Draft Genome Sequence of Erythromycin- and Oxytetracycline-Sensitive Nocardia seriolae Strain U-1 (NBRC 110359)

Imajoh, Masayuki; Sukeda, Masaki; Shimizu, Masato; Yamane, Jin; Ohnishi, Kouhei; Oshima, Syun-ichirou

doi:10.1128/genomea.01606-15

Cited by 16 publications

(24 citation statements)

References 9 publications

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“…For the comparison between Nocardia species, the genomes of N. acidivorans NBRC 108247 (Kampfer et al., ), N. concava NBRC 100430 (Hirayama et al., ), N. crassostreae NBRC 100342 (Friedman et al., ), N. inohanensis NBRC 100128 (Kageyama, Yazawa, Nishimura, & Mikami, ), N. jejuensis NBRC 103114 (Lee, ), N. niigatensis NBRC 100131 (Kageyama et al., ), and N. yamanashiensis NBRC 100130 (Kageyama et al., ) were obtained from EzBioCloud. For comparison between N. seriolae strains, the genomes of the strains N‐2927 (Imajoh et al., ), U‐1 (Imajoh et al., ), and ZJ0503 (Xia et al., ) were also downloaded from EzBioCloud, and the nucleotide sequences from the strains SY‐24 (unpublished) and UTF1 (Yasuike et al., ) were downloaded from the NCBI genome database. For consistency of gene prediction and functional annotation of the analyzed genomes, the genome sequences of the strains SY‐24 and UTF1 were uploaded to the Whole Genome (WG) pipeline of BIOiPLUG (https://www.bioiplug.com, ChunLab Inc., Seoul, Republic of Korea) and quality‐controlled genome information was obtained.…”

Section: Methodsmentioning

confidence: 99%

“…For comparison between N. seriolae strains, the genomes of the strains N-2927 (Imajoh et al, 2015), U-1 (Imajoh et al, 2016), and ZJ0503 (Xia et al, 2015) were also downloaded from EzBioCloud, and the nucleotide sequences from the strains and UTF1 (Yasuike et al, 2017) were downloaded from the NCBI genome database. For consistency of gene prediction and functional annotation of the analyzed genomes, the genome sequences of the strains SY-24 and UTF1 were uploaded to the Whole Genome (WG) pipeline of BIOiPLUG (https://www.bioiplug.com, ChunLab Inc., Seoul, Republic of Korea) and quality-controlled genome information was obtained.…”

Section: Comparative Genomicsmentioning

confidence: 99%

“…For these reasons, many studies on the virulence mechanisms of the bacteria and strategies for preventing infection have been performed (Byadgi, Chen, Wang, Tsai, & Chen, ; Ho et al., ; Huang, Lou, Wu, & Chen, ; Itano, Kawakami, Kono, & Sakai, ; Nayak & Nakanishi, ; Yasuike et al., ). In addition, five genomes of N. seriolae strains are publically available, all of which were isolated from the diseased fish (Blotched snakehead), Seriola quinqueradiata (Japanese amberjack), and Trachinotus ovatus (Pompano) (Imajoh et al., , ; Xia et al., ; Yasuike et al., ) Furthermore, Yasuike et al. () have reported putative virulence factors from N. seriolae strain UTF1 through comparative analysis with the genomes of other Nocardia species.…”

Section: Introductionmentioning

confidence: 99%

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Genomic characterization of Nocardia seriolae strains isolated from diseased fish

Han

Kwak²,

et al. 2018

MicrobiologyOpen

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Members of the genus Nocardia are widespread in diverse environments; a wide range of Nocardia species are known to cause nocardiosis in several animals, including cat, dog, fish, and humans. Of the pathogenic Nocardia species, N. seriolae is known to cause disease in cultured fish, resulting in major economic loss. We isolated two N. seriolae strains, CK-14008 and EM15050, from diseased fish and sequenced their genomes using the PacBio sequencing platform. To identify their genomic features, we compared their genomes with those of other Nocardia species. Phylogenetic analysis showed that N. seriolae shares a common ancestor with a putative human pathogenic Nocardia species. Moreover, N. seriolae strains were phylogenetically divided into four clusters according to host fish families. Through genome comparison, we observed that the putative pathogenic Nocardia strains had additional genes for iron acquisition. Dozens of antibiotic resistance genes were detected in the genomes of N. seriolae strains; most of the antibiotics were involved in the inhibition of the biosynthesis of proteins or cell walls. Our results demonstrated the virulence features and antibiotic resistance of fish pathogenic N. seriolae strains at the genomic level. These results may be useful to develop strategies for the prevention of fish nocardiosis.

