Genbinesia Journal of Biology
The Genbinesia Journal of Biology particularly focuses on the core disciplines in biology, they are: astrobiology, bacteriology, behavioural science, biochemistry, biodiversity, bioethics, bioinformatics, biomathematics, biophysics, biopolymers, biostatistics, biotechnology, botany, cell biology, conservation, crystallography of macromolecules, developmental biology, ecology, entomology, evolutionary biology, genetics, genomics, glycobiology, immunology, macromolecules, marine & aquatic biology, mathematical & computational biology, medicine, microbiology, molecular biology, mycology, nanoscience & nanotechnology, neurobiology, neuroscience, ornithology, paleobiology, paleontology, parasitology, pharmacology, physiology, plant biology, proteins & peptides, proteomics, radiation biology, reproductive biology, soil biology, structural biology, systems biology, techniques in biology, theoretical & mathematical biology, virology, zoology, and interdisciplinary applications in biology.
Articles
51 Documents
<![CDATA[Contribution of the Mangrove ecosystem to the Gastropod community at Pantai Bahagia village, Muara Gembong, West Java ]]>
<![CDATA[Dwijaya, Bayu Awifan]]>;
<![CDATA[Krisnanti, Sukma Awifan]]>;
<![CDATA[Ramdhani, Ardo]]>
<![CDATA[ Genbinesia Journal of Biology Vol. 1 No. 1 (2021): November 2021 ]]>
Publisher : <![CDATA[Generasi Biologi Indonesia ]]>
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DOI: 10.55655/genbinesia.v1i1.2
<![CDATA[The Mangrove ecosystem of Muara Gembong has been under continuing stress by land occupation, land conversion, and abrasion. This research was aimed to reveal the mangrove and gastropods community structure circumstance. A contribution of the environmental factor was also assessed to evaluate the interaction among them and to track the changes of the ecosystem. This research was conducted by purposive sampling in 3 sampling sites, these were a full reforestation site (A), a central site, that was exist by natural process (B), also a moderate reforestation site (C), with 3 sampling replication each site. About 4 mangrove species within shoreline has been progressively important as a protective flood barrier and abrasion at Muara Gembong. The highest gastropod diversity was found in the B1 site, while the highest dominance was found in A2. The C2 site is the only site that showed us a uniform dispersion of gastropods when the other sites showed a clumped dispersion. It can be implied that the ecosystem has been gradually degraded. Eigen and loading value from Canonical Correspondence Analysis (CCA) revealed that a gastropods community was holistically affected by pH, basal area, canopy, substrate, and TDS. The community of gastropods was influenced 62.14% by pH, and 34.29% by basal area. while the highest dominance was found in A2. The C2 site is the only site that showed us a uniform dispersion of gastropods when the other sites showed a clumped dispersion. It can be implied that the ecosystem has been gradually degraded.]]>
<![CDATA[Vaccine construction for human papilloma virus (HPV) type 16 and 18 Infection using in silico approach to combat cervical cancer ]]>
<![CDATA[Dharmawan, Muhammad Alsyifaa]]>;
<![CDATA[Ansori, Arif Nur Muhammad]]>;
<![CDATA[Dian, Farida Aryani]]>;
<![CDATA[Probojati, Rasyadan Taufiq]]>;
<![CDATA[Tamam, Muhammad Badrut]]>;
<![CDATA[Kharisma, Viol Dhea]]>
<![CDATA[ Genbinesia Journal of Biology Vol. 1 No. 1 (2021): November 2021 ]]>
Publisher : <![CDATA[Generasi Biologi Indonesia ]]>
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DOI: 10.55655/genbinesia.v1i1.3
<![CDATA[Human papillomavirus (HPV) is a virus that causes infection on the surface of the skin and has the potential to cause cervical cancer. This viral infection is characterized by the growth of warts on the skin in various areas of the body, such as the arms, legs, mouth, and genital area. Because the virus can endanger health, it is necessary to design an HPV vaccine to overcome this problem. In this study, we performed a study characterization of HPV types 16 and 18 sequences to obtain immunogenic epitopes retrieved from the National Center for Biotechnology Information (NCBI) web server. Then, epitope prediction was performed using the immune epitope database (IEDB) web server and selected to get the best vaccine candidate for HPV types 16 and 18. We recommend 16P1 as an epitope-based peptide vaccine candidate for HPV type 16 and 18P4 for type 18. Both vaccine candidates are antigenic, non-allergenic, and non-toxic. The 16P1 and 18P4 have the lowest global energy values among the other candidates. However, further research is needed to be able to develop the best vaccine (in vitro and in vivo experiments).]]>
