Strain Data

Strain number		NIES-3715
Phylum		Heterokontophyta
Class		Bacillariophyceae
Scientific name		Chaetoceros tenuissimus Meunier
Synonym
Former name
Common name		Centric diatom
Locality (Date of collection)		off Maikohama, Harima-nada, Seto Inland Sea, Hyogo Japan (2002-08-10)
Latitude / Longitude		34.62888888 / 135.03525
Habitat (Isolation source)		Marine (Seawater)
History		< Kimura, Kei < Tomaru, Yuji
Isolator (Date of isolation)		Tomaru, Yuji (2002-08-11)
Identified by		Suzuki, Hidekazu; Nagumo, Tamotsu
State of strain		Cryopreservation; Unialgal; Clonal; Axenic
Culture condition (Preculture condition)		Medium: mSWM-3 Temperature: 15 C Light intensity: 9-11 µmol photons/m²/sec, L/D cycle: 10L:14D Duration: 21 D
Gene information		Nuclear genome ( BLLK01000001-BLLK01000085 ) , Mitochondrial genome ( LC537470 ) , Plastid genome ( LC537471 ) , 18S rRNA ( AB847417 )
Cell size (min - max)
Organization		Unicellular
Characteristics		Red tide ; Genome decoded strain (Hongo et al. 2021) ; The virus which infects with this diatom strain has been reported (Shirai et al. 2008).
Other strain no.		Other collection strain no. : CCAP 1010/43 Other strain no. : 2-10
Remarks		Cryopreserved; Axenic
Movie

Reference
Hano, T. & Tomaru, Y. 2023 Chronological age-related metabolome responses in the dinoflagellate Karenia mikimotoi, can predict future bloom demise. Commun. Biol., 6, 273 (article ID). Strain(s): 3715 PubMed: 36922623 DOI: 10.1038/s42003-023-04646-z Yamaguchi, H., Sumida, N., Matsukawa, K., Adachi, M., Tomaru, Y., Ishikawa, K., Hotta, J. 2023 Establishment of a simple method for cryopreservation of the marine diatoms, Chaetoceros and Phaeodactylum. J. Appl. Phycol., 33, 2285–2293. Keywords: CELLBANKER; Cryopreservation; Marine diatoms; Chaetoceros tenuissimus; Phaeodactylum tricornutum; Transgenic diatom Strain(s): 324, 3714, 3715 DOI: 10.1007/s10811-023-03040-w Hongo, Y., Hano, T., Yamaguchi, H., Tamaru, Y. 2023 Transcriptional responses of the marine diatom Chaetoceros tenuissimus to phosphate deficiency. Gene, 884, 147695 (article ID). Keywords: Phosphorus-deficiency; Differentially expressed genes; RNA-seq; Nonphospholipid; Alkaline phosphatase; Diatom Strain(s): 3715 PubMed: 37549856 DOI: 10.1016/j.gene.2023.147695 Grzebyk, D., Pasqualini, V., Garrido, M., Quilichini, Y., Pereto, C., Cecchi, P. 2022 Insight into the morphology and genetic diversity of the Chaetoceros tenuissimus (Bacillariophyta) species complex. Eur. J. Phycol., 57, 507-525. Keywords: Cell division; Chaetoceros tenuissimus; internal transcribed spacer (ITS); morphology; phylogeny; rDNA; ultrastructure Strain(s): 3715 DOI: 10.1080/09670262.2022.2029949 Yamaguchi, H., Zaima, M., Adachi, M., Tomaru, Y., Asahara, H., Nishiwaki, N. 2022 Selective utilization of phosphorus compounds by Chaetoceros tenuissimus (Bacillariophyceae): Approach using ³¹P nuclear magnetic resonance analysis. Phycol. Res., 70, 151-159. Strain(s): 3715 DOI: 10.1111/pre.12485 Nef, C., Madoui, M., Pelletier, É., Bowler, C. 2022 Whole-genome scanning reveals environmental selection mechanisms that shape diversity in populations of the epipelagic diatom Chaetoceros. PLoS. Biol., 20, e3001893 (article ID). Strain(s): 3715 PubMed: 36441816 DOI: 10.1371/journal.pbio.3001893 Tomaru, Y., Yamaguchi, H., Miki, T. 2021 Growth rate-dependent cell death of diatoms due to viral infection and their subsequent coexistence in a semi-continuous culture system. Microbes Environ., 36, ME20116 (article ID). Keywords: diatom; population dynamics; viral infection Strain(s): 3715 PubMed: 33390375 DOI: 10.1264/jsme2.ME20116 Hongo, Y., Kimura, K., Takaki, Y., Yoshida, Y., Baba, S., Kobayashi, G., Nagasaki, K., Hano, T., Tomaru, Y. 2021 The genome of the diatom Chaetoceros tenuissimus carries an ancient integrated fragment of an extant virus. Sci Rep, 11, 22877 (article ID). Strain(s): 3715 PubMed: 34819553 DOI: 10.1038/s41598-021-00565-3 Tomaru, Y. & Kimura, K. 2020 Novel protocol for estimating viruses specifically infecting the marine planktonic diatoms. Diversity-Basel, 12, 225 (article ID). Keywords: marine diatom; Chaetoceros tenuissimus; Chaetoceros setoensis; host-virus specificity; RdRp; ssRNA virus; ssDNA virus; viral genome Strain(s): 3712, 3714, 3715 DOI: 10.3390/d12060225 Hano, T. & Tomaru, Y. 2019 Metabolomics-based approach to explore growth phase-dependent markers in cultured diatom Chaetoceros tenuissimus. J. Chromatogr. B, 1128, 121779 (article ID). Keywords: Diatom; Metabolomics; Gas chromatography mass spectrometry; Liquid chromatography tandem mass spectrometry; Growth phase Strain(s): 3715 PubMed: 31499295 DOI: 10.1016/j.jchromb.2019.121779 Tomaru, Y., Toyoda, K., Kimura, K. 2018 Occurrence of the planktonic bloom-forming marine diatom Chaetoceros tenuissimus Meunier and its infectious viruses in western Japan. Hydrobiologia, 805, 221-230. Keywords: Algal viruses; Primary producers; Marine algae; Real-time quantitative PCR; Restingstage cells Strain(s): 3714, 3715 DOI: 10.1007/s10750-017-3306-0 Yamada, Y., Tomaru, Y., Fukuda, H., Nagata, T. 2018 Aggregate formation during the viral lysis of a marine diatom. Front. Mar. Sci., 15, 167 (article ID). Keywords: aggregate; diatom–virus interaction; particle size distribution; settling velocity; material cycle Strain(s): 3715 DOI: 10.3389/fmars.2018.00167 Tomaru, Y., Shirai, Y., Toyoda, K., Nagasaki, K. 2011 Isolation and characterisation of a single-stranded DNA virus infecting the marine planktonic diatom Chaetoceros tenuissimus. Aquat. Microb. Ecol., 64, 175-184. Keywords: Bacilladnavirus; Chaetoceros; Diatom; ssDNA; Virus; Rod-shaped particle Strain(s): 3714, 3715 DOI: 10.3354/ame01517 Toyoda, K., Nagasaki, K., Tomaru, Y. 2010 Application of real-time PCR assay for detection and quantification of bloom-forming diatom Chaetoceros tenuissimus Meunier. Plankton Benthos Res., 5, 56-61. Keywords: Chaetoceros tenuissimus; detection; diatom; enumeration; TaqMan-based real-time PCR Strain(s): 3715 DOI: 10.3800/pbr.5.56 Shirai, Y., Tomaru, Y., Takao, Y., Suzuki, H., Nagumo, T., Nagasaki, K. 2008 Isolation and characterization of a single-stranded DNA virus infecting the marine planktonic diatom Chaetoceros tenuissimus Meunier. Appl. Environ. Microbiol., 74, 4022-4027. Strain(s): 3715 PubMed: 18469125 DOI: 10.1128/AEM.00509-08

