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All Journal Jurnal Biologi Udayana 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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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%.
GENETIC CHARACTERIZATION OF KISSING GOURAMI (Helostoma temminckii Cuvier, 1829) IN OGAN RIVER, SOUTH SUMATRA INFERRED FROM 16S rRNA AND COI MITOCHONDRIAL GENES Tuty Arisuryanti; Gregorius Altius Pratama; Lukman Hakim; Johan Putra Koentjana; Fitria Kurnia Nazira
Indonesian Fisheries Research Journal Vol 25, No 1 (2019): (June) 2019
Publisher : Research Center for Fisheries

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (165.469 KB) | DOI: 10.15578/ifrj.25.1.2019.37-44

Abstract

Genetic characterization data of kissing gourami are important to understand historical lineage thus enhancing sustainability of the species and to establish regulation for sustainable management of the fish stock in their habitat. However, investigation of genetic characterization of kissing gourami, one of native Indonesian freshwater fishes has poorly understood. Therefore, the aim of this study was to examine genetic characterization of the fish species collected from Ogan River, South Sumatra using partial sequences of two mitochondrial genes, 16S rRNA and COI. The results revealed that for the 621 bp determined in 16S rRNA gene of the samples, five sites were variable, of which one was parsimony informative. Concatenate data revealed three haplotypes with an overall haplotype diversity of 0.833±0.222 and nucleotide diversity of 0.003±0.001. The genetic divergence varied from 0-0.49%. Next, sequence analysis of COI gene exhibited 609 bp which can be translated into 203 amino acids. For the 609 bp sequence determined in the fish samples, three haplotypes were revealed with nine variable sites and two parsimony informatives. Haplotype diversity and nucleotide diversity of the fish samples were 0.833±0.22 and 0.00794±0.0025, respectively. The haplotype divergence between the fish samples was also supported by three nonsynonymous codons. In addition, the genetic divergence varied from 0 % to 1.16 %. The results suggest that genetic variation of the kissing gourami has to be monitored and further studies are needed to compare the same species from different location to know the historical lineage and demography.
The 16S and COI Mitochondrial DNA Nucleotide Composition of Stripped Snakehead (Channa striata Bloch,1793) from Lake Sentani, Jayapura, Papua Christine Bawaeda Sitandung Kombong; Tuty Arisuryanti
Jurnal Perikanan Universitas Gadjah Mada Vol 20, No 2 (2018)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (3773.251 KB) | DOI: 10.22146/jfs.35551

Abstract

Stripped snakehead (Channa striata Bloch,1793) has potency to be developed in Indonesia due to high nutritional value including omega 3 which is useful for children growth. However, study on composition of mitochondrial DNA nucleotide as a part of study on genetic characterization of stripped snakehead fish in Indonesia is poorlyunderstood. Genetic characterization of stripped snakehead is important to obtain data information that can be applied for breeding and conservation program. Therefore, the objective of this study was to determine the 16S and COI mitochondrial DNA nucleotide of stripped snakehead collected from Lake Sentani, Jayapura, Papua. Method used in this research is PCR method using primer 16Sar and 16Sbr for 16S mitochondrial gene, and FishF2 and FishR2 for COI mitochondrial gene. The results showed that composition of 16S mtDNA nucleotide from 616 bp was T=21.92%, C=25.49%, A=30.19%, dan G=22.40%, whereas composition of A+T=52.11% and G+C=47.89%. In addition, composition of COI mtDNA nucleotide from 705 bp was T=29.93%, C=28.65%, A=24.26%, and G=17.16% while composition of A+T=54.48% and G+C=45.52%. Data of 16S and COI mitochondrial DNA nucleotide composition of the stripped snakehead collected from Lake Sentani gained in this study are to be expected to complete genetic information of the fish species which is useful to improve breeding program of this fish species in the future.
Detection of 16S Mitochondrial Gene Polymorphism on Barb Fish (Barbodes binotatus Valenciennes, 1842) from Lake Lebo Taliwang, West Nusa Tenggara Tuty Arisuryanti; Astin Alfianti; Nadya Ulfa Nida' Firdaus; Lukman Hakim
Jurnal Perikanan Universitas Gadjah Mada Vol 22, No 2 (2020)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jfs.54064

