Jul

22

Black Tea Leaves and Rambutan Peel from Indonesia Natural Plant has Biological Function as Anti-obesity Agents: Nutritional Genomic Study

Fatchiyah Fatchiyah

Head of Research Center of Smart Molecule from Natural Genetics Resources, Department of Biology, Faculty of Mathematic and Natural Sciences, Brawijaya University, Jl. Veteran, Malang 5145, INDONESIA. Email: fatchiya@ub.ac.id; +62 341575841

Abstract

Obesity is one global problem not only in developed countries, but also developing country. The number of obese people in Indonesia is increasing in line with the change of lifestyle. Nowadays, Indonesia entered into the top ten countries with developing overweight and obesity, around 40% of the adult population. This is alarming to become a major public health concern. Obesity is a complex disease causing lack energy balance in the body, genetics & environmental factors, lifestyle and malnutrition. Indeed, Indonesia has a rich of natural plants such as tea leaves, rambutan peels, legumes, brown rice, fruits and vegetables. The ingredients of natural plants are able to control the developing obesity through the cell signaling pathway which is organized at the level of proteins and biological active compounds and has ability to interact and modulate molecular mechanisms underlying an organism’s physiological function. Our previous studies by animal model and in silico analysis shown the  catechin of black tea leaves could lose the rat body weight gain and inhibit the Igf-1 protein and Igf-1 receptor interaction in the adipocyte. The ability of EC, EGC and EGCG of black tea was only prevented the L1-domain of IGF-1R binds of IGF-1 protein and reduced the adipocyte proliferation. The rambutan peel extract (RPE) was also protected the receptor of Igf-1 interact with its ligand protein in obese rats, both expressions were lower than control rat group. RPE has an ability to down regulate directly the adipogenesis regulation of PPARγ gene expression and mRNA level of FABP4 genes and also prevent the body weight gain by the declining size of the adipocyte in an obese rat model, respectively. Conclusion: catechin of black tea leaves and bioactive compound of rambutan peel extract has potential  as an anti-obesity agents through regulation of the molecular signaling pathway of the adipogenesis gene cascade.

Keywords: adipogenesis, black tea, catechin, obese animal model, rambutan peel extract

USG_ICOCD-2016_Program

Jul

9

Takeshi Ohta, Yasufumi Toriniwa, Naruhiko Ryumon, Nobuhiro Inaba, Tadaaki Hirao, Saori Yamanaka, Takayuki Maeno, Wakako Sakakibara, Morio Sumikawa, Kaoru Chiba, Akiko Nakamura, Katsuhiro Miyajima, Fatchiyah Fatchiyah, And Takahisa Yamada. Maternal high-fat diet promotes onset of diabetes in rat offspring. Animal Science Journal (2016) ••, ••–••, doi:10.1111/asj.12606

Siti Nur Aisyah, Hafid Harnas, Sulastri Sulastri, Retmi Retmi, Helmi Fuaddi, Fatchiyah Fatchiyah, Amri Bakhtiar, Jamsari Jamsari. Enhancement of a Novel Isolate of Serratia plymuthica as Potential Candidate for an Antianthracnose. Pakistan Journal of Biological Sciences. 2016: 1-9 ISSN 1028-8880, DOI: 10.3923/pjbs.2016

Elly Syafriani , Femi Riwany, Rahmi Kamelia,  Istino Ferita, Fatchiyah Fatchiyah, Jamsari Jamsari. A Promising Novel Rhizobacteria Isolate UBCR_12 as Antifungal for Colletotrichum gloeosporioides. Research Journal of Pharmaceutical, Biological and Chemical Sciences. May 2016;  7 (3): 2201-2209

 

 

Feb

20

Hasil-hasil Riset peneliti RG Smonagenes UB disitasi dalam Sigma-Aldrich bisa dicek di

