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All Journal HAYATI Journal of Biosciences Jurnal Ilmu Pertanian Indonesia Jurnal Fitopatologi Indonesia Jurnal Akuakultur Indonesia Biospecies ILMU KELAUTAN: Indonesian Journal of Marine Sciences Microbiology Indonesia Biota: Jurnal Ilmiah Ilmu-Ilmu Hayati Biogenesis: Jurnal Ilmiah Biologi Indonesian Journal of Agricultural Science Indonesian Journal of Biotechnology Jurnal Sumberdaya Hayati JURNAL HAMA DAN PENYAKIT TUMBUHAN TROPIKA ANNALES BOGORIENSES Majalah Ilmiah Biologi BIOSFERA: A Scientific Journal Biosaintifika: Journal of Biology & Biology Education Jurnal Iktiologi Indonesia (Indonesian Journal of Ichthyology) Journal of Multidisciplinary Applied Natural Science Media Akuatika: Jurnal Ilmiah Jurusan Budidaya Perairan Makara Journal of Science Annales Bogorienses

Aris Tri Wahyudi

Biology Department, Faculty Of Mathematics And Natural Sciences, Bogor Agricultural University, Bogor, West Java, Indonesia, 16680

Author-ID : 410994

Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Earth & Planetary Sciences Energy Environmental Science Immunology & microbiology Materials Science & Nanotechnology Mathematics Medicine & Pharmacology Physics

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Impact of Methanotrophic and N2O-reducing Bacterial Inoculation on CH4 and N2O Emissions, Paddy Growth and Bacterial Community Structure in Paddy Field Yuli Siti Fatma; Iman Rusmana; Aris Tri Wahyudi; Hamim Hamim
HAYATI Journal of Biosciences Vol. 27 No. 3 (2020): July 2020
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.27.3.197

Paddy field is one of the anthropogenic sources that produce greenhouse gases emission. This study aimed to investigate the impact of methanotrophic and N2O-reducing bacterial inoculation on CH4 and N2O emissions, paddy growth and bacterial community structure in paddy field. Two treatments of 100% synthetic fertilizer (250 kg urea/ha) without biofertilizer and 50% synthetic fertilizer (125 kg urea/ha) with biofertilizer consisted of methanotrophic and N2O-reducing bacteria were applied in the paddy field. Inoculation of methanotrophic and N2O-reducing bacteria was able to reduce CH4 and N2O emission up to 4.19 mg CH4/m2/day and 351.29 µg N2O/m2/day, respectively. Those bacterial applications were also able to increase paddy growth and yield productivity. According to DGGE profile, inoculation of the biofertilizer seemed to have a transient impact on bacterial communities in paddy soil at 36 days after transplanting (DAT) which showed the lowest similarity with all samples (a similarity index of 0.68). DGGE bands successfully excised have closest relative to uncultured bacteria which comprised 5 phyla, i.e. Proteobacteria (Alphaproteobacteria and Deltaproteobacteria), Nitrospirae, Actinobacteria, Firmicutes, and Acidobacteria. In this study, Alphaproteobacteria was the most dominant phylum. We provide basic information for developing the biofertilizer which supports sustainable agriculture.

Alkaline Phosphatase Activity of Plant Growth-Promoting Actinomycetes and Their Genetic Diversity Based on the phoD Gene Muhammad Faiz Amri; Edi Husen; Aris Tjahjoleksono; Aris Tri Wahyudi
HAYATI Journal of Biosciences Vol. 29 No. 3 (2022): May 2022
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.29.3.360-369

Actinomycete is one of the beneficial bacteria groups inhabiting rhizosphere soil. They can promote plant growth through various mechanisms. In the previous study we have isolated rhizosphere actinomycetes from maize rhizosphere with direct plant growth promotion characters. The aims of the present study were to analyze the ability of maize rhizosphere actinomycetes to solubilize phosphate, determine alkaline phosphatase activity, and study their genetic diversity based on phoD gene. Thirteen rhizosphere actinomycete isolates were able to solubilize phosphate at concertation range 55.84±2.27 mg/L to 144.48±5.71 mg/L. The activity of extracellular alkaline phosphatase was exhibited by all maize rhizosphere actinomycetes isolates in various level ranging from 0.08 mU/mL to 0.51 mU/mL. The phoD gene, one of the three homologous genes which encode alkaline phosphatases, was successfully detected in all isolates and identified as alkaline phosphatase D of Streptomyces spp. The partial phoD sequences of the isolates were located within metallophosphatase domain of alkaline phosphatase D. Alignment analysis showed that the deduced amino acid sequences of PhoD were mostly conserved in the isolates and Streptomyces spp. Essential residues involved in the active core arrangement of PhoD which binds metal ion cofactors were conserved. Constructed phylogenetic tree showed that the isolates were divided into two groups within PhoD cluster. PhoD of the isolates and Streptomyces spp. had closer relationship to purple acid phosphatase compared to other homologous PhoA and PhoX which form separate cluster. Generated three-dimensional structure model of partial PhoD had high similarity to alkaline phosphatase D of Bacillus subtilis (2YEQ) and showed overlapping structure based on super-positioning analysis.

