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Syamsurizal
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Genetikawan Muda Indonesia (GeMI) Jl. Prof Dr Hamka, Air Tawar, Padang, Sumatera Barat, Indonesia, 27171 Email: tropicalgenetics.gemi@gmail.com Telepon: +628126709150
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INDONESIA
Tropical Genetics
Published by Genetikawan Muda Indonesia
ISSN : -     EISSN : 27984710     DOI : 10.24036/tg.v3i2.38
Core Subject : Agriculture,
Agriculture, Biological Sciences & Forestry
The scope of this journal is; Genetics Basics, Classical Genetics, Theoretical and Applied Genetics, Molecular Genetics, Cytogenetics, Bioinformatics, Genetic Diversity, Population Genetics, Genetic Engineering, Forensic Genetics, Behavioural Genetics, Advanced Genetics and Evolution, Clinical Genetics and Genetic Counselling Genomics, Biotechnology and Genetics Education.
Arjuna Subject : Ilmu Pertanian dan Biologi (Semua) - Ilmu Pertanian dan Biologi (Lain-Lain)
Articles 46 Documents
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Molecular assessment of native fish diversity in UNESCO heritage site, Tasik Raban, Malaysia using DNA barcoding: DNA Barcoding of Native Fishes in Tasik Raban, Malaysia Ramizah Abdull Rahman; Adibah Abu Bakar; Nurul Fizatul Nabilah Osman; Syazwan Saidin; Intan Faraha A. Ghani
Tropical Genetics Vol. 1 No. 2 (2021)
Publisher : Genetikawan Muda Indonesia

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Abstract

Despite the fact that freshwater fishes have been studied for over a century, Malaysia's conservation status and management are still in their infancy. The poor progress of freshwater fish taxonomy and conservatory management is primarily due to a lack of interest and funding. There are still numerous unsolved taxonomic issues of freshwater fishes in Malaysia and this had a negative impact on national ichthyological research. As a result, the current research aims to aid the success of the molecular DNA barcode project, particularly in inland reservoirs such as Tasik Raban, Perak which is located in the UNESCO Heritage Site. The Cytochrome c oxidase subunit 1 (COI) marker was used in this project to ensure that native fishes were taxonomically and molecularly barcoded and ready to be accessible through internet databases. Such public references can aid in raising awareness about the management of local fish variety. Taxonomy and molecular characterization data can be utilized to plan future conservation efforts, particularly for depleted, unknown, or cryptic native species.
Optimization of DNA Isolation Dried Leaf Samples of Endangered Plants Dipterocarpus cinereus Ruri Fitriyani; Robiansyah, Iyan; Achyar, Afifatul
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.
Development of Species-specific Cichla species eDNA Primers for Rapid Alien Invasive Species (AIS) Monitoring Osman, Nurul Fizatul Nabilah; Abu Bakar, Adibah; Saidin, Syazwan; Abdul Rahman, Ramizah; Abd Ghani, Intan Faraha; A, Amirrudin; M. N., Siti Azizah
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.v2i1.21

Abstract

Peacock bass or the cichlids are known locally as top predator fishes which are invasive in Malaysia freshwater system. Detection probabilities for these fishes are typically low, especially using the conventional capture-survey method due to the fish’s behaviour of hiding beneath the water’s surface. Hence, environmental DNA (eDNA) monitoring is a relatively new non-invasive and rapid approach that can be used to assess the distribution of these invasive fishes. Here, we report the strategy i) to develop small fragment (280- 400bp) specific-specific primers for three selected invasive Cichla species namely, C. kelberi, C. ocellaris, and C. monoculus based on mitochondrial DNA (mtDNA) COI gene sequences, ii) how high quality of DNA and e-DNA should be extracted and iii) how to validate primers for specificity, (iv) developed and tested a new quantitative PCR (qPCR) assay to detect the presence of C. kelberi, and C. ocellaris, environmental DNA (eDNA) in water samples. Current research showed that the cytochrome oxidase I (COI) gene can be used to developed species- specific primers for selected species. However, several primer-designed parameters need to be adjusted to improve the specificity of primers. These were discussed in detail with future recommendations for the researcher’s references. Moreover, we found the isolation of e-DNA needs to be done within 22 days of capture to prevent false-negative results. This data can be easily applied in any fish genomic-based lab with the low-cost setting as only AGE (Agarose Gel Electrophoresis) analysis was needed for validation procedures. Overall, e-DNA analysis with species- specific primers represents new monitoring tool in detection of Aquatic Invasive Species (AIS) for management and conservation purpose.
Analysis of Critical Thinking Skills For Students on Biotechnology Materials Syamsurizal, S.; Azizah, Farah; Putri, Sintia; Arsih, Fitri
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.v2i1.23

