Abstract
Geobacillus thermoleovorans CCB_US3_UF5 is a thermophilic bacterium isolated from a hot spring in Malaysia. Here, we report the complete genome of G. thermoleovorans CCB_US3_UF5, which shows high similarity to the genome of Geobacillus kaustophilus HTA 426 in terms of synteny and orthologous genes.
GENOME ANNOUNCEMENT
Geobacillus spp. are rod-shaped, Gram-positive, thermophilic bacteria (1, 12, 13). These bacteria have drawn interest for their potential in biotechnology applications as sources of thermostable enzymes (5, 11). Geobacillus spp. can be found in various terrestrial and marine environments, ranging from hot geothermal locations to cold regions on Earth (5, 11). Here, we report the full genome sequence of Geobacillus thermoleovorans CCB_US3_UF5, isolated from Ulu Slim hot spring, Malaysia (92.4°C, pH 7).
The genomic DNA of G. thermoleovorans CCB_US3_UF5 was extracted from the bacterium, which was grown in glucose-yeast extract-tryptone (GYT) medium at 60°C using a modified phenol-chloroform protocol (6). The whole-genome sequencing was performed using Roche 454 and Solexa paired-end sequencing technology. A 3-kb genomic library was constructed, and 100,835 paired-end and 63,267 single-end reads were generated using the GS FLX system, giving ∼17-fold coverage of the genome. A total of 5,559,066 reads (3-kb library) were generated to reach a depth of ∼120-fold coverage with an Illumina Solexa GA IIx (Illumina, San Diego, CA) and mapped to the scaffolds using the Burrows-Wheeler alignment (BWA) tool (8).
The complete genome of G. thermoleovorans CCB_US3_UF5 contains a circular chromosome of 3,596,620 bp, with a mean GC content of 52.3%. There are 4,002 predicted genes, with 3,887 coding sequences (CDS), 27 rRNA genes (9 operons), and 88 tRNA genes for 20 amino acids. Automated annotation was performed using the internal DIYA (Do It Yourself Annotator) annotation pipeline (14), which utilizes several analysis tools, such as Glimmer (4), RNAmmer (7), tRNAscan-SE (9), BLAST (2) against UniRef (15), RPS BLAST against CDD (10), and Asgard (3). Genome analysis was done using CLC Genomics Workbench 4.8 (CLC Bio, Aarhus, Denmark), Pathway Studio 8.1 (Ariadne Genomics, MD), and other bioinformatics software.
The genome of G. thermoleovorans CCB_US3_UF5 shows extensive similarity to that of G. kaustophilus HTA 426 in terms of synteny and orthologous genes.
Nucleotide sequence accession number.
The annotated genome sequence of G. thermoleovorans CCB_US3_UF5 has been deposited in GenBank under accession number CP003125.
ACKNOWLEDGMENT
This work was supported by APEX funding (Malaysia Ministry of Higher Education) to the Centre for Chemical Biology, Universiti Sains Malaysia.
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