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Article ; Online: Epithelial-to-mesenchymal plasticity from development to disease: An introduction to the special issue.

Acloque, Hervé / Yang, Jing / Theveneau, Eric

Genesis (New York, N.Y. : 2000)

2023 Volume 62, Issue 1, Page(s) e23581

MeSH term(s)	Humans ; Epithelial-Mesenchymal Transition ; Neoplasms
Language	English
Publishing date	2023-12-14
Publishing country	United States
Document type	Editorial
ZDB-ID	2004544-X
ISSN	1526-968X ; 1526-954X
ISSN (online)	1526-968X
ISSN	1526-954X
DOI	10.1002/dvg.23581
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Article ; Online: Effets des altérations du rythme circadien sur l’évolution du cancer du sein.

Hadadi, Eva / Acloque, Hervé

Medecine sciences : M/S

2021 Volume 37, Issue 5, Page(s) 538–541

Title translation	Effects of circadian rhythm disorders on breast cancer progression.
MeSH term(s)	Breast ; Breast Neoplasms/pathology ; Chronobiology Disorders ; Circadian Rhythm/physiology ; Disease Progression ; Female ; Humans
Language	French
Publishing date	2021-05-18
Publishing country	France
Document type	Journal Article
ZDB-ID	632733-3
ISSN	1958-5381 ; 0767-0974
ISSN (online)	1958-5381
ISSN	0767-0974
DOI	10.1051/medsci/2021046
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Zs.B 2872: Show issues

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Article ; Online: Role of circadian rhythm disorders on EMT and tumour-immune interactions in endocrine-related cancers.

Hadadi, Eva / Acloque, Hervé

Endocrine-related cancer

2021 Volume 28, Issue 2, Page(s) R67–R80

Abstract: The circadian rhythm is a major environmental regulator of plants and animal physiology. The alternation of days and nights is translated at the cell and tissue level thanks to a molecular machinery, called the circadian clock. This clock controls in ... ...

Abstract	The circadian rhythm is a major environmental regulator of plants and animal physiology. The alternation of days and nights is translated at the cell and tissue level thanks to a molecular machinery, called the circadian clock. This clock controls in particular numerous endocrine functions, and its imbalances can have serious consequences on homeostasis. This is particularly true for the development of endocrine-related cancers, like breast, ovarian and prostate cancer. Circadian rhythm disorder (CRD) not only affects key hormone levels (including oestrogen, melatonin, insulin, glucagon, cortisol) but also favours a pro-inflammatory and immunosuppressive phenotype in the tumour microenvironment. This particular aspect is conducive to epithelial-mesenchymal transition (EMT) of solid epithelial tumours and cancer cell dissemination. It also favours resistance to chemo- and immunotherapy. Here, we discuss the current knowledge on this crosstalk between CRD, EMT and the immune microenvironment in endocrine-related cancers and its consequences for the development of efficient therapies.
MeSH term(s)	Animals ; Chronobiology Disorders ; Circadian Clocks ; Circadian Rhythm ; Epithelial-Mesenchymal Transition ; Humans ; Male ; Ovarian Neoplasms ; Prostatic Neoplasms ; Tumor Microenvironment
Language	English
Publishing date	2021-01-08
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	1218450-0
ISSN	1479-6821 ; 1351-0088
ISSN (online)	1479-6821
ISSN	1351-0088
DOI	10.1530/ERC-20-0390
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Zs.A 4192: Show issues

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Article ; Online: Water contamination by delorazepam induces epigenetic defects in the embryos of the clawed frog Xenopus laevis.

Fogliano, Chiara / Motta, Chiara Maria / Acloque, Hervé / Avallone, Bice / Carotenuto, Rosa

The Science of the total environment

2023 Volume 896, Page(s) 165300

Abstract: Delorazepam, a derivative of diazepam, is a psychotropic drug belonging to the benzodiazepine class. Used as a nervous-system inhibitor, it treats anxiety, insomnia, and epilepsy, but is also associated with misuse and abuse. Nowadays benzodiazepines are ...