Kandungan IAA, serapan hara, pertumbuhan dan produksi jagung dan kacang tanah sebagai respon terhadap aplikasi pupuk hayati Sigit Tri Wibowo; . Hamim; Aris Tri Wahyudi
Jurnal Ilmu Pertanian Indonesia Vol. 14 No. 3 (2009): Jurnal Ilmu Pertanian Indonesia
Publisher : Institut Pertanian Bogor

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (895.569 KB)

The aim of this research was to study IAA content, nutrient uptake, growth and productivity of maize and peanut in response to application of biofertilizer. The research was conducted in a green house of Cikabayan IPB Farm, Bogor Agriculture University, Darmaga, Bogor, West Java. A completely randomized design was applied in single factor experiment for maize and peanut with 3 replications. The treatments consisted of 4 factors: I. Without fertilizer, II. 100% biofertilizer (dosage 100g/pot), III. 100% inorganic fertilizer, and IV. Combination of biofertilizer and inorganic fertilizer with 50% dosage. Biofertilizer was applied using compost enriched by Pseudomonas sp., Bacillus sp., Azotobacter sp., Azospirillum sp., Rhizobium sp, and P-solubilising bacteria. The dosage of inorganic fertilizer was 0.5 gfpot of Urea; 0.5 g/pot of SP-36; 0.375 g/pot of KCI for maize, and 0.125 g/pot of Urea; 0.5 g/pot of SP-36; 0.375 g/pot of KCI for peanut. Application of biofertilizer enhanced auxin content of maize by 73-159°/o, but not in peanut. The treatment also increased the uptake of N, P, and K of both plants by 2 to 35 times as compared to control plant. The production increased by 270% on maize and 66% on peanut due to application of biofertilizer. The result showed that application of compost enriched by microbial activator was able to supplement inorganic fertilizer for growth and production of maize and peanut.

Skrining dan Identifikasi Bakteri Laut Penghasil Enzim Selulase yang Berasosiasi dengan Spons Rika Indri Astuti; Yohanes Bernadino Putera Saju; Dina Aribah; Aris Tri Wahyudi
Jurnal Ilmu Pertanian Indonesia Vol. 27 No. 1 (2022): Jurnal Ilmu Pertanian Indonesia
Publisher : Institut Pertanian Bogor

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.18343/jipi.27.1.70

Marine bacteria associated with sponges can be used as a source of new enzymes, especially cellulase which are potentially used for various industries. The aim of this study was to screen and identify the cellulolytic bacteria associated with sponges. A total of 38 isolates have been successfully isolated from sponges Aaptos sp., Euryspongia sp., and Haliclona sp. by a spread plate method. Amongst 38 isolates, 14 (37%) showed cellulolytic activities in carboxy methyl cellulose (CMC) medium with a cellulolytic index ranging from 0.31 to 1.63. The three highest cellulolytic index was exhibited by bacterial isolates coded Y.5.10, Y.5.11, and Y.40.6. Isolates Y.5.10, Y.5.11, and Y.40.6 showed cellulolytic activity of 0.0053 U/mL; 0.0083 U/mL; and 0.0124 U/mL, respectively, as were tested by spectrophotometry. The highest specific enzymatic activity was showed by isolate Y.40.6 with a value of 0.3391 U/mg. Based on 16S rRNA gene, isolate Y.5.10, Y.5.11, and Y.40.6 were highly similar to (similarity ≥ 99%) Bacillus sp., B. subtilis, and B. cereus, respectively. Keywords: cellulase, isolation, sponge-associated bacteria, 16S rRNA

