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

Abstract 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...

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Autores principales:	Yosi Nindita, Zhisheng Cao, Amirudin Akhmad Fauzi, Aiko Teshima, Yuya Misaki, Rukman Muslimin, Yingjie Yang, Yuh Shiwa, Hirofumi Yoshikawa, Michihira Tagami, Alexander Lezhava, Jun Ishikawa, Makoto Kuroda, Tsuyoshi Sekizuka, Kuninobu Inada, Haruyasu Kinashi, Kenji Arakawa
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2019
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/38545547c5a644cd8f4d1d735a5d7b7d
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spelling	oai:doaj.org-article:38545547c5a644cd8f4d1d735a5d7b7d2021-12-02T15:08:31ZThe genome sequence of Streptomyces rochei 7434AN4, which carries a linear chromosome and three characteristic linear plasmids10.1038/s41598-019-47406-y2045-2322https://doaj.org/article/38545547c5a644cd8f4d1d735a5d7b7d2019-07-01T00:00:00Zhttps://doi.org/10.1038/s41598-019-47406-yhttps://doaj.org/toc/2045-2322Abstract 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.Yosi NinditaZhisheng CaoAmirudin Akhmad FauziAiko TeshimaYuya MisakiRukman MusliminYingjie YangYuh ShiwaHirofumi YoshikawaMichihira TagamiAlexander LezhavaJun IshikawaMakoto KurodaTsuyoshi SekizukaKuninobu InadaHaruyasu KinashiKenji ArakawaNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 9, Iss 1, Pp 1-11 (2019)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Yosi Nindita Zhisheng Cao Amirudin Akhmad Fauzi Aiko Teshima Yuya Misaki Rukman Muslimin Yingjie Yang Yuh Shiwa Hirofumi Yoshikawa Michihira Tagami Alexander Lezhava Jun Ishikawa Makoto Kuroda Tsuyoshi Sekizuka Kuninobu Inada Haruyasu Kinashi Kenji Arakawa The genome sequence of Streptomyces rochei 7434AN4, which carries a linear chromosome and three characteristic linear plasmids
description	Abstract 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.
format	article
author	Yosi Nindita Zhisheng Cao Amirudin Akhmad Fauzi Aiko Teshima Yuya Misaki Rukman Muslimin Yingjie Yang Yuh Shiwa Hirofumi Yoshikawa Michihira Tagami Alexander Lezhava Jun Ishikawa Makoto Kuroda Tsuyoshi Sekizuka Kuninobu Inada Haruyasu Kinashi Kenji Arakawa
author_facet	Yosi Nindita Zhisheng Cao Amirudin Akhmad Fauzi Aiko Teshima Yuya Misaki Rukman Muslimin Yingjie Yang Yuh Shiwa Hirofumi Yoshikawa Michihira Tagami Alexander Lezhava Jun Ishikawa Makoto Kuroda Tsuyoshi Sekizuka Kuninobu Inada Haruyasu Kinashi Kenji Arakawa
author_sort	Yosi Nindita
title	The genome sequence of Streptomyces rochei 7434AN4, which carries a linear chromosome and three characteristic linear plasmids
title_short	The genome sequence of Streptomyces rochei 7434AN4, which carries a linear chromosome and three characteristic linear plasmids
title_full	The genome sequence of Streptomyces rochei 7434AN4, which carries a linear chromosome and three characteristic linear plasmids
title_fullStr	The genome sequence of Streptomyces rochei 7434AN4, which carries a linear chromosome and three characteristic linear plasmids
title_full_unstemmed	The genome sequence of Streptomyces rochei 7434AN4, which carries a linear chromosome and three characteristic linear plasmids
title_sort	genome sequence of streptomyces rochei 7434an4, which carries a linear chromosome and three characteristic linear plasmids
publisher	Nature Portfolio
publishDate	2019
url	https://doaj.org/article/38545547c5a644cd8f4d1d735a5d7b7d
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The genome sequence of Streptomyces rochei 7434AN4, which carries a linear chromosome and three characteristic linear plasmids

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