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All Journal HAYATI Journal of Biosciences MANAJEMEN HUTAN TROPIKA Journal of Tropical Forest Management Jurnal Ilmu Pertanian Indonesia Jurnal Ilmu dan Teknologi Hasil Hutan Jurnal Ilmu dan Teknologi Kelautan Tropis Jurnal Ilmu-Ilmu Perairan dan Perikanan Indonesia Forum Pasca Sarjana Jurnal Sain Veteriner Biospecies Jurnal Veteriner ILMU KELAUTAN: Indonesian Journal of Marine Sciences Jurnal Natur Indonesia Prosiding Seminar Biologi Microbiology Indonesia AL KAUNIYAH Jurnal Penelitian Hutan dan Konservasi Alam Jurnal Matematika & Sains agriTECH TREUBIA BERITA BIOLOGI JURNAL BIOLOGI INDONESIA ZOO INDONESIA Jurnal Biodjati Majalah Ilmiah Biologi BIOSFERA: A Scientific Journal Jurnal Iktiologi Indonesia (Indonesian Journal of Ichthyology) Floribunda JURNAL ILMU KEFARMASIAN INDONESIA Konservasi Hayati Zoo Indonesia Proceeding Biology Education Conference Makara Journal of Science Jurnal Kedokteran Hewan

TARUNI SRI PRAWAST MIEN KAOMINI ANY ARYANI DEDY DURYADI SOLIHIN

Departemen Biologi, Fakultas Matematika Dan Ilmu Pengetahuan Alam, Institut Pertanian Bogor

Author-ID : 251065

Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Decision Sciences, Operations Research & Management Earth & Planetary Sciences Education Environmental Science Immunology & microbiology Library & Information Science Materials Science & Nanotechnology Mathematics Medicine & Pharmacology Public Health Veterinary Other

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Functional Group of Spiders in Cultivated Landscape Dominated by Paddy Fields in West Java, Indonesia I WAYAN SUANA; DEDY DURYADI SOLIHIN; DAMAYANTI BUCHORI; SJAFRIDA MANUWOTO; HERMANU TRIWIDODO; CHRISTIAN HANSJOACHIM SCHULZE
HAYATI Journal of Biosciences Vol. 16 No. 1 (2009): March 2009
Publisher : Bogor Agricultural University, Indonesia

Distribution of spiders in all colonized environments is limited by biotic and abiotic factors requiring adaptations with respect to, for example microhabitat choice and hunting behavior. These two factors were frequently used to group spiders into functional groups. In this study our objectives were to (i) group of genera of spiders into functional group based on their microhabitat specificity, hunting behavior, and daily activity; and (ii) compare the number and composition of functional group of spider at each habitat type and period of paddy growth. The study was conducted at a landscape dominated by paddy fields in Cianjur Watershed for a period of 9 months. Four different habitat types (paddy, vegetable, non-crop, and mixed garden), were sampled using five trapping techniques (pitfall traps, farmcop suction, sweep netting, yellow-pan traps, and sticky traps). The Unweighted Pair-Group Average and the Euclidean Distances were used to generate dendrogram of functional group of spider. We found 14 functional groups of spider at genus level. The number of functional group of spider at four habitat types was differing, but the composition was similar, because all habitats were closed to each other. Habitat structure diversity and disturbance level influenced the number of functional group of spider. Different architecture of vegetation and availability of differ prey during paddy growth, causing the composition of functional group of spider in each period of paddy growth was changed, although its number was unchanged. Key words: spiders, functional group, agricultural landscape, Cianjur Watershed

Molecular Phylogeny of Giant Clams Based on Mitochondrial DNA Cytochrome C Oxidase I Gene AGUS NURYANTO; DEDY DURYADI; DEDI SOEDHARMA; DIETMAR BLOHM
HAYATI Journal of Biosciences Vol. 14 No. 4 (2007): December 2007
Publisher : Bogor Agricultural University, Indonesia

