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INDONESIA
Journal of Tropical Biodiversity and Biotechnology
Published by Universitas Gadjah Mada
ISSN : 25409573     EISSN : 25409581     DOI : -
Core Subject : Science, Agriculture, Social,
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Environmental Science Immunology & microbiology
Journal of Tropical Biodiversity and Biotechnology (JTBB) is an authoritative source of information concerned with the advancement of tropical biology studies in the Southeast Asia Region. It publishes original scientific work related to a diverse range of fields in tropical biodiversity, functional biology, and biotechnology.
Arjuna Subject : -
Articles 15 Documents
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Search results for , issue "Vol 6, No 2 (2021): August" : 15 Documents clear
Stable Transformant of Phalaenopsis amabilis Somatic Embryo Carrying 35S::AtRKD4 Develops Into Normal Phenotype of Transgenic Plant Naufal Ghozi Aditya Perdana; Windi Mose; Muhammad Dylan Lawrie; Jose Gutierrez-Marcos; Endang Semiarti
Journal of Tropical Biodiversity and Biotechnology Vol 6, No 2 (2021): August
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.59210

Abstract

Phalaenopsis amabilis (L.) Blume orchid is an Indonesian national flower. The number of these orchids in their natural habitat is very limited, therefore plant propagation efforts are needed. One of the promising methods is plant propagation by inserting embryo gene AtRKD4 from a model plant Arabidopsis thaliana into the orchid genome to produce many somatic embryos. From previous research, we have obtained 28 plant P. amabilis transformants carrying the AtRKD4 gene, however, it was unknown whether these plants have normal phenotypes and growth similar to their parents. Therefore, descriptions on growth and morphology are needed. This research aimed to evaluate the phenotype of P. amabilis carrying 35S::AtRKD4 the transformants grown in greenhouse. To achieve it, AtRKD4 gene integration stability on transformants genome was analyzed. Morphology and cross-section anatomy structure on transformant and non-transformant plantswere described. The stability of AtRKD4 gene integration in the plant genome was confirmed by amplification of the AtRKD4 gene from genomic DNA with Polymerase Chain Reaction (PCR) using a specific primer for AtRKD4 and ACTIN genes as the internal control. The quantitative data from morphology and anatomy measurements were analyzed statistically using ANOVA. The results showed that AtRKD4 was stably integrated into the genome of P. amabilis transformants and all transformant plants showed similar morphology and anatomy characteristics as non-transformant plants. The AtRKD4 embryo gene was stably integrated into the orchid genome and the transformant plants grow normally without significant changes in phenotype.
DNA Barcode of Barred Mudskipper (Periophthalmus argentilineatus Valenciennes, 1837) from Tekolok Estuary (West Nusa Tenggara, Indonesia) and Their Phylogenetic Relationship with Other Indonesian Barred Mudskippers Febrina Amaliya Rha'ifa; Deiandra Jasmine Audrea; Lukman Hakim; Tuty Arisuryanti
Journal of Tropical Biodiversity and Biotechnology Vol 6, No 2 (2021): August
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.59702

Abstract

Barred mudskipper (Periophthalmus argentilineatus) has a potency to be developed as protein for human consumption and ornamental fish. The fish also has an important role in mangrove ecosystems. Nevertheless, many barred mudskippers have been considered a cryptic species. Therefore, accurate identification is needed to clarify species identification of the barred mudskipper using DNA barcoding.  This research aimed to identify barred mudskippers from Tekolok Estuary (East Lombok, West Nusa Tenggara, Indonesia) using COI mitochondrial gene as a DNA barcode and analyze genetic relationship with other barred mudskippers from several regions of Indonesia recorded in GenBank. This study used a PCR method with universal primers FishF2 and FishR2.  The data was then analysed using DNASTAR, BLAST, Mesquite, MEGA, DnaSP, BEAST, GenAlEx, and NETWORK. The results revealed that barred mudskipper from Tekolok Estuary has been verified as Periophthalmus argentilineatus. The results also exhibited that P. argentilineatus from Tekolok Estuary has a close genetic relationship to P.argentilineatus from Tukad Bilukpoh (Jembrana, Bali).  In addition, phylogenetic analysis showed that P.argentilineatus from Indonesia consisted of two clades with a genetic distance of approximately 6.64%. This analysis revealed evidence of the cryptic diversity of P.argentilineatus from Indonesia. Further detailed studies are needed to clarify whether Indonesian P.argentilineatus should be categorized into more than one species or single species with several subspecies.
Molecular Bird Sexing of Tanimbar Cockatoos (Cacatua goffiniana) by Using Polymerase Chain Reaction Method Ratu Fresa Khoirotunnisa Hidayat; Diana Savitri; Irhamna Putri; Warih Pulung Nugrahani; Aris Haryanto
Journal of Tropical Biodiversity and Biotechnology Vol 6, No 2 (2021): August
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.59997

