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All Journal HAYATI Journal of Biosciences MEDIA PETERNAKAN - Journal of Animal Science and Technology Jurnal Ilmu Pertanian Indonesia MEDIA KONSERVASI Buletin Peternakan ILMU KELAUTAN: Indonesian Journal of Marine Sciences JBIO: jurnal biosains (the journal of biosciences) BIOTROPIA - The Southeast Asian Journal of Tropical Biology Jurnal Ilmu Ternak Veteriner Journal of the Indonesian Tropical Animal Agriculture Jurnal Pengelolaan Sumberdaya Alam dan Lingkungan (Journal of Natural Resources and Environmental Management) JITRO (Jurnal Ilmiah dan Teknologi Peternakan Tropis) BioCONCETTA Journal of Tropical Biodiversity and Biotechnology Aceh Journal of Animal Science TREUBIA JURNAL BIOLOGI INDONESIA ZOO INDONESIA Jurnal Biologi Tropis ANNALES BOGORIENSES Majalah Ilmiah Biologi BIOSFERA: A Scientific Journal Bioma : Jurnal Biologi Indonesia AL-HAYAT: Journal of Biology and Applied Biology Zoo Indonesia
ACHMAD FARAJALLAH
Departemen Biologi, Fakultas Matematika Dan Ilmu Pengetahuan Alam, Institut Pertanian Bogor, Kampus IPB Dramaga Bogor, 16680, Indonesia
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Earth & Planetary Sciences Education Environmental Science Immunology & microbiology Medicine & Pharmacology Veterinary Other

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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.
Keanekaragaman Undur-Undur Laut (Anomura: Hippidae) Dari Kepulauan Banda Nurulvadini Safrudin; Ali Suman; Nisfa Hanim; Achmad Farajallah
Jurnal Ilmu Pertanian Indonesia Vol. 28 No. 1 (2023): Jurnal Ilmu Pertanian Indonesia
Publisher : Institut Pertanian Bogor

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.18343/jipi.28.1.155

Abstract

Mole crabs are part of the superfamily Hippoidea and members of the family Hippidae Latreille,1825, which inhabit sandy beaches, particularly the swash zone. This condition is commonly found in the Banda Islands. The purpose of this research was to determine the species diversity of the genus Hippa Fabricius, 1787 in the Banda Islands. We identified the species by its morphological characters. Sample collection was done by purposive sampling method. Based on the study's findings, four of the five previously reported species in Indonesia were identified. Hippa ovalis (A. Milne-Edwards, 1862), H. adaactyla Fabricius, 1787, H. marmorata (Hombron & Jacquinot, 1846), and H. celaeno (De Man, 1896) were the species obtained. Hippa cf. ovalis and Hippa cf. marmorata are both presumed to be new species. This study includes descriptions of the two species. Keywords: distribution, Hippidae, Hippa, intertidal, sandy substrate
Variations of Exon 2-3 of the Branched Chain Keto Acid Dehydrogenase E1 Subunit Alpha (BCKDHA) Gene and Its Flanking Intronic Region in Madura Cattle Asri Febriana; Achmad Farajallah; Baiq Farhatul Wahidah; Dyah Perwitasari
Al-Hayat: Journal of Biology and Applied Biology Vol 5, No 2 (2022)
Publisher : Fakultas Sains dan Teknologi, UIN Walisongo Semarang

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21580/ah.v5i2.13436

Abstract

Indonesia is one of a country with high biodiversity and genetic resources. One of them is Madura cattle that derived from crossing between exotic cattle, namely zebu cattle with local Indonesian cattle, namely Bali cattle. Branched-chain alpha-keto acid dehydrogenase is an enzyme complex that metabolizes branched chain amino acids, namely valine, leucine and isoleucine. This study aimed to analyze exons 2-3 variation of the BCKDHA gene and its flanking region in Madura cattle. The sequences of it were obtained using DNA sequencing techniques. A total of seven variations were found, one variation located in the flanking region adjacent to the 5' end of exon 2 of the BCKDHA gene. The A392G variation found in exon 3 does not cause any amino acid changes. There is no variation found in exon 2, it indicates that the exon regions of BCKDHA gene are more conserved than introns in the Madura cattle.
New Record of A Freshwater Prawn Macrobrachium sundaicum in Selat Panjang Island, Riau Province, Indonesia Purnamasari, Lora; Perwitasari-Farajallah, Dyah; Wowor, Daisy; Farajallah, Achmad; Annawaty, Annawaty
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.90449