There is an uncertainty for the relationships among giant clam species of Tridacninae, in particular among species belongs to subgenus Chametrachea i.e. Tridacna crocea, T. maxima, and T. squamosa based on different genetic markers. This study examined the relationships among three species within subgenus Chametrachea compared to the previous studies. Neighbour Joining, Maximum Parsimony and Maximum Likelihood tree were constructed based on 455 bp of the mitochondrial DNA cytochrome c oxidase I gene from T. crocea, T. squamosa, T. maxima, T. gigas, and several sequences derived from Genbank for the outgroups. The results showed that giant clams formed a monophyletic group. Within Tridacna group, T. crocea was more closely related to T. squamosa than to T. maxima and they formed a monophyletic group. T. crocea and T. squamosa were sister taxa and sister group to T. maxima and T. gigas. Close affinity between T. crocea and T. squamosa was also supported by high similarity on nucleotide level (94.30%) and concordant with the results of the previous studies using mitochondrial 16S rRNA and nuclear 18S rRNA. Key words: phylogenetic relationships, Chametrachea, cytochrome c oxidase I

Comparison of DNA Extraction Methods for Microbial Community Analysis in Indonesian Tempe Employing Amplified Ribosomal Intergenic Spacer Analysis CECILIA ANNA SEUMAHU; ANTONIUS SUWANTO; IMAN RUSMANA; DEDY DURYADI SOLIHIN
HAYATI Journal of Biosciences Vol. 19 No. 2 (2012): June 2012
Publisher : Bogor Agricultural University, Indonesia

Tempe fermentation involved complex microbial communities which are only revealed partially through culture dependent methods. Culture-independent methods would be potential to unravel this complex microbial fermentation. Appropriate DNA extraction is an essential tool to obtain reliable data from culture independent method. In this study, we employed two commercial DNA extraction methods to find the best one for microbial community characterization employing amplified ribosomal intergenic spacer analysis (ARISA). Our result showed that PowerFood Microbial DNA Isolation Kit-MOBIO (PFMDIK) is an excellent method for microbial DNA extraction from tempe. It gave high quantity and quality of DNA suitable for PCR amplification of 16S-23S rRNA intergenic spacer to yield a diverse and reproducible ARISA profile.

Nucleus Pearl Coating Process of Freshwater Mussel Anodonta woodiana (Unionidae) SATA YOSHIDA SRIE RAHAYU; DEDY DURYADI SOLIHIN; WASMEN MANALU; RIDWAN AFFANDI
HAYATI Journal of Biosciences Vol. 20 No. 1 (2013): March 2013
Publisher : Bogor Agricultural University, Indonesia

The limiting factor which is a weakness of sea water pearl production are high costs, the risk of major business failures and a long coating time. From the issue of freshwater pearls appear to have prospects of alternative substitution for sea water pearl. This present study aimed to evaluate effect of loads (the number and diameter nucleus) on freshwater pearl coating process and the number and size of the appropriate nucleus diameter, to produce the optimum coating thickness of half-round pearls. The research consists of experimental implantation of 2, 4, and 6 nucleus number per individual mussel was maintained by the method stocked in hapa in bottom waters. Observation method and factorial randomized block design used in the study of the influence of the load to the successfulness of pearl coating and the pearl layer thickness. The results showed that A. woodiana can be utilized as a producer of freshwater pearls. In addition, the number of optimum nucleus that can be attached to the mussel A. woodiana was 2 grains/individuals with a diameter of 10 mm. Shells implanted with the optimum nucleus diameter and number of pearls produced the highest layer thickness of 17 mm after 9 months cultivation. This result was good enough compared with the layer thickness of sea water pearl production after the same cultivation time.

Bacterial and Fungal Communities in Tempeh as Reveal by Amplified Ribosomal Intergenic Sequence Analysis CECILIA ANNA SEUMAHU; ANTONIUS SUWANTO; IMAN RUSMANA; DEDY DURYADI SOLIHIN
HAYATI Journal of Biosciences Vol. 20 No. 2 (2013): June 2013
Publisher : Bogor Agricultural University, Indonesia

Tempeh is an Indonesian traditional fermented food produced using Rhizopus as a starter culture. In practice, however, the starter culture as well as fermentation processes would yield a polymicrobial fermentation, which generated a unique tempeh flavor and texture. This condition makes Indonesian tempeh as one of the most complex fermented food, while at the same time would make it difficult to scale up tempeh production with uniform quality and consistency. The aim of this study was to compare a number of tempeh microbial communities employing Amplified Ribosomal Intergenic Sequence Analysis (ARISA). Fresh tempeh samples were obtained from tempeh producers in Java and Moluccas. 16S rRNA gene libraries and DNA sequencing were employed to analyze further the nature of bacterial diversity in two selected tempeh samples. The results of our study showed that different tempeh producer possessed different Bacterial ARISA (BARISA) or fungi ARISA (FARISA) profiles. However, BARISA profiles were found to be more discriminative than FARISA, and therefore BARISA would be more useful for tempeh genetic fingerprint or barcoding.