Reference

Hano, T. & Tomaru, Y. 2023 Chronological age-related metabolome responses in the dinoflagellate Karenia mikimotoi, can predict future bloom demise. Commun. Biol., 6, 273 (article ID).
Strain(s): 3715
PubMed: 36922623
DOI: 10.1038/s42003-023-04646-z

Yamaguchi, H., Sumida, N., Matsukawa, K., Adachi, M., Tomaru, Y., Ishikawa, K., Hotta, J. 2023 Establishment of a simple method for cryopreservation of the marine diatoms, Chaetoceros and Phaeodactylum. J. Appl. Phycol., 33, 2285–2293.
Keywords: CELLBANKER; Cryopreservation; Marine diatoms; Chaetoceros tenuissimus; Phaeodactylum tricornutum; Transgenic diatom
Strain(s): 324, 3714, 3715
DOI: 10.1007/s10811-023-03040-w

Hongo, Y., Hano, T., Yamaguchi, H., Tamaru, Y. 2023 Transcriptional responses of the marine diatom Chaetoceros tenuissimus to phosphate deficiency. Gene, 884, 147695 (article ID).
Keywords: Phosphorus-deficiency; Differentially expressed genes; RNA-seq; Nonphospholipid; Alkaline phosphatase; Diatom
Strain(s): 3715
PubMed: 37549856
DOI: 10.1016/j.gene.2023.147695

Grzebyk, D., Pasqualini, V., Garrido, M., Quilichini, Y., Pereto, C., Cecchi, P. 2022 Insight into the morphology and genetic diversity of the Chaetoceros tenuissimus (Bacillariophyta) species complex. Eur. J. Phycol., 57, 507-525.
Keywords: Cell division; Chaetoceros tenuissimus; internal transcribed spacer (ITS); morphology; phylogeny; rDNA; ultrastructure
Strain(s): 3715
DOI: 10.1080/09670262.2022.2029949

