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INDONESIA
HAYATI Journal of Biosciences
Published by Institut Pertanian Bogor
ISSN : 19783019     EISSN : 20864094     DOI : -
Core Subject : Science, Agriculture,
Agriculture, Biological Sciences & Forestry Earth & Planetary Sciences
HAYATI Journal of Biosciences (HAYATI J Biosci) publishes articles and short communication in tropical bioscience fields such as development, biotechnology, biodiversity and environmental issues. HAYATI J Biosci covers wide range of all life forms topics including virus, microbes, fungi, plants, animal and human. HAYATI J Biosci has been also indexed/registered in Crossref, DOAJ, CABI, EBSCO, Agricola and ProQuest.
Arjuna Subject : -
Articles 1,091 Documents
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Carotenoid Assessments and Antioxidant Activities from Flower Petals Khakhanang Ratananikom; Nipa Nasinporm; Tanitpan Pongjongmit
HAYATI Journal of Biosciences Vol. 29 No. 1 (2022): January 2022
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.29.1.54-61

Abstract

The objectives of this study were to evaluate carotenoid pigment profile and the antioxidant activity from 14 commonly grown flowers in Thailand. The result found that orange marigold showed the highest total carotenoid content at as 2,209±75.58 µg/g, followed by deep yellow chrysanthemum at 551.27±47.72 µg/g (P<0.01). The next lower total carotenoid content group was found in yellow silk cotton, yellow trumpetbush, yellow marigold and yellow golden shower with total carotenoid content of 447.42±27.56, 429.46±28.34, 409.85±34.58 and 363.88±12.74 µg/g, respectively. The highest antioxidant activities against DPPH and ABTS radicles were found from orange marigold, which were 32.34±2.16 and 50.08±0.87%, respectively. Deep yellow chrysanthemum, yellow silk cotton, yellow trumpetbush, yellow marigold and yellow golden shower also showed significantly higher antioxidant activities than other flowers (P<0.01). Total carotenoid contents well correlated with antioxidant activities against DPPH and ABTS radicals (r = 0.6924 and r = 0.8270, respectively) at P<0.01. TLC result elucidated that orange marigold, yellow silk cotton and yellow golden shower were a good source of β-carotene, while deep yellow chrysanthemum and yellow marigold were a good source of lutein and/or zeaxanthin. The result indicated that flower petals would be useful as natural carotenoid source and provide antioxidants for food industry.
Genipin Crosslinked Blended Collagen-Chondroitin: A Promising Biomaterial Scaffold Candidate for Cartilage Reconstruction Trimartani Trimartani; Normalina Sandora; Bambang Hermani; Jeanne A Pawitan; Raden Ayu Anatriera
HAYATI Journal of Biosciences Vol. 29 No. 2 (2022): March 2022
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.29.2.122-128

Abstract

Tissue engineering offers a solution to the shortage of materials for cartilage reconstruction surgery by providing various potential biomaterial scaffolds. Tissue engineering utilizes biological or synthetic biomaterials as a scaffold for the host cells to repopulate and regenerate the tissue. The natural biomaterials such collagen and chondroitin imitates native cartilage matrix composition. Genipin as one of natural crosslinkers was added to improve the matrix biomechanical properties. This study was done to investigate biocomposition of blended collagen type 1, collagen type 2, chondroitin sulphate (Col1-Col2-CS) and genipin for its cytotoxicity using human umbilical mesenchymal stem cells (hUCMSCs), surface morphology, and biochemical composition. Genipin-crosslinked collagen-chondroitin biocomposite showed a homogeneous shape while uncrosslinked biocomposite had rough surface and fibrillar folds size. Spectroscopy demonstrated both biocomposites had similar peak resemble to no alternation of the biocomposition by crosslinking. Both types of biocomposites were biocompatible and had no toxic effects, as compared to the cell colony only (p value = 0.26). The conclusion are blended composite of collagen chondroitin crosslinked with genipin had generated a fine microstructure scaffold with smaller pore size, had similar biomolecular component spectrum absorption, and no exhibition of residual toxicity.
Role of Fe2+-dependent Reaction in Biodecolorization of Methyl Orange by Brown-rot Fungus Fomitopsis pinicola Adi Setyo Purnomo; Asranudin; Nela Rachmawati; Hamdan Dwi Rizqi; Refdinal Nawfa; Surya Rosa Putra
HAYATI Journal of Biosciences Vol. 29 No. 2 (2022): March 2022
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.29.2.146-154

