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http://dx.doi.org/10.17576/jsm-2018-4712-07
Reconstruction of Curcuma aeruginosa Secondary
Metabolite Biosynthetic Pathway using Omics Data
(Pembinaan Semula Tapak Jalan Biosintetik
Metabolit Sekunder Curcuma aeruginosa Menggunakan Data Omiks)
NURUL-SYAFIKA MOHAMAD-FAUZI1, RABIATUL-ADAWIAH ZAINAL-ABIDIN2, MOHD WAZNUL ADLY ZAIDAN3, SANIMAH SIMOH3, ALIZAH ZAINAL3 & ZETI-AZURA MOHAMED-HUSSEIN1,2*
1Centre for Frontier
Sciences, Faculty of Science and Technology, 43600 UKM Bangi,
Selangor Darul Ehsan, Malaysia
2Centre for
Bioinformatics Research, Institute of Systems Biology (INBIOSIS),
Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Selangor Darul Ehsan,
Malaysia
3Institut Penyelidikan
dan Kemajuan Pertanian Malaysia (MARDI), 43300 Serdang, Selangor
Selangor Darul Ehsan, Malaysia
Received: 30 May 2018/Accepted:
19 September 2018
ABSTRACT
Curcuma aeruginosa or temu hitam
is herbaceous plant with high therapeutic values in its rhizome
that is widely used in traditional medicine. However, molecular
studies on the secondary metabolite biosynthetic pathway of C.
aeruginosa is still limited. Hence, the aim of this study was
to explore and reconstruct the secondary metabolite biosynthetic
pathway of C. aeruginosa rhizome by integrating the metabolite
profiling and transcriptomic data. A total of 81 metabolites were
identified in the rhizome of C. aeruginosa; amongst others
are curzerene and β-Cubebene which are potent antioxidants.
A total of 28,225 unigene were obtained from the transcriptomic
sequencing of C. aeruginosa rhizome and analysed to identify
potential genes associated with the biosynthesis of its metabolites.
Of these, 43 unigenes were identified and mapped onto five sub-pathways;
i.e. carotenoid biosynthetic pathway, diterpenoid biosynthetic pathway,
monoterpenoid biosynthetic pathway, terpenoid and steroid biosynthetic
pathway, and sesquiterpenoid and triterpenoid biosynthetic pathway.
This study demonstrated a systematic bioinformatic approach to reconstruct
a metabolic pathway in the rhizome of C. aeruginosa using
bioinformatic approach.
Keywords: Data integration;
metabolic pathway; metabolomics; pathway reconstruction; transcriptomic
ABSTRAK
Curcuma aeruginosa atau temu hitam
merupakan sejenis tumbuhan herba yang mempunyai nilai terapeutik
tinggi pada bahagian rizomnya dan telah digunakan secara meluas
dalam perubatan tradisi. Namun begitu, masih banyak yang belum diketahui
tentang penghasilan metabolit sekunder di dalam C. aeruginosa.
Kajian ini dijalankan untuk membina semula tapak jalan biosintesis
C. aeruginosa dengan menggunakan data pemprofilan metabolit
sekunder dan transkriptomik. Sebanyak 81 metabolit telah dikenal
pasti di dalam rizom seperti curzerene dan β-Cubebene
yang berfungsi sebagai anti-oksidan. Sejumlah 28,225 unigen yang
terhasil daripada penjujukan transkriptomik rizom C. aeruginosa
telah dianalisis untuk mencari dan mengenal pasti sebarang gen
yang terlibat di dalam penghasilan metabolit di dalam rizom C.
aeruginosa. Terdapat 43 unigen telah dikenal pasti terlibat di
dalam lima tapak jalan biosintetik utama iaitu biosintesis karotenoid,
biosintesis diterpenoid, biosintesis monoterpenoid, biosintesis
terpenoid dan steroid serta biosintesis sesquiterpenoid dan triterpenoid.
Kajian ini juga memfokuskan kepada strategi pembinaan semula tapak
jalan biosintetik yang terlibat dalam rizom C. aeruginosa dengan
menggunakan pendekatan bioinformatik.
Kata
kunci: Integrasi data; metabolomik; pembinaan semula tapak jalan; tapak jalan
metabolik; transkriptomik
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*Corresponding author; email: zeti.hussein@ukm.edu.my
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