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All Journal HAYATI Journal of Biosciences Jurnal Agronomi Indonesia (Indonesian Journal of Agronomy) Jurnal Ilmu Pertanian Indonesia Jurnal Fitopatologi Indonesia Jurnal Teknologi Industri Pertanian Jurnal Pengolahan Hasil Perikanan Indonesia Jurnal Akuatika Microbiology Indonesia Biota: Jurnal Ilmiah Ilmu-Ilmu Hayati Agrointek Jurnal Hortikultura Current Biochemistry BIOTIK: Jurnal Ilmiah Biologi Teknologi dan Kependidikan Jurnal Pengelolaan Sumberdaya Alam dan Lingkungan (Journal of Natural Resources and Environmental Management) Indonesian Journal of Biotechnology Agrokreatif Jurnal Ilmiah Pengabdian kepada Masyarakat Jurnal Sumberdaya Hayati Journal of Tropical Biodiversity and Biotechnology Jurnal Bioteknologi & Biosains Indonesia (JBBI) Jurnal Biodjati Squalen Bulletin of Marine and Fisheries Postharvest and Biotechnology Majalah Ilmiah Biologi BIOSFERA: A Scientific Journal Biosaintifika: Journal of Biology & Biology Education Jurnal Purifikasi Jurnal Pascapanen dan Bioteknologi Kelautan dan Perikanan Menara Perkebunan Jurnal Mangifera Edu Journal of Microbial Systematics and Biotechnology Konservasi Hayati Prosiding Seminar Nasional Biologi, Teknologi dan Kependidikan (Biotik) MADURANCH: JURNAL ILMU PETERNAKAN Makara Journal of Science International Journal of Oil Palm
NISA RACHMANIA MUBARIK
Bogor Agricultural University
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Decision Sciences, Operations Research & Management Dentistry Earth & Planetary Sciences Economics, Econometrics & Finance Education Energy Engineering Environmental Science Immunology & microbiology Industrial & Manufacturing Engineering Languange, Linguistic, Communication & Media Library & Information Science Materials Science & Nanotechnology Medicine & Pharmacology Neuroscience Nursing Public Health Social Sciences Other

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The Abundance of Nitrogen Fixing, Nitrifying, Denitrifying and Ammonifying Bacteria in the Soil of Tropical Rainforests and Oil Palm Plantations in Jambi Zulfarina,; Rusmana, Iman; Mubarik, Nisa Rachmania; Santosa, Dwi Andreas
Makara Journal of Science Vol. 21, No. 4
Publisher : UI Scholars Hub

Show Abstract | Download Original | Original Source | Check in Google Scholar

Abstract

Alterations in the use of land for oil palm plantations can change the domination and activity of soil bacteria. More specifically, alteration in soil microbial communities can directly affect soil ecosystem functioning, particularly with respect to carbon and nitrogen cycles. Nitrogen can be a limiting nutrient, and the availability of nitrogen in the soil environment becomes a major factor in controlling the production of biomass. This research project aimed at studying the abundance of nitrogen-fixing, nitrogen-oxidizing, nitrogen-reducing, and ammonifying bacteria based on their functional genes in the tropical rain forests of Taman Nasional Bukit Duabelas (TNBD) and the oil palm plantations in Sarolangun Jambi. Samples were collected in November 2015. Soil sampling was performed randomly at three points representing each area of ​​the tropical rainforests of TNBD and the seven- to eight-year-old oil palm plantations. Soil samples were collected using a soil sample core from 0–15 cm below the surface with depth strata of 0–5 cm, 5–10 cm, and 10–15 cm. Composite assessment was conducted on samples from each point corresponding to each respective depth strata. Soil samples were stored at -20ºC prior to testing. Microbial abundance was measured using the most probable number (MPN) method. The abundance of microbes that play a role in nitrogen metabolism between strata of 5–10 cm and 10–15 cm does not appear to be different. The highest abundance of microbes in oil palm plantation land in Jambi was found in samples with nitrifying bacteria, later followed by denitrifying, nitrogen-fixing, and ammonifying bacteria. Ultimately, it was found that microbial abundance in oil palm plantations was higher than the corresponding rates in samples from tropical rainforests.
Cloning and Co-Expression of Lipase and its Specific Foldase from Ralstonia pickettii BK6 Muhamad Azwar Syah; Andreas Adhi Satya; Esti Puspitasari; Antonius Suwanto; Nisa Rachmania Mubarik
HAYATI Journal of Biosciences Vol. 30 No. 1 (2023): January 2023
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.30.1.71-80

