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Characterization of an Endophytic Bacterium G062 Isolate with Beneficial Traits AKHDIYA, ALINA; WAHYUDI, ARIS TRI; MUNIF, ABDUL; DARUSMAN, LATIFAH KOSIM
HAYATI Journal of Biosciences Vol 21, No 4 (2014): Desember 2014
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.21.4.187-196

Abstract

An endophytic bacterium isolate G062 was characterized base on its molecular genetic potents, morphology, physiology, and biochemistry reactions. Analysis of 16S rDNA sequences of G062 showed the highest similarity to Paracoccus halophilus (98%). Detection of the phlD and prnC genes occurrence indicated that the bacterium had this antibiotic-like genes of Diacethylphloroglucinol (DAPG) and pyrrolnitrin. The cells are rod shaped (0.59-0.89 x 1.85-3.3 µm), aerobic, Gram negative, non motile, non spore forming,  positive catalase, positive oxydase, could reduce NO3 to N2, nitrogen fixing, producing siderophore and plant growth hormones-like compounds (IAA, Gibberellin, and zeatin), and solubilizing phosphate. The G062 isolate could grow on media containing 2.5% NaCl. Range of the temperature and pH growth were 15-40 and 5.0-9.5 oC, respectively. The bacterium did not cause red blood cells lysis. There was no hypersensitive response when it was injected into tobacco leaves, and it was not pathogenic against potato plantlets.  Moreover, the bacterium promoted the growth of the potato plant and had high colonization ability. These results suggested that the bacterium had beneficial and good traits as biological agent candidate to promote potato plant growth.
Penapisan Bakteri Filosfer Penghasil Senyawa Bioaktif Anti Xanthomonas oryzae pv. oryzae Penyebab Penyakit Hawar Daun Bakteri pada Padi RINA, NURFITRIANI; KRISHANTI, NI PUTU RATNA AYU; AKHDIYA, ALINA; WAHYUDI, ARIS TRI
Jurnal Sumberdaya Hayati Vol 2, No 1 (2016)
Publisher : Institut Pertanian Bogor

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29244/jsdh.2.1.%p

Abstract

Bacterial leaf blight caused by Xanthomonas oryzae pv. oryzae (Xoo) is one of the important diseases in rice crops in Indonesia. The disease is difficult to be controlled since it attacks the rice plant at different growth stages such as tillering, flowering and ripening. One of the alternatives that could be used to control the disease is by using phyllosphere bacteria as the biocontrol agents. This study aims to isolate, characterize and screen the rice phyllosphere bacteria producing bioactive compounds against Xoo. Phyllosphere bacteria isolated from healthy leaves of rice var. Ciherang by using 4 different media obtained 285 bacterial isolates which were consisted of the 65 isolates of King’s B agar, 86 isolates of Nutrient agar, 81 isolates of Luria-Bertani agar, and 53 isolates of Trypticase Soy agar media. Antagonist test using double layer method showed 58 isolates of phyllosphere bacteria produced bioactive compounds that inhibited the growth of Xoo. Pathogenicity test agaist rice leaf revealed 18 bacterial isolates did not perform their potencies as pathogenic bacteria. Among the 18 non-phytopathogenic bacterial isolates, 14 isolates belong to Gram-positive bacteria and 4 isolates belong to Gram-negative bacteria. Five isolates among Gram positive bacteria were predicted as Bacillus genera. 
Formulasi Bakteri Filosfer Padi dan Aplikasinya untuk Mengendalikan Penyakit Hawar Daun Bakteri Tridesianti, Siska; Akhdiya, Alina; Wahyudi, Aris Tri
Jurnal Fitopatologi Indonesia Vol 12, No 6 (2016)
Publisher : The Indonesian Phytopathological Society (Perhimpunan Fitopatologi Indonesia)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14692/jfi.12.6.191

Abstract

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
PROTEIN TOKSININSEKTISIDAL DARI BAKTERI PATOGEN SERANGGA Photorhabdus luminescens HJ Akhdiya, Alina; Pratiwi, Etty; Samudra, I Made
BERITA BIOLOGI Vol 8, No 6 (2007)
Publisher : Research Center for Biology-Indonesian Institute of Sciences