Pogestemon herba

Pogestemon herba

http://www.sigmaaldrich.com/catalog/papers/25484897

http://www.sigmaaldrich.com/catalog/papers/23559751#

Pachouil alcohol

Pachouil alcohol

http://www.sigmaaldrich.com/catalog/papers/61adea67-e075-46a4-8c40-00af77f419ab#

http://www.sigmaaldrich.com/catalog/papers/26483598

http://www.sigmaaldrich.com/catalog/papers/26005274#

http://www.sigmaaldrich.com/catalog/papers/8e007c84-23a7-4a3a-a358-407eaa2f7552#

http://www.sigmaaldrich.com/catalog/papers/aabdb08b-4ab0-41ec-ade7-1b91555c4e93

http://www.sigmaaldrich.com/catalog/papers/3997fd80-a96d-487f-a74d-db48b9ac8c3f

http://www.sigmaaldrich.com/catalog/papers/90d936e5-aeb0-4343-8a1f-2d70b712692a

 

Obese Rambutan peel

Obese Rambutan peel

PPAR gamma CSN1S2

PPAR gamma rambutan peel

CSN1S2 RA disease RAGE

CSN1S2 RA disease RAGE

CSN1S2 Pre-Osteoblast

CSN1S2 Pre-Osteoblast

CSN1S2 Diabetes

CSN1S2 Diabetes

CSN1S2 RA disease

CSN1S2 RA disease

CSN1S2 Jak-Stat3

CSN1S2 Jak-Stat3

Feb

20

Bioethics research:

  • Morality is a unique feature of the life of human beings. It is deeply influenced by several cultural factors, such as history, traditions, education, religious beliefs, etc.
  • The intellectual analysis of this human dimension in all of its complexity is the goal of the discipline called Ethics. Ethics does not create morality or moral behavior.
  • The goal of ethics is much more modest: to explore the nature of moral experience, its universality and its diversity.
  • Ethics and morality are generally taken as synonyms, because they originally had the same meaning: the study of the disposition, character, or attitude of a specific person, group of people or culture, and ways of promoting or perfecting it.

As a field of study, psychology examines a broad range of research and applied areas. Important parts of such work are teaching and research on the behavior of nonhuman animals, which contribute to the understanding of basic principles underlying behavior and to advancing the welfare of both human and nonhuman animals. While psychologists must conduct their teaching and research in a manner consonant with relevant laws and regulations, ethical concerns further mandate that psychologists consider the costs and benefits of procedures involving animals before proceeding with these activities.

The 3Rs Principle of Replacement, Reduction and Refinement is central to the Guidelines. Since the concept of the 3Rs was first introduced by William Russell and Rex Burch in The Principles of Humane Experimental Technique in 1959, the 3Rs have been internationally accepted as the basis of the care and use of animals for scientific purposes. These are: to Replace the need for animal use by alternative means, to Reduce
the numbers of animals used to an unavoidable minimum, and to Refine any procedures necessarily used, so as to minimize the impact on animals, consistent with the achievement of a justifiable scientific purpose, and which is necessary because there is no other way of achieving that purpose. The incorporation of the 3Rs at the planning stages ensures that full consideration of the principle is exercised at every juncture of the process.

1. care-animal-non human research guidelines (PDF)

2. NACLAR-guide Lines using animal model (PDF)

bioethic syllabi WHO

Lect 2 Laik Ethik riset dengan Hewan Coba FAT

Lec 1 – Bioethics-Research

JADWAL MK Bioetika penelitian hayati

 

 

Feb

20

Hari                 : Rabu

Pukul               : 09.20 – 11.05 WIB

Tempat            : MC3.1

 

NO.

TANGGAL

TOPIK

DOSEN

1.

18-2-2015 Pendahuluan

F

2.

25-2-2015 Dasar-dasar browsing and Searching GeneBank: Nucleotide Database F

3.

4-3-2015 Nucleotide sequence analysis F

4.

11-3-2015 dbSNP sequence Variation (Kuis) F

5.

