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All Journal ANNALES BOGORIENSES Annales Bogorienses
Titik K. Prana, Titik K.
Biotechnology Research Center Indonesian Institute of Science Jalan Raya Bogor Km 46, Cibinong 16911
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Immunology & microbiology Medicine & Pharmacology

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The Use of 16s RNA AND NODC Gene Sequence in Resolving The Phylogenetic Relationship of Rhizobia Associated With Paraserianthes falcataria (L.) Nielsen Plant Prana, Titik K.; Sone, Teruo; Nakagawa, Hiroko Kawasaki; Yokota, Atsushi; Seki, Tatsuji; Tomita, Fusao
ANNALES BOGORIENSES Vol 9, No 1 (2004): Annales Bogorienses
Publisher : Research Center for Biotechnology - Indonesian Institute of Sciences (LIPI)

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (4538.999 KB) | DOI: 10.1234/6

Abstract

Studies on genet ic position of several iso lates liv ing symbiot i a lly on ParaseriCllltli esfalcalaria have been carried out using amplification and se uenc ing tec hni ques of 16S rDNA and specific gene fo r nodulation (/lode) . The "p hylogenetic LTee" cons tructed based On 165S rONA showed that rh izobia growing symbiotically on Paraserianthes fa/ca taria consisted f 3 group . TIl . fi r t group, was fasl- growing rhIzobia wh ich have close r lationshlp to Rhizobium tropicii, the second and the third groups were slow-growing r!lI zobia wh ic h have c lose relationsh ip to Bradyrhizobillnl elkanJi and B j aponiclIfll. However, the "phy logenetic tTee" constructed on the ba is of part ln l ll odC gene md icatcd the existence of an JIldependen t group, si nce they did not show any siglU tica nt degree of relationsh ip w ith the ex isting groups. T hi s was also supported by diffi rences in pby iological characteri tiC i.e Indole Ace ti c Acid productIOn and salt tolerance of the iso lates . These differe nces shows uS that "direct _equenc ing" method of certain specdic genes coul d give a more specific re ult tha n ou ld di p lay more clearly the degree of relat ionship at species leve l.
Conservation of Major L1 and Variability of Minor L2 Capsid Late Protein Genes in Human Papillomavirus of Indonesia Variants Nuswantara, Sukma; Prana, Titik K.; Wulandari, Dwi; Widyowati, Henni; Anzela, Vera; Levy, Dea; Cahyadi, Petrus; Tjandra, Lukas D
Annales Bogorienses Vol. 14 No. 2 (2010): Annales Bogorienses
Publisher : BRIN

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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.
Co-Authors Anzela, Vera Cahyadi, Petrus Dwi Wulandari Levy, Dea Nakagawa, Hiroko Kawasaki Seki, Tatsuji Sone, Teruo Sukma Nuswantara Tjandra, Lukas D Tomita, Fusao Widyowati, Henni Yokota, Atsushi