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/beritabiologi.v8i6.828

Abstract

Photorhabdus luminescens HJ is an entomopathogenic bacterium that has a high toxicity against Tenebrio molitor larvae.Toxicity assay of crude extra cellular protein precipitated using ammonium sulphate showed that the highest toxin activity was found in 70 % saturation. Purification of the toxin using Hi Prep 16/60 Sephacryl S-200 HR column exhibited one fraction of toxic protein and three fractions of non-toxic protein. Mortality of T. molitor larvae treated with 19.2 nanogram of toxic fraction was up to 80%. Denatured protein analysis using sodium dodecyl sulphate-polyacrylamide gel electrophoresis revealed that the toxic fraction was composed of three proteins, which were 19.5, 42, and 66 kDa respectively. Based on toxin activity bioassay, this toxin type was an injectable toxin and presumably classified as Mcf toxin.
Characterization of Profenofos Degrading Bacteria Akhdiya, Alina; Wartono, Wartono; Sulaeman, Eman; Samudra, I Made
Jurnal AgroBiogen Vol 14, No 1 (2018): June
Publisher : Balai Besar Penelitian dan Pengembangan Bioteknologi dan Sumber Daya Genetik Pertanian

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21082/jbio.v14n1.2018.p37-46

Abstract

Bioremediation is an inexpensive, easy, and safe technology to rehabilitate agricultural land which is highly polluted with pesticides. The aims of this study were to isolate and characterize profenofos degrading bacteria isolated from Pangalengan soils. The isolation step was carried out by using spread plate method on Nitrate Mineral Salts (NMS) medium containing 100 ppm profenofos. The isolates were selected based on hypersensitive response (HR) and hemolytic test, and ability of the isolates to use and degrade profenofos. The selected isolates were characterized based on the sequence of 16 rRNA and detection of the α and β subunits of terminal deoxygenase and naphtalene dioxygenase encoded genes. Three isolates (CN26, CN44, and CN86), which could use profenofos as the exclusive C source, could degrade more than 86.75% profenofos containing growth medium. Based on the 16S rRNA sequences, the three isolates were closely related to Stenotrophomonas maltophilia (99%), Comamonas terrigena (99%), and Pseudomonas sp. (80%). Pseudomonas CN44 consistenly showed high profenofos degradation activity of up to 91.2% when grown on NMS medium (pH 6.8) for 72 hours. β subunit dioxygenase encoding gene of the isolates were detected using primers Rf2-F/Rf2-R, but optimation of PCR is still needed to detect the α subunit of the gene. Naphtalene dioxygenase gene was detected only from Pseudomonas CN44 using the primer pair 301f/1099r. Based on its biodegradation capability and molecular characteristics, Pseudomonas CN44 is very potential to be developed as a bioremediating agent of profenofos.
Karakterisasi Enzim Pendegradasi AHL dari Bacillus cereus INT1c dan Bacillus sp. NTT3a RATNANINGTYAS, SUSI; RUSMANA, IMAN; AKHDIYA, ALINA
Jurnal Sumberdaya Hayati Vol 3, No 1 (2017)
Publisher : Institut Pertanian Bogor

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29244/jsdh.3.1.%p

Abstract

Some of Gram-negative bacteria perform a phenomenon called quorum sensing (QS) to activate certain phenotypes such as pathogenicity. The bacterial cells performing QS produce N-acyl homoserine lactone (AHL) as signal molecules to communicate within a population. These molecules can be degraded by the enzyme, i.e. AHL lactonase. This study aimed to characterize the activity of AHL lactonase from Bacillus cereus INT1c and Bacillus sp. NTT3a in different pH and temperature levels. Both strains produce AHL-lactonase that could be found in intracellular and extracellular extracts. The dialysis process of extracellular AHL-lactonase of INT1c significantly increased the specific activity from 5.91 to 29.96, different from an extracellular enzyme of NTT3a that slightly increased from 4.08 to 5.39. Generally dialyzedAHL-lactonase of both B. cereus INT1c and Bacillus sp. NTT3a had activity in wide pH range with better activity in acidic pH and were not stable in high temperature with the highest activity at 30-40 oC. 
Characterization of an Endophytic Bacterium G062 Isolate with Beneficial Traits AKHDIYA, ALINA; WAHYUDI, ARIS TRI; MUNIF, ABDUL; DARUSMAN, LATIFAH KOSIM
HAYATI Journal of Biosciences Vol 21, No 4 (2014): December 2014
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.21.4.187

Abstract

An endophytic bacterium isolate G062 was characterized base on its molecular genetic potents, morphology, physiology, and biochemistry reactions. Analysis of 16S rDNA sequences of G062 showed the highest similarity to Paracoccus halophilus (98%). Detection of the phlD and prnC genes occurrence indicated that the bacterium had this antibiotic-like genes of Diacethylphloroglucinol (DAPG) and pyrrolnitrin. The cells are rod shaped (0.59-0.89 x 1.85-3.3 µm), aerobic, Gram negative, non motile, non spore forming,  positive catalase, positive oxydase, could reduce NO3 to N2, nitrogen fixing, producing siderophore and plant growth hormones-like compounds (IAA, Gibberellin, and zeatin), and solubilizing phosphate. The G062 isolate could grow on media containing 2.5% NaCl. Range of the temperature and pH growth were 15-40 and 5.0-9.5 oC, respectively. The bacterium did not cause red blood cells lysis. There was no hypersensitive response when it was injected into tobacco leaves, and it was not pathogenic against potato plantlets.  Moreover, the bacterium promoted the growth of the potato plant and had high colonization ability. These results suggested that the bacterium had beneficial and good traits as biological agent candidate to promote potato plant growth.
Seleksi dan Identifikasi Secara Molekuler Bakteri Pendegradasi Insektisida Piretroid dari Tanah Prawitasari, Salindri; Nur Jannah, Siti; Akhdiya, Alina
Indonesia Journal of Halal Vol 1 (1) 2018
Publisher : Pusat Kajian Halal Undip

