Atwlogy's Weblog

Seminar/Symposium/Conferences/Scientific Meeting

atwlogy — Mon, 16 Jun 2008 05:12:21 +0000

1. Wahyudi, A.T., Takeyama, H and T. Matsunaga. 2000. Analysis of genes required for bacte-
rial magnetic particles synthesis in magnetic bacterium Magnetospirillum sp. AMB-1. The
22 nd Symposium on Biotechnology. May 7-11. Gatlinburg, Tennessee, USA. (Presenter).
2. Wahyudi, A.T. 2000. Bio-Ecocreation Workshop. May 16. Tokyo University of Agriculture and
Technology, Tokyo-Japan. (Participant).
3. Wahyudi, A.T. 2000. Japan Symposium on Bioinformatics. July 7. Tokyo University of
Agriculture and Technology, Tokyo-Japan.(Participant).
4. Wahyudi, A.T. 2001. Japan Seminar on Genomic Biotechnology. Tokyo University of
Agriculture and Technology August 2. Tokyo, Japan.(Participant).
5. Wahyudi, A.T., Takeyama, H., Okamura, Y., Fukuda, Y and T. Matsunaga. 2003. Screening of genes involved in magnetite synthesis in Magnetospirillum magneticum AMB-1. Annual Conference of Japan Chemical Society. March 18-21, Tokyo, Japan (Presenter).
6. Wahyudi AT. 2003. Magnetotactic Bacteria: Microbiology and Biotechnological applications.
Seminar on “Exploitation of Unculturable Microbes for Bioindustry”. Agency for the Assessment
and Application of Technology (BPPT). Jakarta, September 1. (Invited speaker).
7. Wahyudi, AT. 2004. Bacterial Magnetic Particle: Microbiology and Molecular Genetics of
Biosynthesis. Annual Scientific Meeting of Indonesian Society for Microbiology (PERMI).
26-28 August, Semarang-Indonesia. (Presenter).
8. Wahyudi AT. 2004. Molecular Biology of Microbes. One Day Training Course in Molecular
Biology for staff and Technician of Department of Oceanology and Fisheries. Jakarta,
December13-17. (Invited speaker).
9. Wahyudi AT. 2005. Microbial diversity-Their roles in bioconversion. National Seminar on
Microbial Lignocellulose-Its conversion to useful products. Airlangga University (UNAIR)
Surabaya. March 12 (Invited Speaker).
10. Wahyudi AT. 2005. Molecular genetic analysis of magnet formation in bacteria. National
seminar held by Indonesian Society for Microbiology. Bogor, March 29 (Invited Speaker).
11. Wahyudi AT. 2005. Construction of genomic library of Magnetospirillum magneticum AMB-1
and screening of genes involved in magnetosome synthesis. National Seminar and Congress of
Indonesian Society for Microbiology (PERMI). Bali, August 23-28. (Presenter).
12. Wahyudi A.T. 2005. The Role of Biophysic in Microbial Diversity. Guest Lecture. November 30.
Dept of Physic, Bogor Agricultural University (IPB), Bogor. (Invited Speaker).
13. Wahyudi AT, Astuti RI, Rachmania N. 2006. Cloning of genomic DNA fragment involved in
acid-aluminium tolerance in Bradyrhizobium japonicum. Annual scientific meeting of
Indonesian Society for Microbiology (PERMI). Solo, August 25-28. (Presenter).
14. Wahyudi AT. 2007. Improving utilization of soil microbes to increase crop yield in center and
west Java. Seminar of research results, Department of Agriculture Jakarta. January
(Presenter).

