An ancestral molecular response to nanomaterial particulates

G. del Giudice; A. Serra; L. A. Saarimäki; K. Kotsis; I. Rouse; S. A. Colibaba; K. Jagiello; A. Mikolajczyk; M. Fratello; A. G. Papadiamantis; N. Sanabria; M. E. Annala; J. Morikka; P. A.S. Kinaret; E. Voyiatzis; G. Melagraki; A. Afantitis; K. Tämm; T. Puzyn; M. Gulumian; V. Lobaskin; I. Lynch; A. Federico; D. Greco

doi:10.1038/s41565-023-01393-4

An ancestral molecular response to nanomaterial particulates

G. del Giudice
, A. Serra
, L. A. Saarimäki
, K. Kotsis
, I. Rouse
, S. A. Colibaba
, K. Jagiello
, A. Mikolajczyk
, M. Fratello
, A. G. Papadiamantis
, N. Sanabria
, M. E. Annala
, J. Morikka
, P. A.S. Kinaret
, E. Voyiatzis
, G. Melagraki
, A. Afantitis
, K. Tämm
, T. Puzyn
, M. Gulumian

V. Lobaskin, I. Lynch, A. Federico, D. Greco^*

^*Tämän työn vastaava kirjoittaja

Tampereen yliopiston tutkijakollegium

Tutkimustuotos: Artikkeli › Tieteellinen › vertaisarvioitu

37 Sitaatiot (Scopus)

37 Lataukset (Pure)

Abstrakti

The varied transcriptomic response to nanoparticles has hampered the understanding of the mechanism of action. Here, by performing a meta-analysis of a large collection of transcriptomics data from various engineered nanoparticle exposure studies, we identify common patterns of gene regulation that impact the transcriptomic response. Analysis identifies deregulation of immune functions as a prominent response across different exposure studies. Looking at the promoter regions of these genes, a set of binding sites for zinc finger transcription factors C₂H₂, involved in cell stress responses, protein misfolding and chromatin remodelling and immunomodulation, is identified. The model can be used to explain the outcomes of mechanism of action and is observed across a range of species indicating this is a conserved part of the innate immune system.

Alkuperäiskieli	Englanti
Sivut	957-966
Sivumäärä	10
Julkaisu	Nature Nanotechnology
Vuosikerta	18
Numero	8
DOI - pysyväislinkit	https://doi.org/10.1038/s41565-023-01393-4
Tila	Julkaistu - 2023
OKM-julkaisutyyppi	A1 Alkuperäisartikkeli tieteellisessä aikakauslehdessä

Rahoitus

This study was supported by the Academy of Finland project UNICAST NANO (322761) (D.G.), European Research Council (ERC) programme, Consolidator project ARCHIMEDES (101043848) (D.G), EU Horizon 2020 project NanoSolveIT (814572) (D.G) and NanoInformaTIX (814426) (D.G). A.S. and A.F. were supported by the Tampere Institute for Advanced Study. K.J. was supported by the National Science Center, Poland (TransNano project, grant number UMO-2020/37/B/ST5/01894). A.M. was supported by European Union’s Horizon 2020 research and innovation programme (DIAGONAL Project, grant number 953152 and NanoInformaTIX project, grant number 814426). K.K. and V.L. were supported by Science Foundation Ireland (Bio-Interface project, Grant No. 16/IA/4506). D.G. thanks the principal investigators of the research cluster of Cell and Molecular Physiology (CMP) of the faculty of Medicine and Health Technology (MET) of Tampere University for the insightful discussion. This study was supported by the Academy of Finland project UNICAST NANO (322761) (D.G.), European Research Council (ERC) programme, Consolidator project ARCHIMEDES (101043848) (D.G), EU Horizon 2020 project NanoSolveIT (814572) (D.G) and NanoInformaTIX (814426) (D.G). A.S. and A.F. were supported by the Tampere Institute for Advanced Study. K.J. was supported by the National Science Center, Poland (TransNano project, grant number UMO-2020/37/B/ST5/01894). A.M. was supported by European Union’s Horizon 2020 research and innovation programme (DIAGONAL Project, grant number 953152 and NanoInformaTIX project, grant number 814426). K.K. and V.L. were supported by Science Foundation Ireland (Bio-Interface project, Grant No. 16/IA/4506). D.G. thanks the principal investigators of the research cluster of Cell and Molecular Physiology (CMP) of the faculty of Medicine and Health Technology (MET) of Tampere University for the insightful discussion.