Abstract

A freshwater prawn M. sundaicum, is an obligate species to acidic peat swamp. Up to the present, M. Sundaicum has only been reported in the West Kalimantan, the Riau Archipelago, and Jambi Provinces in Indonesia. The aim of this research is to determine the distribution and habitat preferences of peat swamp prawn in Selat Panjang Island, Riau Province, Indonesia. The samples were collected in seven peat swamp rivers by hand net. The study yielded one hundred specimens. The acidic peat swamp is a perfect habitat for M. sundaicum. This study provided the basic information about peat swamp prawn in Selat Panjang Island, especially their distribution and habitat preferences. 
STUDY ON MORPHOLOGICAL CHARACTERS OF INDONESIAN LITTER FROG (LEPTOBRACHIUM, MEGOPHRYIDAE) Fauzan, Muhammad Fakhri; Farajallah, Achmad; Hamidy, Amir
TREUBIA Vol 50, No 2 (2023)
Publisher : National Research and Innovation Agency

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/treubia.v50i2.4637

Abstract

Leptobrachium from Southeast Asian populations previously were recognized as a single speciesLeptobrachium hasseltii Tschudi. Taxonomic reassessment revealed that Leptobrachium consists of somecryptic species due to similarities in their morphological appearance but diverse in molecular characters.Among the Indonesian populations, Leptobrachium was split into seven species (L. hasseltii, L. nigrops,L. waysepuntiense, L. hendricksoni, L. ingeri, L. abbotti, and L. montanum). Specifically, L. hasseltii isseparated into two groups; the Sumatran-Javan and the Bali populations. In this study, we analyzed themorphological data of 100 individuals of Leptobrachium to evaluate their morphological differences.The morphological differences expressed by analysis of variance (ANOVA) and principal componentanalysis (PCA) revealed significant differences between each Leptobrachium and four morphologicalcharacters suitable for species identification (the iris color, color pattern, humeral and femoral gland).The morphological differences also showed that the Bali population probably is undescribed species.
Leukocyte Profile of Dexamethasone-Induced Quail After Administration of Bombyx Mori Silkworm Pupae Extract Santoso, Koekoeh; Mahendra, Arindina; Isdoni, Isdoni; Jumadin, La; Farajallah, Achmad
Jurnal Ilmu dan Teknologi Peternakan Tropis Vol 9, No 2 (2022): JITRO, May
Publisher : Universitas Halu Oleo

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.33772/jitro.v9i2.24061

Abstract

Poultry especially Japanese quails are susceptible to the environmental threat that induced glucocorticoid hormone secretion. Glucocorticoids stimulate oxidative stress and a decrease in the immune system. The purpose of this research is to study the potential of silkworm extract (Bombyx mori) to overcome oxidative stress and reduced the immune system in quails that were induced with dexamethasone as glucocorticoid. Thirty-two adult quails were used and were given dexamethasone. Those quails were divided into 4 groups, four groups were given 0 mg, 0.16 mg/kg, 0.32 mg/kg, and 0.64 mg/kg of silkworm extract for each quail. The parameters that were observed are total leucocyte count, differential leucocyte count, and heterophil/lymphocyte ratio. The results are not significant compared to the groups that were not given any supplements. This study shows that the administration of silkworm extract is not effective for recovery purposes.Keywords: antioxidant, quail, Bombyx mori, dexamethasone
Genetic Diversity and Differentiation of Sand Crab (Albunea symmysta) (Crustacea: Decapoda: Hippoidea) from Java and Papua, Indonesia Putri, Vinna Windy; Widayati, Kanthi; Wardiatno, Yusli; Farajallah, Achmad
HAYATI Journal of Biosciences Vol. 31 No. 4 (2024): July 2024
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.31.4.671-677