Abstract

This study aimed to determine the sex of Tanimbar Cockatoo (Cacatua goffiniana) birds by amplifying Chromodomain Helicase DNA-binding-1 (CHD-1) gene on Z and W sex chromosomes as well as to compare the quality of DNA extraction and PCR amplification products from samples derived from peripheral blood and plucked feathers. This work used five C. goffiniana birds which were collected from the Wildlife Rescue Center (WRC) in Pengasih, Kulon Progo, Yogyakarta. From each C. goffiniana, feather samples were collected by plucking feathers on the ventral wing and peripheral blood samples were taken by cutting their nails and collecting the blood into microhematocrit tubes containing heparin. The next stage was DNA extraction and DNA amplification on the CHD-1 gene using the PCR method by NP, P2, and MP primer pairs. Then, products of DNA extraction and PCR amplification were electrophoresed on 1.5% agarose gel and visualized under a UV light transilluminator with a wavelength of 260 nm. The visualization showed that samples from peripheral blood generated clearer DNA fragments compared to plucked feathers. Two of the five samples were male C. goffiniana and the other three samples were females. In the male Tanimbar Cockatoo was amplified a single DNA fragment of the Z sex chromosome in size of 300 bp, whereas in the female C. goffiniana was amplified double DNA fragments of Z and W sex chromosomes in size of 300 bp and 400 bp respectively. The DNA quality showed that the DNA quality from peripheral blood samples were better in quality than the DNA collected from plucked feather samples.
Macroinvertebrates Reveal Water Quality Differences in Various Agricultural Management Agung Sih Kurnianto; Rufaidah Nur Baiti; Hari Purnomo
Journal of Tropical Biodiversity and Biotechnology Vol 6, No 2 (2021): August
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.61507

Abstract

Monitoring benthic communities under different agricultural practices and management could potentially become an important tool to evaluate ecosystem health and stability. Benthic macroinvertebrates have been widely used as water quality bioindicators. This study aims to analyze macroinvertebrates in rice field ecosystems affected by three types of management practices, including conventional, semi-organic, and organic. This study was conducted in Sumberjambe and Kemiri, Jember Regency. Macroinvertebrate samples were collected at three sampling stations for each type of rice field, giving out a total of nine stations. Through Ekman grab, samples were obtained and transferred into a jam jar filled with 70% ethanol using a brush. Six ecological indices were selected to describe the diversity of each station. The Principal Component Analysis (PCA) using PAST3 software provided the sample's preference towards the stations and the higher taxa (Class). We also analyzed the similarity of the macroinvertebrate communities between the sampling stations using the Jaccard Similarity Index (JSI). A total of 11 families and 4 classes of macroinvertebrates are recorded. The Shannon-Wiener index shows high diversity for stations with organic management practices (1.318), while the Evenness index shows the highest value for conventional stations (0.9449). The Jaccard similarity index value reports two stations with semi-organic stations as well as semi-organic and organic stations having the highest similarity (JSI = 76.47%), while the lowest similarity value is characterized for conventional and organic stations (JSI = 13.19%).
Sibling Indices as Comparisons in Personal Identification Process through Short Tandem Repeats [STR] Loci CSF1PO, THOI, TPOX, vWA of Maduranese Ethnic in Surabaya Ahmad Yudianto; Fery Setiawan; Simon Martin Manyanza Nzilibili
Journal of Tropical Biodiversity and Biotechnology Vol 6, No 2 (2021): August
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.60318