Formulasi Bakteri Filosfer Padi dan Aplikasinya untuk Mengendalikan Penyakit Hawar Daun Bakteri Siska Tridesianti; Alina Akhdiya; Aris Tri Wahyudi
Jurnal Fitopatologi Indonesia Vol 12 No 6 (2016)
Publisher : The Indonesian Phytopathological Society (Perhimpunan Fitopatologi Indonesia)

Xanthomonas oryzae pv.oryzae is a casual agent of bacterial leaf blight disease (BLB) of rice. The disease can infect every phases of plant growth and can reduce rice production. In the previous study we have isolated nonpathogenic phyllosphere bacteria against X. oryzae pv.oryzae. For further study, in the present work we developed the formulation of the phyllosphere bacteria and tested their effectiveness against BLB in greenhouse trials. Out of three alternative medium used in culturing bacterial cell biomass, it was revealed that potato broth served as the best medium in comparison with skim milk molasses and bran extract. Formulation of phyllosphere bacteria was conducted by using of talc as main carrier, i.e. approximately 109 cfu g-1of main carrier. Application of the formula on rice leaves indicated that BFV 60, BFF 69, BFR 203 and BFR 153 were the best formula for controlling BLB and were able to reduce disease incidence up to 40.73%, 39.72%, 39.26%, and 28.07%, respectively

Detection and Cloning of a Gene Involved in Zwitermicin A Synthesis from Plant Growth Promoting Rhizobacteria of Bacillus sp CR64 Aris Tri Wahyudi; Rika Indri Astuti; Nisa Rachmania Mubarik; Sarah Asih Faulina
Indonesian Journal of Biotechnology Vol 15, No 1 (2010)
Publisher : Universitas Gadjah Mada

Utilization of soil bacteria as biocontrol agent is becoming popular due to its valuable and effective mechanisms to suppress plant pathogenic microbes. We have previously isolated Bacillus sp, designated as Bacillus sp CR64, which exhibited effective plant growth promoting and antifungal activities. In this study, CR64 was examined in inhibiting the growth of Rhizoctonia solani, the causing agent of root rot disease. Partial sequence analysis of 16S rRNA gene revealed that this isolate similar with Bacillus cereus (94%). Furthermore, a gene designated zmaR was detected by means of specific amplification of DNA fragment approximately 950 bp. This fragment was then cloned onto pCRII-TOPO (3.9 kb) and sequenced using DNA sequencer ABI PRISM 310. Sequence analysis revealed that it had highest homology with the ZmaR protein (89% identity; 90% similarity) of B. thuringiensis serovar kurstaki (AAF82729.2). Alignment analysis with other ZmaR sequences from other antibiotic-producing Bacilli exhibited an almost fully conserved region within ZmaR sequences.Key words : PGPR, Bacillus sp CR64, Zwitermicin A, Cloning, Antifungal.

Sequences Analysis of a Gene Encoding Extracellular Xylanase in Streptomyces costaricanus 45I-3 S. Sipriyadi; Aris Tri Wahyudi; Maggy Thenawidjaja Suhartono; Anja Meryandini
Indonesian Journal of Biotechnology Vol 20, No 1 (2015)
Publisher : Universitas Gadjah Mada

Streptomyces costaricanus 45I-3 is a bacterial strain belongs to actinomycetes group isolated from peat soil. Thebacterium is known to produce extracellular xylanase. The aims of this study were to analyze DNA sequence andsub-clone gene involved in the synthesis of extracellular xylanase. Complete DNA sequence predicted to encodexylanase genes was isolated from bacterial genome using Inverse Polymerase Chain Reaction (I-PCR). Total DNAsequence of 1664 bp in size obtained from I-PCR consisted of two open reading frames (ORF) in opposite direction.ORF1 was 1029 bp and ORF2 (partial sequence) was 309 bp. Analysis sequence using BlastX indicated that ORF1was homologous with xylanase bacterium enrichment culture clone Xyl8B8 (GenBank accession No. AFH35005.1),i.e. 95% in identity and 99% in similarity. In addition, ORF2 was homologous with glyoxalase bacterium enrichmentculture clone Xyl8B8 (GenBank accession No. AFH35007.1), i.e. 95% in identity and 98% in similarity. Analysis ofamino acid sequence revealed that ORF1 consisted of 2 domains, i.e. glyco-hydrolase 11 (GH11) and CarbohydrateBinding Type 2 (CBM2). Active site was found at 130th amino acid on GH11 domain. Visualization of 3-dimensionstructure showed that 1029 bp fragment is of 19 areas.