18-3-2015 Student Presentation: Nucleotide database to genome mapping and analysis (SCL) F

6.

25-3-2015 Polymorfisme and variation genome

F

7.

1-4-2015 Comparative genome, Taxonomy and evolution (Kuis)

F

8.

8-4-2015 Student Presentation: Polymorphisme to taxonomy mapping (SCL)

F

9.

15-4-2015

UJIAN TENGAH SEMESTER

F

 

10.

29-4-2015 Dasar-dasar browsing and Searching GeneBank: protein and PDB Database

W

11.

6-5-2015 Protein sequence analysis

W

12.

13-5-2015 3D protein analysis (kuis)

W

13.

20-5-2015 Protein folding

W

14.

27-5-2015 Protein network pathway (TT)

W

15.

3-6-2015 Student Presentation: 3D protein to protein folding & network pathway (SCL)

W

UJIAN AKHIR SEMESTER

W

Keterangan: F : Prof. Fatchiyah, M.Kes., Ph.D.  W         : Widodo, S.Si., M.Si., Ph.D.Med.Sc.

 

SCL:  berupa mini projek.

 

ASSESMENT

Nilai Kuliah  (NK):

  • Ujian Tengah Semester          : 35%
  • Ujian akhir                               : 35%
  • Kuis                                         :10%
  • Diskusi/keaktifan di kelas       :10%
  • Tugas                                      : 10%

 

Nilai Praktikum (NP):

  • Placements test                      : 20 %
  • Laporan                                   : 40 %
  • Ujian Akhir Praktikum             : 40 %

 

Nilai Akhir  (NA) :   (2 NK + 1 NP)/3

Skor Nilai Akhir (Nilai Huruf = NH):

≥80            : A

76-<80       : B+

70- <76      : B

60- <70      : C+

56- <60      : C

50- <56      : D+

46- <50      : D

>46            : E

 

Daftar Pustaka:

  1. Fatchiyah. 2015. Prinsip Dasar Bioinformatika. UB Press. Malang
  2. Marketa Zvelebil and Jeremy O. Baum, 2008, Understanding bioinformatic, Garland Science, Taylor and Francis group publisher
  3. Jean-Michel Claverie, Ph. D., Cedric Notredame, Ph.D. 2006, Bioinformatics For Dummies, 2nd Edition, For Dummies Publisher
  4. Cynthia Gibas and Per Jambeck, 2001, Developing Bioinformatics Computer Skills, O’Reilly Media publisher.
  5. Huaiyu Mi and Paul Thomas. Methods in Molecular Biology, 2009, Volume 563, Part 2, 123-140
  1. GeneBank: NCBI GeneBank: www.ncbi.nlm.nih.gov/,
  2. DDBJ: http://www.ddbj.nig.ac.jp/
  3. Embl: http://www.ebi.ac.uk/
  4. Protein analysis: http://www.expasy.ch/sprot/sprot-top.html
  5. protein characterization http://www.mips.biochem.mpg.de dan http://www.protomap.cs.huji.ac.il
  6. Database alligment sequence: Hovergen http://pbil.univ-lyon1.fr/databases/hovergen.html (vertebrate alignments)
  7. Pfam http://www.sanger.ac.uk/Software/Pfam/ (protein domain alignments and profile HMMs)
  8. BLOCKS http://blocks.fhcrc.org/

14. Ribosomal Database Project http://rdp.cme.msu.edu/html/ alignments and trees derived from rRNA sequences

Feb

17

Hari                 : Kamis

Pukul               :09.20 – 11.05 WIB

Tempat            :R. Biologi

NO.

TANGGAL

TOPIK

DOSEN

1.

26-2-2015

Pendahuluan

ELA

2.

5-3-2015

Teknik dasar analisis bahan genetic (DNA, RNA) dan cara pengukuran biomolekul secara kualitatif & kuantitatif

ELA

3.