Abstract

The spotted barb fish (Barbodes binotatus), a tropical cyprinid fish, is one of the abundant fishes in Lake Lebo Taliwang commonly consumed due to high nutrition and utilized as an aquarium trade due to their exotic colour. However, no genetic information related to the intra-population genetic variation of the fish species in Lake Lebo Taliwang. Genetic information of the spotted barb fish can play an important role for the fish conservation. Therefore, the objective of this study was to detect 16S mitochondrial gene polymorphism of the spotted barb fish which can be used to detect their genetic variation. The method used in this study was a PCR method with primers 16Sar and 16Sbr. The data was then analysed using MESQUITE, MEGA, DnaSP and PopART to identify 16S mitochondrial gene polymorphism. This study obtained 610 base pairs after alignment of 16S sequences of all samples. Five haplotypes were detected with 9 variable sites and 2 parsimony informative sites. Haplotype diversity and nucleotide diversity of the spotted barb fish were 1.00 and 0.0066 respectively. In addition, genetic distance among the samples was 0.66. This finding exhibited polymorphism on 16S gene sequence among the fish samples and this data indicated genetic variation of the spotted barb from Lake Lebo Taliwang.
THE DISCOVERY OF CHALCORANA MEGALONESA IN JAVA AND THE EVALUATION OF ITS TAXONOMIC STATUS Efendi Sabinhaliduna; Tuty Arisuryanti; Amir Hamidy
TREUBIA Vol 49, No 2 (2022)
Publisher : Research Center for Biology

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/treubia.v49i2.4402

Abstract

Chalcorana chalconota was firstly described as Hyla chalconotus Schlegel from Java, and widely recognized as Rana chalconota Boulenger. This ranid frog species has widespread distribution in Southeast Asia. Molecular studies revealed that Rana chalconota is a complex species and consisted of several cryptic species. Among Sundaland population, this group was split into five species (C. chalconota sensu stricto, C. parvaccola, C. rufipes, C. raniceps, C. megalonesa), and together with C. labialis and C. eschatia, they nested in a monophyletic group. During herpetological survey in West Java, we collected two morphotypes of Rana chalconota from Pasir Angin, Bogor and evaluated their taxonomy status using morphology approach and molecular data with 16S rRNA mitochondrial gene. The results revealed two morphotypes belong to C. chalconota sensu stricto and C. megalonesa. The genetic distance of C. megalonesa between Java population and Sarawak (Borneo) population ranged from 2.4 to 2.6% that still below the threshold of species delimitation on the 16S rRNA gene. Therefore, these two populations are conspecific. This discovery of C. megalonesa in Java has contributed to increase the number of species of amphibians in Java to become 46 species. 
Genetic Variation Within Four Captive Chital (Axis axis) Populations in Indonesia Muhammad Zulfiqar Meizar Pratama; Zuliyati Rohmah; Tuty Arisuryanti
Journal of Tropical Biodiversity and Biotechnology Vol 8, No 1 (2023): April
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.74728