Abstract

This study aimed to obtain a functional lipase (LipRM) from Ralstonia pickettii BK6 through a co-expression involving its foldase. The ORF of the LipRM was 999 bp while the gene encoding of lipase-specific foldase (LifRM) was 1,030 bp. LipRM and LifRM genes were cloned into a plasmid and were successfully co-expressed in Escherichia coli strains to produce functional LipRM. Enzyme activity from partially purified enzymes showed quite surprising results, LipRM activity in E. coli BL21 (DE3) was 25.84 U/ml, while the other strains (DH5α, HB101, S17-1λpir) were 628.98 U/ml, 761 U/ml, and 1206.46 U/ml, respectively. The highest relative activity of LipRM was found at 50-55°C and pH 7-8 with pNP-laurate (C12) as the preferred substrate specificity. LipRM activity was enhanced sharply in the presence of 30% organic solvents (methanol and ethanol) but decreased by more than 50% in the presence of detergents. This study was the first to report heterologous expression of Ralstonia pickettii lipase employing its native foldase resulting in functional lipase from subfamily I.2.
Kontribusi Sifat Biokimia Tanah sebagai Determinan Produktivitas Lahan Perkebunan Nanas (Ananas comosus [L.] Merr.) di Kabupaten Lampung Tengah Kusuma handayani; Nisa Rachmania Mubarik; Atang Sutandi; Dwi Andreas Santosa; Untung Sudadi
Jurnal Pengelolaan Sumberdaya Alam dan Lingkungan (Journal of Natural Resources and Environmental Management) Vol 12 No 4 (2022): Jurnal Pengelolaan Sumberdaya Alam dan Lingkungan (JPSL)
Publisher : Pusat Penelitian Lingkungan Hidup, IPB (PPLH-IPB) dan Program Studi Pengelolaan Sumberdaya Alam dan Lingkungan, IPB (PS. PSL, SPs. IPB)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29244/jpsl.12.4.729-739

Abstract

One of the management challenges in pineapple cultivation at plantation scale is the still occurrence of disparity in land productivity across the cultivated area although the cropping practices have been implemented for many years. In the case of a pineapple plantation in Central Lampung Regency, contribution of soil biochemical properties in terms of various soil enzyme activities as a determinant factor of land productivity has never been elaborated. This research was aimed to study the relationships among biochemical and other soil properties with land productivity or pineapple yield at plantation scale. Rhizosphere soil-composite samples were taken purposively from 4 stations at the largest Indonesian pineapple plantation representing blocks with high and low yield and growth at vegetative and generative phase. Relationships amongst the studied parameters were evaluated using PCA and linear multiple regression analysis. The results showed significant contributions of the rhizosphere soil properties on the pineapple yield according to equation: Yield = 64.895 – 6.546 PCA1 +13.057 PCA2 – 7.722 PCA4 (R2= 0.612), where PCA1 consisted of soil available-P, available-K, and CEC; PCA2 was of soil base saturation, total microbe population, enzyme activities of cellulase and invertase, while PCA4 was of soil organic C, silt fraction, and phosphatase activities.
Penapisan dan Karakterisasi Amilase dari Bakteri Asal Ekoenzim Ninda Ningtyas; Nisa Rachmania Mubarik; Mulyorini Rahayuningsih
Jurnal Ilmu Pertanian Indonesia Vol. 28 No. 3 (2023): Jurnal Ilmu Pertanian Indonesia
Publisher : Institut Pertanian Bogor