15. Wahyudi AT. 2007. International seminar and workshop on microbial diversity, held by Faculty
of Biotechnology, Atmajaya University Jakarta. February (Participant).
16. Wahyudi AT. 2007. One day seminar in Microbiology held by Indonesian Society for
Microbiology (PERMI) Bogor. LIPI Biotechnology Cibinong, October 11 (Participant).
17. Wahyudi AT. 2007. Plant growth promoting rhizobacteria Pseudomonas sp that are potential to
control of rot root diseases of soybean caused by fungi. Seminar of Research Results. Research
and development, Department of Agriculture Jakarta, November (Presenter).
18. Wahyudi AT. 2007. Rhizosphere bacteria as plant growth promotion of soybean: Isolation,
characterization, and enhancement of plant growth promotion. Seminar of research results,
held by ministry of research and technology (KNRT-RISTEK) Dewan Riset Nasional Serpong.
November 5 (Participant).
19. Wahyudi AT, Rachmania N, Imas T. 2007. Analysis of genes involved in acid-Al tolerance in
Bradyrhizobium japonicum. LPPM IPB, Bogor. December (Presenter).
20. Wahyudi AT. 2007. The 2007 Regional Symposium on Biophisics and Medical Physics.
Department of Physics, Bogor Agricultural University (IPB) Bogor, Indonesia. November 27-30
(Participant).
21. Wahyudi AT. 2008. One day seminar in Microbiology held by Indonesian Society for
Microbiology (PERMI) Bogor. FPIK IPB, March 4 (Participant).
22. Wahyudi AT. 2008. One day seminar . Department of Food Technology IPB, February,
(Participant).
23. Wahyudi AT. 2008. Magnetic bacteria: From molecular genetics to application. Guest Lecture.
Department of Biotechnology, Atmajaya University Jakarta. June 16 (Invited speaker).