12-3-2015

Dasar teknik amplifikasi DNA-RNA dan aplikasinya (SCL)

ELA

4.

19-3-2015

Pembuatan Probe

F

5.

26-3-2015

Analisis polimorfisme & Manipulasi genetik

F

6.

2-4-2015

Hibridisasi: Sistem deteksi gen & level mRNA (kuiz)

F

7.

9-4-2015

DNA sequencing  (SCL)

F

8.

16-4-2015

UJIAN TENGAH SEMESTER

TIM

9.

23-4-2015

 

10.

30-4-2015

Dasar teknik-teknik kloning Molekuler (kuiz) F

11.

7-5-2015

Teknik dasar isolasi dan presipitasi protein SW

12.

21-5-2015

Pembuatan kurva protein standard dan mengukur kadar  Protein (SCL) SW

13.

28-5-2015

Electrophoresis protein

SW

14.

4-6-2015

Analisis Protein (immunoblotting)

SW

15.

11-6-2015

Immunohistochemistry (SCL)

SW

16.

UJIAN AKHIR SEMESTER

TIM

Keterangan: F : Prof. Fatchiyah, M.Kes., Ph.D., ELA: Prof. Dr. Ir. Estri Laras Arumningtyas, M.Sc.St., SW: Dr. Sri Widyarti, M.Si.

 

SCL: diisi dengan mini projek dari kelompok mahasiswa yang telah ditetapkan.

 

ASSESMENT

Nilai Kuliah  (NK):

  • Ujian Tengah Semester          : 35%
  • Ujian akhir                               : 35%
  • Kuis                                         :10%
  • Diskusi/keaktifan di kelas       :10%
  • Tugas                                      : 10%

 

Nilai Praktikum (NP):

  • Placements test                      : 20 %
  • Laporan                                   : 40 %
  • Ujian Akhir Praktikum             : 40 %

 

Nilai Akhir  (NA) :   (NK + NP)/2

Skor Nilai Akhir (Nilai Huruf = NH):

≥80            : A

76-<80       : B+

70- <76      : B

60- <70      : C+

56- <60      : C

50- <56      : D+

46- <50      : D

>46            : E

 

D. DAFTAR PUSTAKA

  1. Fatchiyah, Sri Widyarti, Estri Laras Arumingtyas, Sri Rahayu, 2008, Teknik Dasar Analisis Biologi Molekuler, Universitas Brawijaya, Malang.
  2. Fatchiyah, Sri Widyarti, Estri Laras Arumingtyas, Sri Rahayu, 2011. Biologi Molekuler: Prinsip Dasar Analisis. Penerbit Erlangga, Jakarta.
  3. Andrews AT. 1980. Electrophoresis: Theory, Techniques & Biochemical and Clinical Apllication. 2nd Ed. Clarendon Press, Oxford.
  4. Ausubel FM., Brent R., Kingston RE., Moore D., Seidman JG. Smith JA. Struhl K. 2002. Short Protocols in Molecular Biology. 5rd Ed. John Wiley & Sons.
  5. GeneBank: NCBI GeneBank: www.ncbi.nlm.nih.gov/,5

DDBJ: http://www.ddbj.nig.ac.jp/

Embl: http://www.ebi.ac.uk/

  1. Innis MA. Gelfand DH., Sninsky JJ. 1999. PCR Application Protocol for Functional Genomics. Academics Press
  2. Sambrook J. & Russel DW. 2001. Molecular Cloning: A laboratory manual. Cold Spring Harbor.  www.cshl.org/sambrook
  3. Bollag DM., & Edelstein SJ. 1991. Protein Methods. A John Wiley & Sons.
  4. Harlow E. & Lane D. 1988. Antibodies: A laboratory manual. ColdSpring
  5. Harbor Konfermann R. & Dubel S. 2001. Antibody Engeneering. Springer Lab. Manual. www.duebel.uni-hd.de
  6. Robyt JF & White BJ. 1990. Biochemical Techniques: Theory & Practice. Brooks/Cole Pub.
  7. Wilson K & Walker J. 2004. Principles & Techniques of Practical Biochemistry. 4th Ed. Cambridge University Press. www.cup.cam.ac.uk/wilson  Atau www.cup.org/wilson

