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All Journal HAYATI Journal of Biosciences Biogenesis: Jurnal Ilmiah Biologi Journal of Tropical Biodiversity and Biotechnology JMM (Jurnal Masyarakat Mandiri) Jurdimas (Jurnal Pengabdian Kepada Masyarakat) Royal Berkala Ilmiah Biologi
Dwi Sendi Priyono
Faculty of Biology, Universitas Gadjah Mada
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Earth & Planetary Sciences Environmental Science Immunology & microbiology Medicine & Pharmacology Social Sciences Veterinary Other

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Comparising DNA extraction from environmental DNA samples to reveal the diversity of freshwater metazoans Donan Satria Yudha; Dwi Sendi Priyono; Rahma Izzati; Aulia Sigit Ardianto; Ananto Puradi; Nainggolan Nainggolan
Biogenesis: Jurnal Ilmiah Biologi Vol 9 No 2 (2021)
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.v9i2.24390

Abstract

Environmental DNA (eDNA) monitoring has gained popularity in the last decade as one of the most sensitive and cost-effective monitoring methods. However, information regarding the type of DNA extraction used still needs to be studied, especially for metazoan in fresh water samples. This parameter is also critical for a project's experimental design. This study aims to compare the effectiveness of two extraction kits between DNeasy® Blood & Tissue Kit (Qiagen) silica column-based and ZymoBIOMICS 96 MagBead DNA Kit (Zymo Research) magnetic bead-based. The quantity of DNA extracts was measured using a spectrophotometer at 260/280 nm. Following that, we continued the metazoa PCR procedure. Qiagen has higher mean value of DNA concentration (88.48 ng/μl) than Zymo (20.89 ng/μl). For DNA purity, Zymo has higher mean value of DNA purity (1.84) than the Qiagen (1.59). However, both kits were equally successful in amplifying universal metazoan primers. We recommend that the use of these types of kits appears to be the least important consideration. Other important factors that may have a major impact on DNA extraction such as water volume, membrane type, sampling strategy need to be investigated in freshwater samples.
Genetic Diversity of the Endangered Endemic Anoa (Bubalus spp): Implication for Conservation Dwi Sendi Priyono; Dedy Duryadi Solihin; Achmad Farajallah; Bambang Purwantara
HAYATI Journal of Biosciences Vol. 29 No. 5 (2022): September 2022
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.29.5.586-596

Abstract

Anoa is an endemic ungulate in Sulawesi and its status now is endangered because the population continues to decline. Conservation genetics is one of the crucial issues in the anoa conservation strategy and action plan 2013-2022 document, but this genetic data is not yet available. To investigate and provide valuable information for conservation genetics measures, thirteen polymorphic microsatellites were used to analyze 20 adult anoa. Anoa has relatively low genetic diversity within populations (HO = 0.58), and high genetic differentiation among populations (FST = 0157). Although the anoa population has a bottleneck signal (T.P.M: 0.019; P0.05), the bottleneck simulation results show that the loss of genetic diversity is being slow over the next 100 years (9.5%). We provide some recommendations for conservation genetics based on the findings in this paper, including monitoring and genetically mapping for other anoa populations due to bottleneck signals, establishing the founder of the ex-situ population by examining their genetic diversity status, maintaining and increasing the number of individuals in the ex-situ population to genetically safe population size, and managing anoa populations by avoiding inbreeding. In-situ and ex-situ conservation programs should be combined to maintain the genetic diversity of anoa.
Budidaya Lele di Lahan Sempit Kalurahan Caturtunggal ber-basis Pakan Alternatif pada Era Pandemi Covid-19 Nur Indah Septriani; Wahyu Aristyaning Putri; Fajar Sofyantoro; Dwi Sendi Priyono
Jurdimas (Jurnal Pengabdian Kepada Masyarakat) Royal Vol 5, No 3 (2022): September 2022
Publisher : STMIK Royal

