bibliography.bib

% 32321741
@book{schrodinger1944,
  title={What is Life? the Physical Aspect of the Living Cell \& Mind and Matter},
  author={Schr{\"o}dinger, E.},
  series={Tarner Lectures},
  year={1944},
  publisher={Cambridge University Press}
}

@book{prigogineStengers1984,
  title={Order Out of Chaos: Man's New Dialogue with Nature},
  author={Prigogine, I. and Stengers},
  isbn={9781786631008},
  year={1984},
  address={London, UK},
  publisher={Verso}
}

@book{deDuve2002,
  title={Life Evolving: Molecules, Mind, and Meaning},
  author={De Duve, C.},
  isbn={9780195156058},
  lccn={2002075407},
  year={2002},
  address={Oxford, UK},
  publisher={Oxford University Press}
}

@book{capraLuisi2014,
  title={The Systems View of Life: A Unifying Vision},
  author={Capra, F. and Luisi, P.L.},
  isbn={9781107011366},
  lccn={2013034908},
  year={2014},
  address={Cambridge, UK},
  publisher={Cambridge University Press}
}

@book{gould1997,
  title={Full House: The Spread of Excellence from Plato to Darwin},
  author={Gould, S.J.},
  isbn={9780609801406},
  lccn={96196285},
  year={1997},
  address={New York, USA},
  publisher={Three Rivers Press}
}

@article{
Bar-On2018,
author = {Yinon M. Bar-On  and Rob Phillips  and Ron Milo },
title = {The biomass distribution on Earth},
journal = {Proceedings of the National Academy of Sciences},
volume = {115},
number = {25},
pages = {6506-6511},
year = {2018},
doi = {10.1073/pnas.1711842115},
URL = {https://www.pnas.org/doi/abs/10.1073/pnas.1711842115},
eprint = {https://www.pnas.org/doi/pdf/10.1073/pnas.1711842115},
abstract = {A census of the biomass on Earth is key for understanding the structure and dynamics of the biosphere. However, a global, quantitative view of how the biomass of different taxa compare with one another is still lacking. Here, we assemble the overall biomass composition of the biosphere, establishing a census of the ≈550 gigatons of carbon (Gt C) of biomass distributed among all of the kingdoms of life. We find that the kingdoms of life concentrate at different locations on the planet; plants (≈450 Gt C, the dominant kingdom) are primarily terrestrial, whereas animals (≈2 Gt C) are mainly marine, and bacteria (≈70 Gt C) and archaea (≈7 Gt C) are predominantly located in deep subsurface environments. We show that terrestrial biomass is about two orders of magnitude higher than marine biomass and estimate a total of ≈6 Gt C of marine biota, doubling the previous estimated quantity. Our analysis reveals that the global marine biomass pyramid contains more consumers than producers, thus increasing the scope of previous observations on inverse food pyramids. Finally, we highlight that the mass of humans is an order of magnitude higher than that of all wild mammals combined and report the historical impact of humanity on the global biomass of prominent taxa, including mammals, fish, and plants.}}


@article{Sender2016,
    doi = {10.1371/journal.pbio.1002533},
    author = {R. Sender and S. Fuchs and R. Milo},
    journal = {PLOS Biology},
    publisher = {Public Library of Science},
    title = {Revised Estimates for the Number of Human and Bacteria Cells in the Body},
    year = {2016},
    month = {08},
    volume = {14},
    url = {https://doi.org/10.1371/journal.pbio.1002533},
    pages = {1-14},
    abstract = {Reported values in the literature on the number of cells in the body differ by orders of magnitude and are very seldom supported by any measurements or calculations. Here, we integrate the most up-to-date information on the number of human and bacterial cells in the body. We estimate the total number of bacteria in the 70 kg "reference man" to be 3.8·1013. For human cells, we identify the dominant role of the hematopoietic lineage to the total count (≈90%) and revise past estimates to 3.0·1013 human cells. Our analysis also updates the widely-cited 10:1 ratio, showing that the number of bacteria in the body is actually of the same order as the number of human cells, and their total mass is about 0.2 kg.},
    number = {8},

}



@article{Creighton2020,
    doi = {doi.org/10.3390/ijms21186918},
    author = {S. D. Creighton and G. Stefanelli and A. Reda and I.B. Zovkic},
    journal = {International Journal of Molecular Sciences},
    title = {Epigenetic Mechanisms of Learning and Memory: Implications for Aging.},
    year = {2020},
    month = {},
    volume = {21},
    url = {https://doi.org/10.3390/ijms21186918},
    pages = {6918},
    number = {18}
}