Scientific Publications

atwlogy — Mon, 16 Jun 2008 05:11:20 +0000

1. Wahyudi, A.T., Takeyama, H and T. Matsunaga. 2000. Analysis of genes required for bacterial
magnetic particles synthesis in magnetic bacterium Magnetospirillum sp. AMB-1. Proceeding
of The 22nd Symposium on Biotechnology. May 7-11. Gatlinburg, Tennessee, USA.
2. Wahyudi, A.T. 2000. Inverse Polymerase Chain Reaction. Hayati 7: 121-123.
3. Wahyudi, A.T. 2001. Gene Library : How to construct? Hayati 8: 27-30.
4. Wahyudi, A.T., Takeyama, H and T. Matsunaga. 2001. Isolation of Magnetospirillum magne-
ticum AMB-1 mutants defective in bacterial magnetic particles synthesis by transposon
mutagenesis. Appl Biochem Biotechnol 91: 147-154.
5. Wahyudi, A.T., Takeyama, H., Okamura, Y., Fukuda, Y and T. Matsunaga. 2003. Characteri-
zation of aldehyde ferredoxin oxidoreductase gene defective mutant in Magnetospirillum
magneticum AMB-1. Biochem Biophys Res Commun 303: 223-229.
6. Okamura, Y., Takeyama, H., Sekine, T., Sakaguchi, T., Wahyudi, A.T., Sato, R., Kamiya, S and
T. Matsunaga. 2003. Design and application of a new cryptic- plasmid-based shuttle vector for
Magnetospirillum magneticum. Appl Environ Microbiol 69: 4274-4277.
7. Wahyudi, A.T. 2004. Magnetosome formation in bacteria. Indones J Microbiol 9: 39-42.
8. Calugay, R.J., Wahyudi, A.T., Okamura Y, Takeyama H, Matsunaga T. 2004. Siderophore
production of a periplasmic transport binding protein kinase gene defective mutant of Magnetospirillum magneticum AMB-1. Biochem Biophys Res Commun 323: 852-857.
9. Wahyudi AT. 2004. Microbial Genetics. Department of Biology, Fac. of Mathematics and Sciences, Bogor Agricultural University. Bogor.
10. Wahyudi AT. 2004. Microbial Metabolisms. Department of Biology, Fac.of Mathematics and
Sciences, Bogor Agricultural University. Bogor.
11. Matsunaga, T., Okamura, Y., Wahyudi, A.T., Fukuda, Y., Murase, Y. and H. Takeyama. 2005.
Complete genome sequence of anaerobic facultative magnetic bacterium Magnetospirillum
magneticum strain AMB-1. DNA Res 12:157-166.
12. Wahyudi, A.T. 2005. Construction of genomic library of Magnetospirillum magneticum AMB-1
and screening of genes involved in magnetosome synthesis. Indones J Microbiol 10:91-95
13. Wahyudi AT. 2005. Molecular Biology of Microbes. Department of Biology, Fac. of Mathematics
and Sciences, Bogor Agricultural University. Bogor.
14. Wahyudi AT. 2005. Biological Nitrogen Fixation. Department of Biology, Fac.of Mathematics
and Sciences, Bogor Agricultural University. Bogor.
15. Wahyudi AT. 2006. Involvement of a gene encoding putative acetate kinase in magnetosome
synthesis in Magnetospirillum magneticum AMB-1. Hayati 13:26-30.
16. Wahyudi AT. 2006. Cloning and overexpression of a gene encoding protein belong to tetra-
tricopeptide is required for magnetosome synthesis in Magnetospirillum magneticum AMB-1.
Indones J Microbiol 11: 25-29.
17. Astuti RI, Wahyudi AT, Rachmania N. 2006. Cloning of genomic DNA fragment involved in
acid-aluminium tolerance in Bradyrhizobium japonicum through transposon mutagenesis.
Indones J Microbiol 11: 35-39.
18. Wahyudi AT. 2007. Rapid and simple amplification of genomic DNA sequences flanking
transposon. Microbiology Indonesia 1: 1-4.
19. Wahyudi AT, Purnawijaya A, Imas T. 2007. Characterization of acid-aluminium sensitive
mutants of soybean symbiont Bradyrhizobium japonicum generated by transposon
mutagenesis. Microbiology Indonesia 1: 81-85.
20. Fitriany A, Suwanto A, Wahyudi AT, Tjahjono B. 2007. Evidence for a link between
pathogenicity and the role of IMP bacterial transport effector proteins in soybean infection by
Xanthomonas axonopodis pv glycines. Microbiology Indonesia 1: 55-60.
21. Panjaitan M, Wahyudi AT, Rachmania N. 2007. Construction of Pseudomonas sp CRB17
mutants to increase indole acetic acid production through transposon mutagenesis. National
Seminar of researches funded by the Competitive Grant, Department of Agronomy and
Horticulture IPB Bogor. 1-2 August (Proceeding).
22. Astuti RP, Wahyudi AT, Meryandini A. 2007. Plant growth promoting rhizobacteria attribute
of Bacillus sp. Isolated from rhizosphere of soybean plant. National Seminar of researches
funded by the Competitive Grant, Department of Agronomy and Horticulture IPB. 1-2 August
(Proceeding).
23. Astuti RI, Wahyudi AT, Giyanto. 2007. Plant growth promoting rhizobacteria attributes
of Pseudomonas sp. Isolated from rhizosphere of soybean plant. International Conference and
Workshop on Basics and Applied Sciences. Airlangga University 6-9 August (Proceeding).
24. Bahri S, Panjaitan M, Faulina SA, Wahyudi AT. 2007. Plant growth promoting rhizobacteria:
Isolation and characterization, transposon mutagenesis, and production of bioactive compound
International Symposium on Biotechnology, Ibaraki, Japan. September 4-6. (Proceeding).
25. Wahyudi AT, Nurdiani D, Astuti RI, Meryandini A. 2008. Acid-Aluminium Tolerant Bradyrhizo-
bium japonicum BJ11: Transposon mutagenesis, mutants characterization, cloning, and
improvement of symbiotic effectiveness. FEMS Microbiol Lett : (Sumitted).