<![CDATA[Comercial yeast samples DNA extraction using universal kit ]]>
<![CDATA[Robiatush Sholichah Arrohmah]]>;
<![CDATA[Radinal Kautsar]]>
<![CDATA[ Genbinesia Journal of Biology Vol. 1 No. 1 (2021): November 2021 ]]>
Publisher : <![CDATA[Generasi Biologi Indonesia ]]>
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DOI: 10.55655/genbinesia.v1i1.4
<![CDATA[Yeast is a microorganism that is relatively difficult to obtain its DNA mass. This is caused by the content of cell walls with a thick and rigid composition, such as chitin. This study aims to provide information on the best concentration and purity of the DNA extraction results of various types of commercial yeast in different samples weight. The method used is based on Universal Kit procedure with modification. This study indicates that differences in concentration or sample weight do not affect the DNA concentration and purity ratio value of each yeast sample. Each best result obtained from Jago (Rhizopus oligosporus), Raprima (Rhizopus oligosporus) and Fermipan (Saccharomyces cerevisiae) in 50 mg sample, NKL (Saccharomyces cerevisiae) yeast in 40 mg. Recomendation weight samples to extract DNA of Rhizopus oligosporus and Saccharomyces cerevisiae isolates are between 40 mg to 50 mg. The contamination factor causes the difference in the value of purity in each sample during DNA extraction.]]>
<![CDATA[Clarias batrachus linnaeus, 1758 (siluriformes, clariidae): new records of threatened catfish from Bawean Island, Indonesia ]]>
<![CDATA[Tamam, Muhammad Badrut]]>;
<![CDATA[Ramadani, Aisyah Hadi]]>;
<![CDATA[Valen, Fitri Sil]]>
<![CDATA[ Genbinesia Journal of Biology Vol. 1 No. 1 (2021): November 2021 ]]>
Publisher : <![CDATA[Generasi Biologi Indonesia ]]>
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DOI: 10.55655/genbinesia.v1i1.5
<![CDATA[Clarias batrachus Linnaeus, 1758 is one of catfish in Indonesia. The spread of Clarias batrachus in Indonesia have generally in mainland of Sumatra, Borneo and Java. In 2019 we report for the first time the presence of C. batrachus on Bawean, a small, isolated island, conservation area in the middle of Java Sea. A description of morphological characters of a specimen are provided. Presence of C. batrachus on Bawean Island caused by the geographical reason and human introduction factors.]]>
<![CDATA[Viroinformatics study: polytope mapping of envelope glycoprotein to tackle HIV-2 infection and develop vaccine candidate ]]>
<![CDATA[Kharisma, Viol Dhea]]>;
<![CDATA[Widyananda, Muhammad Hermawan]]>;
<![CDATA[Probojati, Rasyadan Taufiq]]>;
<![CDATA[Ansori, Arif Nur Muhammad]]>;
<![CDATA[Murtadlo, Ahmad Affan Ali]]>;
<![CDATA[Tamam, Muhammad Badrut]]>;
<![CDATA[Wicaksono, Adhityo]]>;
<![CDATA[Turista, Dora Dayu Rahma]]>
<![CDATA[ Genbinesia Journal of Biology Vol. 1 No. 1 (2021): November 2021 ]]>
Publisher : <![CDATA[Generasi Biologi Indonesia ]]>
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DOI: 10.55655/genbinesia.v1i1.6
<![CDATA[Human Immunodeficiency Virus type 2 (HIV-2) has been identified to exhibit an ability to resist antiretroviral administration and many scientists has predicted increases in the pathogenicity of HIV-2. The development of a vaccine against the type 1 virus (HIV-1) infection has reached the phase 3 clinical trial stage, but currently there is no information on the development of a vaccine against HIV-2. Vaccine development to trigger an increase in the coverage of the expansion of protection can be done through B cell polytope. This study aims to provide an important preliminary for the construction of vaccine candidates by identifying the peptides that make up the B cell polytope in the HIV-2 envelope glycoprotein region. The HIV-2 sequence was obtained from the database. The study followed by 3D modelling, prediction of linear B-cell epitope mapping, antigenicity, allergenicity, peptide properties, and immune simulation was carried out via a webserver. The 3D structure of the peptide was displayed through molecular visualization software. The results showed that the 23-mer peptides E1 'HPRYTGVKNIRDITLTEPGRGSD', F1 'NFIENRKGTQHN' 12-mer, M1 'YLKDQARLNS' 10-mer, N1 'PWVNDSIQPNWNNMTWQQWELQVRD' 25-mer, and O1 'KLQNSWNMGVQTO' can be used as a candidate polytope HIV-2 vaccine because it is recognized by B cells is an antigenic peptide with stable molecule, non-allergenic. The peptides trigger proliferation and activation of B cells to produces a humoral response and work as functionally protective antibody for neutralization of HIV-2. Key words: Acquired Immune Deficiency Syndrome, B-cell, Bioinformatics, Human Immunodeficiency Virus, Retrovirus]]>