Abstract

In Indonesia, the sand crab Albunea symmysta distribution includes Java, Sumatra, and Moluccas. Populations are assumed to be differentiated between western and eastern Indonesia due to the Wallace line; however, no information on the genetic diversity and differentiation of A. symmysta in Indonesia is available. This study was conducted to clarify the genetic diversity and differentiation of A. symmysta in Indonesia. During the sampling campaign, A. symmysta specimens were found only in Java and Papua. Genetic analysis based on the 643-bp fragment of the partial COI gene from 32 individuals revealed significant genetic differentiation between the Java and Papua populations (FST = 0.94, p < 0.005). The haplotype connectivity of the five A. symmysta sampling sites revealed a two-clade network. Based on analysis of molecular variance, most of the variation was found among populations (94.21%) rather than within populations (5.79%). Tajima's D and Fu's FS values indicated a population expansion. Overall, the findings support a high level of differentiation between the Java and Papua A. symmysta populations, suggesting the separation of population stocks due to low connectivity.
Genetic Structure of Gallus varius Based on Middle-Lower Section of Control Region mtDNA Achmad, Alfiyan; Farajallah, Achmad; Ulfah, Maria; Perwitasari-Farajallah, Dyah; Muladno, Muladno
HAYATI Journal of Biosciences Vol. 31 No. 3 (2024): May 2024
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.31.3.548-558

Abstract

Gallus varius, an indigenous bird species of Indonesia, demonstrates significant genetic diversity. The genetic diversity assessment in G. varius encompassed both mitochondrial DNA (mtDNA) and nuclear DNA, with the mtDNA analysis primarily centered on domain I of the control region. This study aimed to describe the genetic diversity and structure of G. varius inhabiting Java, Madura, Lombok and Sumbawa based on the middle-lower part of control region mtDNA. Genomic DNA was extracted from the calamus tip of feather, then the middle-lower part of control region was amplified and sequenced using two pairs of primers. In the examined control region, spanning from 944 to 1,008 bp, 13 bp of nucleotide variation was observed, with nucleotide diversity at 0.0021. Between G. varius samples and the reference (NC_007238.1), a total of 7 haplotypes were identified, 5 unique and 2 shared haplotypes, with haplotype diversity at 0.7692. The substantial diversity of haplotypes in this study and two previous study suggests that the genetic diversity of G. varius has remained stable over the past two decades. Additionally, genetic distance data indicate there is multiple G. varius subspecies, and the haplotype network accentuates signs of population differentiation.
Food Habits of the Common Palm Civet (Paradoxurus hermaphroditus) in Pangandaran Nature Reserve, West Java, Indonesia: a Preliminary Report Tsuji, Yamato; Tatewaki, Takafumi; Farajallah, Achmad; Tanaka, Hiroyuki; Arum Widayati, Kanthi; Suryobroto, Bambang
HAYATI Journal of Biosciences Vol. 31 No. 4 (2024): July 2024
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.31.4.687-692

Abstract

We conducted a preliminary survey of the wild common palm civet Paradoxurus hermaphroditus in a secondary forest in Pangandaran Nature Reserve, West Java, Indonesia. We collected 125 fresh fecal samples between October 2018 and August 2019. We conducted faecal analyses after species confirmation by camera trapping and faecal DNA analysis. Almost all faeces contained fruits and seeds (frequency of occurrence: 97.6%), while the percentage of animal matter (including mammals, birds, insects, non-insect arthropods, and molluscs) was much lower (22.4%). We observed no seasonal differences in major faecal contents. Higher dependence on fruits by the common palm civets was similar to those in other study sites. Seeds of at least eight different plant species were found in the faeces of the common palm civets, which implied that the common palm civets would play roles as seed dispersal agents.
Characterization of CDS Region of Exons 1 and 2 of SOX9 Gene as Potential Gene in Construction of Syrinx Structure in Junglefowl (Gallus sp.) Alfiyan, Achmad; Farajallah, Achmad; Maria, Ulfah; Perwitasari-Farajallah, Dyah; Muladno, Muladno
HAYATI Journal of Biosciences Vol. 31 No. 6 (2024): November 2024
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.31.6.1130-1143