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.18343/jipi.28.3.441

Abstract

Eco-enzymes are one of the potential sources for obtaining amylolytic bacterial isolates. The study aims to screen amylolytic bacteria from eco-enzymes, characterize semi-purification amylase, and identify amylolytic bacteria molecularly using the 16S rRNA gene. Screening for amylolytic bacteria was carried out by measuring the amylolytic index on a Nutrient agar medium containing 1% tapioca starch. The amylolytic isolate which had the highest index and was non-pathogenic was selected for the amylase characterization process. Testing of amylase activity was carried out using the Bernfeld method while the protein enzymes were measured using the Bradford method. The extracellular extract was concentrated using ammonium sulfate precipitation. PKL2 is gram-positive bacteria that was derived from eco-enzymes with the highest amylolytic indexes of 1.77, which were not pathogenic on the blood agar test. Optimum amylase was produced by PKL2 at the stationary phase at 21 h. The optimum pH and temperature of the amylase activity were observed to be 7.0 and 50°C, respectively. The amylase enzyme from PKL2 increased its purity 1.82-fold upon precipitation of ammonium sulfate at a concentration of 60%. Identification of bacteria based on molecular identification showed that PKL2 obtained was putatively identified as Bacillus amyloliquefaciens. Keywords: Amylase activity, Bacillus amyloliquefaciens, eco-enzyme, optimum pH
Antifungal Substances Produced by B. subtilis Strain W3.15 Inhibit the Fusarium oxysporum and Trigger Cellular Damage Rury Eryna Putri; Nisa Rachmania Mubarik; Laksmi Ambarsari; Aris Tri Wahyudi
HAYATI Journal of Biosciences Vol. 30 No. 5 (2023): September 2023
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.30.5.843-854

Abstract

Soybean Fusarium wilt and root rot disease caused by a necrotrophic ascomycete pathogen, F. oxysporum, triggered severe damage to the plant tissues and organs and impacted heavy losses. Biocontrol agents, Bacillus subtilis, were commonly used to produce a broad spectrum of antifungal substances and were gradually used in biocontrol studies for plant disease management. Investigation and determination of the inhibiting mechanism of antifungal substance produced by B. subtilis on F. oxysporum should be done to protect the soybean plant. This study revealed that basal nutrient broth (NB) gives the best antifungal activity. The stationary phase of the bacterial growth curve was obtained on two days of cultivation and showed the maximum antifungal activity against F. oxysporum. Ethyl acetate (EA) extraction of bacterial supernatant generated crude EA extract, which showed half inhibition (IC50) at 306.42 µg/ml obtained from the dose-response regression curve. Post-treatment mycelia of F. oxysporum with bacterial extract were demonstrated as hyphal deformation followed by malondialdehyde (MDA) accumulation. Furthermore, cellular leakage on fungal cells that may be triggered by antifungal compounds from strain W3.15 occurred. Last, the related antifungal compounds were predicted to be epicatechin and benzophenone from the LC-MS/MS analysis of crude EA extract. Accordingly, the biocontrol agent B. subtilis strain W3.15 promises a strong potency for biofungicide development.
The Effect of Biofertilizer on The Diversity of N2O Reducing Bacteria in Paddy Fields of Sukabumi, Indonesia Alfan Cahyadi; Iman Rusmana; Nisa Rachmania Mubarik
Biosaintifika: Journal of Biology & Biology Education Vol 9, No 3 (2017): December 2017
Publisher : Department of Biology, Faculty of Mathematics and Sciences, Semarang State University . Ro

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15294/biosaintifika.v9i3.9796

