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All Journal Biogenesis: Jurnal Ilmiah Biologi Jurnal Perlindungan Tanaman Indonesia Journal of Tropical Biodiversity and Biotechnology TREUBIA Jurnal Perikanan Universitas Gadjah Mada Indonesian Fisheries Research Journal Berkala Ilmiah Biologi
Tuty Arisuryanti
Laboratory Of Genetics And Breeding, Faculty Of Biology, Universitas Gadjah Mada, Jl. Teknika Selatan, Sekip Utara, Yogyakarta 55281
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Education Environmental Science Immunology & microbiology Medicine & Pharmacology Veterinary

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Komposisi Nekleotida Sekuen Gen Mitokondria 16S rRNA Ikan Bilih (Mystacoleucus padangensis Bleeker, 1852) Danau Singkarak, Solok, Sumatera Barat Liza Oktavia; Tuty Arisuryanti
Biogenesis: Jurnal Ilmiah Biologi Vol 6 No 2 (2018)
Publisher : Department of Biology, Faculty of Sci and Tech, Universitas Islam Negeri Alauddin Makassar

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.24252/bio.v6i2.4855

Abstract

Bilih fish (Mystacoleucus padangensis) is one of the endemic fish inhabited at West Sumatra and is exploited extensively to meet market demands due to high nutritional value. The fish is also commonly exported to Malaysia and Singapore in dried processed form. However, research on composition of mtDNA 16S nucleotide as a part of genetic characterization of bilih fish has not been examined. Genetic characterization of the fish is useful for its conservation and breeding program. Therefore, the aim of this research was to determine composition of mtDNA 16S nucleotide of bilih fish (Mystacoleucus padangensis Bleeker, 1852) collected from Singkarak Lake, Solok, West Sumatra. This research used a PCR method with 16S universal primers: 16Sar and16Sbr. The results showed that the average of mtDNA 16S nucleotide composition was T=22.63%, C=24.38%, A=31.24% and G=21.76% whereas the average of A+T and C+G were 53.86% and 46.14% respectively. The difference in the mtDNA 16S nucleotide between the two bilih fish samples was similar between T, C, and A composition (0,04%) whereas the G composition was high (0,13%). In addition,  the average rate of nucleotide composition A+ T and G+ C between the two bilih fish samples was similar  (0,08%). This result revealed that there was genetic variation between the two bilih fish samples examined in this study based on composition of mtDNA 16S nucleotide which is the first published data we reported.  
Observasi dan Identifikasi Virus yang Menginfeksi Bawang Merah di Jawa Tuty Arisuryanti; Budi Setiadi Daryono; Sedyo Hartono; Anak Agung Gde Raka Swastika
Jurnal Perlindungan Tanaman Indonesia Vol 14, No 2 (2008)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jpti.11883

Abstract

This study was conducted to observe and identify viruses from infected shallots in several shallot planting center. The observation was done in eight areas of three provinces (Yogyakarta, Central Java, and East Java). Leaves from shallot plants and shallot germination showing virus symptoms were examined. The leaves were then investigated to identify viruses infecting shallots using Enzyme-Linked Immunosorbent Assay (ELISA). The result revealed that the type of virus symptoms infecting the shallots was a mozaic symptom with yellow strips. The ELISA analysis showed that Tawangmangu Biru shallot cultivar plants sampled from Blumbang, Tawangmangu (Central Java) and Philiphine Bima shallot cultivar seeds collected from Srigading, Sanden, Bantul (Yogyakarta) were positively infected by Onion Yellow Dwarf Virus (OYDV). The result also revealed that Biru, Kuning Tablet, Lokal Tawangmangu, and Bima Curut shallot cultivars had the potency to be virus resistant plants and could be considered as candidates for breeding program.
Karyotype Ikan Mas (Cyprinus carpio Linnaeus 1758) Majalaya Tuty Arisuryanti; Anjar Tri Wibowo
Journal of Tropical Biodiversity and Biotechnology Vol 1, No 1 (2016): June
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (348.822 KB) | DOI: 10.22146/jtbb.12929

