Abstract
Martelella endophytica YC6887, which produces antifungal compounds against fungal and oomycete pathogens, was isolated from the root of a halophyte, Rosa rugosa, collected at a tidal flat in South Korea. Its full-genome sequence shows that it is a circular DNA, without a plasmid, of about 4.8 Mb in size.
GENOME ANNOUNCEMENT
The genus Martelella was first described as a novel genus in 2005, with only one type species, Martelella mediterranea, isolated from a lake (Martel) in Spain (1). Martelella endophytica strain YC6887 was isolated from a halophyte, Rosa rugosa, collected at a tidal flat in South Korea and identified as a novel species in the genus Martelella on the basis of 16S rRNA gene sequence analysis and biochemical and physiological characteristics (2).
The strain M. endophytica YC6887 was found to have antimicrobial activity (3). For the complete genome sequencing of M. endophytica YC6887, high-quality genomic DNA was extracted with the blood and cell culture DNA minikit (Qiagen, MD), and its complete genome was sequenced and characterized by ChunLab, Inc. (Seoul, South Korea) using an Illumina GA IIx sequencer (San Diego, CA) with 100-bp paired-end libraries. For the assembly of all sequence data, GS Assembler 2.3 (Roche Diagnostics, Branford, CT) and CodonCode Aligner 3.0 were used, and the gaps between all the contigs were filled by PCR amplification. Glimmer 3.02 was used to predict the coding sequences (CDSs). tRNAs were determined by tRNAscan-SE (4), while the rRNA was located by using HMMER with EzTaxon-e rRNA profiles (5, 6). The indicated CDSs were compared by rpsBLAST and NCBI reference sequences (Ref-Seq) to catalytic families (Catfam) and the NCBI COG. The SEED database was employed to determine the functional annotation of the CDSs (7, 8).
The full-genome sequence analysis of strain M. endophytica YC6887 brought out that its genome size is 4.8 Mb, with a single circular DNA. Its genome has no plasmid. The M. endophytica genome consists of a total 4,663 open reading frames (ORFs). It consists of a total of 9 rRNAs and 51 tRNAs. The G+C content is 62.14%.
Nucleotide sequence accession number.
The complete genome sequence of M. endophytica YC6887 is deposited at GenBank under the accession no. CP010803.
ACKNOWLEDGMENTS
This work was supported by the Brain Korea (BK) 21 Plus Project and the Ministry of Education, Science and Technology, South Korea, and was partially supported by a grant for research and business development funded by the Ministry of Food, Agriculture, Forestry and Fisheries, South Korea (no. 808015-3).
Footnotes
Citation Khan A, Khan H, Chung EJ, Hossain MT, Chung YR. 2015. Complete genome sequence of Martelella endophytica YC6887, which has antifungal activity associated with a halophyte. Genome Announc 3(3):e00366-15. doi:10.1128/genomeA.00366-15.
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