Abstract

The crowing of male Gallus exhibits diverse sound patterns. This is believed to be related to the phenotypic diversity of vocal organs, one of which is influenced by the nucleotide diversity of the associated genes. The SOX9 gene, involved in cartilaginous tissue growth and development, is reported to contribute e in the development of larynx and syrinx. This study aimed to characterize the CDS regions of exons 1 and 2 of the SOX9 gene in junglefowl to assess its diversity. Genomic DNA was extracted from ten individuals of G. varius from Lombok and Sumbawa. The CDS regions of SOX9 gene exons 1 and 2 were amplified using two primer pairs. Additionally, the CDS regions of SOX9 gene exons 1 and 2 from 54 junglefowl SRA data in an online repository were mapped and analyzed. The study identified all nucleotide sequences as CDS regions of SOX9 gene exons 1 and 2. Six shared, and 24 unique haplotypes were constructed. A putative amino acid sequence common to all Gallus species was also identified. The diversity observed in the CDS regions of SOX9 gene exons 1 and 2 nucleotide sequence showed a different level with the diversity observed in its amino acid sequence.
Co-Authors A Anggraeni A Anggraeni A Anggraini A Batubara A. Anggraeni A. Anggraeni Achmad, Alfiyan Agus Alim Hakim AKICHIKA MIKAMI Alfandy Hermansyah ALFIYAN, ACHMAD Ali Mashar Ali Suman Amir Hamidy Amir Hamidy AMIR HAMIDY ANIFA BINTAR Annawaty Annawaty, Annawaty Arma Aditya Kartika Aron Batubara Aron Batubara Arum Widayati, Kanthi Asri Febriana Asri Febriana, Asri B Tiesnamurti B. Tiesnamurti Baiq Farhatul Wahidah Bambang Purwantara Bambang Suryobroto Burhanuddin Burhanuddin C Sumantri C Sumantri C. SUMANTRI C. Sumantri Cece Sumantri D Perwitasari D, Nurhayati D. Herdiana D. Rahmat Daisy Wowor Daisy Wowor Daisy Wowor, Daisy Dede Setiadi Devi Sandriliana DEWI APRI ASTUTI DEWI PURNAMA Dwi Sendi Priyono Dyah Perwitasari DYAH PERWITASARI -FARAJALLAH E Andreas E. Andreas E. Andreas Ekayanti Mulyawati Kaiin Eric N. Smith Eric N. Smith Erni Sulistiawati Eryk Andreas Farid Akhsani Fauzan, Muhammad Fakhri Ferdy Saputra H. Nuraini HANIM, NISFA HERA MAHESHWARI I Inounu Imas Batubara Irma Shita Arlyza Isdoni Bustaman J F Salamena Jarmuji Jarmuji Jeane Siswitasari Mulyana Joni Setiawan Jumadin, La KANTHI ARUM WIDAYATI Khairiza Lubis koekoeh santoso KREY KREY Kuswati Kuswati Lora purnamasari, Lora Luthfia Nuraini Rahman M Doloksaribu M Karmita M. CHANDRA WIDJAJA M. Doloksaribu Mahendra, Arindina Maria Ulfah Maria Ulfah Mennofatria Boer Meutiya Agustina Meutiya Agustina, Meutiya Moch. Syamsul Arifin Zein Mufti Sudibyo N Satriani NEVIATY PUTRI ZAMANI Nirmala Fitria Firdhausi Nisfa Hanim Nisfa Hanim Novita Anggraeni Nurhayati D Nurlisa Alias Butet Nurulvadini Safrudin Paskah Partogi Agung Person Pesona Renta Pradana, Tengku Gilang Pudji Achmadi Putri, Vinna Windy R Diyono R Misrianti R R Noor R R Noor R.R. Noor R.R. Noor Rarah Ratih Adjie Maheswari RIKA RAFFIUDIN Rissa Herawati Ginting Riyanto, Awal Riyanto, Awal Rose Ida Ummah Rudi Alek Wahyudin Sasmita, Annissa Nuridfi Silvia Puspitasari Siti Lutvaniyah Slamet Mulyanto Smith, Eric N. Soemarno, Suprayogo Soemarno, Suprayogo Syahruddin Said Tanaka, Hiroyuki TARUNI SRI PRAWAST MIEN KAOMINI ANY ARYANI DEDY DURYADI SOLIHIN TARUNI SRI PRAWASTI Tatewaki, Takafumi Tri Eko Susilorini Tsuji, Yamato Vella Nurazizah Djalil Wahyudin Abd. Karim Widayat, Kanthi Arum i Widayati, Kanthi Wijayanti, Pristina Tuti Yanti Ariyanti Yanti Ariyanti Yusli Wardiatno