Abstract

Chital is a native animal from South Asia. Chital had been introduced to many countries, including Indonesia. Chital was first introduced to Indonesia in 1811 at Bogor Palace and since had been kept captive around Indonesia. Currently, no research had been done concerning the genetic variation of Indonesian chital. Therefore, the purpose of this research was to analyze genetic variation and phylogenetic relationship of chital from Pusat Inovasi Agroteknologi Universitas Gadjah Mada (PIAT UGM), Prambanan Temple, Gembira Loka Zoo, and Bogor Palace, based on mitochondrial D-loop fragment. This study used a Polymerase Chain Reaction (PCR) method. DNA was extracted from faecal samples and amplified with L15995 and H16498 primers. The analysis used for this research were genetic variations, haplotype networking, and phylogenetic relationships between populations. This study detected 5 haplotypes out of 20 sequences with 10 polymorphic sites and 2 indels. The haplotype diversity and the nucleotide diversity were 0.443 and 0.002 respectively, and the genetic distance was between 0 and 2.03% (average 0.55%). This research also showed one main haplotype, labelled as haplotype 1, which consisted of all individuals from PIAT and Prambanan Temple, four individuals from Bogor Palace, and one individual from Gembira Loka. This grouping proves that the majority of chital population in Indonesia came from Bogor Palace. One individual from Gembira Loka has a considerable genetic divergence from the rest of the samples, which might indicate it originated from a different source population. 
Genetic Identification of Two Mudskipper Species (Oxudercidae: Periophthalmus) from Kulon Progo, Special Region of Yogyakarta, Indonesia Diana Febriyanti; Katon Waskito Aji; Dwi Sendi Priyono; Tuty Arisuryanti
Journal of Tropical Biodiversity and Biotechnology Vol 8, No 2 (2023): August
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.78161

Abstract

Mudskippers are commonly cryptic species, making identification based solely on morphological characteristics challenging. This study used the DNA barcoding method to identify mudskipper species based on the COI mitochondrial gene. The analysis revealed two distinct species, P. kalolo (20 samples) and P. argentilineatus (3 samples) with high GC contents ranging from 42.94-45.2%. The genetic divergence analysis of P. kalolo showed that they divided into two clades, while P. argentilineatus is divided into three clades with two of the clades (C and D)  still conspecific groups, and those two clades with clade E exhibit a genetic distance greater than 3.5%, suggesting the presence of cryptic species. These findings provide valuable insights into the intraspecies genetic diversity of mudskippers in Indonesia, which could have essential implications for conservation efforts and highlight the potential of DNA barcoding as a powerful tool for the identification of cryptic species. Further research combining molecular and morphological identification could lead to a more comprehensive understanding of species identification and help address the challenges posed by cryptic species.
POLIMORFISME GEN MITOKONDRIA 16S IKAN BAUNG (Hemibagrus nemurus Valenciennes, 1840) DARI SUNGAI PROGO, MAGELANG, JAWA-TENGAH Tuty Arisuryanti; Ulfa Dianiputri; Katon Waskita Aji
Berkala Ilmiah Biologi Vol 13 No 1 (2022): Jurnal Berkala Ilmiah Biologi
Publisher : Fakultas Biologi Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/bib.v13i1.4629

Abstract

Abstract: Asian redtail catfish (Hemibagrus nemurus Valenciennes, 1840) is one of Indonesian native fish species with high economic potency. However research on genetic variation of Asian redtail catfish in Indonesia is very limited. Therefore, this study purposed to identify and analyze the mitochondrial gene polymorphism 16S of Baung fish (H. nemurus) from the Progo River, Magelang, Central Java. The method used in this study was the PCR method with universal primers 16Sar and 16Sbr. Intraspecific genetic variation was conducted by combining mitochondrial gene 16S sequence data of five Asian redtail fish (H. nemurus) samples from Progo River (BGM 02-06) and five Asian redtail fish samples from GenBank. BLAST, DnaSP, DNASTAR, GeneStudio,, MEGA, Mesquite, and NETWORK programs were used to analyze the data obtained. The results showed there were no genetic differences among the Asian redtail fish from Progo River indicating no intrapopulation genetic variation of the fish species. Conversely, the intraspecific genetic divergence was between 0.20% and 2.21% with an average of 0.92%. Analysis of intraspecific genetic variations detected 5 different haplotypes and 15 variable sites with 5 parsimony informative sites. Haplotype diversity and nucleotide diversity values were 0.756 ± 0.130 and 0.00812 ± 0.00294 respectively. Analysis of phylogenetic and haplotype network revealed BGM 02-06 formed a specific haplotype that was separated from other haplotypes. Molecular markers for Asian redtail fish (H.nemurus) from the Progo River, Magelang, Central Java based on the 16S mitochondrial gene can use this specific haplotype.
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