Julkaisufoorumi-taso

Jufo-taso 3

!!ASJC Scopus subject areas

Bioengineering
Atomic and Molecular Physics, and Optics
Biomedical Engineering
Yleinen materiaalitiede
Condensed Matter Physics
Electrical and Electronic Engineering

Pääsy asiakirjaan

10.1038/s41565-023-01393-4Lisenssi: CC BY

s41565-023-01393-4-2Final published version, 2,61 MBLisenssi: CC BY

https://urn.fi/URN:NBN:fi:tuni-202309057948Lisenssi: CC BY

Wisdom of Crowds for Supporting the Safety Evaluation of Nanomaterials - Data and results
Saarimäki, L. A. (Creator), Fratello, M. (Creator), del Giudice, G. (Creator), Di Lieto, E. (Creator), Serra, A. (Creator) & Greco, D. (Creator), Zenodo, 3 lokak. 2024
DOI - pysyväislinkki: 10.5281/zenodo.13884304
Tietoaineisto: Dataset

Siteeraa tätä

del Giudice, G., Serra, A., Saarimäki, L. A., Kotsis, K., Rouse, I., Colibaba, S. A., Jagiello, K., Mikolajczyk, A., Fratello, M., Papadiamantis, A. G., Sanabria, N., Annala, M. E., Morikka, J., Kinaret, P. A. S., Voyiatzis, E., Melagraki, G., Afantitis, A., Tämm, K., Puzyn, T., ... Greco, D. (2023). An ancestral molecular response to nanomaterial particulates. Nature Nanotechnology, 18(8), 957-966. https://doi.org/10.1038/s41565-023-01393-4

@article{c3f769a040734af6ad5efe53a953b56e,

title = "An ancestral molecular response to nanomaterial particulates",

abstract = "The varied transcriptomic response to nanoparticles has hampered the understanding of the mechanism of action. Here, by performing a meta-analysis of a large collection of transcriptomics data from various engineered nanoparticle exposure studies, we identify common patterns of gene regulation that impact the transcriptomic response. Analysis identifies deregulation of immune functions as a prominent response across different exposure studies. Looking at the promoter regions of these genes, a set of binding sites for zinc finger transcription factors C2H2, involved in cell stress responses, protein misfolding and chromatin remodelling and immunomodulation, is identified. The model can be used to explain the outcomes of mechanism of action and is observed across a range of species indicating this is a conserved part of the innate immune system.",

author = "\{del Giudice\}, G. and A. Serra and Saarim{\"a}ki, \{L. A.\} and K. Kotsis and I. Rouse and Colibaba, \{S. A.\} and K. Jagiello and A. Mikolajczyk and M. Fratello and Papadiamantis, \{A. G.\} and N. Sanabria and Annala, \{M. E.\} and J. Morikka and Kinaret, \{P. A.S.\} and E. Voyiatzis and G. Melagraki and A. Afantitis and K. T{\"a}mm and T. Puzyn and M. Gulumian and V. Lobaskin and I. Lynch and A. Federico and D. Greco",

note = "Funding Information: This study was supported by the Academy of Finland project UNICAST NANO (322761) (D.G.), European Research Council (ERC) programme, Consolidator project ARCHIMEDES (101043848) (D.G), EU Horizon 2020 project NanoSolveIT (814572) (D.G) and NanoInformaTIX (814426) (D.G). A.S. and A.F. were supported by the Tampere Institute for Advanced Study. K.J. was supported by the National Science Center, Poland (TransNano project, grant number UMO-2020/37/B/ST5/01894). A.M. was supported by European Union{\textquoteright}s Horizon 2020 research and innovation programme (DIAGONAL Project, grant number 953152 and NanoInformaTIX project, grant number 814426). K.K. and V.L. were supported by Science Foundation Ireland (Bio-Interface project, Grant No. 16/IA/4506). D.G. thanks the principal investigators of the research cluster of Cell and Molecular Physiology (CMP) of the faculty of Medicine and Health Technology (MET) of Tampere University for the insightful discussion. Funding Information: This study was supported by the Academy of Finland project UNICAST NANO (322761) (D.G.), European Research Council (ERC) programme, Consolidator project ARCHIMEDES (101043848) (D.G), EU Horizon 2020 project NanoSolveIT (814572) (D.G) and NanoInformaTIX (814426) (D.G). A.S. and A.F. were supported by the Tampere Institute for Advanced Study. K.J. was supported by the National Science Center, Poland (TransNano project, grant number UMO-2020/37/B/ST5/01894). A.M. was supported by European Union{\textquoteright}s Horizon 2020 research and innovation programme (DIAGONAL Project, grant number 953152 and NanoInformaTIX project, grant number 814426). K.K. and V.L. were supported by Science Foundation Ireland (Bio-Interface project, Grant No. 16/IA/4506). D.G. thanks the principal investigators of the research cluster of Cell and Molecular Physiology (CMP) of the faculty of Medicine and Health Technology (MET) of Tampere University for the insightful discussion. Publisher Copyright: {\textcopyright} 2023, The Author(s).",

year = "2023",

doi = "10.1038/s41565-023-01393-4",

language = "English",

volume = "18",

pages = "957--966",

journal = "Nature Nanotechnology",

issn = "1748-3387",

publisher = "Nature Research",

number = "8",

}

del Giudice, G , Serra, A, Saarimäki, LA, Kotsis, K, Rouse, I, Colibaba, SA, Jagiello, K, Mikolajczyk, A, Fratello, M, Papadiamantis, AG, Sanabria, N, Annala, ME, Morikka, J, Kinaret, PAS, Voyiatzis, E, Melagraki, G, Afantitis, A, Tämm, K, Puzyn, T, Gulumian, M, Lobaskin, V, Lynch, I, Federico, A & Greco, D 2023, 'An ancestral molecular response to nanomaterial particulates', Nature Nanotechnology, Vuosikerta 18, Nro 8, Sivut 957-966. https://doi.org/10.1038/s41565-023-01393-4

TY - JOUR

T1 - An ancestral molecular response to nanomaterial particulates

AU - del Giudice, G.