Abstract

Critical thinking skills can be developed through the learning process. Biotechnology material requires students' critical thinking skills in the learning process. SMAN 1 Payakumbuh has done critical thinking skills in the learning process but it is still not optimal, and data on critical thinking skills are still unknown. This study aims to analyse the level of Critical Thinking Skills of Class XII Students of SMAN 1 Payakumbuh about Biotechnology Materials. This type of research is descriptive research with simple random sampling technique. The instrument used in this study was a test of students' critical thinking skills, and a validity test questionnaire. The data analysis technique used is quantitative descriptive analysis and qualitative descriptive analysis. Based on the results of the research that has been carried out, the data obtained that the results of the critical thinking skills of class XII students of SMAN 1 Payakumbuh were analysed per indicator. The conclusion of this study is the level of critical thinking skills of each indicator of class XII students of SMAN 1 Payakumbuh at low qualification qualifications with an average of 50.59%.
Literature Study : Chromosomal Changes in The Class Mammalia Genus Neacomys, Class Actinopterygii Genus characidium, Class Reptile Family Boidae Latifa, Nindya Ananda; Putri, Sintia; Badriyya, Elsa
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.v2i1.24

Abstract

Chromosomes become an important substance for an organism because they contain information useful for cell regulation and as a hereditary agent. The character of an organism is determined by genes located on chromosomes. Changes in chromosomes will have a significant influence on the evolution of a species. One of the factors that influence changes in chromosomes is mutation. Mutation is a form of defense of an organism in the face of the changing state of nature. Neacomys diversification is caused by gene fusion events, translocations, amplications, and constitutive heterochromatin (CH). In the family Crenuchidae genus Caracidium there was a revision in the diversification of chromosomes 2n of 50 chromosomes composed of 32 metacentric + 18 sub-metacentrics. This is due to differences in the number of rDNA sites, heterochromatin blocks, number of B chromosomes and the size of sex chromosomes, as well as repeated DNA dynamics on chromosomes observed among species forming diversification and chromosomal speciation. In the boidae family reptile class there was a fusion of chromosomes which resulted in the conclusion that the kariotype configuration in snakes is currently the clade of primitive Neotropic snakes.
Morphometric characterization and genetic distance in bitches (oryctolagus cuniculus) in several regions in Indonesia Arafah, Auliani; Razak, Abdul; Sumarmin, Ramadhan
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.v2i2.25

Abstract

Rabbits are a group of animals that are very popular and enjoyed by the community. Rabbits, in general, have the high biological and economic potential to produce quality meat, skin, and hair, as well as pets (ornamental) and modern business farming. Rabbits are well known in Indonesia and developed mostly for farming. This literature study discusses morphometric characteristics and genetic distances among rabbits. The parameters used were head length (PK), head width (LK), ear length (PTL), ear width (LTL), chest circumference (LKD), chest width (LD), humerus bone length (PH), radius-ulna bone length (PRU), tibial bone length (PT), and body length (PB). The results of body variables measurement in FG rabbits had a higher mean for body size, including PK (12.64 cm), PTL (13.59 cm), LTL (6.47 cm), PH (9.52 cm), PRU (8, 95 cm), and PB (41.97 cm) compared to other families. Genetic distance shows that it has a close genetic distance (0.63106), while the farthest genetic distance is found between Rexb rabbits and ES rabbits, which is 6.96749. The genetic distances and tree phenogram construction are useful for estimating kinship between Rabbits clumps.
Review Article: SNP rs11196205 Transcription Factor 7 Like 2 (TCF7L2) as a Metabolic Disorder Genetic Marker Badriyya, Elsa; Hasyul, Siti Fatimah 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.v2i2.26

