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Journal of Tropical Life Science : International Journal of Theoretical, Experimental, and Applied Life Sciences
Published by Universitas Brawijaya
ISSN : 20875517     EISSN : 25274376     DOI : -
Core Subject : Agriculture, Social,
Agriculture, Biological Sciences & Forestry Environmental Science
The Journal of Tropical Life Science (JTLS) provides publication of full-length papers, short communication and review articles describing of new finding or theory in living system, cells and molecular level in tropical life science and related areas. The journal publishes articles that report novel findings of wide Tropical Life system phenomenon in the areas of biodiversity, agriculture, fisheries, health, husbandry, forestry and environmental technology. JTLS has 1 volume with 3 issues per year.
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Articles 20 Documents
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Search results for , issue "Vol. 15 No. 1 (2025)" : 20 Documents clear
Daruju (Acanthus ilicifolius L.) May Exhibit Anti-Breast Cancer Activity Through Inhibition of Proliferation Regulators: A Computational Study: Daruju (Acanthus ilicifolius L.) as Anti-Breast Cancer Agent Rosyadah, Nuraini; Kamila, Fairuz Sarah; Hermanto, Feri Eko; Widyananda, Muhammad Hermawan; Grahadi, Rahmat; Dwijayanti, Dinia Rizqi; Widodo, Nashi; Ulfa, Siti Mariyah
Journal of Tropical Life Science Vol. 15 No. 1 (2025)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/

Abstract

Breast cancer's increasing prevalence globally underscores the urgent need for effective and gentle therapies, positioning the exploration of herbal remedies as a critical pursuit. Daruju (Acanthus ilicifolius L.) emerges as a compelling candidate due to its inherent bioactive components. This research pioneers the application of advanced computational techniques to unveil the latent anti-breast cancer potential within A. ilicifolius. Our in-silico investigation commenced by cataloging A. ilicifolius compounds using the KNApSAcK database and existing literature. These compounds underwent rigorous screening for drug-like characteristics via SWISS-ADME and potential biological activity using PASS ONLINE. Protein targets relevant to breast cancer were predicted through SWISS Target and the STRING database, integrated with Cytoscape for network visualization. Molecular docking, performed with PyRx 0.8, assessed the binding strength between the identified compounds and target proteins, with the most promising interactions selected for further scrutiny. The stability of these crucial interactions was then evaluated through molecular dynamics simulations using YASARA. This comprehensive computational strategy aims to pinpoint potential anti-breast cancer agents derived from A. ilicifolius. Initial analysis of 17 compounds from A. ilicifolius, based on chromatography, databases, and prior studies, narrowed down to five that adhered to Lipinski’s Rule of Five for drug-likeness: 4-O-beta-D-glucosyl-4-coumaric acid, (-)-lyoniresinol, α-amyrin, adenosine, and p-coumaric acid. These compounds were predicted to directly interact with key breast cancer-related proteins across pathways like estrogen signaling, JAK/STAT, and PI3K/AKT. Notably, molecular docking revealed strong binding affinities for α-amyrin with CDK4, ER, and EGFR (-7.5 kcal/mol, -9.5 kcal/mol, and -8.7 kcal/mol, respectively), comparable to known inhibitors. Molecular dynamics simulations further corroborated the stability of these complexes, analyzing RMSD and binding affinity parameters. Consequently, α-amyrin stands out as a promising anti-breast cancer agent within A. ilicifolius, exhibiting potential to inhibit proteins crucial for breast cancer cell proliferation and survival, including CDK4, ER, and EGFR.
Bioinformatics study of GATA family in Amaranthus hypochondriacus: Identification, Characterization, and Expression Profiles: Investigation of the GATA family in grain amaranth at the genome-wide scale Vu, Xuan Duong; Le, Man Thi; Le, Quynh Thi Ngoc; Chu, Ha Duc; La, Hong Viet; Huy Gioi, Dong; Tran, Huyen Thi Thanh; Cao, Phi Bang
Journal of Tropical Life Science Vol. 15 No. 1 (2025)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/