The Existence of Endophytic Actinobacteria from Rhododendron zoelerri Revealed by Culture-Dependent and Culture-Independent Approaches Yulin Lestari; Lia Aseptin Murdini; Dedy Duryadi Solihin
HAYATI Journal of Biosciences Vol. 25 No. 2 (2018): April 2018
Publisher : Bogor Agricultural University, Indonesia

Endophytic actinobacteria from medicinal plant may play a significant role in producing bioactive compounds. The information regarding their diversity is an important. Rhododendron are traditionally used for treating human disorders. One of the selected Rhododendron used in this study was R. zoelleri from Papua origin, which has been conserved and grown in Cibodas Botanical Garden, West Java, Indonesia. The aim of this study was to assess the existence of endophytic actinobacteria from R. zoelleri based on a culture-dependent and their community structure based on a culture-independent approach. Culturable actinobacteria were isolated and cultured on HV medium. Polymerase Chain Reaction-Denaturing Gradient Gel Electrophoresis (PCR-DGGE) targeting the metagenomic 16S rRNA was used to analyse the structure of the actinobacterial community. Six culturable endophytic actinobacteria (200 cfu/g fresh weight) from R. zoelleri were successfully isolated, three isolates from leaf, and the other isolates were obtained from stem. The six culturable isolates were RZP 1.3, RZP 1.1, RZP 2.2, RZPB 1.1, RZPB 7.1, RZPB 4.1. Based on their morphological characteristics, the endophytes have Streptomyces characters. The existence of Streptomyces spp. were also confirmed with molecular analysis based on 16S rRNA gene. The phylogenetic analysis based on 16S rRNA gene to the reference strains available in EzTaxon-e database showed that six isolates were closely related to S. djakartensis strains of NBRC 15409ᵀ(99.19%), S. tritolerans strains of DAS 165T(99.90%), S. coelicoflavus strains of NBRC 15399T(99.59). However, they showed differences in morphological characteristics as compared with the reference strains. The metagenomic analysis of the DGGE profile based on 16S rRNA gene showed the community structure of endophytic actinobacteria from R. zoelleri which was represented by 13 DGGE bands. The bands were closely related to Agromyces, Gordonia, Microbacterium, Micromonospora, Propionibacterium, Saccharomonospora, Streptomyces which have 93.18%-100% similarity. Based on the data, it showed diversity of endophytic actinobacteria from R. zoelleri which may be further assess for their novelty and bioprospecting.

DNA Barcode of Seven Indonesian Hornbills Species (Aves: Bucerotidae) Based on Mitochondrial DNA Cytochrome Oxidase Subunit I Jarulis Jarulis; Dedy Duryadi Solihin; Ani Mardiastuti; Lilik Budi Prasetyo
HAYATI Journal of Biosciences Vol. 25 No. 4 (2018): October 2018
Publisher : Bogor Agricultural University, Indonesia

DNA barcoding based on mitochondrial DNA COI gene is very useful in identifying of Indonesian hornbill. We sequenced the DNA barcode of seven hornbill species using the mitochondrial DNA COI gene to explore their genetic variation, identity, distance, and phylogenetic. Thirty-one blood samples from seven hornbill species were isolated and analyzed. Slight variation was observed within the nucleotide of the hornbill species. In contrary, fairly significant difference was shown within the genus and family level. COI gene sequences generated from this study, showed unmatched result with BoLD System database. These seven Indonesian hornbill species were then divided into two groups, namely Group I consisting of Aceros cassidix, Rhyticeros plicatus, R. undulatus, Buceros rhinoceros, and B. bicornis, while Group II occupied by Anthracoceros albirostris and A. malayanus; both groups with genetic distance 5.90%. Overall in-group had 9.40% distances to the hornbill used as the out group. COI sequence gene from these seven hornbill species are novel for identifying Indonesian hornbills. We encourage its use as quick species identification, applied to prevent illegal poaching conservation management.

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

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.

