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All Journal HAYATI Journal of Biosciences Biotika: Jurnal Ilmiah Biologi Indonesian Journal of Biotechnology Edsence: Jurnal Pendidikan Multimedia 3BIO: Journal of Biological Science, Technology and Management
FENNY MARTHA DWIVANY
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Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Computer Science & IT Earth & Planetary Sciences Education Immunology & microbiology Materials Science & Nanotechnology Neuroscience Other

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A simple method of plant sectioning using the agarose embedding technique for screening intracellular green fluorescent protein Nisa Ihsani; Fenny Martha Dwivany; Sony Suhandono
Indonesian Journal of Biotechnology Vol 28, No 3 (2023)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.80853

Abstract

It is difficult to observe plant tissue sections transformed using the agroinfiltration method under a fluorescent microscope. This is due to the softness of the post‐transformation plant. This research was conducted to optimize the sectioning of tobacco stems transformed through the agarose embedding technique. Optimization was conducted at various agarose concentrations: 2%, 4%, and 6%, followed by five minutes of incubation at various temperatures: –80 °C, 4 °C, and 25 °C. The stems were then cut using a scalpel and examined under a fluorescence microscope. The results showed that the embedding method using 6% agarose was more effective at producing a tobacco stem section than 2% or 4% agarose. Meanwhile, incubation at 25 °C was better suited to the transformed tobacco stems than at 4 °C or –80 °C. Green Fluorescent Protein (GFP) could be determined under a fluorescent microscope when using the optimum method. Thus, the optimum method for creating sections of transformed tobacco stems by embedding was to use 6% agarose followed by incubation at 25 °C for 5 min. The optimum result can be applied to obtain a slight section of tobacco stem in order to observe a recombinant protein or other anatomical structures.
The In Silico Characterization of Lycopene Forming Phytoene Desaturase (CrtI) Protein from Wheat Leaf Rust Fungi (Puccinia triticina) Yehezkiel Vieri Polandos; Fenny Martha Dwivany; Karlia Meitha
3BIO: Journal of Biological Science, Technology and Management Vol. 5 No. 2 (2023)
Publisher : School of Life Sciences and Technology, Institut Teknologi Bandung

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.5614/3bio.2023.5.2.1

Abstract

Carotenoid is a highly economical compound with a variety of bioactivities. However, 98% of total carotenoid used is still being manufactured by chemical-based synthesis, reducing bioactivities and is not environmentally friendly, hence the use of biofortification approach is sought.Lycopene forming phytoene desaturase (CrtI) is one of the key enzymes with the potential to develop as bioparts in recombinant carotenoid biosynthesis. CrtI from Puccinia triticina and Blakeslea trispora are considered as promising candidates due to the high amount of carotenoid inthe fungi. This research aims to characterize CrtI enzyme from P. triticina and B. trispora and the interaction with substrate, i.e.,15 cis-phytoene. The results showed that CrtI from P. triticina protein has 2 unique motifs, determining the three-dimensional CrtI protein structure. According to docking analysis, CrtI enzyme from P. triticina is predicted to bind to the substrate more spontaneously as indicated by the lower energy of affinity (-8.3 kcal mol-1) and more residues interaction compared to CrtI from Blakeslea trispora. In conclusion, the CrtI protein from P. triticina is suggested as the candidate for further exploration to design expression in a recombinant system.
Revealing disease‐specific endogenous target mimic of microRNA from long non‐coding RNA identification and characterization in Musa spp. Audie Masola Putra; Husna Nugrahapraja; Fenny Martha Dwivany
Indonesian Journal of Biotechnology Vol 28, No 1 (2023)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.49368

Abstract

Banana (Musa spp.) is one of the most widely consumed fruits in the world. Unfortunately, the plants are at risk from many disease problems, which mainly derive from microorganism. It is a little known about the relationship between disease‐inducing microorganisms and plants, particularly at the molecular level. This research aimed to characterize long non‐coding RNA (lncRNA) from bananas that may have roles in regulating gene expression related to the disease response mechanism in banana derived from transcriptomic libraries. Furthermore, the detected transcripts were analyzed to identify the endogenous target mimics (eTMs) interaction between lncRNA and microRNA (miRNA) using computational approaches. Data from Cavendish banana (AAA group), Berangan (AAA group), Yunnan Banana (Itinerans), Dajiao (ABB group), and Klutuk (BB group) were used in this research. We found that lncRNA tends to be unsustainable, and most sizes are below 1000 bp (≥ 75%). Based on this result, we investigated the eTMs to determine lncRNA transcripts and miRNA, such as miR397 in Cavendish and miR444 in Klutuk. This transcript would be regulated following exposure to extreme temperatures and disease, indicating the possibility of disease‐specific interaction between bananas and their environment at the molecular level.
Co-Authors Adriana Hiariej, Adriana Agus Sutanto Agus Sutanto Agustina Tangapo Almeida, Maria Apriyani, Ria Khoirunnisa Audie Masola Putra Erdianty Setiabudi Erly Marwani Erly Marwani, Erly Firas Atqiya Giasintha Stefani Hany Husnul Chotimah Husna Nugrahapraja I Nyoman Pugeg Aryantha I NYOMAN RAI Ihsani, Nisa Intan Fatmawati Karlia Meitha Karlia Meitha Karlia Meitha Karlia Meitha Ketut Wikantika LISTYA UTAMI KARMAWAN Muhammad Abdul Aziz Muhammad Rizqi Sholahuddin Nisa Ihsani Nisrina Sukriandi Rizkita Rachmi Esyanti RIZKITA RACHMI ESYANTI Rizkita Rachmi Esyanti Rizkita Rachmi Esyanti Sigit Nur Pratama SONY SUHANDONO SONY SUHANDONO Sony Suhandono Tangapo, Agustina Monalisa Topik Hidayat Yehezkiel Vieri Polandos