MOLECULAR CHARACTERIZATION OF PRIESTIA FLEXA JAVATRENCH CRT (CAROTENOID) GENE CLUSTER IN LYCOPENE BIOSYNTHESIS BY IN-SILICO
Previously, ITB team had conducted an expedition around the Java Trench at a depth of >1000 m below sea level and succeeded in isolating bacteria from seawater, namely Priestia flexa. After Whole Genome Sequencing, it was discovered that the bacteria have a secondary carotenoid metabolism pathway...
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| Format: | Final Project |
| Language: | Indonesia |
| Online Access: | https://digilib.itb.ac.id/gdl/view/84607 |
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| Institution: | Institut Teknologi Bandung |
| Language: | Indonesia |
| Summary: | Previously, ITB team had conducted an expedition around the Java Trench at a depth of >1000 m below sea level and succeeded in isolating bacteria from seawater, namely Priestia flexa. After Whole Genome Sequencing, it was discovered that the bacteria have a secondary carotenoid metabolism pathway, one of which is lycopene. Lycopene is a natural carotenoid compound that has antioxidant, anticancer, anti-inflammatory, and anti-aging properties. However, characterization and production related to lycopene biosynthesis in Priestia flexa have not been widely carried out. Therefore, this study focused on the characterization of the Priestia flexa gene cluster producing lycopene. The methods used in-silico include genome comparison using OrthoANI, NCBI, and antiSMASH; identification of gene clusters with KEGG ontology, FGENESB, FindTerm, and BPROM; identification of motifs and domains with MEME-Suites and CD-Search. The identification results showed that the gene cluster that plays a role in lycopene synthesis is crtINM. The crtINM gene cluster transcribes phytoene desaturase (crtI ±1,530), diapophytoene desaturase (crtN ±1,455 bp), and phytoene synthase (crtM 837 ± bp). The gene cluster was identified to have a role in synthesizing 4,4’-diapolycopene (C30H40). The characterization results showed an evolutionary relationship in CrtI and CrtN, as CrtM and CrtB (homologues of crtM) form motifs and domains in their conserved regions. The results of the analysis of the CrtI and CrtN motifs in the FAD/NAD(P)-binding domain superfamily and CrtM groups showed that the three genes encode proteins belonging to the squalene/phytoene synthase
family. Meanwhile, based on the results of the lycopene gene cluster analysis, it shows that the CrtI and CrtN domain groups are phytoene dehydrogenase-related proteins (cl34198 superfamily) and CrtM is ERG9 (cl43455 superfamily).
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