Feb

8

My group publication has been published on Research-gate
https://www.researchgate.net/profile/Fatchiyah_Fatchiyah/publications/

2015

Fatchiyah F, Setiawan B,Suharjono S, Noor Z. The anti-osteoporosis effects of CSN1S2 protein of goat milk and yoghurt on a complete Freund’s adjuvant-induced rheumatoid arthritis model in rats. Biomarkers and Genomic Medicine (2015b) xx, 1-8. http://dx.doi.org/10.1016/j.bgm.2015.10.001

Vita Agustina, Bambang Setiawan , Fatchiyah Fatchiyah. 2015. Acute toxicity of caprine alpha S2-casein protein on the microstructures and mineral profiles of rat ileum. Asian Pacific Journal of Tropical Disease, 08/2015; 5(9):721-725. DOI:10.1016/S2222-1808(15)60920-3

B Tong, G Q Gao, Y Muramatsu, T Ohta, H Kose, G P Li, F Fatchiyah, T Yamada. Association of the expression levels in the longissimus muscle and a SNP in the CDC10 gene with marbling in Japanese Black beef cattle. Meat Science 108:28-31 May 2015

Rista Nikmatu Rohmah, Ferlany Hardiyanti, Fatchiyah Fatchiyah. Inhibition on JAK-STAT3 Signaling Transduction Cascade Is Taken by Bioactive Peptide Alpha-S2 Casein Protein from Goat Ethawah Breed Milk. Acta Informatica Medica 07/2015; 23(4):233-238. DOI:10.5455/aim.2015.23.233-238

Sep

22

lecture-Teknik Analisis sidikjari molekuler OK

Sep

14

material lecture:

1. DNA fingerprinting and barcoding (fat-UB 2015)

2. Lecture Intro Forensic Science DNA Testing

3. 5.dbSnp of nucleotide Seq Variation

4. Lecture DNA Barcode (taxmol or molEvo)

5. dbSNP variation

Sep

14

Jadual Kuliah Biologi Molekuler (MAB 4162: 2sks)

JB-UB, Semester Ganjil 2015-2016

Kelas: A

 

Hari: Rabu                                           07:30-09:15                            Ruang: MP 2.4