Isolation of actinomycetes from maize rhizosphere from Kupang, East Nusa Tenggara Province, and evaluation of their antibacterial, antifungal, and extracellular enzyme activity Umi Fatmawati; Yulin Lestari; Anja Meryandini; Abdjad Asih Nawangsih; Aris Tri Wahyudi
Indonesian Journal of Biotechnology Vol 23, No 1 (2018)
Publisher : Universitas Gadjah Mada

Actinomycetes are the one of the components of the rhizospheric microbial population and useful for producing secondary metabolites such as lytic enzymes, antibiotics, and antifungal. The aim of the study was to isolate the actinomycetes from maize rhizosphere collected from Kupang, East Nusa Tenggara. The screening was focused on the actinomycetes that showed the ability to produce antibacterial, antifungal, and extracellular enzymes such as amylase, cellulase, and protease. The actinomycetes were isolated using Humic-Acid Vitamin B (HV) agar media. The antagonistic assay was tested against Escherichia coli, Staphylococcus aureus, Sclerotium rolfsii and Fusarium oxysporum. Isolate JKP-8 was an isolate that showed the highest activity in inhibiting the growth of E. coli and S. aureus bacteria. Isolate JKP-5 showed the highest activity in inhibiting the growth of F.oxysporum. There were no actinomycetes isolates that showed an ability to inhibit the growth of S. rolfsii fungus based on dual culture assay. JKP-3 and JKP-4 isolates exhibited the highest ability to hydrolyze amylum, while JKP-5 and JKP-8 isolates exhibited the highest ability to hydrolyze CMC. The results of the amplification of 16S rRNA gene in selected potential isolates JKP 5 and JKP 8 indicated that both isolates belong to the genus Streptomyces.

Pengaruh Rizobakteria Pemacu Tumbuh dan Toleran Kekeringan serta Kelimpahan dan Akitvitas Mikroba Tanah terhadap Tanaman Jagung (Zea mays L.) Hari KAPLI; Aris Tri WAHYUDI; Edi HUSEN
Biospecies Vol. 10 No. 1 (2017): Januari 2017
Publisher : Universitas Jambi

Agricultural land in Indonesia was largely dominated by untapped potential land, almost of that potential land is dry land. Maize (Zea mays L.) is one of the staple crops that are known could be cultivated on dry land. Rizosphere has been known to containmicroorganisms that can improve the plant growth. In the previously study, we have screenedin vitro of rhizobacteria (6 isolates of Pseudomonas sp CRB and 7 isolates of Bacillus sp CR) as growth promoter of maize and drought tolerant. A total of 6 rhizobacterial formula were further applied in vivo in greenhouse to promote the growth of maize. In planta test on maize showed that formula CRB 19 and F3 (CR 83 + CRB 10) were the best formula that could enhance plant growth parameters under drought stress conditions. After that abundance and activities of microbe were analyzed by enumeration of total fungus, bacteria and actinomycetes, dehidrogease test, soil respiration test dan C-microbe test and those tests showed that formula CRB 19 and F3 (CR 83 + CRB 10) were the best formula.These formula could be recommended as inoculants of maize planted in dry land agriculture. Keywords : drought tolerant,formulation, growth promoter, maize, rhizobacteria

Skrining Bakteri yang Berasosiasi dengan Spons Jaspis sp. Sebagai Penghasil Senyawa Antimikroba Hermawaty Abubakar; Aris Tri Wahyudi; Munti Yuhana
ILMU KELAUTAN: Indonesian Journal of Marine Sciences Vol 16, No 1 (2011): Ilmu Kelautan
Publisher : Marine Science Department Diponegoro University