Abstract

Common carp (Cyprinus carpio Linnaeus 1758) is grouped into Family Cyprinidae and Order Cypriniformes. One of Indonesian common carp which is commonly domesticated in Indonesia to fulfil consumer needs of animal protein is “Majalaya”. Even though the common carp “Majalaya” is extensively domesticated to meet market demands, any comprehensive study on the fish chromosomes has not been investigated. Chromosome study on the common carp “Majalaya” is quite important related to breeding program including certification process. The objective of this study was to study karyotype of the common carp “Majalaya” collected from UKBAT Cangkringan, Yogyakarta. Chromosome preparation of the common carp “Majalaya” investigated in this study was a splash method with blood cell cultures. The results revealed that the common carp “Majalaya” has diploid chromosome number (2n) = 98 classified as 12 (6 pairs) metacentric chromosomes and 86 (43 pairs) telocentric chromosomes displaying karyotype formula 2n = 2x = 98 = 12 m + 86 t. However, sex chromosomes of the common carp “Majalaya” could not be identified in this study. In addition, the variation of total length chromosomes of the fish is between 1,052 μm and 3,299 μm. On the basis of R value (3,079 ± 0.093), the common carp “Majalaya” has chromosome variation size
Composition of Mitochondrial DNA 16S Nucleotide of Dwarf Snakehead (Channa gachua Hamilton, 1822) from Keji River, Magelang, Central Java Warisatul Ilmi; Tuty Arisuryanti
Journal of Tropical Biodiversity and Biotechnology Vol 3, No 2 (2018): August
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (1339.287 KB) | DOI: 10.22146/jtbb.35613

Abstract

Indonesia has a high marine and freshwater biodiversity including freshwater fish biodiversity. One of freshwater fish which is commonly consumed by Indonesian people is dwarf snakehead (Channa gachua Hamilton, 1822). However, research on genetic characterization, especially the composition of mtDNA 16S nucleotide of dwarf snakehead has poorly understood. Therefore, the aim of this study was to determine the composition of mtDNA 16S nucleotide of dwarf snakehead as a part of genetic characterization of the fish species taken from Keji River, Magelang, Central Java which has not been previously examined. This study analyzed 16S mt-DNA of two samples of dwarf snakehead from Keji River (KTS-01 and KTS-02). In addition, two sequences of Channa gachua with accession number KU986900, KU238074, and HM117234-HM117238 taken from GenBank were used as a comparison. A method used in this research was a PCR method and primers used in this research were 16Sar and 16Sbr. The results revealed that the average of nucleotide composition T, C, A and G of the fish species was 23.04%, 25.13%, 29.06% and 22.77% respectively whereas the average rate of nucleotide composition A+ T and G+ C was 52.10% and 47.90% respectively. The two dwarf snakehead had similar T and C composition but different in A and G composition. In addition, the G+C content in KTS-01 and KTS-02 had the highest frequency compared to other dwarf snakehead taken from GenBank. From this finding it could be assumed that there is genetic variation between the two dwarf snakehead from Keji River which is important genetic data for breeding program of the fish species in the future.
Genetic Identification of Freshwater Fish Species Through DNA Barcoding from Lake Lebo Taliwang, West Nusa Tenggara Tuty Arisuryanti; Rika Lathif Hasan; Khadija Lung Ayu; Nofita Ratman; Lukman Hakim
Journal of Tropical Biodiversity and Biotechnology Vol 4, No 3 (2019): Desember
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.46256