Yamaguchi, H., Zaima, M., Adachi, M., Tomaru, Y., Asahara, H., Nishiwaki, N. 2022 Selective utilization of phosphorus compounds by Chaetoceros tenuissimus (Bacillariophyceae): Approach using ³¹P nuclear magnetic resonance analysis. Phycol. Res., 70, 151-159.
Strain(s): 3715
DOI: 10.1111/pre.12485

Nef, C., Madoui, M., Pelletier, É., Bowler, C. 2022 Whole-genome scanning reveals environmental selection mechanisms that shape diversity in populations of the epipelagic diatom Chaetoceros. PLoS. Biol., 20, e3001893 (article ID).
Strain(s): 3715
PubMed: 36441816
DOI: 10.1371/journal.pbio.3001893

Tomaru, Y., Yamaguchi, H., Miki, T. 2021 Growth rate-dependent cell death of diatoms due to viral infection and their subsequent coexistence in a semi-continuous culture system. Microbes Environ., 36, ME20116 (article ID).
Keywords: diatom; population dynamics; viral infection
Strain(s): 3715
PubMed: 33390375
DOI: 10.1264/jsme2.ME20116

Hongo, Y., Kimura, K., Takaki, Y., Yoshida, Y., Baba, S., Kobayashi, G., Nagasaki, K., Hano, T., Tomaru, Y. 2021 The genome of the diatom Chaetoceros tenuissimus carries an ancient integrated fragment of an extant virus. Sci Rep, 11, 22877 (article ID).
Strain(s): 3715
PubMed: 34819553
DOI: 10.1038/s41598-021-00565-3

Tomaru, Y. & Kimura, K. 2020 Novel protocol for estimating viruses specifically infecting the marine planktonic diatoms. Diversity-Basel, 12, 225 (article ID).
Keywords: marine diatom; Chaetoceros tenuissimus; Chaetoceros setoensis; host-virus specificity; RdRp; ssRNA virus; ssDNA virus; viral genome
Strain(s): 3712, 3714, 3715
DOI: 10.3390/d12060225

Hano, T. & Tomaru, Y. 2019 Metabolomics-based approach to explore growth phase-dependent markers in cultured diatom Chaetoceros tenuissimus. J. Chromatogr. B, 1128, 121779 (article ID).
Keywords: Diatom; Metabolomics; Gas chromatography mass spectrometry; Liquid chromatography tandem mass spectrometry; Growth phase
Strain(s): 3715
PubMed: 31499295
DOI: 10.1016/j.jchromb.2019.121779

Tomaru, Y., Toyoda, K., Kimura, K. 2018 Occurrence of the planktonic bloom-forming marine diatom Chaetoceros tenuissimus Meunier and its infectious viruses in western Japan. Hydrobiologia, 805, 221-230.
Keywords: Algal viruses; Primary producers; Marine algae; Real-time quantitative PCR; Restingstage cells
Strain(s): 3714, 3715
DOI: 10.1007/s10750-017-3306-0

Yamada, Y., Tomaru, Y., Fukuda, H., Nagata, T. 2018 Aggregate formation during the viral lysis of a marine diatom. Front. Mar. Sci., 15, 167 (article ID).
Keywords: aggregate; diatom–virus interaction; particle size distribution; settling velocity; material cycle
Strain(s): 3715
DOI: 10.3389/fmars.2018.00167

Tomaru, Y., Shirai, Y., Toyoda, K., Nagasaki, K. 2011 Isolation and characterisation of a single-stranded DNA virus infecting the marine planktonic diatom Chaetoceros tenuissimus. Aquat. Microb. Ecol., 64, 175-184.
Keywords: Bacilladnavirus; Chaetoceros; Diatom; ssDNA; Virus; Rod-shaped particle
Strain(s): 3714, 3715
DOI: 10.3354/ame01517

Toyoda, K., Nagasaki, K., Tomaru, Y. 2010 Application of real-time PCR assay for detection and quantification of bloom-forming diatom Chaetoceros tenuissimus Meunier. Plankton Benthos Res., 5, 56-61.
Keywords: Chaetoceros tenuissimus; detection; diatom; enumeration; TaqMan-based real-time PCR
Strain(s): 3715
DOI: 10.3800/pbr.5.56

Shirai, Y., Tomaru, Y., Takao, Y., Suzuki, H., Nagumo, T., Nagasaki, K. 2008 Isolation and characterization of a single-stranded DNA virus infecting the marine planktonic diatom Chaetoceros tenuissimus Meunier. Appl. Environ. Microbiol., 74, 4022-4027.
Strain(s): 3715
PubMed: 18469125
DOI: 10.1128/AEM.00509-08

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