Organisme bentik laut seperti spons, seringkali hidup berasosiasi dengan bakteri yang menghasilkan senyawa antimikroba. Penelitian ini bertujuan untuk mengetahui kemapuan antagonis isolat-isolat bakteri yang berasosiasi dengan spons Jaspis sp. terhadap beberapa bakteri patogen, dengan metode skrining secara kualitatif. Sebanyak 32 (45,71%) dan 20 (29,41%) isolat yang berasal dari bagian mesohyl dan permukaan Jaspis sp. menunjukkan kemampuan antimikroba, karena mampu menghambat pertumbuhan Staphylococcus aureus, Vibrio harveyii, Escherichia coli, Pseudomonas aerogenosa, EPEC K-11, Candida albicans, and C. tropicalis. Uji fenotipik dilakukan pada beberapa isolat dengan aktivitas antimikroba terbaik, yaitu SAB E-8, SAB E-33, SAB E-35, SAB E-38, SAB E-40 dan SAB S-43. Hasil pewarnaan Gram menujukkan isolat SAB E-8, SAB E35, and SAB E-40 adalah Gram negatif, sedangkan isolat SAB E-33, SAB E-38, and SAB S-43 adalah gram positif yang dilanjutkan dengan identifikasi parsial (pengecatan gram dan uji katalase) untuk kelompok Bacillus.Kata kunci: Bakteri, Asosiasi, Jaspis sp., antimikroba Living benthic marine organisms such as sponges are frequently assosiated with as bacteria that may be produce antimicrobial compounds. This study aims to determine antagonistic of bacterial isolates that associated sponge Jaspis sp., with a qualitative screening method. Screening of bacteria from marine sponge Jaspis sp. which have bility to produce antibacterial subtances was investigated. There are 32 (45,71%) and 20 (29,41%) isolates from mesohyl and surface sponge respectively. Those isolated bacterial showed the antibacterial activity against Staphylococcus aureus, Vibrio harveyii, Escherichia coli, Pseudomonas aerogenosa, EPEC K-11, Candida albicans, and C. tropicalis. However, use of a few additional simple phenotypic tests for those isolate can be used to differentiate among isolates. The simple phenotypic test divided two ways based on staining gram. Gram negative bacteria were desingned SAB E-8, SAB E-35, and SAB E-40 and gram positive bacteria were desingned SAB E-33, SAB E-38, and SAB S-43. Parsial identification that directed to Bacillus was used for positive gram bacteria, involve gram staining, endospora staining and katalase test. Key words: Bacteria, Assosiation, Jaspis sp, antimicrobe

Co-Authors Abdjad Asih Nawangsih Abdjad Asih Nawangsih ABDUL MUNIF ABDUL MUNIF Akhmad Endang Zainal Hasan Alimuddin Alimuddin ALINA AKHDIYA Alina Akhdiya Andi Ernawati ANDINI PURNAWIJAYA Anja Meryandini Anja Meryandini Antonius Suwanto Ari Fina Bintarti Ari Fina Bintarti, Ari Fina ARI SUSILOWATI Aris Tjahjoleksono BRAMANTYO JATI PRASOJO Budi Tjahjono C Hanny Wijaya DIAH ISKANDRIATI Dina Aribah DINI NURDIANI Dudi Hardianto, Dudi Edi Husen EDI HUSEN Edi Husen EDI HUSEN Edi Husen Efrida Martius Engelhaupt, Martin ERNIN HIDAYATI Hamim Hamim Hari KAPLI Hermawaty Abubakar Iman Rusmana Irmawati Jun Nomura LAKSMI AMBARSARI Latifah Kosim Darusman Maggy Thenawidjaja Suhartono Maggy Thenawidjaya Suhartono Marini Wijayanti Meliah, Siti Mia Setiawati MONA PRIMANITA MUHAMMAD AGUS SUPRAYUDI Muhammad Faiz Amri Muhammad Zairin Jr MUNTI YUHANA Mutiha Panjaitan Nasution, Uli Julia Ni Putu Ratna Ayu Krishanti NI PUTU RATNA AYU KRISHANTI NISA RACHMANIA MUBARIK NURFITRIANI RINA Pamungkas, Joko Puspitasari, Esti Raden Ajie Syahbarie RAHAYU FITRIANI WANGSA PUTRIE RAHAYU WIDYASTUTI Rasti Saraswati RASTI SARASWATI Rasti Saraswati Rika Indri Astuti Rini, Adityawati Fajar Rury Eryna Putri Rustam, Yepy Hardi Sarah Asih Faulina Sarah Asih Faulina, Sarah Asih Satya, Andreas Adhi Sigit Tri Wibowo Sipriyadi Sipriyadi Sipriyadi Siska Tridesianti Siti Meliah Siti Sholekha Sri Budiarti Sri Budiarti Poerwanto sri murtini . Suryo Wiyono SUSILOWATI1 SUSILOWATI1 SYAMSUL BAHRI SYAMSUL BAHRI Tati Barus TEDJA IMAS Uci Cahlia Umi Fatmawati VINCENTIUS ARCA TESTAMENTI WAODE MUNAENI Wati, Cheppy WIDANARNI WIDANARNI Wiraswati, Sri Martina Yohanes Bernadino Putera Saju Yuli Siti Fatma YULIN LESTARI

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