Abstract

The involvement of Fenton reaction on biodegradation of methyl orange (MO) by brown-rot fungus Fomitopsis pinicola was investigated based on Fe2+-dependent reaction. The degradation of MO (final concentration 75 mg/L) was performed in mineral salt media with and without Fe2+ with incubation period at 0, 7, 14, 21, and 28 days. Degradation analysis was performed using UV-Vis Spectrophotometer and LC-TOF/MS. F. pinicola decolorized MO in a medium containing Fe2+ and a medium that lacked the mineral, at percentages of 89.47% and 80.08%, respectively. The optimum decolorization occurred after 28 days of incubation with the fungus on the presence of Fe2+, indicated that the presence of Fe2+ enhanced MO degradation with assumed to correlate with Fenton reaction. Two metabolites were detected through the LC-TOF/MS analysis, namely 4-(2-(4-(dimethyliminio)-2-hydroxycyclohexa-2,5-dien-1-ylidene) hydrazinyl) phenolate (m/z 258, RT: 1.28 min, compound 1) and 4-(2-(4-(dimethyliminio) cyclohexa-2,5-dien-1-ylidene) hydrazinyl) benzenesulfonate (m/z 391, RT: 2.70 min, compound 2). Compound 1 was a transformation product of hydroxylation and methylation, compound 2 was a product of dehydroxylation and desulfonation. This study indicated that the transformation of the metabolite structures was involved hydroxyl radical (OH.) and enzymatic mechanisms, which involved Fe2+-dependent reaction.
Characteristics and Activity of Anti Qourum Sensing Bacillus spp. Isolated from Penaeus vannamei Shrimp Ponds Iman Rusmana; Yuni Puji Hastuti; Rizal Khoirun Alfisah; Alina Akhdiya
HAYATI Journal of Biosciences Vol. 29 No. 1 (2022): January 2022
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.29.1.97-106

Abstract

Certain strains of V. parahaemolyticus carry a gene that encodes a toxin that causes Acute hepatopancreatic necrosis disease (AHPND) in P. vannamei. AHPND attacks shrimp post larvae within 20-30 days after stocking causing up to 100% mortality. The expression of these virulent genes is controlled by the quorum sensing system. This system is inhibited by an anti-quorum sensing (AQS) mechanism. Several Bacillus strains have AQS mechanism by producing AHL-Lactonase enzyme. Therefore, this study aimed to obtain Bacillus spp. having AQS activity for controlling AHPND. The study was conducted from isolation and selection of Bacillus isolates, as well as determination of AQS activity. From 22 samples consisting of shrimp intestines, water and pond sediment samples, a total of 151 isolates of Bacillus spp. were isolated. The screening test for AQS activity obtained 11 isolates that showed AQS activity on Cromobacterium violaceum. Determination of violacein pigment in liquid cultures of C. violaceum showed the index value of the pigment formation was between 0.025-0.166 and 0.026-0.567 at 24-hour and between 48-hour incubations, respectively. The quantitative analysis of violacein production showed that there were six isolates of Bacillus could inhibit the pigment production more than 75%. The isolates were identified as Bacillus cereus (four isolates), Bacillus thuringiensis (one isolate), and Bacillus velezensis (one isolate), respectively. The molecular analysis had confirmed that the isolates have aiiA genes encoding AHL-lactonase enzyme. These Bacillus isolates have potential application for controlling AHNPD disease.
Application of Environmental DNA (eDNA) Metabarcoding Method to Identify Threatened Sulawesi Mammal Based on 12S rRNA Gene Bambang Suryobroto; Ahmad Abdul Jabbar; Puji Rianti
HAYATI Journal of Biosciences Vol. 29 No. 1 (2022): January 2022
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.29.1.114-121

