers Puffer fish as host of cellulase-producing bacteria, especialy on its gut. In the present study an attempt has been made to search for the cellulolytic bacteria in the gut of Takifugu rubripes. Fifty five microorganisms have been isolated using 1% (w/v) Carboxymethyl cellulose (CMC) as substante Congo red dye test and DNS method were then used for screening the extracellular celuase activity of the strains. Among them, TD6 strain has shown the highest performance in term of cellulose activity. In order to evaluate the optimum culture condition of the isolate TD6 for cellulase production, the strain was grown at various temperatures, pH, carbon sources, and nitrogen sources. Under optimum condition, the maximum specific activity of 2.13 U/mg protein was achieved after growth the strain with 1.5% CMC at 45ºC PH 6 for 3 days, respectively Based on 16S rRNA gene analysis it is proposed that the strain was identified asBacillus subtilis.

Identification of a New Compound as α-Glucosidase Inhibitor from Aspergillus aculeatus Rizna Triana Dewi; Asep Suparman; Hanny Mulyani; Akhmad Darmawan; Puspa Dewi Narrij Lotulung
ANNALES BOGORIENSES Vol 20, No 1 (2016): Annales Bogorienses
Publisher : Research Center for Biotechnology - Indonesian Institute of Sciences (LIPI)

Terestrial fungi are of great importance as potential sources of pharmaceutical agent. Aspergillus aculeatus, a fungus isolated from soil sample collected in Indonesia, was cultured in liquid media to investigate a novel compound as inhibitor α-glucosidase. The mycelium extract of A. aculeatus shows potential activity against Saccharomyces cereviseae α-glucosidase and mild activity against mammalian α-glucosidase with IC50 values of 9.57 µg/mL and 470.76 mg/mL, respectively. Enzyme assay-guided fractionation of this extract afforded rubrofusarin (1). Rubrofusarin, a linear naphtho-γ-pyrone, is a natural pigment from Aspergillus sp. Interestingly, compound 1 shows potential inhibitory activity against mammalian α-glucosidase (IC50 of 92.7 µg/mL), but no to S. cereviseae α-glucosidase. The results suggest that A. aculeatus is a promising natural source as a lead compound in the discovery of antidiabetic drug.

Maternal Contribution In Revealing The Effects Of Methoxyacetic Acid (Maa) Administered Before Implantation On The Embryonic Development Of Swiss Webster Mice (Mus musculus) Ekayanti Mulyawati Kaiin; Sony H. Sumarsono; Tien W. Surjono; Sri Sudarwati
ANNALES BOGORIENSES Vol 9, No 1 (2004): Annales Bogorienses
Publisher : Research Center for Biotechnology - Indonesian Institute of Sciences (LIPI)

Maternal contribution to and direct action of methoxyacetic acid (MAA) on the embryonic development bad been examined by conducting embryo tTansfer. To reveal the maternal contribut ion, compacted morulae and early blastocysts, which were collected from untreated Swiss Webster donor mice on day 3 of gestation, were transferred to day 2 pseudopregnant recipients, after having been treated with 2 .0 mmollkg body weight (b.w.) MAA by gavage on day 1 of pseudopregnancy. Direct effect of MAA on the embryonic development were observed by transferring compacted morulae and early bla tocysts, simi larly recovered from day 3 pregnant donor mice, after MAA treatment on day 2 of gestation with the same method and dosing, to untreated day 2 pseudopregnant recipients. Control donor mice and recipient were given distilled water only as the MAA olvent. Observations on fetuses resulting fTom embryo transfer wert: carried out on day 16 of gestatlOn . Administration of MAA to the donors tended to decrease the unplantatlOn rate and the survival rate of the implanted embryos. W11en MAA was given to the recipients the implantation rate and survival rate of embryos transferred decreased significantly (p<0 .05) but the survival rate of implanted embryos were significantly higher (p<0.05) Lf compared to those of MAA treated donors. The intrauterine death tended to inc rease either in the treated donors or recipients. Th re was no et1ect of MAA on the fetal body weight and in producing fetal malformations . It is concluded that at the beginning of implantation, maternal contribution in revealing the effects of MAA on the embryonic development of Swiss Webster mice is predominant, whereas after Implantation took place, the quality of the embryos become ';lore important for their survival.