Abstract

GATA transcription factors (TFs) play critical roles in regulating various physiological and biochemical processes in plants. However, their functions in grain amaranth (Amaranthus hypochondriacus) remain unexplored. This study identified and characterized 23 GATA TFs (AhGATAs) in grain amaranth through genome-wide bioinformatics analysis. The gene structure, gene duplication, phylogenetic analysis, and protein features were performed. As a result, the AhGATA TF family in grain amaranth exhibited diverse gene structures, including variations in exon-intron organization, with the number of exons ranging from one to eleven. We also found that the AhGATA TF family in grain amaranth could be grouped into four different clades as similar to other higher plant species. Next, the recent RNA-Seq dataset was explored to re-analyze the transcriptional changes of the AhGATA genes in several main organs during the growth and development of grain amaranth plants. We proposed four AhGATA genes, including AhGATA01, 05, 13, and 19, which were exclusively expressed in at least one major organ, such as stems, roots, leaves, maturing seeds, flowers, immature seeds, and green cotyledons. In summary, this current study could provide the basis for further exploration of the GATA gene family functions in plants and enhance our understanding of cellular regulation in plant defense mechanisms.
A New Record of Flathead Lobster Thenus indicus Leach, 1816 in Kota Kinabalu, Sabah (Malaysia) Based on Morphology and Genetic Identification, with Global Distribution Checklist: Thenus indicus in Sabah, Malaysia Radzi, Ihsan Hani; Chen, Cheng-Ann; Hajisamae, Sukree; Daning Tuzan, Audrey; Teng, Sing Tung
Journal of Tropical Life Science Vol. 15 No. 1 (2025)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/

Abstract

Members of the genus Thenus Leach 1816, commonly known as flathead lobsters, are significant contributors to global slipper lobster fisheries.  This study presents the first record of Thenus indicus Leach, 1816 (Crustacea: Decapoda: Scyllaridae) in Kota Kinabalu, Sabah, Malaysia, extending its known distribution to East Malaysia. Prior reports of T. indicus had only been confirmed in Peninsular Malaysia. Species identification was confirmed by mitochondrial DNA cytochrome c oxidase subunit 1 (CO1) sequencing, and morphological examination revealing a lack of spotting on the pereiopods, characteristic setaetion pattern of the second pereiopods, and prominent dentate features of the third maxillipeds. The third pereiopod merus length (ML3) was more than 0.45 times the carapace length (CL), which fulfilled one of the morphometric ratios for identification of this species. Intraspecific p-distances (0.0 – 2.51%, N=10) compared with GenBank reference sequences further validated this finding. A checklist and global map are included to illustrate updated T. indicus distributions. This report enhances the biodiversity and fisheries records of flathead lobsters within Southeast Asia, ensuring better resource management and conservation efforts.
Diversity and Correlation Analysis of Sweet Potatoes (Ipomoea batatas L.) Resulting from an Open Cross with Beta-2 Female Parents for High Yield and Orange Flesh Color: Diversity and Correlation Analysis of Ipomoea batatas L. Ratna Dewi; Mustika Adzania Lestari; Desi Maulida; Siti Novridha Andini; Septiana
Journal of Tropical Life Science Vol. 15 No. 1 (2025)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/

Abstract

Orange-fleshed sweet potatoes (OFSP) is rich in ß-carotene, an important source of pro-vitamin A. The availability of Orange-fleshed sweet potatoes varieties in Indonesia is still limited. For this reason, it is necessary to develop new and superior sweet potato varieties with an orange flesh color and high yielding. Crossing sweet potatoes is a fundamental method for producing new and diverse varieties. This study aimed to assess the diversity and kinship of sweet potatoes resulting from open crosses of 32 clones BOP at the Lampung State Polytechnic experimental garden in pursuit of high yields and orange flesh color. PCA, correlation analysis, and cluster analysis analyzed collected data. The results showed that 4 main components accounted for 72.80% of the total variance. Among the characteristics observed, the weight of large storage root, number of large storage roots, and weight of total storage root exhibited strong correlations, signifying their significant contributions to high diversity. Furthermore, 10 strains demonstrated high yield potential, namely BOP-1, BOP-3, BOP-4, BOP-6, BOP-8, BOP-33, BOP-36, BOP-42, BOP-43, and BOP-73 showcasing such traits. The cluster analysis of the 32 BOP clones, with a similarity level set at 65%, resulted in 4 distinct cluster groups based on the observed characteristics. The significant contribution to diversity, strong correlations among the traits, and cluster group differences among the clones have valuable implications for the selection in developing new sweet potato varieties process. Therefore, the selection process can be more efficient and effective.
Haplotype diversity of Nemacheilus pfeifferae on the two sides of the Bukit Barisan Mountain Range, West Sumatra: Haplotype diversity of Nemacheilus pfeifferae Aidil, Dyta Rabbani; Roesma, Dewi Imelda; Tjong, Djong
Journal of Tropical Life Science Vol. 15 No. 1 (2025)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/