Abstract

Species detection and identification is a crucial steps in biodiversity assessment. Traditional methods are often invasive and resource intensive. The number of studies demonstrating successful of eDNA metabarcoding approach in species identification has increased rapidly in recent years. Some of large terrestrial mammals have reportedly utilize natural salt licks as a source of minerals in the diet and its genetic material left in the environment can be used to identify species from this site. An eDNA metabarcoding protocol had been carried out to identify Sulawesi mammals from Adudu natural salt-licks, Nantu Wildlife Reserve, Gorontalo. Environmental DNA were extracted from water samples, Amplicon libraries were prepared by PCR amplification and Illumina MiSeq high throughput sequencing. Reads processing and taxonomic assignment carried out in two bioinformatics packages, PipeCraft-1.0 and OBITools-2.11. Two endangered Sulawesi mammals species had been identified, i.e. lowland anoa (Bubalus depressicornis) and babirusa (Babyrousa babyrussa). The accuracy of mammal species identification using eDNA metabarcoding is affected by rigorous experimental procedures, DNA marker reliability, and availability of reference sequence database.
Intra- and Interspecies Wing Venation Variations of Apis cerana and Apis nigrocincta Species in Indonesia Nisfia Rakhmatun Nisa; Berry Juliandi; Rika Raffiudin; Jauharlina Jauharlina; Mahardika Gama Pradana; Araz Meilin; Jasmi Jasmi; Yulia Pujiastuti; Puji Lestari; Fahri Fahri; Windra Priawandiputra; Tri Atmowidi
HAYATI Journal of Biosciences Vol. 29 No. 2 (2022): March 2022
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.29.2.222-233

Abstract

Apis cerana has a wide distribution in Asia, including Sundaland, and is currently found in Wallacea, while the sister species, A. nigrocincta, is native in Sulawesi. The wide geographic distribution and the island isolation led to form morphological differences in the bees. The morph and wing venations are known to have a high genetic inheritance. Therefore, this research aimed to (1) analyze the landmark variation of wing venations of A. cerana from Sundaland and Wallacea, and A. nigrocincta from Sulawesi, (2) determine the relationship between these two bee species. The research was conducted by digitizing 550 wing venations based on nineteen landmarks. Our study on intraspecies showed that A. cerana Sumatra revealed a high variation in bending energy. Overall, the deformation grid of A. cerana from Sundaland has higher displacement than those from Wallacea, meaning higher variations of the Sundaland A. cerana. We found geometric morphometric markers of landmarks 16 and 17 in intraspecies and interspecies bees. Thus, these landmarks known as a cubital index can be used for species identification. The differentiation of interspecies has been shown in the PCA. Apis nigrocincta was separated from the single group of the centroid A. cerana and was supported by the Neighbor-Joining tree.
Aeromonas hydrophila AHL 0905-2 and Streptococcus agalactiae N14G as Combined Vaccine Candidates for Nile Tilapia Nunak Nafiqoh; Hessy Novita; Desy Sugiani; Lila Gardenia; Taukhid Taukhid; Arynta Widyaningrum; Dine Resti Susanti
HAYATI Journal of Biosciences Vol. 29 No. 2 (2022): March 2022
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.29.2.137-145

Abstract

In Indonesia, the Nile tilapia (Oreochromis niloticus) is the most widely farmed and available fish for consumption. Production loss due to bacterial infection by Aeromonas hydrophila and Streptococcus agalactiae is the main problem in tilapia cultivation. This study aimed to determine the occurrence of concurrent infection of Aeromonas hydrophila AHL 0905-2 and Streptococcus agalactiae N14G in Nile tilapia based on biochemical and molecular characteristics. From the results of biochemical assay and sequence analysis of the 16S rRNA fragment, Aeromonas hydrophila and Streptococcus agalactiae were confirmed. Genes for aerolysin (417 bp), nuclease (504 bp), lipase (155 bp), and serine protease (211 bp) were found in Aeromonas hydrophila AHL 0905-2, while Streptococcus agalactiae N14G was determined as a 1b serotype group that had genes for CPS L (688 bp), CPSG (621 bp), and CPS J (272 bp). The confirmation in tilapia of Aeromonas hydrophila and Streptococcus agalactiae by PCR and sequencing is important for enabling the detection of these organisms and also for the development of a combined vaccine to tackle co-infection.
Genetic Diversity and Population Structure of Canarium tramdenum Dai and Yakovl. in Northern Vietnam Phi Hong Hai; Nguyen Thi Huyen; Ha Thi Huyen Ngoc; Tran Thi Thu Ha; Nguyen Thi Viet Ha; La Anh Duong; Pham Huu Thuong; Alice Muchugi; Le Son
HAYATI Journal of Biosciences Vol. 29 No. 2 (2022): March 2022
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.29.2.129-136