Joint Research/Collaboration

atwlogy — Mon, 16 Jun 2008 05:10:23 +0000

1. Directorate General of Land and Water Management, Department of Agriculture, Indonesia
Jakarta (2006-2007). Research Topic: Improving utilization of organic materials and potential
soil microbes to increase crops yield in Central and West Java.
2. Soil Reseach Center, Bogor (2007-Present) Indonesia, Research Topic: Pseudomonas sp
producing antifungal compounds to control rot root disease of soybean plant.
3. Department of Plant Protection, Bogor Agricultural University (IPB) (2007-Present) Indonesia,
Research Topic: Plant growth promoting rhizobacteria, Pseudomonas sp and Bacillus sp.
4. Department of Marine and Fisheries, Jakarta (2008-Present) Indonesia, Research Topic: Marine
bacteria producing bioactive compounds and useful enzymes.
5. Department of Fisheries Product of Technology, Faculty of Fisheries and Marine Science (FPIK)
IPB (2008-Present), Research Topic: Marine bacteria associated with sponge producing
antimicrobial compounds and useful enzymes.
6. Tokyo University of Agriculture and Technology, Tokyo-Japan (2007-present), Research Topic:
cloning of genes encoding antibiotics antifungal from Pseudomonas sp and Bacillus sp.
7. Waseda University, Japan (2008-present), Research Topic: Marine Microbes producing bioactive
compounds (in Process).

Research Experiences

atwlogy — Mon, 16 Jun 2008 05:09:32 +0000

1.   Analysis of expression stability of ice nucleation gene (ice+) in free-living and bacterioid stage of acid-Al tolerant Bradyrhizobium japonicum. Funded by Basic Research from Directorate General of Higher Education, Indonesia (DIKTI) (1994/95).
2.   Expression study of inaZ from Pseudomonas syringae, xylE, and kanamycin resistance genes in Bradyrhizobium japonicum. Funded by Basic Research from Directorate General of Higher Education, Indonesia (DIKTI) (1995-1996).
3.   Screening of potential acid-aluminium tolerance of Bradyrhizobium japonicum through competition study in greenhouse experiment. Funded by Riset Unggulan Terpadu from the Minister of Research and Technology, Indonesia (RUT I) (1995-1997).
4.   Magnetic bacterium Magnertospirillum magneticum AMB-1: Transposon mutagenesis, cloning, DNA sequencing, PCR/Inverse PCR technique, Bioinformatic analysis, Gene expression, Construction of genomic library, Whole genome sequence analysis, and mutants characterization. Funded by Monbusho-Japan (1998-2003).
5.   Molecular Genetics Analysis of Acid-Al Tolerant Bradyrhizobium japonicum: Cloning of genes involved in acid-Al tolerance, Construction of B. japonicum with enhanced capacity for nitrogen fixation through transposon mutagenesis, and Characterization of B. japonicum mutants. Funded by a Competitive Grant Hibah Bersaing from Directorate General of Higher Education (DIKTI), Indonesia (2005-2007).
6.   Improving utilization of organic materials and potential soil microbes to increase crops yield in Central and West Java. Funded by SKR-JICA Japan in collaboration with Department of Agriculture (DEPTAN) Jakarta, Indonesia (January-December 2006).
7.   Study on plant growth promoting rhizobacteria of soybean: isolation, characterization, and promotion of plant growth. Funded by Insentive Program for Basics Research from Kementrian Negara Riset dan Teknologi (KNRT) Jakarta (2007-2009).
8.   Plant Growth-Promoting Rhizobacteria, Pseudomonas sp, that potential as biocontrol of rot root desease of soybean. Funded by Kerjasama Kemitraan Penelitian Pertanian antara Perguruan Tinggi dengan Badan Litbang Pertanian (KKP3T), Department of Agriculture, Indonesia (2007-2009).
9.   Detection, isolation, and cloning of genes encoding antibiotics from Pseudomonas sp and Bacillus sp. In collaboration with Department of Biotechnology, Tokyo University of Agriculture and Technology (TUAT), Japan (2007-present).
10.   Marine Metagenome Project: Sponge-associated Bacteria producing bioactive compounds and useful enzymes. In collaboration with Waseda University, Japan (in process).

Research Interest

atwlogy — Mon, 16 Jun 2008 05:08:43 +0000

1. Acid-Al tolerant Soybean Bradyrhizobium japonicum : Molecular genetic analysis and practical application for Soybean.
2. Plant growth promoting rhizobacteria, Pseudomonas sp: From basics to practical application.
3. Plant growth promoting rhizobacteria, Bacillus sp : From basics to practical application.
4. Biocontrol of plant pathogenic fungi using Plant growth promoting bacteria (PGPR)
5. Marine bacteria (culturable and unculturable) producing bioactive compounds and useful
enzymes: Biochemestry/physiology, molecular genetics, and practical applications.