Abstract

A metabolic disorder appears when unusual chemical reactions impair the metabolism process in the body. This condition affects how the body distributes and processes macronutrients, including protein, lipids, and carbohydrates. Transcription Factor 7 Like 2 (TCF7L2) is a 217,460 bp gene, found in chromosome 10q25, and encodes the High Mobility Group (HMG) box with a role in the Wnt signaling pathway. The Wnt signaling pathway involves several processes during development, healthy homeostasis, and illness. The reactions that follow the pathway's activation regulate both proliferation and differentiation. Single Nucleotide Polymorphism (SNP) in the TCF7L2 gene has been linked to a variety of metabolic disorders incidence. SNP rs11196205 was found to have a significant association with type 1 and type 2 diabetes mellitus, gestational diabetes mellitus, glucose homeostasis, obesity-related parameters, and renal function. Mechanism SNPs causing the metabolic disorder are still unexplained, but SNPs are suspected to affect transcription and splicing processes. SNPs of TCF7L2 genes are reported to affect proinsulin conversion to insulin, decrease incretin hormone production, and decrease insulin sensitivity throughout the body. It can conclude that the screening for the SNP can be a sign of metabolic process abnormalities, especially in diabetes Mellitus.
Unique Pattern of Hypertension Fingerprints Syamsurizal, S.; Sudarni; Badriyya, Elsa; Putri, Sintia
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.v2i2.27

Abstract

The fingerprint pattern (dermatoglyphics) of each individual is not the same. Fingerprint patterns are often used as an identification tool in criminal cases and disease diagnosis. Fingerprint patterns for health diagnosis are usually diseases caused by genetic factors, for example hypertension. The purpose of this study was to describe the characteristics of fingertip dermatoglyphics of hypertension patients. The research sample was 60 people consisting of 30 people with hypertension who visited the DR. M. Djamil Padang and controls 30 non-hypertension (normal) people from Biology FMIPA UNP students. Simple random sampling. The research variables are tendril patterns on the fingertips. The Chi-square test was used to analyse the tendril pattern data of hypertension patients. The results showed that the arch fingerprint pattern is a unique character in hypertensive patients.
Genotyping of Sumatera local variety of citrus using random amplified polymorphism DNA (RAPD) technique Sari, Rinti Mutiara; Achyar, Afifatul A; Ahda, Yuni; Hilda Putri, Dwi
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 has local varieties of citrus that are no less than imported citrus, especially in terms of fruit freshness. However, people are more interested in the color of citrus peel so people prefer imported citrus to local citrus, especially in Sumatera. Therefore, it is necessary to carry out efforts to conserve and improve the characteristics of these citrus to improve their quality through plant breeding. This study aims to optimize DNA isolation methods for citrus fruit samples with Chelex-TE and to determine the genetic profile of local Sumatera citrus and imported citrus using the genotyping RAPD. The samples used were several local citrus in Sumatera (Citrus Siam Mountain Omeh, Citrus Madu, Citrus Keprok Maga, Citrus Keprok Brastepu and Citrus Pasaman) and imported Citrus (Citrus Sunkist, Citrus Clemengold, Citrus Murkot and Citrus Wokam). DNA was isolated using the 10% Chelex-TE method which was optimized for several parameters such as grain size, fruit skin and leaves. RAPD was performed using 10 RAPD primers. The results showed that the optimum 10% Chelex Chelex-TE isolation method was a sample size of 1 grain. The amplification of local Sumatran citrus and imported citrus using 10 single primers produced polymorphic bands. The value of jaccard's similarity indicates that the five samples of Sumatera local variety of citrus and imported citrus have high genetic variation. Indonesia has local varieties of citrus that are no less than imported citrus, especially in terms of fruit freshness. However, people are more interested in the color of citrus peel so people prefer imported citrus to local citrus, especially in Sumatera. Therefore, it is necessary to carry out efforts to conserve and improve the characteristics of these citrus to improve their quality through plant breeding. This study aims to optimize DNA isolation methods for citrus fruit samples with Chelex-TE and to determine the genetic profile of local Sumatera citrus and imported citrus using the genotyping RAPD. The samples used were several local citrus in Sumatera (Citrus Siam Mountain Omeh, Citrus Madu, Citrus Keprok Maga, Citrus Keprok Brastepu and Citrus Pasaman) and imported Citrus (Citrus Sunkist, Citrus Clemengold, Citrus Murkot and Citrus Wokam). DNA was isolated using the 10% Chelex-TE method which was optimized for several parameters such as grain size, fruit skin and leaves. RAPD was performed using 10 RAPD primers. The results showed that the optimum 10% Chelex Chelex-TE isolation method was a sample size of 1 grain. The amplification of local Sumatran citrus and imported citrus using 10 single primers produced polymorphic bands. The value of jaccard's similarity indicates that the five samples of Sumatera local variety of citrus and imported citrus have high genetic variation.

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