Abstract

Nemacheilus pfeifferae is one of the native species from Sumatra Island. The previous morphological study on Nemacheilus pfeifferae from several locations on the two sides of the Bukit Barisan Mountain Range, West Sumatra, showed a significant differentiation. The Bukit Barisan Mountain Range is considered to contribute to that differentiation. This hypothesis was tested by identifying the haplotype diversity of N. pfeifferae from the two sides of the Bukit Barisan Mountain Range using the cytochrome b gene from mitochondrial DNA. The samples were collected from seven geographical populations consisting of four rivers flowing west and three rivers flowing east of the Bukit Barisan Mountain range. The tissue samples were DNA extracted, DNA amplified, DNA sequenced, and analyzed using molecular software. Overall, the result showed that N. pfeifferae from West Sumatra has a sequence divergence of 0.6%-5.5%. No haplotypes were shared between populations of N. pfeifferae from West Sumatra. N. pfeifferae in West Sumatra has high haplotype diversity and moderate nucleotide diversity. The sequence divergences of N. pfeifferae within the western populations are higher than in the eastern populations. Nemacheilus pfeifferae from the western part of Bukit Barisan has high sequence divergences (2.9%-4.8%) with the eastern part of Bukit Barisan. The phylogenetic tree shows the separation of N. pfeifferae populations on the two sides of the Bukit Barisan Mountain Range. Nemacheilus in Asia forms a polyphyletic group supported by a high bootstrap value. The Bukit Barisan Mountain Range has played a significant role in the presence of genetic variation
Genetic Diversity of Porang (Amorphophallus muelleri Blume) in Malang, East Java based on Morphology and Molecular Markers (ITS2, trnL, and matK): Genetic Diversity of Amorphophallus muelleri Blume in Malang Nensy Marantika, Riza; Arumingtyas, Estri Laras; Azrianingsih , Rodiyati
Journal of Tropical Life Science Vol. 15 No. 1 (2025)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/jtls.15.01.07

Abstract

Porang (Amorphophallus muelleri) is an herbaceous plant belonging to the Araceae family that is distributed in Java, including the Malang region. This study aimed to determine the morphological and genetic variation of porang in the Malang region based on ITS2, trnL, and matK molecular markers. Porang samples were collected from seven populations in Malang district, i.e., Kasembon, Ngantang, Pujon, Dampit, Kalipare, Pagak, and Bantur. Observa-tions of porang included 27 morphological traits, and young leaves were ob-tained for DNA extraction. Then, ITS2, trnL, and matK were amplified using a specific primer pair. Morphological traits exhibited similarity in color, surface, shape, and petiole pattern, while differences were apparent in morphological size parameters. Porang petiole of all the populations in Malang is green with a white prismatic pattern and linear lines. The 438 bp ITS2 sequences con-tained 390 bp invariable sites and 48 bp variable sites, whereas the 555 bp trnL intron sequences consisted of 511 bp invariable sites and 44 bp variable sites, and the 738 bp matK sequences comprised 713 bp invariable sites and 25 bp variable sites. The ITS2 sequences of the seven porang populations had the highest number of variable sites compared with the trnL and matK sequences. The total number of haplotypes based on ITS2, trnL, and matK was 11, with a haplotype diversity value of 1.00. Haplotype 1–7 were A. muelleri, haplotype 8 was A. paeoniifolius, and haplotypes 9, 10, and 11 were A. bulbifer, A. konjac, and A. sumawongii, respectively (from Genbank). Fur-thermore, phylogenetic analysis using Maximum Likelihood, Neighbor Joining, and Maximum Parsimony based on the ITS2, trnL, and matK sequences showed consistent clades. Clade 1 comprises A. muelleri, which is divided into 3 subclades. Subclade 1 comprises Kasembon, Ngantang, Pagak, Dampit, subclade 2 comprises Kalipare and Pujon, and subclade 3 is Bantur. Clade 2 is A. bulbifer, and clade 3 consists of outgroups.
Unraveling Genetic Relationship and Morphological Divergence of Rasbora tornieri (Ahl, 1922) across Sumatra Island: Genetic and Morphological Study of Rasbora tornieri Prawira, Furqan; Syaifullah; Tjong, Djong; Aadrean; Maideliza, Tesri; Roesma, Dewi
Journal of Tropical Life Science Vol. 15 No. 1 (2025)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/