Abstract

Lake Lebo Taliwang is one of the lakes in the West Nusa Tenggara with high freshwater fish species diversity. However, the species identification of freshwater fish species from Lake Lebo Taliwang using DNA barcoding is very limited. Therefore, the objective of this study was to identify seven samples of freshwater fish species collected from Lake Lebo Taliwang based on COI mitochondrial gene as a DNA barcoding marker and establish library COI sequences of Indonesian freshwater fish. We are using a standard DNA analysis and data obtained from this study was then examined using Nucleotide BLAST and the phylogenetic tree was analyzed using the Neighbour-Joining (NJ) method with Kimura 2 Parameter (K2P) model. The results revealed that among the seven samples of freshwater fishes collected from the Lake Lebo Taliwang, three samples were identified as Anabas testudineus, the other three samples were Barbodes binotatus and one sample was Trichopodus trichopterus. The level of similarity of these freshwater fish samples referred to the database from the GenBank and BOLD was between 98-100%. The NJ tree supports the clade of each species identified in this study. This occurrence indicated that DNA barcoding by using the COI mitochondrial gene was proven to be able to identify the freshwater fish samples accurately.
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.
The Oriental Tiny Frog of the Genus Microhyla Tschudi, 1839 (Amphibia: Anura: Microhylidae) Revealed across Geographical Barriers of the Wallace Line Rury Eprilurahman; Vestidhia Yunisya Atmaja; Misbahul Munir; Amir Hamidy; Tuty Arisuryanti; Rosichon Ubaidillah
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.64342

Abstract

The frog genus Microhyla was considered as the South, East, and Southeast Asian frog species. Microhyla orientalis was described in 2013, distributed in Java and Bali, Indonesia. Thenceforth, it was known as the easternmost distribution of this genus within the oriental region, but recently this species was recorded from the Timor Island and Sulawesi on the Wallace regions. We applied molecular analysis to evaluate the taxonomic status  and the origin of the Wallacean population. Phylogenetic analysis using the partial 16S mitochondrial gene demonstrated that the Java, Timor and Sulawesi populations were not significantly different from the Bali population. This Wallacean population of M. orientalis was originated from Java and possibly it is accidentally distributed by humans through the expansion of agricultural activity.
Molecular Identification of Mudskipper Fish (Periophthalmus spp.) from Baros Beach, Bantul, Yogyakarta Katon Waskito Aji; Tuty Arisuryanti
Journal of Tropical Biodiversity and Biotechnology Vol 6, No 3 (2021): December
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.66391

Abstract

Mudskipper fish is amphibious fish belonging to the family Gobiidae. Coastal communities widely consume mudskipper to meet their animal protein needs. Mudskipper is primarily cryptic species that are morphologically difficult to identify and distinguish from other mudskipper fish species. Consequently, it can be confused with the naming of mudskipper fish species and can affect the conservation efforts of the fish in their habitat. One of the molecular approaches that can be used to identify the fish species quickly and accurately is DNA barcoding using the COI mitochondrial gene. However, the research on the identification of mudskipper fish in Indonesia is still very limited. Therefore, this study aimed to identify 26 mudskipper fish from Baros Beach, Bantul, Yogyakarta, using COI mitochondrial gene as a molecular marker for DNA barcoding. The method used in this study was a PCR method with universal primers, FishF2 and FishR2. The data obtained were then analyzed using GeneStudio, DNASTAR, BLAST, Identification Engine, Mesquite, MEGAX, and BEAST. The analysis was conducted to obtain similarity, genetic distance and reconstruct a phylogenetic tree. The result revealed that all 26 samples of mudskippers collected from Baros Beach were identified in one genus, namely Periophthalmus, and consisted of 3 species, namely P. kalolo (16 samples), P. argentilineatus (9 samples), and P. novemradiatus (1 sample). Furthermore, this study also discovered a suspected cryptic species in P. argentilineatus with a genetic distance of 5.46-5.96% between clade E, F compared with clade G. Further morphological studies are needed to confirm the species status of these three clades before solidly proclaim that they are cryptic species. 
COI-Based DNA Barcoding of Selais Fish from Arut River, Central Kalimantan, Indonesia Tomi Kasayev; Tuty Arisuryanti
Journal of Tropical Biodiversity and Biotechnology Vol 7, No 1 (2022): April
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.66510