Teaching and Professional Experiences

atwlogy — Mon, 16 Jun 2008 05:07:46 +0000

1. Lecturer in:
Bogor Agricultural University (IPB) Bogor:
General Biology (S-1)(1993-Present)
Basic Microbiology (S-1)(1993-Present)
Basics for Writing and Scientific Presentation (S-1) (2003-Present)
Microbial Genetics (S-2) (2003-Present)
Microbial Physiology (S-2) (2003-2006)
Genetics (S-2) (2005-Present)
Molecular Biology of Prokaryote Diversity (S-3) (2003-present)
Genetic Engineering of Microbes (S-3) (2008-Present)

2. Instructor in:
-Training course in field of Molecular Biology for lecturers from Eastern Indonesian Universities (I). Bogor Agricultural University (IPB)-Bogor (1994).
-Training course in field of Molecular Biology for lecturers from Eastern Indonesian Universities (II). Bogor Agricultural University (IPB)-Bogor (1995).
-Training course in field of Microbiology for lecturer from Sumatera-Indonesia. Bogor Agricultural University (IPB)-Bogor (July 24-August 4, 2003).
-Training course in field of Microbiology for lecturer from Kalimantan and Nusa Tenggara, Indonesia. Bogor Agricultural University (IPB)-Bogor (August 10-20, 2004)
-Retooling for Indonesian unemployed graduation in field of Bioinformatics and Information Technology, IPB-PT Macon, Bogor (September-December 2004).
-Retooling for Indonesian unemployed graduation in field of Soil Microbiology, LPPM-IPB, Bogor (September-December 2004).
-Training course in field of Molecular Biology for Staff and Technician of Department
of Oceanology and Fisheries (DKP:Departemen Kelautan dan Perikanan),
Jakarta, (December 13-17, 2004).
-Training course in writing for scientific publication. Held by Indonesian Society for
Microbiology (PERMI). Bali, August 26, 2005).
-Training course in management of scientific journal. Department of Biology, FMIPA,
Bogor Agricultural University. Cisarua-Bogor, 17-20 July 2006.
-Training course in management of scientific journal. Department of Biology, FMIPA,
Bogor Agricultural University. Bogor, September 2006.

3. Student Supervision: (Since 2004-Present)
Principle Supervisor:
- S-1 (Skripsi)   : 11 Students (8 graduated; 3 on going)
- S-2 (Thesis)    : 10 Students (6 graduated; 4 on going)
- S-3 (Dissertation) :   2 Students (all are still on going)
Co-Supervisor   :
- S-2 (Thesis)   :   4 Students (2 graduated; 2 on going)
- S-3 (Dissertation)   :   2 Students (1 graduated; 1 on going)

Work Experiences

atwlogy — Mon, 16 Jun 2008 05:06:10 +0000

1. Staff member of Microbiology Laboratory, Dept. of Biology, Fac. of Mathematics
and Natural Sciences, Bogor Agricultural University- Indonesia (1991- present).
2. Secretary of Biology Department (2004-present).
3. Secretary of the Indonesian Society for Microbiology (PERMI) Bogor (2004-present).
4. Editor of the Journal “HAYATI”, Dept. of Biology, Bogor Agricultural University,
Bogor (2004- present).
5. Editor of the “Indonesian Journal of Agricultural Science” (IJAS), Indonesian Institute
of Science (LIPI), Bogor (2006-present).

education

atwlogy — Mon, 16 Jun 2008 05:04:31 +0000

1. Tokyo University of Agriculture and Technology (TUAT), Tokyo-Japan, Department of
Biotechnology; PhD; Major: Microbial Genetics/Biotechnology (February, 2004).
2. Bogor Agricultural University (IPB), Indonesia; MS; Major: Microbiology (May, 1996).
3. Bandung Institute of Technology (ITB), Indonesia; Bch; Major: Biology (October, 1988).