Abstract	Delorazepam, a derivative of diazepam, is a psychotropic drug belonging to the benzodiazepine class. Used as a nervous-system inhibitor, it treats anxiety, insomnia, and epilepsy, but is also associated with misuse and abuse. Nowadays benzodiazepines are considered emerging pollutants: conventional wastewater treatment plants indeed are unable to eliminate these compounds. Consequently, they persist in the environment and bioaccumulate in non-target aquatic organisms with consequences still not fully clear. To collect more information, we investigated the possible epigenetic activity of delorazepam, at three concentrations (1, 5 and 10 μg/L) using Xenopus laevis embryos as a model. Analyses demonstrated a significant increase in genomic DNA methylation and differential methylation of the promoters of some early developmental genes (otx2, sox3, sox9, pax6, rax1, foxf1, and myod1). Moreover, studies on gene expression highlighted an unbalancing in apoptosis/proliferation pathways and an aberrant expression of DNA-repair genes. Results are alarming considering the growing trend of benzodiazepine concentrations in superficial waters, especially after the peak occurred as a consequence of the pandemic COVID-19, and the fact that benzodiazepine GABA-A receptors are highly conserved and present in all aquatic organisms.
MeSH term(s)	Animals ; Xenopus laevis ; COVID-19 ; Benzodiazepines/toxicity ; Benzodiazepines/metabolism ; Epigenesis, Genetic ; Water/metabolism
Chemical Substances	chlordesmethyldiazepam (O91W32476G) ; Benzodiazepines (12794-10-4) ; Water (059QF0KO0R)
Language	English
Publishing date	2023-07-04
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	121506-1
ISSN	1879-1026 ; 0048-9697
ISSN (online)	1879-1026
ISSN	0048-9697
DOI	10.1016/j.scitotenv.2023.165300
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Article ; Online: Water contamination by delorazepam induces epigenetic defects in the embryos of the clawed frog Xenopus laevis

Fogliano, Chiara / Motta, Chiara Maria / Acloque, Hervé / Avallone, Bice / Carotenuto, Rosa

Science of the Total Environment. 2023 Oct., v. 896 p.165300-

2023

Abstract	Delorazepam, a derivative of diazepam, is a psychotropic drug belonging to the benzodiazepine class. Used as a nervous-system inhibitor, it treats anxiety, insomnia, and epilepsy, but is also associated with misuse and abuse. Nowadays benzodiazepines are considered emerging pollutants: conventional wastewater treatment plants indeed are unable to eliminate these compounds. Consequently, they persist in the environment and bioaccumulate in non-target aquatic organisms with consequences still not fully clear. To collect more information, we investigated the possible epigenetic activity of delorazepam, at three concentrations (1, 5 and 10 μg/L) using Xenopus laevis embryos as a model. Analyses demonstrated a significant increase in genomic DNA methylation and differential methylation of the promoters of some early developmental genes (otx2, sox3, sox9, pax6, rax1, foxf1, and myod1). Moreover, studies on gene expression highlighted an unbalancing in apoptosis/proliferation pathways and an aberrant expression of DNA-repair genes. Results are alarming considering the growing trend of benzodiazepine concentrations in superficial waters, especially after the peak occurred as a consequence of the pandemic COVID-19, and the fact that benzodiazepine GABA-A receptors are highly conserved and present in all aquatic organisms.
Keywords	COVID-19 infection ; DNA ; DNA methylation ; DNA repair ; Xenopus laevis ; anxiety ; apoptosis ; bioaccumulation ; diazepam ; environment ; epigenetics ; epilepsy ; frogs ; gene expression ; models ; nervous system ; pandemic ; psychotropic agents ; sleep disorders ; wastewater treatment ; water pollution ; Genotoxicity ; Amphibian ; Environmental stressor ; Benzodiazepine
Language	English
Dates of publication	2023-10
Publishing place	Elsevier B.V.
Document type	Article ; Online
ZDB-ID	121506-1
ISSN	1879-1026 ; 0048-9697
ISSN (online)	1879-1026
ISSN	0048-9697
DOI	10.1016/j.scitotenv.2023.165300
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Article ; Online: Cell specification and functional interactions in the pig blastocyst inferred from single-cell transcriptomics and uterine fluids proteomics.

Dufour, Adrien / Kurylo, Cyril / Stöckl, Jan B / Laloë, Denis / Bailly, Yoann / Manceau, Patrick / Martins, Frédéric / Turhan, Ali G / Ferchaud, Stéphane / Pain, Bertrand / Fröhlich, Thomas / Foissac, Sylvain / Artus, Jérôme / Acloque, Hervé

Genomics

2024 Volume 116, Issue 2, Page(s) 110780

Abstract: The embryonic development of the pig comprises a long in utero pre- and peri-implantation development, which dramatically differs from mice and humans. During this peri-implantation period, a complex series of paracrine signals establishes an intimate ... ...