Abstract

Some of the methanotrophic bacteria and N2O reducing bacteria have been proven to be able to support the plant growth and increase the productivity of paddy. However effect of the methanotrophic and N2O reducing bacteria application as a biofertilizer to indigenous N2O reducing bacteria is still not well known yet. The aim of this study was to analyze the diversity of N2O reducing bacteria in lowland paddy soil based on a nosZ gene. Soil samples were taken from lowland paddy soils in Pelabuhan Ratu Sukabumi, West Java, Indonesia. There were two treatments for the paddy field soil, ie. biofertilizer-treated field 20% fertilizer (50 kg/ha) with the addition of biofertilizer and 100% fertilizer. PCR amplification of nosZ gene was successfully conducted using nosZF and nosZR primer pair. Denaturing Gradient Gel Electrophoresis (DGGE) process was conducted at 150 V for 5.5h. There were three differences nosZ bands were sequenced. The phylogenetic analysis showed that they were close to uncultured bacteria. Microbial diversity in the biofertilizer-treated field was higher than that of in the 100% fertilizer-treated field. The biofertilizer treatment has higher in microbial diversity than that of applied non-biofertilizer paddy fields. This research might have impact in the application of biofertilizers due to the emission of N2O as a green house gas from paddy fields farming activity. The biofertilizer has great potential application in sustainable environmental friendly agriculture systems.
Degradation of Polycyclic Aromatic Hydrocarbon Pyrene by Biosurfactant-Producing Bacteria Gordonia cholesterolivorans AMP 10 Tri Handayani Kurniati; Iman Rusmana; Ani Suryani; Nisa Rachmania Mubarik
Biosaintifika: Journal of Biology & Biology Education Vol 8, No 3 (2016): December 2016
Publisher : Department of Biology, Faculty of Mathematics and Sciences, Semarang State University . Ro

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15294/biosaintifika.v8i3.6448

Abstract

Pyrene degradation and biosurfactant activity by a new strain identified as Gordonia cholesterolivorans AMP 10 were studied. The strain grew well and produced effective biosurfactants in the presence of glucose, sucrose, and crude oil. The biosurfactants production was detected by the decreased surface tension of the medium and emulsification activity.  Analysis of microbial growth parameters showed that AMP10 grew best at 50 µg mL-1 pyrene concentration, leading to 96 % degradation of pyrene within 7 days. The result of nested PCR analysis revealed that this isolate possessed the nahAc gene which encodes dioxygenase enzyme for initial degradation of Polycyclic Aromatic Hydrocarbon (PAH). Observation of both tensio-active and emulsifying activities indicated that biosurfactants which produced by AMP 10 when grown on glucose could lower the surface tension of medium from 71.3 mN/m to 24.7 mN/m and formed a stable emulsion in used lubricant oil with an emulsification index (E24) of 74%. According to the results, it is suggested that the bacterial isolates G. cholesterolivorans AMP10 are suitable candidates for bioremediation of PAH-contaminated environments.How to CiteKurniati, T. H.,  Rusmana, I. Suryani, A. Mubarik, N. R. (2016). Degradation of Polycyclic Aromatic Hydrocarbon Pyrene by Biosurfactant-Producing Bacteria Gordonia cholesterolivorans AMP 10. Biosaintifika: Journal of Biology Biology Education, 8(3), 336-343. 
Microbiological and Physicochemical Characteristics of Inasua Traditional Fish Fermented from Maluku Islands Ferymon Mahulette; Nisa Rachmania Mubarik; Antonius Suwanto; Widanarni Widanarni
Biosaintifika: Journal of Biology & Biology Education Vol 10, No 2 (2018): August 2018
Publisher : Department of Biology, Faculty of Mathematics and Sciences, Semarang State University . Ro

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15294/biosaintifika.v10i2.13537