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.33330/jurdimas.v5i3.1445

Abstract

The era of the Covid-19 pandemic, causing many people who are affected by work stoppages or decreased income so that nutritious food needs are less fulfilled. This requires the people of Caturtunggal Urban Village to conduct food self-sufficiency, one of which is by utilizing the yard for the cultivation of catfish budikdamber method based on the development of alternative feed. From this program, people of Caturtunggal Urban Village can use the narrow land of their homes for catfish cultivation to realize food security, as well as provide alternative solutions for the development of cheap, quality, and environmentally friendly feed. Based on the results of the evaluation, the community stated that the use of alternative feed is very useful to maintain the quality of aquaculture and reduce mortality, although there is a lack of catfish growth and a lower appetite than catfish fed. In the future, there need to be further studies on the composition of alternative feed that is environmentally friendly and increases the growth of catfish quickly. This program is a prefix program that is planned to run for at least 5 years with the final target of making UMKM for catfish cultivation and catfish processed products. So that, there needs to be a sustainability program conducted between the community, the village government, and the academic community.
PENGEMBANGAN MAGGOT SEBAGAI PAKAN ALTERNATIF BUDIDAYA NILA PADA KAWASAN AGROWISATA MINAPADI Nur Indah Septriani; Sukirno Sukirno; Senny Helmiati; Aprilia Sufi Subiastuti; Wahyu Aristyaning Putri; Nata Dwi Annisa Nizma; Dwi Sendi Priyono; Fajar Sofyantoro
JMM (Jurnal Masyarakat Mandiri) Vol 6, No 6 (2022): Desember
Publisher : Universitas Muhammadiyah Mataram

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.31764/jmm.v6i6.10837

Abstract

Abstrak: Budidaya ikan nila di sawah (minapadi) merupakan potensi utama yang diangkat oleh desa wisata Kebonagung. Akan tetapi, tingginya harga pakan ikan menjadi kendala utama yang dihadapi oleh warga dalam pengembangan wisata minapadi. Pakan berbasis maggot merupakan alternatif pakan yang murah dengan kualitas nutrisi yang tinggi. Program pengabdian ini bertujuan untuk memberikan pemahaman dan keterampilan pembuatan pakan alternatif dari maggot untuk minapadi. Program pengabdian ini dilaksanakan bersama dengan Karang Taruna Tani Rukun Santoso dan Kelompok Wanita Tani (KWT) Sekar Arum, di Kebonagung, Imogiri, Bantul, Yogyakarta. Metode pelaksanaan kegiatan meliputi sosialisasi dan pelatihan budidaya maggot, sosialisasi budikamber, pemijahan ikan wader pari, program One Health Education, dan evaluasi. Berdasarkan hasil pengabdian ini, masyarakat menjadi paham dan terampil dalam budidaya maggot. Saran yang diberikan untuk kegiatan selanjutnya adalah pengembangan maggot skala masal dan peningkatan branding kawasan wisata minapadi.Abstract: Fish cultivation in rice fields (minapadi) is the main aspect of tourism developed by the Kebonagung tourism village. However, the high price of fish feed is the main obstacle faced by residents in developing minapadi tourism. Maggot-based feed is an inexpensive alternative to feed with high nutritional quality. Our program aimed to provide skills in making alternative feed from maggot for minapadi. The programs were carried out in collaboration with the Rukun Santoso Farmer Youth Organization and the Sekar Arum Women's Farmer Group, in Kebonagung, Imogiri, Bantul, Yogyakarta. The method of implementing the activities included socialization and training on maggot cultivation, socialization of budikamber, One Health Education program, and evaluation. Based on the results of this program, the community becomes aware and skilled in maggot cultivation. The suggestions for the next programs are the development of mass scale maggots and the improvement of the branding of the minapadi tourism.
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.
Monitoring the Diversity of Amphibian and Reptiles In the Upstream part of Code River Using e-DNA Method Donan Satria Yudha; Rahma Izzati; Aulia Sigit Ardianto; Ananto Puradi Nainggolan; Dwi Sendi Priyono
Berkala Ilmiah Biologi Vol 14 No 1 (2023)
Publisher : Fakultas Biologi Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/bib.v14i1.4847