<![CDATA[Exploring active compounds of kelor (Moringa oleifera Lam.) leaves as an alternative medicine to improve immunity in facing COVID-19 via in silico study ]]>
<![CDATA[Hikam, Agus Mohammad]]>;
<![CDATA[Mubarakati, Nurul Jadid]]>;
<![CDATA[Probojati, Rasyadan Taufiq]]>;
<![CDATA[Widyananda, Muhammad Hermawan]]>;
<![CDATA[Kharisma, Viol Dhea]]>;
<![CDATA[Ansori, Arif Nur Muhammad]]>
<![CDATA[ Genbinesia Journal of Biology Vol. 1 No. 1 (2021): November 2021 ]]>
Publisher : <![CDATA[Generasi Biologi Indonesia ]]>
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DOI: 10.55655/genbinesia.v1i1.7
<![CDATA[SARS-CoV-2 is a new strain of coronavirus (CoV) that was identified in Wuhan in 2019. This virus is known to have the ability to reduce human immunity. Kelor (Moringa oleifera) is a potential natural resource in Indonesia, which is very abundant and contains several metabolic compounds such as phenolics, flavonoids, saponins, cytokines, and caffeoylquinic acid, which was reported to show antioxidants, antibacterial and antiviral. This study aims to predict the biological activity, physicochemical properties, toxicity, and affinity-interactions of the active compounds of M. oleifera leave. The active compounds of M. oleifera were obtained from the KNApSAcK and PubChem. Analysis of the bioactivity of the compounds using the Way2Drug Pass Online. Analysis of drug-likeness and toxicity using the Lipinski web server and pkCSM. Docking is done using Autodock vina software to analyze the interaction of the compounds with Mpro. The results indicate that the compound astragalin is the compound with the highest affinity value, namely -8.7 (kcal/mol), compared to lopinavir as a control compound with an affinity value -6.6 (kcal/mol). The types of bonds in astragalin compounds are hydrogen bonds with amino acids Glutamine 127 and Arginine 298. From these results, it is predicted that astragalin compounds have the highest potential as alternative drugs to increase body immunity against the COVID-19.]]>
<![CDATA[Exploring the less prominent relatives of Ficus benjamina L. in Indonesia A review on the botanical, ethnobotanical, and future perspectives of Ficus deltoidea Jack. and Ficus septica Burm.f. ]]>
<![CDATA[Raihandhany, Reza]]>;
<![CDATA[Zen, Tresa Variyani]]>
<![CDATA[ Genbinesia Journal of Biology Vol. 1 No. 2 (2022): March 2022 ]]>
Publisher : <![CDATA[Generasi Biologi Indonesia ]]>
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DOI: 10.55655/genbinesia.v1i2.9
<![CDATA[Ethnobotany plays a significant role in drug discovery. However, some species are often overlooked due to the lack of cultural importance. In this paper, we conducted a literature review on two lesser-known Ficus species in Indonesia, namely Ficus septica Burm.f. and Ficus deltoidea Jack. Compared to F. benjamina, these two species remain understudied. Our results showed that there are three recorded different uses of F. deltoidea and twelve of F. septica. The utilization of F. deltoidea is purely for ethnomedicine (100%), while F. septica is used for ethnomedicine (69%), culture (23%) and others (8%). The stems (50%) and the roots (50%) are the only plant parts utilized from F. deltoidea, while almost all plant parts of F. septica are utilized. Traditionally, F. deltoidea is used as an aphrodisiac, to treat internal diseases and wounds, and to increase stamina. Studies support the use of F. deltoidea as a cure for internal diseases and wounds as it has antimicrobial compounds. F. septica is traditionally used to cure boils, anthelmintic and fever for children, appendicitis, asthma, venomous snake bites, skin diseases, eye-redness, haemorrhoid, and tuberculosis. Studies support that F. septica could cure boils as its chemical compounds inhibit the growth of Staphylococcus aureus, the bacteria that cause boils. Furthermore, there are many other active compounds found in these species which are still understudied. Therefore, we conclude that F. deltoidea and F. septica have the potential to be used as modern medicine and require more in-depth research using the most advanced methods and technology.]]>
