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All Journal Bioscience AL KAUNIYAH Jurnal Penelitian Pendidikan IPA (JPPIPA) Jurnal Biologi Tropis EKSAKTA : Jurnal Penelitian dan Pembelajaran MIPA Indonesian Food Science and TechnologyJournal Martabe : Jurnal Pengabdian Kepada Masyarakat JURNAL PENDIDIKAN TAMBUSAI Pelita Eksakta Jurnal Biogenerasi Journal of halal product and research (JHPR) 3BIO: Journal of Biological Science, Technology and Management Jurnal Jeumpa Halal Research Journal TROPICAL GENETICS MASALIQ: Jurnal Pendidikan dan Sains Promotor: Jurnal Mahasiswa Kesehatan Masyarakat Tropical Genetics Symbiotic: Journal of Biological Education and Science Jurnal Serambi Biologi
Achyar, Afifatul
Departemen Biologi, Fakultas Matematika Dan Ilmu Pengetahuan Alam, Universitas Negeri Padang, Padang Indonesia
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Journal : TROPICAL GENETICS

 1 
Design of primer Ipomoea batatas chloroplast gene matK S. Syamsurizal; Ardi Ardi; Des M; Resti Fevria; Yusni Atifah; Elsa Badriyya; Afifatul Achyar
Tropical Genetics Vol. 1 No. 1 (2021)
Publisher : Genetikawan Muda Indonesia

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Abstract

Sweet potato varieties (Ipomoea batatas) Pucuk Hitam Panyalaian and Madu Pucuk Hitam Panyalaian have the potential to be a superior commodity in West Sumatra, but the information of genetic diversity is very limited. Data on the diversity of sweet potato germplasm is beneficial in the selection of plants to obtain superior cultivars in plant breeding. Aim: The aim of the study was to find specific primers for the study of sweet potato genetic markers using Ipomoea batatas chloroplast genes matK. Methods: DNA extraction from sweet potato young leaves; designing forward and reverse primers Ipomoea batatas chloroplast genes matK; PCR; sequencing; bioinformatics analysis and species identification by comparing the NCBI database. Results: Plant DNA barcoding PCR using designed primers matK were successfully resulting single DNA band in different amplicon size in some samples. This indicating that the designed primers used were able to distinguish variation in one species.
Primer design, in silico PCR and optimum annealing temperature for Escherichia coli detection in refillable drinking water samples Afifatul Achyar; Annisa Irna Putri; Dwi Hilda Putri; Yuni Ahda
Tropical Genetics Vol. 1 No. 2 (2021)
Publisher : Genetikawan Muda Indonesia

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Abstract

Refill Drinking Water Depots (DAMIU) in the community are easy to find at affordable prices, which is a concern in the feasibility of refill drinking water quality. E.coli is one of the pathogenic bacteria present in drinking water that has poor quality. When it enters the body it can cause symptoms of diarrhea, fever, vomiting and others. The purpose of this study was to create a specific primer for E.coli that can be used to detect E.coli and determine the optimum temperature of primer annealing. Researchers do a new primer design because the existing design does not necessarily produce the same results due to various factors of different experimental conditions. The primer design was carried out on an in silico-based and had to meet the criteria for a good primer because it would be used in vitro. E.coli gene sequences was aligned with Shigella sp. using Pairwise Alignment. Primer candidates were analyzed using NCBI's Primer3 and Geneious Prime tools. The result is that the first primer pair is forward 5'–ATGCAGTGGTTCCTTATCTCACA-3' reverse 5'- ATCCTTAATGGCACTGCGCT-3', amplifying the amplicons along 417 bp in the yraJ gene. The second primer pair, forward 5'-CAGAACGTTTTTCATTCAGCAGG-3' reverse 5'-GCCACTACCAGATCGAGTCA-3' amplifies the 573 bp amplicon in the rne gene. The optimum annealing temperature for both pairs of primers was 59.5oC.
Optimization of DNA Isolation Dried Leaf Samples of Endangered Plants Dipterocarpus cinereus Ruri Fitriyani; Iyan Robiansyah; Afifatul Achyar
Tropical Genetics Vol. 2 No. 1 (2022):
Publisher : Genetikawan Muda Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.24036/tg.v2i1.19