Co-Authors Abdul Rahman Singkam Achmad - Taher ACHMAD FARAJALLAH Achmad Machmud Achmad Machmud Thohari Achmad Taher Achmad Taher Achmad, Taher Agus Nuryanto Agus Wahyana Anggara Agus Wahyana Anggara Agus Wahyana Anggara, Agus Wahyana Alam Putra Persada Ani Mardiastuti Ani Mardiastuti Ani Suryani Antonius Suwanto dan Meity S. Sinaga . Budi Tjahjono Andi Khaeruni R Any Aryani Ardi Kapahang Arief Boediono Arzyana Sunkar Bahiyah Bahiyah Bambang Purwantara Cece Sumantri CECILIA ANNA SEUMAHU CHRISTIAN HANSJOACHIM SCHULZE D.D. Sastraatmadja DAMAYANTI BUCHORI Dedi . Soedharma Dedi Soedharma DEWI APRI ASTUTI Dewi Elfidasari Dewi Malia Prawiradilaga Dewi Malia Prawiradilaga, Dewi Malia DIAH ISKANDRIATI Diah Iskandriati DIETMAR BLOHM Dodi Nandika Dondin Sajuthi Dwi ASTUTI Dwi Astuti Dwi Sendi Priyono DYAH PERWITASARI -FARAJALLAH Epa Paujiah, Epa EVY AYU ARIDA Evy Ayu Arida Fahma Wijayanti FAHRI FAHRUDIN Findra, Muhammad Nur FUNGKEY HOETAMA Gita Kusuma Rahayu Hadi Allikodra Hadi S Alikodra Hadi S Alikodra HADI SUKADI ALIKODRA HAJRIAL ASWIDINNOOR Handayani Handayani Hari Prayogo Harini Nurcahya Mariandayani Heddy Julistiono HEDDY JULISTIONO Hermanu Triwidodo I Gusti Agung Arta Putra I WAYAN SUANA Ibnu Maryanto Iman Rusmana Irma Shita Arlyza Irzaman, Irzaman Isdradjad Setyobudiandi Ismayati Afifah Jamhari Jamhari Jarulis Jarulis Jarulis Jarulis Jarulis Jarulis Jito Jito Jito Sugardjito Joko Pamungkas Jusmaldi Jusmaldi Kadarwan Soewardi Khustina, Yenny Chusna Khustina, Yenny Chusna Kunio Watanabe Lia Aseptin Murdini Lilik Budi Lilik Budi Prasetyo Lilik Budi Prasetyo Lucia Johana Lambey M F Rahardjo M. F. Rahardjo M. Zairin Junior MARIA BINTANG MF Rahardjo Mustafa Sabri Nastiti Kusumorini NEVIATY PUTRI ZAMANI Niken Subekti Niken TM Pratiwi Nurlisa Butet, Nurlisa Prasetyo Prasetyo Priyono, Siti N. Retno Damayanti Soejoedono RICHARD F GRANT Ridwan Affandi Ridwan Affandi Ridwan Affandi Ridwan Affandi Ridwan Affandi Ridwan Affandi Ridwan Affandi RIDWAN AFFANDI Rini Widayanti Robba Fahrisy Darus ROEDHY POERWANTO Roedy Poerwanto Roedy Poerwanto Roni Koneri Ronny Rachman Noor Roza Elvyra Rudhy Gustiano Rudhy Gustiano Rudhy Gustiano Rudhy Gustiano Rudi Afnan Rudi Tarumingkeng Rudy C Tarumingkeng Safrida Safrida Saroyo Saroyo SATA YOSHIDA SRIE RAHAYU SATRIYAS ILYAS SELA SEPTIMA MARIYA SILMI MARIYA Siti N. Priyono SJAFRIDA MANUWOTO Soaloon Sinaga Soaloon Sinaga Sobir Sobir Sobir Sobir Sobir Sobir Solihin Solihin Sri Catur Setyawatiningsih Sri Catur Setyawatiningsih sri murtini . SRI NINGSIH Sri Sulandari Sri Supraptini Mansjoer Subyakto Subyakto Sugardjito Sugardjito Suharsono Suharsono SULISTIYANI SULISTIYANI Sulistiyani Sulistiyani SULISTIYANI SULISTIYANI Sulistiyani, Sulistiyani Surjono Surjokusumo Syaiful Anwar Syamsul Bachry Tedjo Sukmono Thohari Thohari Tike Sartika Tri Haryoko Tri Haryoko, Tri UUS SAEPULOH UUS SAEPULOH Wasmen Manalu Yuli Wahyu Tri Mulyani YULIN LESTARI Yuni Cahya Endrawati Yus Rusila Noor Yusnarti Yus

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