Abstract

Based on the raw materials, inasua consists of two types namely inasua with sap and inasua without sap. Research of inasua with sap has never been done and considered as the novelty of this research. The sensory characteristics and shelf life of two types of inasua were different. The research aims to analyze the microbiological and physicochemical characteristics of two types of inasua during fermentation. The microbiological analyzes include the total number of bacteria and lactic acid bacteria, while physicochemical analyzes include temperature, pH, water activity, proximate analysis, salt, alcohol, histamine, amino acids and fatty acids contents. The total number of bacteria and lactic acid bacteria has decreased during fermentation. At the end of the fermentation the total number of bacteria and lactic acid bacteria inasua with sap were 3.2x107 CFU/g and 3.0x107 CFU/g, while inasua without sap were 5.4x105CFU/g and 3.5x105 CFU/g, respectively. The moisture, protein, alcohol contents and water activity decreased, otherwise the salt, fat, ash, amino acids, and fatty acids contents increased during fermentation. Generally, microbiological and physicochemical characteristics of inasua with sap was better than inasua without sap. The results of this research to improve the quality of this fermentation product in the future.
Seleksi dan Karakterisasi Bakteri Halotoleran Penghasil Enzim Amilase Dari Produk Fermentasi Ikan-Inasua: Selection and Characterization of Halotolerant Bacteria that produce Amylase Enzyme from Fish-Inasua Fermented Food Karina Eku Dwinanda Gunawan; Jepri Agung Priyanto; Nisa Rachmania Mubarik
Jurnal Sumberdaya Hayati Vol. 9 No. 3 (2023): 2023
Publisher : Departemen Biologi, Institut Pertanian Bogor

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29244/jsdh.9.3.96-103

Abstract

Fish-inasua fermented food is a potential source to obtain halotolerant bacteria-producing amylase. Previously, four bacterial isolates such as IG12, IG6, IG66, and IG31, isolated from this food, have been reported to be able to produce protease and lipase enzyme, but their potential as amylase enzyme producers have not been studied. This study aims to characterize and test the potential of halotolerant bacteria isolated from this food in producing amylase enzymes. Based on Gram staining, four bacterial isolates were Gram-positive. The qualitative test of amylase on NA medium with the addition of 1% starch showed four bacteria were able to produce amylase in NaCl (0 to 5%)-containing medium. IG66 isolate was the most potential isolate because it had the highest enzyme activity in a medium with 5% NaCl concentration, which was 0.095 U/ml. The amylase activity was produced maximum at the 8th hour, which is the early stationary phase. Its maximum activity in the 5% NaCl-containing medium was at the 10th hour. In addition, amylase produced by IG66 isolate reached optimum activity at a temperature of 50°C and pH 7. This study concluded that IG66 isolate was the most potential halotolerant isolate that could be developed as an amylase-producing agent.
Peranan Pseudomonas aeruginosa ATCC 15442 terhadap Pertumbuhan Tanaman Cabai Rawit (Capsicum frutescens L.) Varietas Bonita pada Kondisi Salin: The Role of Pseudomonas aeruginosa ATCC 15442 on the Growth of Bonita Hot Pepper (Capsicum frutescens L.) Variety in Saline Conditions Aas Ratnasari; Nisa Rachmania Mubarik; Aris Tjahjoleksono
Jurnal Sumberdaya Hayati Vol. 9 No. 4 (2023): 2023
Publisher : Departemen Biologi, Institut Pertanian Bogor