Editor's Preface AB Vol 16 No 1 (2012) Puspita Lisdiyanti
ANNALES BOGORIENSES Vol 16, No 1 (2012): Annales Bogorienses
Publisher : Research Center for Biotechnology - Indonesian Institute of Sciences (LIPI)

ILE655VAL Genotyping Study of HER2 - Positive Breast Cancer of Patients from Padang - Indonesia With High Resolution Melting Technique Dwi Wulandari; Azamris Azamris; Isna Nurhayati; M Ali Warisman; Bugi Ratno Budiarto; Desriani Desriani
ANNALES BOGORIENSES Vol 21, No 2 (2017): Annales Bogorienses
Publisher : Research Center for Biotechnology - Indonesian Institute of Sciences (LIPI)

Transtuzumab has proven to be a great improvement in the treatment of HER2 + of breast cancer patients, but it is associated with relevant adverse cardiac events and with significantly elevated cost of treatment. One of the risk factors for cardiotoxicity due to transtuzumab is the I655V HER2 polymorphism (GTC> ATC mutation) in which the allele mutant (Ile val or val / val) has a higher risk than the wild type (Ile/Ile). The detection of specific alleles is very important for therapeutic decision-making. In this study, our group have developed a HRM with EvaGreen dye method to discriminate specific allele of I655V HER2 (wild type, heterozygote mutant or homozygote mutant) in 66 frozen section samples of HER2+ of breast cancer patients. Our group reported the wild type is the most prevalent allele (77,27%), whereas heterozygous mutation is significantly present in this research (21,21%) and only 1,52% of sample detected as minor allele. It showed that only one sample detected as a minor allele (val/val) and may have relatively low abundance in the population. This method has been compared with sanger sequencing and giving 100% of validity.

The Effect of Increase in NaCl Concentration on Growth and Proline Content of Purple Yam (Dioscorea alata L.) Grown In Vitro Andri Fadillah Martin; Farroh Azizah; Dyah Retno Wulandari; Tri Muji Ermayanti
ANNALES BOGORIENSES Vol 16, No 2 (2012): Annales Bogorienses
Publisher : Research Center for Biotechnology - Indonesian Institute of Sciences (LIPI)

Tuber of purple yam (Dioscorea alata L.) has been used as an alternative food in some areas in Indonesia. The tuber contains high carbohydrate, has low glycemic index and is gluten free. Therefore, study on genetic improvement of this species needs to be carried out in order to increase its productivity and to find out new cultivars which can be cultivated in marginal lands. This research was aimed to investigate the effect of NaCl concentration on growth and proline content of purple yam grown in vitro. Shoot tips were cultured on MS (Murashige and Skoog) medium supplemented with NaCl at concentrations of 25; 50; 100; 200 and 250 mM. After six weeks in culture, height of shoots, number of nodes, number of leaves, as well as proline content were recorded. The results showed that shoots grown on MS medium supplemented with NaCl at 25 and 50 mM had better growth compared to control. The best medium for its growth was MS containing 50 mM of NaCl. An increase in NaCl level resulted in decrease of growth. The LD50 value was obtained at 183 mM of NaCl. The highest proline concentration was achieved by shoots grown on the medium supplemented with 100 mM of NaCl. This result indicated that purple yam was tolerant to the increase of NaCl concentration up to 100 mM on MS medium without addition of plant growth regulators. Keywords: purple yam, Discorea alata L., NaCl, in vitro growth, proline content.

Generation of mCherryBody: an Anti-Transferrin Receptor Antibody Variable Fragment Linked by The Fluorescent Protein mCherry Wien Kusharyoto; Dian Andriani; Ira Handayani
ANNALES BOGORIENSES Vol 20, No 2 (2016): Annales Bogorienses
Publisher : Research Center for Biotechnology - Indonesian Institute of Sciences (LIPI)

A facile generation of a recombinant antibody fragment with intrinsic fluorescent properties of the monomeric fluorescent protein mCherry is described. The so-called mCherryBody was designed based on the structure model of the variable fragment of anti-transferrin receptor antibody LUCA31 and the X-ray crystallographic structure of the protein mCherry. mCherryBody was constructed to retain optimal spatial geometry between the C- and N-termini of the antibody light-chain (VL) and heavy-chain (VH) by mimicking the domains interface pairing in antibody Fab fragments and incorporation of the fluorescent protein mCherry as a bridging scaffold. The gene encoding the chimeric protein was cloned into the pJExpress414 expression vector, expressed and secreted into the periplasm of Escherichia coli NiCo21(DE3) for assembly and disulphide bond formation. Based on its amino acid sequence, mCherryBody was predicted to have a molecular weight of 51.46 kDa. The modular assembly used in the generation of mCherryBody may permit the interchange of binding sites and of fluorescent proteins to create robust panels of coloured antibody fragments. Thus, the mCherryBody platform facilitates rapid generation of colored single-chain variable fragment (scFv) chimeras that could be used for screening of antibodies against cell surface markers or receptors.

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