April 21, 2020  |  

The genome sequence of Streptomyces rochei 7434AN4, which carries a linear chromosome and three characteristic linear plasmids.

Authors: Nindita, Yosi and Cao, Zhisheng and Fauzi, Amirudin Akhmad and Teshima, Aiko and Misaki, Yuya and Muslimin, Rukman and Yang, Yingjie and Shiwa, Yuh and Yoshikawa, Hirofumi and Tagami, Michihira and Lezhava, Alexander and Ishikawa, Jun and Kuroda, Makoto and Sekizuka, Tsuyoshi and Inada, Kuninobu and Kinashi, Haruyasu and Arakawa, Kenji

Streptomyces rochei 7434AN4 produces two structurally unrelated polyketide antibiotics, lankacidin and lankamycin, and carries three linear plasmids, pSLA2-L (211?kb), -M (113?kb), and -S (18?kb), whose nucleotide sequences were previously reported. The complete nucleotide sequence of the S. rochei chromosome has now been determined using the long-read PacBio RS-II sequencing together with short-read Illumina Genome Analyzer IIx sequencing and Roche 454 pyrosequencing techniques. The assembled sequence revealed an 8,364,802-bp linear chromosome with a high G?+?C content of 71.7% and 7,568 protein-coding ORFs. Thus, the gross genome size of S. rochei 7434AN4 was confirmed to be 8,706,406?bp including the three linear plasmids. Consistent with our previous study, a tap-tpg gene pair, which is essential for the maintenance of a linear topology of Streptomyces genomes, was not found on the chromosome. Remarkably, the S. rochei chromosome contains seven ribosomal RNA (rrn) operons (16S-23S-5S), although Streptomyces species generally contain six rrn operons. Based on 2ndFind and antiSMASH platforms, the S. rochei chromosome harbors at least 35 secondary metabolite biosynthetic gene clusters, including those for the 28-membered polyene macrolide pentamycin and the azoxyalkene compound KA57-A.

Journal: Scientific reports
DOI: 10.1038/s41598-019-47406-y
Year: 2019

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