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29244/jsdh.9.4.171-177

Abstract

Hot pepper (Capsicum frutescens L.) is one of the food crop commodities that is widely cultivated in Indonesia. Salinity stress can reduce the bioavailability of potassium and its uptake by plants, which will ultimately reduce plant growth and production. One way to reduce the effect of salinity and increase potassium uptake by plants is to use potassium-solubilizing bacteria. One of the bacteria that can solubilize potassium is Pseudomonas aeruginosa. This research aims to study the role of Pseudomonas aeruginosa ATCC 15442 on the growth of the Bonita variety of hot pepper under saline conditions. This study used a completely randomized factorial design with four concentration levels of NaCl treatment: 0, 4, 8, and 12 g/L, as well as two levels of bacteria administration: without bacteria and with bacteria. The results showed that the application of bacteria, salt concentration, and the interaction of the two had no effect (p-value> 0.05) on the growth of hot pepper plants with the observed parameters namely plant height, number of leaves, shoot fresh weight, root fresh weight, shoot dry weight, root dry weight, and chlorophyll content.
Co-Authors , Triadiati . QATRUNNADA Aas Ratnasari Ahmad Suryadi Ainia Hanifitri Alfan Cahyadi Alfaridza, Annisa Nourma ALINA AKHDIYA Andreas Adhi Satya Andreas Adhi Satya ANGELIA REZTY FITRIANI SITUMORANG Anggreandari, Rizky Ani Suryani Ani Suryani Anja Meryandini Antonius Suwanto Aris Tjahjoleksono Aris Tri Wahyudi Atang Sutandi Ayni, Qurrotu Bambang - Riyanto Besty Maranatha BRAMANTYO JATI PRASOJO Budiasih Wahyuntari Budiasih Wahyuntari Budiasih Wahyuntari Cahyadi, Alfan Dadang Suhendar Dadang Suhendar Delfi Trisnawati DERI YURATMOKO Desniar - - Dewi Seswita Zilda Dewi Seswita Zilda Dian Syahfitri Dinamella Wahjuningrum Dwi Ambarawati DWI ANDREAS SANTOSA Ekowati Chasanah Encah Ewi Mulyeti Esti Puspitasari ESTI PUSPITASARI Evi Damayanti Evi Damayanti, Evi Fauzy Rachman Fauzy Rachman Fauzy Rachman Ferymon Mahulette Ferymon Mahulette Ferymon Mahulette, Ferymon Fitratul Aini Fitratul Aini, Fitratul Fitriani Idham Galih Cendana Nabilasani Galih Cendana Nabilasani Hadi Susilo Hamim Hamim Hana Nurullita Prestisia Hasrul Satria Hasrul Satria, Hasrul HENDRA PARDEDE Hirmas Fuady Putra HIRMAS FUADY PUTRA, HIRMAS FUADY Idin Abidin Ika Roostika Tambunan, Ika Roostika Ika Setianingsih, Ika Iman Rusmana Iman, Rusmana Ismi Isti'anah Isna Rahma Dini Iswati, Ruma It Jamilah Ivan Permana Putra Jepri Agung Priyanto Jepri Agung Priyanto, Jepri Agung Karina Eku Dwinanda Gunawan Kusuma Handayani LAKSMI AMBARSARI Lia Siti Nur'amaliyah Lia Siti Nur'amaliyah Lisdar Idwan Sudirman Listyowati, Sri lmiah, Sitti Nur Luky Adrianto Maggy Thenawidjaya Suhartono Maherani, Vincentia Fenice Angger Maranatha, Besty Maria Dita Febriani Lumban Gaol Marini Adani Mashudi Mashudi Maslahah, Iah Novi Masrukhin Masrukhin Muhamad Azwar Syah Mulyorini Rahayuningsih Mutiha Panjaitan Nabilasani, Galih Cendana Nabilasani, Galih Cendana Ninda Ningtyas Nuraliah Rusman Nurfahmi, Riziq Ilham Nurul Hidayati Partomuan Simanjuntak Partomuan Simanjuntak Partomuan Simanjuntak Prayoga SURYADARMA Puspita Lisdiyanti Rika Indri Astuti RIMA ERNIA Risky Hadi Wibowo Risky Hadi wibowo Rizky Anggreandari Rury Eryna Putri Sarah Asih Faulina Sarah Asih Faulina, Sarah Asih Sipriyadi Sipriyadi Sipriyadi Siswa Setyahadi Siswodarsono, Trismilah Siswodarsono, Trismilah Siti Azzira Rahma Sitti Nur Ilmiah Sonya Tobing Sri Budiarti Poerwanto Sri Listyowati Suhendar, Dadang Suhendar, Dadang SYAMSUL BAHRI SYAMSUL BAHRI TEDJA IMAS Thenawidjaya, Maggy Titi Candra Sunarti TRI ASMIRA DAMAYANTI Tri Handayani Kurniati Tri Handayani Kurniati Trismilah Trismilah Siswodarsono Untung Sudadi Wahyu Widosari Wibowo, Risky Hadi Widanarni Widanarni WIDANARNI WIDANARNI Widosari, Wahyu Yoan Ramasita Yusro Nuri Fawzya Zaenal Arifin, Sukarya Zulfarina Zulfarina Zulfarina,