Abstract

Dipterocarpus cinereus (Lagan bras) is an endemic tree of Mursala, a small island in Central Tapanuli, North Sumatra. Lagan bras is a tree that has good quality for shipbuilding or construction materials. This plant has a critical status by the IUCN Red List 2020 so that conservation efforts need to be carried out. Conservation efforts are still limited to the status of conservation, ecology and distribution as well as vegetative propagation while molecular studies have never been carried out. Therefore, it is necessary to know the optimum DNA isolation method because DNA quality is very important as a determinant of the success of molecular analyzes such as PCR. Various techniques can be used to isolate DNA, depending on the type of plant used. Each type of plant contains different secondary metabolite compounds that require an optimum isolation method. This study aims to obtain the optimum DNA isolation method and produce good quality genomic DNA from the dried plant Dipterocarpus cinereus from the LIPI Plant Conservation Research Center and Botanical Gardens collection. This research was conducted at the Genetics and Biotechnology Laboratory, State University of Padang in October 2021. The DNA isolation method used was the modified CTAB method with variations in leaf size, the use of PVP, and grinding with and without liquid nitrogen as well as the Promega and Qiagen isolation kit methods. The results showed that a large quantity of DNA and high quality DNA could be produced in plant samples by modifying DNA isolation using the Cetyl Trimethyl Ammonium Bromide (CTAB) method as well as the addition of polyvinylpolypyrrolidone (PVP) antioxidants and the use of liquid nitrogen with a leaf size of 2x2 cm.
Optimization of Specific PCR Conditions for Cows (Bos taurus) in Rendang Samples for Molecular-Based Halal Tests Nurfadillatun Nisa Wijaya; Sisca Alicia Farma; Dwi Hilda Putri; Afifatul Achyar
Tropical Genetics Vol. 2 No. 1 (2022):
Publisher : Genetikawan Muda Indonesia

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Abstract

Rendang is one of the popular foods in Indonesia made from beef as the main ingredient, which has great potential in tourism development. As a country that has a Muslim majority population, this is very influential for the halal tourism industry. Halal tourism is the parent of tourism in accordance with Islamic principles. The issue of halal food is a sensitive issue for the community. The rise of mixing of non-halal ingredients such as pork in processed food products has worried the public, especially for adherents of the Islamic religion. However, this can be detected molecularly using the Polymerase Chain Reaction (PCR) technique which will amplify the DNA of the target gene of the species to be identified. Each gene has a primer with a different concentration and annealing temperature, so that prior to PCR with research samples, it is necessary to optimize the primer concentration and annealing temperature in order to obtain the appropriate PCR composition and conditions so as to obtain optimal PCR results. In this study, optimization of bovine-specific BOS primers that amplify the ND5 gene in mitochondrial DNA was carried out, namely ND5 (NADH dehydrogenase subunit 5). The results showed that the optimum annealing temperature was 48.2ºC, the optimum primary concentration was 0.5 μM.
Genotyping Of Sumatera Local Variety Of Citrus Using Random Amplified Polymorphism DNA (RAPD) Technique Rinti Mutiara Sari; Afifatul A Achyar; Yuni Ahda; Dwi Hilda Putri
Tropical Genetics Vol. 2 No. 2 (2022):
Publisher : Genetikawan Muda Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.24036/tg.v2i2.29