Abstract

Canarium tramdenum occurs naturally in subtropical and tropical regions of Indochina and China. The wood is used for making high quality furniture and the fruit and leaves are used in traditional medicine. However, a lack of information on genetic diversity and population structure has handicapped the genetic conservation and domestication of this high-value species. This study evaluated genetic variation within and among four C. tramdenum populations. Sixty individuals were collected from four natural populations in Vietnam in the provinces of Ninhbinh, Bacgiang, Nghean, and Backan. Genetic diversity and genetic structure were determined using 20 ISSR markers. A total of 192 DNA fragments with sizes ranging from 110 bp to 3,000 bp were detected, of which 154 segments (80.2%) were polymorphic and 38 segments (19.8%) were monomorphic. The ISSR data indicated a moderate degree of genetic diversity for the species (h = 0.252). The four populations were separated into three genetic clusters with low levels of genetic distance between them. AMOVA result showed that most (78%) of the genetic variation was within the populations. The moderate to high genetic diversity of C. tramdenum and the low genetic differentiation among populations suggested that all existing natural populations in the particular regions needed to be preserved to protect the genetic diversity of this species.
Overproduction, Purification and Refolding of codon-optimized Hepatitis B Virus X Protein Subgenotype B3 in Escherichia coli BL21(DE3) Anita Artarini; Armini Syamsidi; Anindyajati Anindyajati; Raymond R. Tjandrawinata; Debbie S. Retnoningrum
HAYATI Journal of Biosciences Vol. 29 No. 2 (2022): March 2022
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.29.2.164-170

Abstract

Hepatitis B virus (HBV) infects human and causes chronic liver infection, leading to liver cirrhosis and hepatocellular carcinoma. HBV X (Hbx) protein is known to interact with tumor suppressor protein p53 and block its translocation into the nucleus. This study outlines the overproduction of Hbx protein from HBV subgenotype B3 in Escherichia coli BL21(DE3), including its purification and refolding. The gene encoding Hbx was first codon-optimized and inserted into pET16b. The recombinant plasmid was then transformed into E. coli BL21(DE3) as an expression host. Optimization of Hbx expression was performed with variation of IPTG concentration and overproduction temperature. The results showed that Hbx protein was optimally induced by 0.075 mM IPTG and overproduction of Hbx at 17, 25, and 37°C exhibited no difference in protein level and location. The optimal refolding of Hbx was obtained using 0.1 M arginine prior to elution from Nickel column using 100 mM imidazole and 0.25 M arginine. Hbx migrates differently in SDS-PAGE reducing and non-reducing, while the melting curve pattern in TSA analysis changed after the refolding step. Essentially, this purified Hbx protein could potentially be used for interaction study with p53 and the inhibitor candidate of the protein.
The Fishing Grounds and the Exploitation Status of Kawakawa (Euthynnus affinis) in Java Sea, Indonesia Siti Mardlijah; Andina Ramadhani Putri Pane; Moh Fauzi; Helman Nur Yusuf; Heri Widiyastuti; Herlisman Herlisman; Achmad Zamroni; Tegoeh Noegroho; Hufiadi Hufiadi; Karsono Wagiyo
HAYATI Journal of Biosciences Vol. 29 No. 2 (2022): March 2022
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.29.2.255-265

Abstract

Kawakawa (Euthynnus affinis) is one of the highly favored mackerel tunas caught in Java Sea. The increase in demand due to local consumption and export eventually increases fishing that is proportional to the exploitation status. To maintain the fish resource, a scientific study should be carried out on the fishing grounds and the exploitation status of kawakawa. This study was carried out for 3 years, i.e. in March to October 2017, June to December 2018, and February to November 2019 at Pekalongan National Fishing Port in Pekalongan, Central Java, with 9,511 fish as the study objects. The data analysis was carried out by observing the fishing grounds using GPS and through interview. In addition, the exploitation status was analyzed using FISAT II application and ELEFAN program. The fishing grounds were mostly coastal waters with 15–55 cm sized kawakawa. The size of the first caught (Lc) of the kawakawa in this area ranged from 26.9 cm to 38.4 cm. The fish recruitment occurred all year long, peaking in Apr at 15.97% and Juli 13.62%.The fish natural mortality (M) was smaller than its fishing mortality (F), while its exploitation status was 0.66 (overfished), meaning that the current fishing efforts should be reduced by 32%. The other management efforts that can be carried out are among others conservation, keeping the fishing grounds outside the spawning grounds, and controlling the mesh size.

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