MAJOR MICROBIOLOGY

DEPARTMENT OF BIOLOGYPOST GRADUATE SCHOOLBOGOR AGRICULTURAL UNIVERSITY2009

MAJOR MICROBIOLOGY : AN OVERVIEW

Established in 1990 as Subprogram Study in the Study Program of Biology

Composed on 2 division: Microbiology (Bacteriology) Mycology

Staffs: 1 Prof, 10 doctors

Number of Student : ongoing student: 13 master, 8 doctoral incoming student: 16 master, 3 doctoral

Programmes :

1. Master in Microbiology: microbial biodiversity and bioprospecting, and environmental microbiology

Doctor of Philosophy in Microbiology

Supporting unit: IPB Culture Collection (currently developing through I-MHERE project

VISION

To be recognized world-wide as the leading centre in tropical microbiological science for agriculture development and for human life quality improvement in 2020.

MISSION

To develop human resources with high capacities in tropical microbial knowledge and technologies through undergraduate and postgraduate education.

To expand and transfer microbial knowledge and technologies for continuous improvement of agriculture and human life.

Increase the quality and quantity of research in tropical microbial knowledge and technologies particularly in biodiversity and bio-prospecting.

Increase networking through research and education partnership locally, nationally and globally.

CURRICULUMMaster of Science Program (39 CSU)

General coursesEnglish 3 CSUStastical Analyses 3 CSU

Compulsory coursesAdvanced Microbiology 2 CSUMicrobial Physiology 2 CSUMicrobial Genetic 2 CSU Microbial Laboratory 2 CSUMicrobial Biotechnology 3 CSUFungal Biotechnology 3 CSUMethodology of Science 2 CSUColloqium 1 CSUSeminar 1 CSUResearch and Thesis 6 CSU

Elective courses Bio- prosepecting

Industrial Microbiology 3 CSU

Molecular Biotechnology 3 CSUBiotechnology of Antimicrobial Susbtance 3 CSU

Environmental MicrobiologyHost-Microbes Interaction 3 CSU Environmental Microbiology 3 CSUSpoilage Fungi and Mycotoxins in foodstuff 3 CSU

CURRICULUMDoctor of Philospophy Program (41 CSU)

General CoursePhilosophy of Science 2 CSUCompulsory coursesAdvanced Microbial Physiology 3 CSUAdvanced Fungal Biology 3 CSUMolecular Biology of Prokaryotic Diversity 3 CSUMicrobial Genetic Engineering 3 CSUColloqium 1 CSUSeminar 1 CSU

Research and Thesis 12 CSU

Elective courses Biology of Pathogenic Bacteria 2 CSU Gene Expression and Regulation 3 CSUBiology and Productivity of Actinomycetes 3 CSUBiology of Mycorrhiza 3 CSUBiology and Productivity of Macrofungi 3 CSU

Teaching Staffs and Field Interest

1. Prof. Dr. Antonius Suwanto, MSc., Ph.D (Microbiology and Molecular genetics)

2. Dr. Anja Meryandini, MS (Microbial Physiology and Enzymology)3. Dr. Aris Tri Wahyudi, MSi (Microbial Biotechnology)4. Dr. Iman Rusmana, MSi. (Environmental Microbiology)5. Dr. Nisa Rachmania, MSi. (Microbiology and Microbial Physiology)6. Dr. dr. Sri Budiarti (Medical Microbiology, Bacterial-Human Cell Interaction)7. Dr. Yulin Lestari (Microbial Ecophysiology)8. Dr. Gayuh Rahayu (Mycology and Phytopathology)9. Dr. Lisdar A Manaf (Mushroom Biology and Fungal Ecophysiology) 10. Dr. Nampiah Sukarno (Mycology and Mycorrhizal Biology)11. Dr. Okky S. Darmaputra (Post Harvest Mycology)

RESEARCH

BACTERIOLOGY

Marine Bioechnology

Producing Anti- microbial Compounds Producing

Enzyme Inhibitors

Student Involved: 4 StudentsSponge-Associated Bacteria

Targets: 1. Antimicrobial Compounds from sponge-associated Bacteria 2. Molecules/Compounds as Enzyme Inhibitors 3. Molecular Genetic of Antimicrobial Compounds Synthesis

MolecularGenetics

Aris Tri Wahyudi, PhD

Plant Growth Promoting

Rhizobacteria (PGPR)

Plant Growth Promotion Bioactive Compounds

Anti Phytopathogen

Student involved: 7 Students (2 PhD ; 2 S-2, 3 S-1)

1. Formulation of PGPR as plant growth and Biocontrol2. Molecular Genetic of Bioactive Compound Synthesis3. Bioactive Compounds/Antibiotic from PGPR

Biocontrol ofPhytopathogen

Formulation and Inoculant Prod.