Abstract

Selais fish belongs to the family Siluridae consisting of 12 genera with 104 properly validated species. The human need for these fish has sharply increased due to the benefits provided, especially for consumption. However, morphologically the selais fish are slightly challenging to differentiate among other silurid fish for non-specialist experts. Thus, a DNA barcoding approach using the mitochondrial COI gene as a molecular marker in this study was applied to clarify a taxonomic position and classification species of selais fish from Arut River (Central Kalimantan, Indonesia) and was also to assembly fish COI database storage from Indonesia. In this research, the method used was a PCR (Polymerase Chain Reaction) method with a pair of universal barcoding primers, FishF2 and FishR2. Based on partial COI fragment-based DNA barcoding, the whole samples showed no sequence differences (only 1 haplotype) within the population and this confirmed that these fish only consisted of one identical species. Furthermore, phylogenetic analysis (NJ / ML / BI) revealed that selais fish in this study had a close genetic relationship with Ompok hypophthalmus compared to other Ompok groups. This relationship was supported by the genetic distance value not exceeding 3.6% and this evaluated the undetermined naming of the selais fish from Arut River which was previously still unclassifiable.
A new species of Microhyla (Anura: Microhylidae) from Sumatra, Indonesia Vestidhia Yunisya Atmaja; Amir Hamidy; Tuty Arisuryanti; Masafumi Matsui; Eric N. Smith
TREUBIA Vol 45 (2018): Vol. 45, December 2018
Publisher : Research Center for Biology

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/treubia.v45i0.3625

Abstract

A new species of frog in the genus Microhyla is described from Sumatra, Indonesia based on molecular and morphological characters. This new species was previously confused with M. achatina, a Javan endemic. This new species is diagnosable from its congeners by possessing a medium size (SVL in adult males 18.20–21.32 mm, in adult females 20.37–25.51 mm), a stout body, a nostril–eyelid length being about half of the snout length, having a single outer palmar tubercle, a tibiotarsal articulation reaching the center of the eye (when the hindlimbs are stretched and adpressed to the body), having finger and toe tips dilated, having the dorsum with medial longitudinal grooves, and excibiting a very thin and short dark stripe on the temporal region above a wider cream stripe, extending from the postorbital area to insertion of forelimb. Additionally, the new species is characterized by possessing relatively little foot webbing. Uncorrected 16S rRNA sequence divergences between the new taxon and sequences for other congeneric species available ranged from 4.8 to 15.0%.
Co-Authors Amir Hamidy Amir Hamidy Amir Hamidy Anak Agung Gde Raka Swastika Anjar Tri Wibowo Astin Alfianti Budi Setiadi Daryono Christine Bawaeda Sitandung Kombong Deiandra Jasmine Audrea Diana Febriyanti Dwi Sendi Priyono Efendi Sabinhaliduna Eric N. Smith Febrina Amaliya Rha'ifa Fitria Kurnia Nazira Gregorius Altius Pratama Johan Putra Koentjana Katon Waskita Aji Katon Waskito Aji Katon Waskito Aji Khadija Lung Ayu Liza Oktavia Lukman Hakim Lukman Hakim Lukman Hakim Lukman Hakim Masafumi Matsui Misbahul Munir Muhammad Zulfiqar Meizar Pratama Nadya Ulfa Nida' Firdaus Nofita Ratman Rika Lathif Hasan Rini Rahmawati Rosichon Ubaidillah Rury Eprilurahman SEDYO HARTONO Tomi Kasayev Trijoko Trijoko Ulfa Dianiputri Vestidhia Yunisya Atmaja Vestidhia Yunisya Atmaja Warisatul Ilmi Zuliyati Rohmah Zuliyati Rohmah