Abstract

Sibling indices can be used as a comparison through alleles Short Tandem Repeats [STR] loci. This is an observational study among Maduranese with 4 STR loci (CSF1PO, THOI, TPOX, vWA) obtained from their blood samples. The percentage of alleles shared: 82.5% [33 times] with 2 allele sharing, 12.5% [5 times] with 1 allele sharing, and 5 % [2 times] with 0 sharing alleles. Sibling indices (SI) calculation results: 65% of sibling indices pairs have SI greater than 100 and 15% of them were between 10-100 (strong and very strong). Sibling indices interpretation is supported; therefore, the claimed sibling indices relationships were indeed true among Maduranese ethnic group in Surabaya.
Important Role of Mycorrhiza for Seed Germination and Growth of Dendrobium Orchids Binti Tsulsiyah; Thoyibatul Farida; Cahya Lembayung Sutra; Endang Semiarti
Journal of Tropical Biodiversity and Biotechnology Vol 6, No 2 (2021): August
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.60805

Abstract

Indonesia is a tropical country that has natural forests and is suitable for orchid species habitat, leading to more than 5,000 species of orchids grow. The tropical area is the main distribution centre for epiphytic orchids, one of which is Dendrobium, which grows more than 1,000 species throughout the world. Orchid seeds are very small and do not have an endosperm, making germination difficult in their natural habitat. Mycorrhizal association with orchids plays a role in the survival of orchids in nature through seed germination and growth. This study aims to provide a deeper understanding about the important role of mycorrhiza in seed germination and growth of Dendrobium. The mechanism of mycorrhizal association with orchids begins with the initial contact of the fungus with the orchid, hyphae enter the cortex cells to form peloton, peloton lysis, and exchange of nutrients occurs. Orchid mycorrhiza that mostly found groups in Dendrobium are Rhizoctonia (Epulorhiza, Tulasnella, Rhizoctonia). Mycorrhiza plays a role in increased secretion of phytohormone and enzyme activity which supports seed germination and growth of orchids. Specific mycorrhizal data on orchids can be used as an effort for in-situ and ex-situ conservation of Indonesian orchids, including Dendrobium.
Body Weight Gain and Carcass Quality of the Hybrid Chicken Derived from the Crossing between Female F1 Kampung Super and Male F1 Kampung-Broiler Utin Elsya Puspita; Hendry T.S.S.G. Saragih; Tety Hartatik; Budi Setiadi Daryono
Journal of Tropical Biodiversity and Biotechnology Vol 6, No 2 (2021): August
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.60934

Abstract

This research was conducted to observe the body weight gain and carcass quality of the hybrid chicken derived from the crossing between female F1 Kampung Super and male F1 Kampung-Broiler. The weekly weight gain for seven weeks and carcass quality, including breast yield, protein content, lipid content, moisture, and pH were measured with each group consists of six individuals. The chickens were slaughtered for meat quality measurements on the 7th week. The results showed that the hybrid chickens’ weight at the 7th week (888.22±139.63) was higher than layer (467.06±85.7) and pelung (436.39±42.33). The hybrid chicken’s breast yield (3.20%) was significantly higher than pelung’s (1.66%). These characteristics of hybrid chicken breast muscle lead to the conclusion that hybrid chicken is a potential alternative meat-type chicken with local chicken meat characteristics and has relatively fast growth.
Endophytes and Rhizosphere Fungi from Galam (Melaleuca cajuputi Powell.) which has the Potential to Produce Indole Acetic Acid (IAA) Witiyasti Imaningsih; Nadiya Dwi Rahayu; Safinah Surya Hakim
Journal of Tropical Biodiversity and Biotechnology Vol 6, No 2 (2021): August
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.61594

