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All Journal Journal of Tropical Life Science : International Journal of Theoretical, Experimental, and Applied Life Sciences Jurnal Biologi Udayana Biotropika BIOEDUSCIENCE Menara Perkebunan Agro Bali: Agricultural Journal Jurnal Riset Biologi dan Aplikasinya JSMARTech : Journal of Smart Bioprospecting and Technology Jurnal Biosense Bioscientist : Jurnal Ilmiah Biologi Biosaintifika: Journal of Biology & Biology Education
Turhadi Turhadi
(Scopus ID: 57207793599), Universitas Brawijaya
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemistry Education Environmental Science Immunology & microbiology Materials Science & Nanotechnology Medicine & Pharmacology Neuroscience Public Health Social Sciences

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Journal : Jurnal Riset Biologi dan Aplikasinya

 1 
In Silico Evaluation of rbcL, matK, and psbA-trnH Regions on the Genus Spatholobus (Fabaceae) Muwaffiq Faza, Ahmad; Khairunnisa Hidaya, Amira; Fatma Yona, Hafidza; Talitha Pangestu, Twistka; Shafala Safa, Muhammad; Suyanto, Eko; Turhadi, Turhadi; Fatchiyah, Fatchiyah
Jurnal Riset Biologi dan Aplikasinya Vol. 6 No. 2 (2024)
Publisher : Universitas Negeri Surabaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.26740/jrba.v6n2.p73-81

Abstract

Spatholobus is a genus that belongs to the Fabaceae that is known to contain various bioactive compounds and distributed across Asia, including Indonesia. However, exploration of Spatholobus in Indonesia is still rare. Therefore, DNA barcoding is used to support the exploration and conservation of Spatholobus in Indonesia. However, there is no universal marker that can be used across all plant species. In addition, there are still few studies related to DNA barcoding within the genus Spatholobus. The purpose of this study was to evaluate the rbcL, matK, and intergenic spacer psbA-trnH regions in silico that can be used as DNA barcodes for the genus Spatholobus. This study began with a sequence search on the NCBI database including the rbcL, matK, and intergenic spacer psbA-trnH genes   in the genus Spatholobus and Phaseolus coccineus as the outgroup. Each sequence was then aligned with ClustalW. Then, a phylogenetic tree was constructed using the Maximum-Likelihood (ML) with 1000× bootstrap. As a result, the rbcL, matK, and psbA-trnH regions can be used as markers for DNA barcoding in the genus Spatholobus with different specifications. The rbcL and matK can be used to distinguish Spatholobus at the genus level, while the psbA-trnH can be used to distinguish Spatholobus at the species level.
DNA QR Code Using Internal Transcribed Spacer 1 (ITS1) Region of Commercial Cucumber Varieties (Cucumis sativus L.) Turhadi, Turhadi; Padmana, I Made Dhena Radya; Azrianingsih, Rodiyati
Jurnal Riset Biologi dan Aplikasinya Vol. 7 No. 1 (2025)
Publisher : Universitas Negeri Surabaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.26740/jrba.v7n1.p1-7

Abstract

DNA Quick Response (DQR) is an accurate, efficient, fast, and cost-effective alternative to PCR-based or other sequencing methods. DQR is the method integrated seamlessly with digital systems. The DQR could be apply as effective approach to preventing seed counterfeiting, for example in cucumber. This study aimed to identify DNA barcodes based on the ITS1 region and develop DQR for commercial cucumber varieties in Indonesia. Two cucumber varieties, namely cv. Mars and cv. Makka were used. The genomic DNA was extracted using commercial DNA purification kit. The DQR for these two cucumber varieties were developed based on experimental data from the ITS1 region. The efficiency and characterization of ITS1 region were evaluated through homology analysis using BLAST-NCBI and DQR development. The DQR of cucumber cv. Mars and cv. Makka based on ITS1 region were successfully developed. The length of the ITS1 region encrypted in the QR code was 496 bp and 437 bp for cv. Mars and cv. Makka, respectively. The A-T and G-C proportions for cv. Mars were 45.2% and 54.8%, respectively, while for cv. Makka, the A-T and G-C proportions were 42.6% and 57.4%, respectively. Our findings are valuable for genetic labeling and authentication of horticultural crops, especially cucumber.
Co-Authors . Hamim . Miftahudin . PRIYONO Abdullah Abdullah Aliarani Rosyidiana Putri Amalia Danti Safa Audia Annisa Aulya Aksa Asmini Budiani Bedjo Bedjo Briliyan Natalina Sudarjayanti Cristina Mega Meyfiani Kekung Dawama Nur Fadlilah Deden Sukmadjaya Dian Siswanto Dini Astika Sari Eko Suyanto Else Vilia Setiawan Elvina Rashida Khairi Estri Laras Arumingtyas Ezra, Achmad fatchiyah . Fatchiyah Fatchiyah Fatchiyah Fatchiyah Fatchiyah Fatchiyah Fathiyah Nurul Izzah Fatma Yona, Hafidza Fauziatul Fitriyah Fifi Mar’atun Solihah Fifi Mar’atun Solihah Firda Nuri Asyhari Galuh Arkana Giral Baines Mora Grace Christy Haikal Ageng Maulana Hamim Hamim Hamim Hamim Hayati Minarsih Hayati Minarsih Hayati Minarsih Hose, Victor Alvianoes Guterez Husaini, Iin Pertiwi A Iin Pertiwi A Husaini Imron RIYADI Imron Riyadi Karuniasari, Nadaa Kekung, Cristina Mega Meyfiani Khairunnisa Hidaya, Amira Luchman Hakim Maharani, Fira Shabrina Bintang Masna Maya Sinta Mentari Putri Pratami Miftahuddin Miftahuddin Miftahuddin Miftahudin . Mufidah Afiyanti Muhammad Rifqi Hariri Muhammad Rifqi Hariri Muhammad Wisam Wira Sakti Munif Ghulamahdi Muwaffiq Faza, Ahmad Nabila Shafa Yumna Salsabila Nandagesta Aurelia Shafa Wagmi Nashafi, Azizuddin Muhammad Nuraini Rosyadah Padmana, I Made Dhena Radya Pratama, Ardo Cahya Rahmadini, Agnia Fadillah Rahmi Izzati Raissa Kendra Ainiyah Rayhan Yugo Nurul Maulana Riza Arief Putranto Rizka Tamania Saptari Rodiyati Azrianingsih Rodiyati Azrianingsih Salma Wahid Marseti Septhyanti Aprilia Kavitarna Serafinah Indriyani Serafinah Indriyani Setiyanto, Afif Eka Rahma Shafala Safa, Muhammad Solihah, Fifi Mar’atun Suharjono Suharjono Sustiprajitno Sustiprajitno Talitha Pangestu, Twistka Yohanna Sisilia Grace Sirait Yuli Setiawati