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Section: Methodsmentioning

confidence: 99%

Section: Comparative Genomicsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Genomic characterization of Nocardia seriolae strains isolated from diseased fish

Han

Kwak²,

et al. 2018

MicrobiologyOpen

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“…Draft genome sequences of N. seriolae were reported (Imajoh et al., , ; Xia, Cai, et al., ) and contained drug‐resistant genes. Moreover, some potential virulence‐associated factors of N. seriolae were detected in the sequence, such as mammalian cell entry family protein, ATP‐binding cassette transporters, capsular polysaccharides, myosin cross‐reactive antigen, fibronectin‐binding protein, sortase A, ESX‐1 and serine protease.…”

Section: Genetic Characterizationmentioning

confidence: 99%

Current knowledge of nocardiosis in teleost fish

Maekawa

Yoshida

Wang

et al. 2018

Journal of Fish Diseases

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Nocardia sp. is the causative agent of nocardiosis, a lethal granulomatous disease of the skin, muscle, and various inner tissues affecting various teleost and shellfish. Four species of Nocardia have been isolated from diseased fish and shellfish, namely Nocardia asteroides, Nocardia seriolae, Nocardia salmonicida and Nocardia crassostreae. Therefore, in fish aquaculture, nocardiosis has caused severe economic losses, especially in the Asian region. Considerable research has been performed, since the first report of identified Nocardia sp. in fish, to characterize Nocardia sp. and identify rapid detection techniques, immune response against infection and prophylactic approaches. In this review, the current state of knowledge about nocardiosis in fish has been presented, including the pathogenesis, diagnosis, host immune response and vaccine development.

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“…The open reading frame (ORF) of No protein superfamily members of protein MTSP3141 were found. had a rather high homology in Nocardia species (61%-84%) and its sequence was also found in other sequenced N. seriolae stains, such as N. seriolae N-2927 (Imajoh et al, 2015), N. seriolae U-1 (Imajoh et al, 2016), N. seriolae EM150506, N. seriolae CK-14008 and N. seriolae UTF-1 (Yasuike et al, 2017). Multiple alignment of the deduced amino acid sequences of the protein MTSP3141 showed no putative conserved domains were found (Figure 2a).…”

Section: Gene Cloning and Sequence Analysismentioning

confidence: 63%

Identification of a mitochondrial‐targeting secretory protein from Nocardia seriolae which induces apoptosis in fathead minnow cells

Chen

Wang

et al. 2019

Journal of Fish Diseases

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Nocardia seriolae is the main pathogen responsible for fish nocardiosis. A mitochondrial‐targeting secretory protein (MTSP) 3141 with an N‐terminal transit peptide (TP) from N. seriolae was predicted by bioinformatic analysis based on the genomic sequence of the N. seriolae strain ZJ0503. However, the function of the MTSP3141 and its homologs remains totally unknown. In this study, mass spectrometry analysis of the extracellular products from N. seriolae proved that MTSP3141 was a secretory protein, subcellular localization research showed the MTSP3141‐GFP fusion protein co‐localized with mitochondria in fathead minnow (FHM) cells, the TP played an important role in mitochondria targeting, and only the TP located at N‐terminus but not C‐terminus can lead to mitochondria directing. Moreover, quantitative assays of mitochondrial membrane potential (ΔΨm) value, caspase‐3 activity and apoptosis‐related gene (Bcl‐2, Bax, Bad, Bid and p53) mRNA expression suggested that cell apoptosis was induced in FHM cells by the overexpression of both MTSP3141 and MTSP3141ΔTP (with the N‐terminal TP deleted) proteins. Taken together, the results of this study indicated that the MTSP3141 of N. seriolae was a secretory protein, might target mitochondria, induce apoptosis in host cells and function as a virulence factor.

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Draft Genome Sequence of Erythromycin- and Oxytetracycline-Sensitive Nocardia seriolae Strain U-1 (NBRC 110359)

Cited by 16 publications

References 9 publications

Genomic characterization of Nocardia seriolae strains isolated from diseased fish

Genomic characterization of Nocardia seriolae strains isolated from diseased fish

Current knowledge of nocardiosis in teleost fish

Identification of a mitochondrial‐targeting secretory protein from Nocardia seriolae which induces apoptosis in fathead minnow cells

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