Abstract

Some types of fungi are known to have the ability to produce Indole Acetic Acid (IAA). Fungi can be isolated from the rhizosphere and tissues of various plants, including from the rhizosphere and the root "Galam" (Melaleuca cajuputi Powell.), which grow predominantly in peatlands. Therefore, the purposes of this study were: (a) to isolate and measure the potential of fungi from endophytic and rhizospheric of “Galam”(M. cajuputi) as a producer of IAA hormone, (b) determine the types of fungal interaction that occur and their potential to increase the total IAA hormone produced. This research begins with isolation, purification, isolate screening, analysis of IAA hormone production, data analysis, seed germination test and isolates identification. The result showed that the concentration of IAA produced by Penicillium sp. IRZ15 was 5.86 ± 0.47 μg.mL-1 to 8.46 ± 0.26 μg.mL-1 and Syncephalastrum sp. AG15 is 4.77 ± 0.44 μg.mL-1 to 8.77 ± 0.25 μg.mL-1. Meanwhile, the combination of rhizospheric fungi Penicillium sp. IRZ15 and endophytic fungi Syncephalastrum sp. AG15 does not produce significantly different IAA concentrations (6.42 ± 0.34 μg.mL-1 to 9.19 ± 0.50 μg.mL-1 ) compared to fungi used alone without combinations.
Detection of AtRKD4 Protein During Induction of Somatic Embryogenesis in Dendrobium lineale Rolfe Transgenic Orchids Carrying 35S::GR::AtRKD4 Gde Cahyadi Wirajagat; Ni Luh Putu Kayika Febryanti; Fitriana Puspitasari; Dika Sundari; Jose Gutierrez-Marcos; Endang Semiarti
Journal of Tropical Biodiversity and Biotechnology Vol 6, No 2 (2021): August
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.61783

Abstract

Dendrobium lineale is an Indonesian native orchid from the Spatulata section in Orchidaceae Family. This orchid is important because it is usually used as a parental plant in orchid breeding and is predicted to have a potential phytochemistry compound. In addition, in their natural habitat, this orchid is threatened due to forest exploitation and natural disaster. Therefore the precision mass propagation techniques for this orchid need to be conducted. Biotechnological approaches through inserting embryo gene such as AtRKD4 from Arabidopsis thaliana has already been successfully conducted. This study aims to check the integration stability of T-DNA harboring 35S::GR::AtRKD4 from ten selection transformants and to detect the existence of AtRKD4 protein after induction by Dexamethasone and/ Thidiazuron. The result showed that T-DNA were stably integrated into the genome of D. lineale transformants and the AtRKD4 protein with a molecular weight of 28.53 kDa was detected in D. lineale transformant plants after being induced by 15 µM DEX and 3 mgL-1 TDZ for 5 days.
Food Preference, Fecundity, Proximate Analysis on Eggs and Meat of Turbo crassus (W. Wood 1828) and Turbo setosus (Gmelin 1791) in Sepanjang Beach, Gunungkidul, Special Region of Yogyakarta Rijal Romolo; Izzatul Auliya'; Trijoko Trijoko
Journal of Tropical Biodiversity and Biotechnology Vol 6, No 2 (2021): August
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.61873

Abstract

Turbo snails have important roles in the ecosystem as prey for predators, and decomposition of dead objects, and it is starting to decrease. This is quite worrying so that conservation efforts must be carried out immediately. Turbo snail species found in Sepanjang Beach, Gunungkidul are Turbo crassus and Turbo setosus. The aims of this study were to determine food preferences, the relationship between body size and fecundity, analyze egg quality based on proximate levels of the two species, and meat proximate of T. crassus and T. setosus. Samples were taken from Sepanjang Beach, Gunungkidul. Food preference was observed using the sedgwick rafter, fecundity was counted using the gravimetric method. Moisture content, protein content, fat content, ash, and carbohydrate content of both species eggs and meat were determined with proximate analysis at the UGM Central Laboratory for Food and Nutrition Studies. The results showed that the dominant food for T. setosus was Phaeophyta, whereas the dominant food for T. crassus was Microcoleus sp. and Phaeophyta. The fecundity of both Turbo species is exponentially positively correlated with all body sizes. Proximate analysis showed that the levels of fat and protein in the eggs of both species were quite high, which meant that the eggs are in good quality. The conclusion of this study is both species have slightly different food preferences. The fecundity of both species will increase exponentially with increasing body size and the broodstock of T. crassus and T. setosus Sepanjang Beach has good quality.

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