No

Tanggal

Topik

Dosen

Ket

1 09-9-15 Pendahuluan, konsep dasar dan prespektif biologi molekuler

F

Ceramah, Diskusi,

Laptop, LCD

2 16-9-15
  1. Struktur Molekuler dari gen dan Kromosom
    1. Replikasi DNA

F

Presentasi, Diskusi

Laptop. LCD, Video

3 23-9-15 Proses Transkripsi Gen pada sintesis protein

F

Presentasi, Diskusi

Laptop. LCD, Video

4 30-9-15 Proses Translasi Gen pada sintesis protein

F

Presentasi, Diskusi

Laptop. LCD, Video

5 7-10-15 Mekanisme regulasi secara umum level seluler & molekuler

ELA

Ceramah, Diskusi,

Laptop, LCD,

6 14-10-15 Mekanisme regulasi gen prokariota

ELA

Presentasi, Diskusi

Laptop. LCD, Video, Kuis

7 21-10-15 Mekanisme regulasi gen eukariota, Tanaman

ELA

Presentasi, Diskusi

Laptop. LCD, Video

8 28-10-15

UTS

  04-11-15  

9  11-11-15 Mekanisme regulasi gen eukariota: Human and animal

ELA

Presentasi, Diskusi

Laptop. LCD, Video, Kuis

10 18-11-15 Struktur dasar Protein: determinasi & klasifikasi

SW

Ceramah, Diskusi,

Laptop, LCD

11 25-11-15 Protein modification

SW

Ceramah, Diskusi,

Laptop, LCD, Kuis

12 02-12-15 Functional Protein

SW

Presentasi, Diskusi

Laptop. LCD, Video

13 09-12-15 Interaksi antara  DNA-Protein & Protein-Protein

SW

Presentasi, Diskusi

Laptop. LCD, Video, Kuis

14 16-12-15 Proteomics, Metabolomics,

and Systems Biology

WDD

Ceramah, Diskusi,

Laptop, LCD, Kuis

15 23-12-15 Gene Regulation in Development

and Evolution

SBS

Ceramah, Diskusi,

Laptop, LCD, Kuis

16   UAS

Keterangan:

Dosen Utama: F (Fatchiyah, Ph.D); ELA (Dr.Ir. Estri Laras A., MSc.St), SW (Dr. Sri Widyarti, MS)

Dosen tamu: WDD (Widodo, PhD.) and SBS (Prof. Sutiman B. Sumitro, SU, D.Sc.).

 

Jadual Kuliah Biologi Molekuler (MAB 4162: 2sks)

JB-UB, Semester Ganjil 2015-2016

Kelas: B

 

Hari: Rabu                                           9:20-11:00                              Ruang: MP 2.4

No

Tanggal

Topik

Dosen

Ket

1 090-9-15 Pendahuluan, konsep dasar dan prespektif  biologi molekuler

F

Ceramah, Diskusi,

Laptop, LCD

2 16-9-15
  1. Struktur Molekuler dari gen dan Kromosom
  2. Replikasi DNA

F

Presentasi, Makalah, Diskusi

Laptop. LCD, Video

3 23-9-15 Proses Transkripsi Gen pada sintesis protein

F

Presentasi, Makalah, Diskusi

Laptop. LCD, Video

4 30-9-15 Proses Translasi Gen pada sintesis protein

F

Presentasi, Makalah, Diskusi

Laptop. LCD, Video

5 7-10-15 Mekanisme regulasi secara umum level seluler & molekuler

ELA

Ceramah, Diskusi,

Laptop, LCD,

6 14-10-15 Mekanisme regulasi gen prokariota

ELA

Presentasi, Diskusi

Laptop. LCD, Video, Kuis

7 21-10-15 Mekanisme regulasi gen eukariota, Tanaman

ELA

Presentasi, Diskusi

Laptop. LCD, Video

8 28-10-15

UTS

  04-11-15  

9  11-11-15 Mekanisme regulasi gen eukariota: Human and animal

ELA

Presentasi, Diskusi

Laptop. LCD, Video, Kuis

10 18-11-15 Struktur dasar Protein: determinasi & klasifikasi

SW

Ceramah, Diskusi,

Laptop, LCD

11 25-11-15 Protein modification

SW

Ceramah, Diskusi,

Laptop, LCD, Kuis

12 02-12-15 Functional Protein

SW

Presentasi, Makalah,Diskusi

Laptop. LCD, Video

13 09-12-15 Interaksi antara  DNA-Protein & Protein-Protein

SW

Presentasi, Makalah, Diskusi

Laptop. LCD, Video, Kuis

14 16-12-15 Proteomics, Metabolomics,

and Systems Biology

WDD

Ceramah, Diskusi,

Laptop, LCD, Kuis

15 23-12-15 Gene Regulation in Development

and Evolution

SBS

Ceramah, Diskusi,

Laptop, LCD, Kuis

16   UAS

Keterangan:

Dosen Utama: F (Fatchiyah, Ph.D); ELA (Dr.Ir. Estri Laras A., MSc.St), SW (Dr. Sri Widyarti, MS)

Dosen tamu: WDD (Widodo, PhD.) and SBS (Prof. Sutiman B. Sumitro, SU, D.Sc.).

 

 

Malang,

Koordinator

 

 

Prof. Fatchiyah, Ph.D