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Rhodococcus imtechensis sp. RKJ300

We report the 8.231-Mb genome sequence of Rhodococcus imtechensis RKJ300, isolated from pesticide-contaminated soil in Punjab, India. The genome sequence of the strain RKJ300 will be helpful in exploring the molecular pathways involved in the degradation of nitrophenols.

Genome sequencing

The genome of Rhodococcus imtechensis RKJ300 was sequenced using the Illumina-HiSeq paired end technology. A total of 30,464,548 paired end reads of 101 nucleotide length obtained by the Illumina platform. We have used NGS QC toolkit v2.2.1 to filter the data for high quality (Cut off read length for HQ=70%, Cut off quality score=20), vector/adaptor free reads for genome assembly. A total of 22,040,838 high quality, vector filtered reads (~267 times coverage) used for assembly with SOAPdenovo v1.05 and Gapcloser (for closing the gaps after scaffolding with SOAPdenovo v1.05). A total of 175 scaffolds of size 8,231,486 nt with N 50 length of 135.8 Kb were produced after the assembly. Due to the presence of some gaps, 175 scaffolds were split into 178 contigs (over 200 bp) of size 8.231Mb and N 50 contig length of 135.8 Kb submitted to GeneBank.

Genome annotation

Genome annotation was done by RAST server and RNAmmer 1.2 server.

Annotation at Genome Browser(JBrowse) CLICK HERE

Draft Genome Submission

This Whole Genome Shotgun project has been deposited at DDBJ/EMBL/GenBank under the accession number AJJH00000000. The version available here is the first version, AJJH01000000.


We have published this study in Journal of Bacteriology.

Data Download

For all data download please go to Data Download section.