Abstract

Research on the diversity of amphibians and reptiles on the upstream part of Code River had been done in 2012 and 2017. Result on two previous results were found anurans, snakes and lizards but we did not find any freshwater turtles. Method used on the 2012 and 2017 research was conventional using Visual Encounter Survey (VES). Conventional methods such as VES have limitations, which was the inability to detect difficult-to-find animals such as freshwater turtles. Therefore, a new approach was taken to monitor the diversity of amphibians and reptiles especially to detect freshwater turtles in the Code River, namely the environmental DNA (eDNA) method. The purpose of this research were to monitor the diversity of amphibians and reptiles, and to reveals eDNA sampling efficiency compared to VES. An e-DNA metabarcoding process is conducted with universal CO1 primer on the water sample taken from upstream part of Code River. The results obtained were compared to the data from conventional studies held in 2012 and 2017. The results in 2021 found 12 species of amphibians but all of these species did not naturally distribute in Yogyakarta and even in Indonesia. Furthermore, 5 species of snakes were found, with only 1 species of snake naturally occur in Yogyakarta. Subsequently, we found 6 species of lizards whose natural distribution does not exist in Yogyakarta and even in Indonesia. Finally, we obtained 1 species of tortoise whose natural distribution does not exist in Yogyakarta and even in Indonesia. By far, in Indonesia the identification of amphibian and reptile species in rivers using the e-DNA method has shown less accurate results. The inaccuracy may be due to the lack of specificity of the sequence targets and primers for monitoring reptiles and amphibians in rivers. The target sequences used in this study did not have significant differences between species in reptiles and amphibians, so that the herpetofauna that had been recorded in the Code River were not identified using the e-DNA method. Based on this research, conventional sampling is recommended for monitoring herpetofauna in river areas. Keywords: Monitoring, Amphibians; Reptiles; Code River, e-DNA
Cryptic Diversity of Barred Mudskippers, Periophthalmus argentilineatus (Valenciennes, 1837), from the Southern Coast of Java and East Lombok, Indonesia inferred by COI Mitochondrial Gene Arisuryanti, Tuty; Aji, Katon Waskito; Herawati, Happy; Sari, Indah Paramita; Rha’ifa, Febrina Amaliya; Febriyanti, Diana; Priyono, Dwi Sendi
Journal of Tropical Biodiversity and Biotechnology Vol 9, No 3 (2024): September
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/jtbb.84328

Abstract

The Barred Mudskipper (P. argentilineatus) is an amphibious fish species that displays fully terrestrial behaviour during low tides. Previous studies have indicated the existence of cryptic species of the barred mudskipper, leading to difficulties in taxonomic identification due to similarities in morphological characteristics. Therefore, this study aimed to generate DNA barcodes for Indonesian barred mudskipper populations. We collected ten specimens from Clungup Beach and Kondang Bandung Beach, representing our samples. Additionally, we incorporated 25 previously collected COI sequences from Indonesia into our analysis. The mitochondrial COI gene was amplified using PCR and analysed using various bioinformatics programs. This study provides evidence for the presence of three genetically distinct clades (A, B, and C) within the P. argentilineatus population in Indonesia, with a deep genetic divergence of 2.41% to 6.12%. Clade A showed a high genetic divergence of 5.51-6.12%, suggesting the presence of a cryptic species consistent with previous studies. The high level of haplotype diversity and low nucleotide diversity observed in each clade suggest a population bottleneck followed by a rapid expansion. The lack of geographical separation in the haplotype network analysis indicates that gene flow between populations may have been facilitated by glaciation events in the past. These findings contribute to a better understanding of the biodiversity of the barred mudskipper species in Indonesia and will aid in the accurate identification of cryptic species. This study highlights the importance of using molecular techniques to complement morphological identification in understanding the evolution and diversity of mudskipper fish species. 
Co-Authors ACHMAD FARAJALLAH Aji, Katon Waskito Ananto Puradi Ananto Puradi Nainggolan Aprilia Sufi Subiastuti Aulia Sigit Ardianto Bambang Purwantara Diana Febriyanti Donan Satria Yudha Donan Satria Yudha Fajar Sofyantoro Febriyanti, Diana Herawati, Happy Katon Waskito Aji Nainggolan Nainggolan Nata Dwi Annisa Nizma Rahma Izzati Rahma Izzati Rha’ifa, Febrina Amaliya Sari, Indah Paramita Senny Helmiati Septriani, Nur Indah Sukirno Sukirno TARUNI SRI PRAWAST MIEN KAOMINI ANY ARYANI DEDY DURYADI SOLIHIN Tuty Arisuryanti Tuty Arisuryanti, Tuty Wahyu Aristyaning Putri Wahyu Aristyaning Putri