Abstract

Indonesia memiliki varietas jeruk lokal yang tidak kalah dengan jeruk impor, terutama dalam hal kesegaran buah. Namun, masyarakat lebih tertarik dengan warna kulit jeruk sehingga masyarakat lebih memilih jeruk impor ketimbang jeruk lokal, khususnya di Sumatera. Oleh karena itu, perlu dilakukan upaya pelestarian dan peningkatan karakteristik jeruk ini untuk meningkatkan kualitasnya melalui pemuliaan tanaman. Penelitian ini bertujuan untuk mengoptimalkan metode isolasi DNA sampel buah jeruk dengan Chelex-TE dan untuk mengetahui profil genetik jeruk lokal Sumatera dan jeruk impor menggunakan genotipe RAPD. Sampel yang digunakan adalah beberapa jeruk lokal di Sumatera (Citrus Siam Gunung Omeh, Citrus Madu, Citrus Keprok Maga, Citrus Keprok Brastepu dan Citrus Pasaman) dan Citrus impor (Citrus Sunkist, Citrus Clemengold, Citrus Murkot dan Citrus Wokam). DNA diisolasi menggunakan metode Chelex-TE 10% yang dioptimalkan untuk beberapa parameter seperti ukuran butir, kulit buah dan daun. RAPD dilakukan dengan menggunakan 10 primer RAPD. Hasil penelitian menunjukkan bahwa metode isolasi Chelex Chelex-TE 10% yang optimal adalah ukuran sampel 1 butir. Amplifikasi jeruk lokal Sumatera dan jeruk impor menggunakan 10 primer tunggal menghasilkan pita polimorfik. Nilai kesamaan jaccard menunjukkan bahwa kelima sampel jeruk tersebut merupakan varietas lokal Sumatera yang diamati memiliki variasi genetik yang tinggi dibandingkan dengan keempat jeruk impor tersebut. Indonesia memiliki varietas jeruk lokal yang tidak kalah dengan jeruk impor, terutama dalam hal kesegaran buah. Namun, masyarakat lebih tertarik dengan warna kulit jeruk sehingga masyarakat lebih memilih jeruk impor ketimbang jeruk lokal, khususnya di Sumatera. Oleh karena itu, perlu dilakukan upaya pelestarian dan peningkatan karakteristik jeruk ini untuk meningkatkan kualitasnya melalui pemuliaan tanaman. Penelitian ini bertujuan untuk mengoptimalkan metode isolasi DNA sampel buah jeruk dengan Chelex-TE dan untuk mengetahui profil genetik jeruk lokal Sumatera dan jeruk impor menggunakan genotipe RAPD. Sampel yang digunakan adalah beberapa jeruk lokal di Sumatera (Citrus Siam Gunung Omeh, Citrus Madu, Citrus Keprok Maga, Citrus Keprok Brastepu dan Citrus Pasaman) dan Citrus impor (Citrus Sunkist, Citrus Clemengold, Citrus Murkot dan Citrus Wokam). DNA diisolasi menggunakan metode Chelex-TE 10% yang dioptimalkan untuk beberapa parameter seperti ukuran butir, kulit buah dan daun. RAPD dilakukan dengan menggunakan 10 primer RAPD. Hasil penelitian menunjukkan bahwa metode isolasi Chelex Chelex-TE 10% yang optimal adalah ukuran sampel 1 butir. Amplifikasi jeruk lokal Sumatera dan jeruk impor menggunakan 10 primer tunggal menghasilkan pita polimorfik. Nilai kesamaan jaccard menunjukkan bahwa kelima sampel jeruk tersebut merupakan varietas lokal Sumatera yang diamati memiliki variasi genetik yang tinggi dibandingkan dengan keempat jeruk impor tersebut.
Dermatoglyphic Analysis of Asthma Sufferers in a Population Of Students At The Faculty of Mathematics and Science, Universitas Negeri Padang Velina Salsabil; Afifatul Achyar; Yuni Ahda
Tropical Genetics Vol. 2 No. 2 (2022):
Publisher : Genetikawan Muda Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.24036/tg.v2i2.30