Abstract	The embryonic development of the pig comprises a long in utero pre- and peri-implantation development, which dramatically differs from mice and humans. During this peri-implantation period, a complex series of paracrine signals establishes an intimate dialogue between the embryo and the uterus. To better understand the biology of the pig blastocyst during this period, we generated a large dataset of single-cell RNAseq from early and hatched blastocysts, spheroid and ovoid conceptus and proteomic datasets from corresponding uterine fluids. Our results confirm the molecular specificity and functionality of the three main cell populations. We also discovered two previously unknown subpopulations of the trophectoderm, one characterised by the expression of LRP2, which could represent progenitor cells, and the other, expressing pro-apoptotic markers, which could correspond to the Rauber's layer. Our work provides new insights into the biology of these populations, their reciprocal functional interactions, and the molecular dialogue with the maternal uterine environment.
MeSH term(s)	Pregnancy ; Humans ; Female ; Swine ; Mice ; Animals ; Proteomics ; Blastocyst/metabolism ; Embryo Implantation/physiology ; Embryonic Development/genetics ; Gene Expression Profiling
Language	English
Publishing date	2024-01-09
Publishing country	United States
Document type	Journal Article
ZDB-ID	356334-0
ISSN	1089-8646 ; 0888-7543
ISSN (online)	1089-8646
ISSN	0888-7543
DOI	10.1016/j.ygeno.2023.110780
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Zs.A 2367: Show issues

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Article ; Online: Enriched atlas of lncRNA and protein-coding genes for the GRCg7b chicken assembly and its functional annotation across 47 tissues.

Degalez, Fabien / Charles, Mathieu / Foissac, Sylvain / Zhou, Haijuan / Guan, Dailu / Fang, Lingzhao / Klopp, Christophe / Allain, Coralie / Lagoutte, Laetitia / Lecerf, Frédéric / Acloque, Hervé / Giuffra, Elisabetta / Pitel, Frédérique / Lagarrigue, Sandrine

Scientific reports

2024 Volume 14, Issue 1, Page(s) 6588

Abstract: Gene atlases for livestock are steadily improving thanks to new genome assemblies and new expression data improving the gene annotation. However, gene content varies across databases due to differences in RNA sequencing data and bioinformatics pipelines, ...

Abstract	Gene atlases for livestock are steadily improving thanks to new genome assemblies and new expression data improving the gene annotation. However, gene content varies across databases due to differences in RNA sequencing data and bioinformatics pipelines, especially for long non-coding RNAs (lncRNAs) which have higher tissue and developmental specificity and are harder to consistently identify compared to protein coding genes (PCGs). As done previously in 2020 for chicken assemblies galgal5 and GRCg6a, we provide a new gene atlas, lncRNA-enriched, for the latest GRCg7b chicken assembly, integrating "NCBI RefSeq", "EMBL-EBI Ensembl/GENCODE" reference annotations and other resources such as FAANG and NONCODE. As a result, the number of PCGs increases from 18,022 (RefSeq) and 17,007 (Ensembl) to 24,102, and that of lncRNAs from 5789 (RefSeq) and 11,944 (Ensembl) to 44,428. Using 1400 public RNA-seq transcriptome representing 47 tissues, we provided expression evidence for 35,257 (79%) lncRNAs and 22,468 (93%) PCGs, supporting the relevance of this atlas. Further characterization including tissue-specificity, sex-differential expression and gene configurations are provided. We also identified conserved miRNA-hosting genes with human counterparts, suggesting common function. The annotated atlas is available at gega.sigenae.org.
MeSH term(s)	Animals ; Humans ; RNA, Long Noncoding/genetics ; RNA, Long Noncoding/metabolism ; Chickens/genetics ; Chickens/metabolism ; Transcriptome ; Molecular Sequence Annotation ; Sequence Analysis, RNA
Chemical Substances	RNA, Long Noncoding
Language	English
Publishing date	2024-03-19
Publishing country	England
Document type	Journal Article
ZDB-ID	2615211-3
ISSN	2045-2322 ; 2045-2322
ISSN (online)	2045-2322
ISSN	2045-2322
DOI	10.1038/s41598-024-56705-y
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Article ; Online: Preimplantation development in ungulates: a 'ménage à quatre' scenario.

Artus, Jérôme / Hue, Isabelle / Acloque, Hervé

Reproduction (Cambridge, England)

2019 Volume 159, Issue 3, Page(s) R151–R172

Abstract: In ungulates, early embryonic development differs dramatically from that of mice and humans and is characterized by an extended period of pre- and peri-implantation development in utero. After hatching from the zona pellucida, the ungulate blastocyst ... ...