-Pseudomonas sp

-Bacillus sp

Aris Tri Wahyudi, PhD

Aris Tri Wahyudi, PhD

Dr. Anja MeryandiniResearch Interest: Microbial enzymes- Bacterial protease- Bacterial mannanase- Bacterial xylanase

for animal feed processing

Clostridium bifermentans producing protease enzyme

Streptomyces sp. producing xylanase enzyme

451-3234P-

16SKK1-8

Dr. Nisa Rachmania Mubarik, MSiHead of Microbiology Division, Department of Biology, Faculty of Mathematics and Natural Sciences, Bogor Agricultural UniversityResearch Interest: Symbiotic Effectiveness of Inoculant Acid-Alumunium Tolerant

Bradyrhizobium japonicum Strains with Soybean Cultivar Slamet in Acid Soils (3 master students, 2007-2009)

Isolations, Characterizations and Applications Microbial Enzymes (Protease, Amylase, Chitinase) (7 undergraduate student, 1 master students, 2007-2009)

Inoculant B. japonicum on peat carrier.

0.5 mm

0.5 mm

0.5 mm

0.5 mm

0.5 mm

0.5 mm

0.5 mmChitin hydrolization at 12 hours by cell

cultures and chitinase of bacterial isolates I.5 and I.21 tested to Bemisia tabaci . Control (a), cell cultures treatment (b-d), enzyme treatment (e-g).

Dr. Iman Rusmana (irusmana@ipb.ac.id) Environmental Microbiologist

RESEARCH INTEREST:

Current Research Topics:• Methanotrophic bacteria as biofertilizers and methane emission

reducers in rice fields • N2O reducing bacteria to reduce N2O emission from agriculture system• Nitrate reducing bacteria and Bacillus spp. as bioactive of biofilter in

close system of larval rearing and nursery of aquacultures• Nitrate reducing and nitrifying bacteria as bioconditioner controlling

nitrite and ammonia in shrimp ponds

Nitrogen cycling and N2O emission in tropical estuaries and agricultural

systemStudent involved (9 master, 1 PhD)

Amplification of mmoX gene

Amplification of pmoA gene

Size of DNA fragments

Molecular characterization of methane monooxygenase genesForward sequence of BGM9 mmoX gene:

ATAANCGCAGCGTGTTNCAGGTCCGCGAGATCGCCGACCAGTCCGCCGCCGNCAGCNAGCAGACCGCCAGCTCCAGCAACGAACTGGCGCACCTGGGCAACGAGCTGCAACTGCAGGTGGGACGTTTCCGCCTGTGACACGCCNGTCGGTCGGTACGCCCGCTCCGGCCGATAACGGCAGGACAGTTGTCATGCGCATGGCGTAGGATCGGACACTCGCCATGAAGGGAGAGTGACCATGCGCCCGCTGACCATCGATATCGACGAACTGGACCTTCGCGCTTGATACCCAGGGTATCGATCACTACCTCGACCTGTTCAGTGGCCAGGTGCTGCTGATACCGGAGGACGACCCCGACCCGGAGCTCGCCGAACTGCTGCACCGCGAGCCGGAGCGCTACGAGTG

Reverse sequence of BGM9 mmoX gene:GGTATCANCAGCACCATGGCCACTGAACAGGTCGAGGTAGTGATCGATACCCTGGGTATCAAGCGCGAAGGCCAGTTCGTCGATATCGATGGTCAGCGGGCGCATGGTCACTCTCCCTTCATGGCGAGTGTCCGATCCTACGCCATGCGCATGACAACTGTCCTGCCGTTATCGGCCGGAGCGGGCGTACCGACCGACAGGCGCGTCACAGGCGGAAACGTCCCACCTGCAGTTGCAGCTCGTTGCCCAGGCGCGCCAGTTCGGTGCTGGAGCTGGCGGTCTGCTCGCTGGCGGCGGCGGACTGGTCGGCGATCTCGCGGACCTGCACCACGCTGCGGTTGATCTCCTCGGCAACGCTGCTCTGCTCCTCGGCGGCCGANGCGATCTGCAGGTTCATGCCCTTCCACAGCGGATATAATA