Abstract

Asthma is a disease defined as chronic inflammation of the airways which is characterized by recurrent coughing and shortness of breath. Dermatoglyphs are the appearance of tendrils and tendril patterns on the fingers, palms, toes and soles. Dermatoglyph is used as an aid in the detection of a number of diseases that have a strong heritable basis and is also used to detect abnormalities. This study aims to analyze and compare the patterns of dermatoglyphics in asthma sufferers and non-asthmatics on the fingertips. This type of research is descriptive research with cross sectional sampling method. Samples were taken from the student population of the Faculty of Mathematics and Natural Sciences, Padang State University as many as 100 samples of fingerprint patterns. The results obtained showed that there was a significant difference in the number of arch fingerprint patterns of asthmatics compared to normal individuals. Seeing this significant difference in numbers indicates a possible link between fingerprint patterns and asthma phenotypes.
Co-Authors Afionita, Santi Ahmad Hambali, Ahmad Ahmad Wibisana, Ahmad Alvenaya Hindayageni Ananda Putri, Ananda Annisa Irna Putri Annisa Khaira Annisa Khaira Annisa, Silvy Aprilia, Amanda Ara, Farrah Azzahra Ardi Ardi Atifah, Yusni Aura Zahra Nafisah Azizah, Jalilah Bintang Fadhil Ramadhan Cici Mustika cynthia perdana putri Dara Suci Amini, Dara Suci Des M Dezi Handayani Dezi Handayani Dina Sukma Dwi Hilda Putri Dwi Hilda Putri Dwi Hilda Putri Edwin Edwin Elsa Badriyya Elsa Yuniarti Elviana, Alifah Hazelia Fadhila Humaira Fardilla, Midratul Fatiha, Fathma Dwi Fevria, Resti Fitri, Afifah Ismu Fronica, Imelda Gilang Amanda Hafizah Fadhilah Hafizh Alza Afra Helsa Rahmatika Herisanti, Dini Irma Leilani Eka Putri Iyan Robiansyah Iyan Robiansyah Jalilah Azizah Jumatul Hafsah Kardiman, Reki Khairani, Fidia Aura Linda Advinda Marten, Threo Wanda Monica , Indiastri P Moralita Chatri Muhammad Farikh Muharani, Silvia Mukhlis Mukhlis Mutia Andini, Tri Nabilah, Rezi Nadira Nafisa Arini Nella Fauziah Novita, Yeni Nur Aqsha Nurfadillatun Nisa Wijaya Nurul Hasanah NURUL HIDAYAH Oliv Nurul Kanaya Nurul Kanaya Palupi, Indria Pinta, Sari Rahma Pradila, Andini Novalia Pramila, Cindy Pratama, Chelsylia Dara Pratama, Sandi Fransisco Pryatna, Muhamad Zacky Putri, Aulia Devani Putri, Irma Leilani Putri, Isna Aryunita Putri Putri, Santi Diana Putrizalda, Hafizhah Rahmad Wanizal Pastha Rahmawati, Atika Ayu Rahmi Holinesti Rezeki Rival Alridho Rezi Nabilah Ria Fernanda, Irma Rijal Satria Rijal Satria Rini Wulandari Rinti Mutiara Sari Riza Umami Roza, Sri Yenica Ruri Fitriyani Ruri Fitriyani S. Syamsurizal safitri, fira Salsabil, Velina Salsabilla, Vishtari Sari Rahma Pinta Sari, Rinti Mutiara Satria, Rijal Sefina, Nadia Selaras, Ganda Hijrah Sisca Alicia Farma Suryani, Elisa Vauzia Vauzia Vauzia, Vauzia Velina Salsabil Violita Violita Violita Violita Violita Violita Violita Yulita, Nelfi Yuni Ahda Yuni Ahda Zultsatunni’mah Zultsatunni’mah Zulyusri Zulyusri Zulyusri Zulyusri Zulyusri, Zulyusri Zulzusri, Zulzusri