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14710/halal.v1i1.3110

Abstract

ABSTRAKAkumulasi residu insektisida pada lahan pertanian berdampak negatif bagi lingkungan dan organisme di sekitarnya. Salah satu teknologi alternatif untuk merehabilitasi lahan pertanian yang tercemar adalah dengan teknologi bioremediasi. Bioremediasi adalah teknologi untuk memecah atau menguraikan zat pencemar menjadi bahan yang kurang beracun atau tidak beracun (karbondioksida dan air) dengan memanfaatkan organisme atau produk organisme. Penelitian ini bertujuan untuk menyeleksi dan mengidentifikasi secara molekuler bakteri pendegradasi insektisida piretroid sintetik asal sampel tanah Pangalengan. Seleksi terhadap sembilan isolat bakteri tanah asal Pangalengan menggunakan medium NMS cair yang mengandung 100 ppm piretroid menghasilkan dua isolat bakteri yang memiliki kemampuan terbaik dalam mendegradasi piretroid. Isolat S-9 merupakan isolat bakteri yang memiliki kemampuan mendegradasi residu piretroid paling tinggi dibandingkan dengan 8 isolat lainnya, yaitu sebesar 87,38%. Hasil degradasi insektisida tersebut dimanfaatkan oleh bakteri sebagai sumber C, N, dan P untuk mendukung pertumbuhannya. Berdasarkan sekuens gen 16S rRNA, isolat S-9 menunjukkan kemiripan dengan Bosea eneae 16S ribosomal RNA gene (partial sequence) dengan similaritas 89%.Kata kunci: bakteri, bioremediasi, degradasi insektisida, piretroid?ABSTRACTThe accumulation of insecticide residue in farmfield caused negative impact to the environment and organisms which surround it. One of the lastest technology to rehabilitate polluted farmfield is bioremediation technology. Bioremediation is technology for degradating pollute to be unpollute (carbondioxide and water) using microorganisms or its product. The purpose of this research was to selecting and molecular identifying pyrethroid insecticide-degradating bacteria from Pangalengan soil sample. Nine isolates of soil bacteria from Pangalengan was selected by liquid NMS contains 100 ppm pyrethroid, only 2 isolates that indicated best ability to degrade pyrethroid. The best ability to degrade pyrethroid was ?S-9 isolate, with highest value 87,38%. Degradation pyrethroid?s product utilized by the bacteria as C, N, and P source to support their growth. Based on 16S rRNA sequence gene, ?S-9 isolate represented its similarity with Bosea eneae 16S ribosomal RNA gene (partial sequence) with 89% similarity value.Keywords: bacteria, bioremediation, insecticide degradation, pyrethroid
Insecticidal Activity of Extracellular Protein of PRU8 Isolate against Tenebrio molitor Larvae Akhdiya, Alina; Pratiwi, Etty; Samudra, I Made
Biota : Jurnal Ilmiah Ilmu-Ilmu Hayati Vol 14, No 2 (2009): June 2009
Publisher : Universitas Atma Jaya Yogyakarta

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.24002/biota.v14i2.2684

Abstract

Sel ataupun supernatan bebas sel dari kultur cair isolat bakteri entomopatogen PRU8 memiliki toksisitas tinggi terhadap larva Tenebrio molitor. Bioesei protein ekstrasel kasar hasil pengendapan amonium sulfat menunjukkan bahwa toksisitas tertinggi terdapat pada protein yang diendapkan pada kejenuhan amonium sulfat 70%. Pemurnian protein menggunakan kolom Hi Prep 16/60 Sephacryl S-200 HR menghasilkan satu fraksi protein toksin. Mortalitas larva uji yang disuntik dengan 19,2 nanogram toksin murni mencapai 71%. Uji toksisitas menggunakan toksin murni menunjukkan bahwa toksin tersebut termasuk kelompok toksin tipe injeksi. Berdasarkan analisa SDS-PAGE toksin tersebut tersusun atas dua protein dengan berat molekul 116,25 dan 66,24 kDa