Abstract	In ungulates, early embryonic development differs dramatically from that of mice and humans and is characterized by an extended period of pre- and peri-implantation development in utero. After hatching from the zona pellucida, the ungulate blastocyst will stay free in the uterus for many days before implanting within the uterine wall. During this protracted peri-implantation period, an intimate dialog between the embryo and the uterus is established through a complex series of paracrine signals. The blastocyst elongates, leading to extreme growth of extra-embryonic tissues, and at the same time, the inner cell mass moves up into the trophoblast and evolves into the embryonic disc, which is directly exposed to molecules present in the uterine fluids. In the peri-implantation period, uterine glands secrete a wide range of molecules, including enzymes, growth factors, adhesion proteins, cytokines, hormones, and nutrients like amino and fatty acids, which are collectively referred to as histotroph. The identification, role, and effects of these secretions on the biology of the conceptus are still being described; however, the studies that have been conducted to date have demonstrated that histotroph is essential for embryonic development and serves a critical function during the pre- and peri implantation periods. Here, we present an overview of current knowledge on the molecular dialogue among embryonic, extraembryonic, and maternal tissues prior to implantation. Taken together, the body of work described here demonstrates the extent to which this dialog enables the coordination of the development of the conceptus with respect to the establishment of embryonic and extra-embryonic tissues as well as in preparation for implantation.
MeSH term(s)	Animals ; Artiodactyla/embryology ; Blastocyst/physiology ; Embryonic Development ; Female ; Perissodactyla/embryology ; Uterus/physiology
Language	English
Publishing date	2019-11-18
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	2034501-X
ISSN	1741-7899 ; 1470-1626 ; 1476-3990
ISSN (online)	1741-7899
ISSN	1470-1626 ; 1476-3990
DOI	10.1530/REP-19-0348
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Article ; Online: A comparative methylome analysis reveals conservation and divergence of DNA methylation patterns and functions in vertebrates.

Al Adhami, Hala / Bardet, Anaïs Flore / Dumas, Michael / Cleroux, Elouan / Guibert, Sylvain / Fauque, Patricia / Acloque, Hervé / Weber, Michael

BMC biology

2022 Volume 20, Issue 1, Page(s) 70

Abstract: Background: Cytosine DNA methylation is a heritable epigenetic mark present in most eukaryotic groups. While the patterns and functions of DNA methylation have been extensively studied in mouse and human, their conservation in other vertebrates remains ... ...

Abstract	Background: Cytosine DNA methylation is a heritable epigenetic mark present in most eukaryotic groups. While the patterns and functions of DNA methylation have been extensively studied in mouse and human, their conservation in other vertebrates remains poorly explored. In this study, we interrogated the distribution and function of DNA methylation in primary fibroblasts of seven vertebrate species including bio-medical models and livestock species (human, mouse, rabbit, dog, cow, pig, and chicken). Results: Our data highlight both divergence and conservation of DNA methylation patterns and functions. We show that the chicken genome is hypomethylated compared to other vertebrates. Furthermore, compared to mouse, other species show a higher frequency of methylation of CpG-rich DNA. We reveal the conservation of large unmethylated valleys and patterns of DNA methylation associated with X-chromosome inactivation through vertebrate evolution and make predictions of conserved sets of imprinted genes across mammals. Finally, using chemical inhibition of DNA methylation, we show that the silencing of germline genes and endogenous retroviruses (ERVs) are conserved functions of DNA methylation in vertebrates. Conclusions: Our data highlight conserved properties of DNA methylation in vertebrate genomes but at the same time point to differences between mouse and other vertebrate species.
MeSH term(s)	Animals ; Cattle ; CpG Islands ; DNA Methylation ; Dogs ; Epigenome ; Female ; Genome ; Germ Cells ; Mammals/genetics ; Mice ; Rabbits ; Swine/genetics ; Vertebrates/genetics
Language	English
Publishing date	2022-03-23
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2133020-7
ISSN	1741-7007 ; 1741-7007
ISSN (online)	1741-7007
ISSN	1741-7007
DOI	10.1186/s12915-022-01270-x
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Article ; Online: Inducing Sequential Cycles of Epithelial-Mesenchymal and Mesenchymal-Epithelial Transitions in Mammary Epithelial Cells.

Davaine, Cecile / Hadadi, Eva / Taylor, William / Bennaceur-Griscelli, Annelise / Acloque, Hervé

Methods in molecular biology (Clifton, N.J.)

2020 Volume 2179, Page(s) 341–351

Abstract: Epithelial-Mesenchymal Transition (EMT) and its reciprocal Mesenchymal-Epithelial Transition (MET) occur naturally as a cycling process during embryonic and foetal development. The capacity of such iterative cycles to drive cell fate and cellular and ... ...

Abstract	Epithelial-Mesenchymal Transition (EMT) and its reciprocal Mesenchymal-Epithelial Transition (MET) occur naturally as a cycling process during embryonic and foetal development. The capacity of such iterative cycles to drive cell fate and cellular and molecular behaviour in physiology or pathology remains unclear. We describe here a protocol to induce successive cycles of EMT/MET in an untransformed human mammary epithelial cell line (MCF10A) as well as the necessary controls for cycle validation.
MeSH term(s)	Cell Line ; Cellular Reprogramming Techniques/methods ; Epithelial Cells/cytology ; Epithelial Cells/metabolism ; Epithelial-Mesenchymal Transition ; Humans ; Mammary Glands, Human/cytology
Language	English
Publishing date	2020-09-16
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	1940-6029
ISSN (online)	1940-6029
DOI	10.1007/978-1-0716-0779-4_26
Database	MEDical Literature Analysis and Retrieval System OnLINE

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