<![CDATA[Analysis of diversity of macrobenthos in mangrove ecosystems as a bioindicator of pollution of the Kalianget coastal area ]]>
<![CDATA[Ferdiansyah, Akhmad]]>;
<![CDATA[Ali, Mahrus]]>
<![CDATA[ Genbinesia Journal of Biology Vol. 1 No. 2 (2022): March 2022 ]]>
Publisher : <![CDATA[Generasi Biologi Indonesia ]]>
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DOI: 10.55655/genbinesia.v1i2.10
<![CDATA[Macrobenthos is a biological resource of water that lives on the bottom of the waters with characteristics that have a high level of sensitivity to changes in environmental quality as a bioindicator of pollution and environmental quality. The purpose of the study was to determine macrobenthos diversity as an indicator of pollution in the Kalianget coastal mangrove forest. Descriptive research with random sampling method with squared transects. Data collection through observation of macrobenthos populations. Research results a) the greatest diversity of macrobenthos of the class Crustaceans obtained 9 species, class Gastropods 5 species, class Bivalves found 3 species and from class Polychaeta found 1 species. b) The Macrobenthos Diversity Index on the Kalianget coast is 1.084539 with the category of moderate macrobenthos diversity, has moderate community stability and polluted waters but is still within the threshold that living things can tolerate.Diversity; Index diversity; Macrobenthos; Mangrove ecosystems]]>
<![CDATA[Characteristics of the population and habitat of Chairophon plicatus in Lowo Cave, Gresik Regency ]]>
<![CDATA[Pratama, Muhammad Iqbal]]>;
<![CDATA[Aulia, Tia]]>
<![CDATA[ Genbinesia Journal of Biology Vol. 1 No. 2 (2022): March 2022 ]]>
Publisher : <![CDATA[Generasi Biologi Indonesia ]]>
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DOI: 10.55655/genbinesia.v1i2.14
<![CDATA[Bats are one of the animals that have great environmental services. Habitat destruction is one of the reasons for the reduction in the number of bats. the study of the habitat and population of bats is important considering the damaged habitat. This research was conducted by using the caving technique and sex comparison analysis. These cave-dwelling bats occupy a humid location, lack of light and temperatures ranging from 34°C. cave-dwelling bats are dominated by females.]]>
<![CDATA[Diversity of bird species in Sandik City Park , West Lombok as ecotourism support ]]>
<![CDATA[Zulhariadi, Muhammad]]>;
<![CDATA[Amin, Saleh]]>
<![CDATA[ Genbinesia Journal of Biology Vol. 1 No. 2 (2022): March 2022 ]]>
Publisher : <![CDATA[Generasi Biologi Indonesia ]]>
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DOI: 10.55655/genbinesia.v1i2.15
<![CDATA[West Lombok is one of the areas on the island of Lombok which has a lot of tourist charm, especially natural tourism. Birdwatching is a bird watching activity that can increase environmental awareness and a source of economic income for tourism managers (ecotourism). The purpose of this study was to determine the diversity of bird species in Sandik City Park located in West Lombok. Bird observation using the Encounter Rates method. From the results of the study, 11 species of birds were found, consisting of honey-sucking, insect-eating, and grain-eating species. The value of bird species diversity was in the medium category (H'=2.28), with the highest number of birds dominated by the Passer montanus. The Scaly-crowned Honeyeater (Lichmera lombokia) is a bird typical of the island of Lombok that can be found easily along with other honey-sucking birds in the morning at Sandik City Park. The primadoma plant perch for chirping birds in the garden is the Coral Tree (Erythrina crista-galli). By knowing the level of diversity of bird species and the characteristics of their preferred habitat, it is necessary to serve as a guide for the government in managing city parks to be more friendly to animal life, especially birds. Preservation of birds that are maintained in city parks is a feature of habitat sustainability which indirectly brings economic benefits to park managers.]]>
