Isolation, genome sequencing, assembly and annotation of thermophilic geobacillus thermoleovorans ccb_us3_uf5 from Ulu Slim Hot Spring, Perak, Malaysia.
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Date
2011-02
Authors
Sakaff, Muhd Khairul Luqman Muhd
Journal Title
Journal ISSN
Volume Title
Publisher
Universiti Sains Malaysia
Abstract
Satu bakteria termofilik Geobacillus thermoleovorans CCB_US3_UF5 telah dipencil dari kolam air panas Ulu Slim, Perak, Malaysia. Untuk memahami kemandirian hidup G. thermoleovorans CCB_US3_UF5 memerlukan pengetahuan genomnya sebagai pelan perancangan adaptasi terhadap persekitaran panas. Penggunaan teknologi penjujukan generasi terkini telah digunakan untuk penjujukan genom bakteria. Pencilan G. thermoleovorans CCB_US3_UF5 menunjukkan perkaitan rapat dengan bakteria termofilik G. kaustophilus HTA 426. Draf genom yang diperolehi terdiri dari 7 kontig bersaiz 3506524 bp dengan purata kandungan GC sebanyak 52.3 %. Annotasi meramalkan kewujudan 3955 gen, 73 tRNA, 23 rRNA (7 operon rRNA), 37 gen virus dan 117 gen transposase. Pembinaan semula laluan metabolik berdasarkan genom menunjukkan G. thermoleovorans CCB_US3_UF5 mempunyai laluan glikolisis, kitaran asid sitrik, laluan pentos fosfat dan biosintesis asid lemak yang berfungsi.
A thermophilic bacterium Geobacillus thermoleovorans CCB_US3_UF5 was isolated from Ulu Slim hot spring located in Perak, Malaysia. Understanding the survival of G. thermoleovorans CCB_US3_UF5 requires knowledge of its genome as the blueprint for high temperature adaptation to the environment. Genome sequencing of the bacterium was performed using next generation sequencing technology. The newly isolated G. thermoleovorans CCB_US3_UF5 is closely related to thermophilic bacterium G. kaustophilus HTA 426. The draft genome consists of 7 contigs totaling 3,506,524 bp with a mean GC content of 52.3%. The annotation predicts 3955 genes, 73 tRNA, 23 rRNA (7 rRNA operon), 37 phage related genes, and 117 transposase genes. Genome-based metabolic reconstruction indicates that G. thermoleovorans CCB_US3_UF5 has a functional glycolysis, citric acid cycle, pentose phosphate and fatty acid biosynthesis pathway.
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Keywords
Genome , Assembly