Abstract

Previous research indicates that the genetic diversity of Rasbora tornieri (Ahl, 1922) from the Musi River population in South Sumatra is notably low compared to populations from Borneo. Historical river connections between Sumatra and Borneo likely influence this low genetic diversity. However, the distribution of Rasbora tornieri across multiple geographic locations in Sumatra may contribute to significant genetic and morphological variations within this species. This study aims to elucidate the phylogenetic relationships and morphological variation of Rasbora tornieri across its known distribution in Sumatra. A comprehensive approach integrating molecular and morphological analyses was employed. Mitochondrial genes, Cytochrome c Oxidase subunit 1 (COI, 655 bp) and Cytochrome B (Cyt B, 629 bp), were sequenced, and morphological assessments were conducted. Phylogenetic and genetic diversity analyses revealed high genetic differentiation among populations. Morphological variations were statistically supported by the Mann-Whitney test, Principal Component Analysis (PCA), and Unweighted Pair Group Method with Arithmetic Mean (UPGMA) clustering, further highlighting population divergence. These findings indicate that geographic isolation and environmental factors influence the genetic and morphological diversity of Rasbora tornieri. Understanding these variations is crucial for conservation efforts, particularly amid habitat degradation and overfishing. This study provides valuable insights into freshwater fish biodiversity in Southeast Asia
DNA Barcoding and eDNA Metabarcoding for Identification Species: A Case Study (West Sumatra): DNA barcoding and eDNA metabarcoding Roesma, Dewi Imelda; Tjong, Djong Hon; Syaifullah, Syaifullah; Nofrita, Nofrita; Janra, Muhammad Nazri; Aidil, Dyta Rabbani; Prawira, Furqan Dwiki Lintang; Salis, Viola Mutiara
Journal of Tropical Life Science Vol. 15 No. 1 (2025)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/

Abstract

The biodiversity of freshwater fish is important to study because there is data and information that remain undiscovered. The waters of Sumatra, especially West Sumatra, are areas with high freshwater fish diversity but have limited information. Providing information and genetic data has become one of the important things to conduct. DNA barcoding and eDNA metabarcoding have become molecular methods for identifying species and providing information about the presence of species in a region. A study using DNA barcoding and eDNA metabarcoding was conducted on freshwater fish in several locations in West Sumatra. Isolation and amplification of DNA were performed directly on individual samples and sequenced using conventional methods (Sanger sequencing) to generate DNA barcodes. Water samples were collected (2 liters) at each location using a sterile bottle. The water samples were filtrated, isolated, and amplified using universal primer and sequenced with next-generation sequencing techniques. The study successfully collected 25 species belonging to 14 genera, 2 families, and 1 order. A total of 134 sequences from West Sumatra with a length of 648-670 bp were analyzed. All DNA barcodes were submitted to the BOLD System and GenBank, NCBI. The mean Kimura two-parameter model (K2P) genetic distances within species, genera, families, and orders were 0.7%, 8.3%, 15.8%, and 21.3%, respectively. The eDNA metabarcoding technique has successfully detected three native fish species in the waters of West Sumatra (Barbonymus schwanefeldii, Mystacoleucus padangensis, and Rasbora jacobsoni). The availability of fish DNA barcodes in reference databases is crucial for the success of identification using eDNA metabarcoding. Combining identification using conventional methods and eDNA metabarcoding can provide more reliable results and become a reference for future freshwater monitoring.
Identification of Bacterial Isolates from Mozzarella Cheese Whey Using 16S rDNA and Assessment of Their Consortium Proteolytic Activity: Identification and Protease Activity of Cheese Whey Bacteria Maulidiyah, Nuris; Ardyati, Tri; Dwi Jatmiko, Yoga
Journal of Tropical Life Science Vol. 15 No. 1 (2025)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/jtls.15.01.15