AU - Serra, A.

AU - Saarimäki, L. A.

AU - Kotsis, K.

AU - Rouse, I.

AU - Colibaba, S. A.

AU - Jagiello, K.

AU - Mikolajczyk, A.

AU - Fratello, M.

AU - Papadiamantis, A. G.

AU - Sanabria, N.

AU - Annala, M. E.

AU - Morikka, J.

AU - Kinaret, P. A.S.

AU - Voyiatzis, E.

AU - Melagraki, G.

AU - Afantitis, A.

AU - Tämm, K.

AU - Puzyn, T.

AU - Gulumian, M.

AU - Lobaskin, V.

AU - Lynch, I.

AU - Federico, A.

AU - Greco, D.

N1 - Funding Information: This study was supported by the Academy of Finland project UNICAST NANO (322761) (D.G.), European Research Council (ERC) programme, Consolidator project ARCHIMEDES (101043848) (D.G), EU Horizon 2020 project NanoSolveIT (814572) (D.G) and NanoInformaTIX (814426) (D.G). A.S. and A.F. were supported by the Tampere Institute for Advanced Study. K.J. was supported by the National Science Center, Poland (TransNano project, grant number UMO-2020/37/B/ST5/01894). A.M. was supported by European Union’s Horizon 2020 research and innovation programme (DIAGONAL Project, grant number 953152 and NanoInformaTIX project, grant number 814426). K.K. and V.L. were supported by Science Foundation Ireland (Bio-Interface project, Grant No. 16/IA/4506). D.G. thanks the principal investigators of the research cluster of Cell and Molecular Physiology (CMP) of the faculty of Medicine and Health Technology (MET) of Tampere University for the insightful discussion. Funding Information: This study was supported by the Academy of Finland project UNICAST NANO (322761) (D.G.), European Research Council (ERC) programme, Consolidator project ARCHIMEDES (101043848) (D.G), EU Horizon 2020 project NanoSolveIT (814572) (D.G) and NanoInformaTIX (814426) (D.G). A.S. and A.F. were supported by the Tampere Institute for Advanced Study. K.J. was supported by the National Science Center, Poland (TransNano project, grant number UMO-2020/37/B/ST5/01894). A.M. was supported by European Union’s Horizon 2020 research and innovation programme (DIAGONAL Project, grant number 953152 and NanoInformaTIX project, grant number 814426). K.K. and V.L. were supported by Science Foundation Ireland (Bio-Interface project, Grant No. 16/IA/4506). D.G. thanks the principal investigators of the research cluster of Cell and Molecular Physiology (CMP) of the faculty of Medicine and Health Technology (MET) of Tampere University for the insightful discussion. Publisher Copyright: © 2023, The Author(s).

PY - 2023

Y1 - 2023

N2 - The varied transcriptomic response to nanoparticles has hampered the understanding of the mechanism of action. Here, by performing a meta-analysis of a large collection of transcriptomics data from various engineered nanoparticle exposure studies, we identify common patterns of gene regulation that impact the transcriptomic response. Analysis identifies deregulation of immune functions as a prominent response across different exposure studies. Looking at the promoter regions of these genes, a set of binding sites for zinc finger transcription factors C2H2, involved in cell stress responses, protein misfolding and chromatin remodelling and immunomodulation, is identified. The model can be used to explain the outcomes of mechanism of action and is observed across a range of species indicating this is a conserved part of the innate immune system.

AB - The varied transcriptomic response to nanoparticles has hampered the understanding of the mechanism of action. Here, by performing a meta-analysis of a large collection of transcriptomics data from various engineered nanoparticle exposure studies, we identify common patterns of gene regulation that impact the transcriptomic response. Analysis identifies deregulation of immune functions as a prominent response across different exposure studies. Looking at the promoter regions of these genes, a set of binding sites for zinc finger transcription factors C2H2, involved in cell stress responses, protein misfolding and chromatin remodelling and immunomodulation, is identified. The model can be used to explain the outcomes of mechanism of action and is observed across a range of species indicating this is a conserved part of the innate immune system.

U2 - 10.1038/s41565-023-01393-4

DO - 10.1038/s41565-023-01393-4

M3 - Article

C2 - 37157020

AN - SCOPUS:85158112304

SN - 1748-3387

VL - 18

SP - 957

EP - 966

JO - Nature Nanotechnology

JF - Nature Nanotechnology

IS - 8

ER -

An ancestral molecular response to nanomaterial particulates

Abstrakti

Rahoitus

Julkaisufoorumi-taso

!!ASJC Scopus subject areas

Pääsy asiakirjaan

Sormenjälki

Tietoaineistot

Wisdom of Crowds for Supporting the Safety Evaluation of Nanomaterials - Data and results

Siteeraa tätä