Sampling for measurement and molecular analysis of nitrate reducing bacteria in sediment of tropical estuaries

Bacteriocins purification and its antimicrobial activity from Bacillus spp. isolated from shrimp ponds

FROM MOLECULAR TO ECOLOGY

Dr. dr. Sri BudiartiResearch Interest: Medicinal Microbiology Enteropathogenic Eschericia coli:

- mode of infection- Extracellular protease activity- Monoclonal antibody antiprotease activity-Diagnostic kit design

Dengue and environmental health Screening of Antimicrobial substance from

bacteria and fungi

INDONESIAN ACTINOMYCETES AS SOURCE OF BIOACTIVE COMPOUNDS USED FOR SOLVING AGRICULTURE, ENVIRONMENT AND HEALTH PROBLEMS

1. Collection of Actinomycetes isolates from unique tropical environment, and endophyte actinomycetes

2. In vitro and in vivo assay for: antimicrobes, enzyme inhibitor (e.g. a-glucosidase, b-lactamase), degrading enzymes (lipase, cellulose and lignolitic enzymes)

3. Target organisms: agriculture & horticulture plants, plantation, poultry, and human )

4. Student involve: undergraduates (2) ,graduates ( 4 Master students), and 3 PhD students)

Dr.Ir. Yulin Lestari

MYCOLOGY

Diversity of Indonesian Filamentous Fungi (205 genera)

EntomophthoralesKickxellalesMortierellalesMucorales

Botryosphaeriales CapnodialesChaetosphaeriales ChaetothyrialesConiochaetales DiaporthalesDothideales EurotialesHelotiales HypocrealesHysteriales MicroascalesOnygenales OphiostomatalesOrbiliales PezizalesPleosporales SaccharomycetalesSordariales TrichosphaerialesXylariales Incertae sedis

AgaricalesPolyporalesTremellalesUstilaginalesIncertae sedis

AgaricalesMucorales

EurotialesHypocreales

Incertae sedis

Polyporales

ZygomycotaBasidiomycota

Ascomycota

RESEARCH TITLE (Year 2009) : Population of Aspergillus flavus and Aflatoxin B1 Contents from Processed Peanut Products in Municipality of Bogor.

ACTIVITIES : • Survey of processed peanut product consumptions • Sampling method of processed peanut products • Determination of A. flavus population and aflatoxin B1 contents

EXPECTED OUTPUT :informations on A. flavus population and the levels of aflatoxin B1 in processed peanut products at retail levels

Dr. Okky Setyawati Darmaputra

FUNGI ON FOODSTUFF AND THEIR MYCOTOXIN

Research Interest: Biology and Application of Phosphate

Solubilizing Fungi Biology and Application Mycorrhizal Fungi

Dr. Ir. Nampiah Sukarno

Development of Aspergillus carrying GFP gene for studying the ecological and colonization process

T. caccao

Curcuma sp.

P. falcataria

a b. c.

a b. c . a b. c..

a b. c..

a b. c..

J. curcas

a b. c..

Post tin mining area

P. macrocarpa

P. macrocarpa

Agriculture area

Green housea. Control, b. A. niger,

c. AMF

Edible Ectomycorrhiza

Dr. Ir. Gayuh RahayuResearch Interest: Artificial Production of agarwood

(Jin-koh) in planta and in vitro culture:- Inoculant Production- Mechanisms of terpenoid production- Inoculation Techniques

Manipulation of Soil Fungi for Forest Tree Growth and Health

- Fungal decomposer of Shorea and Dryobalanops litter and plant growth regulator producers

(student involved: 1 master, 1 undergraduates)

Student involved ( 3 master students)

Thermophilic Fungi

compost

ZPT bioassay

Amylolytic Fungi and its fermentation capacity for ethanol production- Screening of potential mold and yeast

Dr.Ir. Lisdar A.M. SudirmanResearch Interest:-Mushroom Biology and Biotechnology- Mushroom Antimicrobial activity