Abstract

Cheese whey is the main waste from cheese production, which contains high levels of protein, lactose, and minerals. However, if not properly managed, its acidic pH and high organic load can negatively impact the environment when discharged directly. Its protein content makes it a habitat for proteolytic bacteria that are capable of producing protease enzymes to hydrolyze proteins into peptides and amino acids. Moreover, the utilization of proteolytic bacteria from cheese whey offers a biotechnological solution for waste management while opening up opportunities for industrial applications, such as fermentation and the production of functional enzymes. The aim of this study is to analyze the protease activity of single bacterial isolates and bacterial consortia isolated from cheese whey and identify isolates based on 16S rDNA. The first stage of the research was screening pathogenicity based on hemolysis analysis using a blood agar medium. The second stage tested for synergism among isolates. The ability of isolates to produce proteolytic enzymes qualitatively and quantitatively, and then the identification of proteolytic bacterial species based on 16S rDNA. Hemolysis assay of eight isolates resulted in three isolates (A8, C7, and C8) showing gamma hemolysis. The protease activity assay of three isolates was measured at an incubation period of 0-72 hours; the consortium (cn) isolate exhibited the highest activity of 0.47 U/mL U/mL. Based on the 16S rDNA sequence, isolate A8 was identified as Staphylococcus saprophyticus 36QC2CO with a similarity of 98.04%, isolate C7 was identified as S. saprophyticus WWi54 with a similarity of 97.81%, and isolate C8 was identified as Staphylococcus epidermidis 2322 with a similarity of 97.6%.
In Silico Screening of Medicinal Plant-Derived Compounds Against Spodoptera litura: In Silico Screening of Medicinal Plant-Derived Compounds Against Spodoptera litura Jiang, Yingying; Kuppusamy Alagesan, Paari
Journal of Tropical Life Science Vol. 15 No. 1 (2025)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/jtls.15.01.20

Abstract

Spodoptera litura (Lepidoptera: Noctuidae) is a major agricultural pest in the Asia-Pacific region, causing significant crop damage. Current pest control strategies heavily rely on chemical pesticides, leading to environmental concerns and rapid resistance development. Molecular docking and molecular dynamics studies were used to investigate bio-compounds from three medicinal plants - Vitex negundo, Artemisia nilagirica, and Portulaca oleracea—as potential eco-friendly pest management alternatives. Gas chromatography-mass spectrometry (GC-MS) analysis identified 28 phytochemicals, of which 14 conformed to Lipinski’s Rule of Five, which were selected as ligands. Molecular docking simulations were conducted to evaluate ligand interactions with four key target proteins in Spodoptera litura: acetylcholinesterase (AChE), carboxylesterase (CES), ecdysone receptor (EcR) and juvenile hormone (JH). Among the tested compounds, oxalic acid, 6-ethyloct-3-yl hexyl ester, and (11Z)-13-methyl-11-tetradecenyl acetate exhibited the highest binding affinities (-8.4 to -6.5 kcal/mol), suggesting their potential as inhibitory agents. Normal mode analysis (NMA) revealed low eigenvalues of the complexes, ranging from 9.699226×10-5 to 3.071589×10-4, indicating flexibility and requiring minimal energy for conformational changes. Deformability was highest in hinge regions, while variance analysis confirmed inverse proportionality across the complexes. The B-factor graph highlighted stable mobility and the root mean square (RMS) of the 3D conformer structures. Elastic network graphs displayed residue interactions as dots, with darker grey areas signifying greater stiffness. ADME/T analysis showed that these compounds possess favorable pharmacokinetic properties, including efficient absorption and metabolism, while exhibiting no significant risks of mutagenicity or cardiotoxicity. These findings further support the suitability of Oxalic acid, 6-ethyloct-3-yl hexyl ester, and (11Z)-13-Methyl-11-tetradecenyl acetate as promising candidates for advancing sustainable and eco-friendly pest management approaches. Furthermore, the potential of identified plant-derived compounds as novel biopesticides contributes to sustainable and environmentally responsible pest management strategies.

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