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Komaki H.,Chiba Institute of Technology | Hosoyama A.,NBRC | Ichikawa N.,NBRC | Igarashi Y.,Toyama Prefectural University
Genome Announcements | Year: 2016

We report the draft genome sequence of Streptomyces sp. TP-A0874 isolated from compost. This strain produces catechoserine, a new catecholate-type inhibitor of tumor cell invasion. The genome harbors at least six gene clusters for polyketide and nonribosomal peptide biosyntheses. The biosynthetic gene cluster for catechoserines was identified by bioinformatic analysis. © 2016 Komaki et al.


Komaki H.,Chiba Institute of Technology | Hosoyama A.,NBRC | Ichikawa N.,NBRC | Igarashi Y.,Toyama Prefectural University
Genome Announcements | Year: 2016

Here, we report the draft genome sequence of Bacillus subtilis TP-B0611, which produces the isocoumarin-type compounds bacilosarcin and amicoumacin. The genome encodes three nonribosomal peptide synthetase (NRPS) gene clusters and one hybrid polyketide synthase (PKS)/NRPS gene cluster. The hybrid PKS/NRPS gene cluster was identified to be responsible for the biosynthesis of bacilosarcins and amicoumacins. © 2016 Komaki et al.


Komaki H.,Chiba Institute of Technology | Ichikawa N.,NBRC | Hosoyama A.,NBRC | Takahashi-Nakaguchi A.,Chiba University | And 4 more authors.
BMC Genomics | Year: 2014

Background: Actinobacteria of the genus Nocardia usually live in soil or water and play saprophytic roles, but they also opportunistically infect the respiratory system, skin, and other organs of humans and animals. Primarily because of the clinical importance of the strains, some Nocardia genomes have been sequenced, and genome sequences have accumulated. Genome sizes of Nocardia strains are similar to those of Streptomyces strains, the producers of most antibiotics. In the present work, we compared secondary metabolite biosynthesis gene clusters of type-I polyketide synthase (PKS-I) and nonribosomal peptide synthetase (NRPS) among genomes of representative Nocardia species/strains based on domain organization and amino acid sequence homology.Results: Draft genome sequences of Nocardia asteroides NBRC 15531T, Nocardia otitidiscaviarum IFM 11049, Nocardia brasiliensis NBRC 14402T, and N. brasiliensis IFM 10847 were read and compared with published complete genome sequences of Nocardia farcinica IFM 10152, Nocardia cyriacigeorgica GUH-2, and N. brasiliensis HUJEG-1. Genome sizes are as follows: N. farcinica, 6.0 Mb; N. cyriacigeorgica, 6.2 Mb; N. asteroides, 7.0 Mb; N. otitidiscaviarum, 7.8 Mb; and N. brasiliensis, 8.9 - 9.4 Mb. Predicted numbers of PKS-I, NRPS, and PKS-I/NRPS hybrid clusters ranged between 4-11, 7-13, and 1-6, respectively, depending on strains, and tended to increase with increasing genome size. Domain and module structures of representative or unique clusters are discussed in the text.Conclusion: We conclude the following: 1) genomes of Nocardia strains carry as many PKS-I and NRPS gene clusters as those of Streptomyces strains, 2) the number of PKS-I and NRPS gene clusters in Nocardia strains varies substantially depending on species, and N. brasiliensis strains carry the largest numbers of clusters among the species studied, 3) the seven Nocardia strains studied in the present work have seven common PKS-I and/or NRPS clusters, some of whose products are yet to be studied, and 4) different N. brasiliensis strains have some different gene clusters of PKS-I/NRPS, although the rest of the clusters are common within the N. brasiliensis strains. Genome sequencing suggested that Nocardia strains are highly promising resources in the search of novel secondary metabolites. © 2014 Komaki et al.; licensee BioMed Central Ltd.


PubMed | NBRC, Nihon University, Chiba Institute of Technology and Tohoku University
Type: Journal Article | Journal: Genome announcements | Year: 2016

Here, we report the draft genome sequence of Thermogemmatispora onikobensis NBRC 111776


Komaki H.,Chiba Institute of Technology | Hosoyama A.,NBRC | Ichikawa N.,NBRC | Igarashi Y.,Toyama Prefectural University
Gene Reports | Year: 2016

A sponge-derived Brevibacillus sp. TP-B0800 produces new polycyclic thiazoline derivatives designated ulbactins F and G which possess inhibitory activity against tumor cell migration. To elucidate the biosynthetic pathway of ulbactins, we read the genome sequence of this strain. The genome harbors six gene clusters related to nonribosomal peptides, one of which was identified to be responsible for ulbactin biosynthesis. We propose the putative ulbactin-biosynthetic pathway based on bioinformatics analysis. The genome information reported here also suggested potential of this strain to produce edeine, tyrocidin, and unidentified secondary metabolites. © 2016 Elsevier Inc.


PubMed | NBRC, Chiba Institute of Technology and Toyama Prefectural University
Type: Journal Article | Journal: Genome announcements | Year: 2017

We report the draft genome sequence of Streptomyces sp. TP-A0648 isolated from a leaf of Aucuba japonica This strain produces a new tumor cell growth inhibitor designated anicemycin. The genome harbors at least 12 biosynthetic gene clusters for polyketides and nonribosomal peptides, suggesting the potential to produce diverse secondary metabolites.


PubMed | NBRC, Chiba Institute of Technology and Toyama Prefectural University
Type: | Journal: Standards in genomic sciences | Year: 2016

Here, we report the draft genome sequence of


PubMed | NBRC, Chiba Institute of Technology and Toyama Prefectural University
Type: Journal Article | Journal: Genome announcements | Year: 2016

We report the draft genome sequence of Streptomyces sp. TP-A0874 isolated from compost. This strain produces catechoserine, a new catecholate-type inhibitor of tumor cell invasion. The genome harbors at least six gene clusters for polyketide and nonribosomal peptide biosyntheses. The biosynthetic gene cluster for catechoserines was identified by bioinformatic analysis.


PubMed | NBRC, Mahidol University, Chiba Institute of Technology and Toyama Prefectural University
Type: Journal Article | Journal: Genome announcements | Year: 2016

We report here the draft genome sequence of Streptomyces sp. SPMA113 isolated from soil in Thailand. This strain produces a new modified peptide, prajinamide, which has adipocyte differentiation activity. The genome harbors at least 30 gene clusters for synthases of polyketide and nonribosomal peptide, suggesting its potential to produce diverse secondary metabolites.


PubMed | NBRC, Chiba Institute of Technology and Toyama Prefectural University
Type: Journal Article | Journal: Genome announcements | Year: 2016

Here, we report the draft genome sequence of Bacillus subtilis TP-B0611, which produces the isocoumarin-type compounds bacilosarcin and amicoumacin. The genome encodes three nonribosomal peptide synthetase (NRPS) gene clusters and one hybrid polyketide synthase (PKS)/NRPS gene cluster. The hybrid PKS/NRPS gene cluster was identified to be responsible for the biosynthesis of bacilosarcins and amicoumacins.

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