@Inbook{Schwab2017,
author="Schwab, Tanya L.
and Hogenson, Tara L.",
editor="Patel, Vinood
and Preedy, Victor",
title="Effect of Epigenetic Differences in Identical Twins",
bookTitle="Handbook of Nutrition, Diet, and Epigenetics",
year="2017",
publisher="Springer International Publishing",
address="Cham",
pages="1--18",
abstract="Monozygotic (MZ) twins are an ideal model for scientific research since many of the confounding factors associated with most human studies, such as DNA sequence and environment, can be eliminated. Although MZ twins are genetically identical, they typically display some level of phenotypic discordance. With the emergence of the study of epigenetics, scientists have hypothesized that differences in epigenetic marks may account for some phenotypic discordance in MZ twins. Comparative analysis of the epigenomes of MZ twins discordant for disease, including cancer, obesity, and diabetes, has led to the identification of epigenetic modifications, including changes in DNA methylation, histone marks, and differences in microRNA expression, that may contribute to the disease phenotype. Following identification of these changes, researchers are working to elucidate both the cause and the potential mechanism by which these modifications may lead to disease. Understanding how epigenetic modifications drive changes in phenotype using MZ twin studies may serve as a powerful tool in identifying new experimental opportunities in health and disease.",
isbn="978-3-319-31143-2",
doi="10.1007/978-3-319-31143-2_65-1",
url="https://doi.org/10.1007/978-3-319-31143-2_65-1"
}




@incollection{Adwan2018,
title = {Chapter 5 - The Epigenetic Regulation of Telomere Maintenance in Aging},
editor = {Alexey Moskalev and Alexander M. Vaiserman},
booktitle = {Epigenetics of Aging and Longevity},
publisher = {Academic Press},
address = {Boston, USA},
pages = {119-136},
year = {2018},
volume = {4},
series = {Translational Epigenetics},
issn = {25425358},
doi = {https://doi.org/10.1016/B978-0-12-811060-7.00005-X},
url = {https://www.sciencedirect.com/science/article/pii/B978012811060700005X},
author = {Huda Adwan-Shekhidem and Gil Atzmon},
keywords = {Aging, DNA methylation, Epigenetic modification, Histone modification, Telomerase, Telomere, Telomere maintenance},
abstract = {Aging is a complex process influenced by a combination of genetic, epigenetic, and environmental factors. Genetic components donate almost 30% of the aging phenotypic variance, while epigenetic modifications that serve as environment X gene mediator are considered to be the major contributors. Epigenetic modifications (i.e., DNA methylation and histone modifications) can affect the gene expression and genomic stability and thus underlie age-associated diseases. Another mechanism found to be involved (may serve as a biomarker) with aging process is telomere attrition. Cellular telomeres shorten with age until a critical length, which results in a vital genomic material loss, thus triggering the cell to enter replicative senescence. This attrition is compensated by telomerase activity that maintains telomere length and support cell proliferation. Telomere length and telomerase activity are also regulated by epigenetic modifications that shape the telomere structure and influence its maintenance. Furthermore, telomeres can regulate epigenetic factors affecting gene expression of nearby genes. In sum, there is a clear cross talk between telomeres maintenance and epigenetic modifications that accompanied aging and age-related pathologies.}
}


@article{Park2019,
title = {Stress, epigenetics and depression: A systematic review},
journal = {Neuroscience \& Biobehavioral Reviews},
volume = {102},
pages = {139-152},
year = {2019},
issn = {0149-7634},
doi = {https://doi.org/10.1016/j.neubiorev.2019.04.010},
url = {https://www.sciencedirect.com/science/article/pii/S0149763418309576},
author = {Caroline Park and Joshua D. Rosenblat and Elisa Brietzke and Zihang Pan and Yena Lee and Bing Cao and Hannah Zuckerman and Anastasia Kalantarova and Roger S. McIntyre},
keywords = {Epigenetics, Environmental stress, Major depressive disorder, Depressive symptoms, Early childhood adversity, Childhood maltreatment, NRC31, SLCA4, BDNF},
abstract = {Environmental stressors, such as childhood maltreatment, have been recognized to contribute to the development of depression. Growing evidence suggests that epigenetic changes are a key mechanism by which stressors interact with the genome leading to stable changes in DNA structure, gene expression, and behaviour. The current review aimed to evaluate the relationship between stress-associated epigenetic changes and depression. Human studies were identified via systematic searching of PubMed/Medline from inception to February 2018. Seventeen articles were identified. Stress-associated epigenetic changes in the following genes were correlated with depression: NRC31, SLCA4, BDNF, FKBP5, SKA2, OXTR, LINGO3, POU3F1 and ITGB1. Epigenetic changes in glucocorticoid signaling (e.g., NR3C1, FKBP5), serotonergic signaling (e.g. SLC6A4), and neurotrophin (e.g., BDNF) genes appear to be the most promising therapeutic targets for future research. However, continued research is warranted due to inconsistent findings regarding the directionality of epigenetic modification. Future studies should also aim to control for the use of psychotropic agents due to their widespread use in depressed populations and established effects on DNA methylation.}
}


@book{BlackburnEpel2017,
  title={The Telomere Effect: A Revolutionary Approach to Living Younger, Healthier, Longer},
  author={Blackburn, E. and Epel, E.},
  isbn={9781455587964},
  year={2017},
  address={New York, USA},
  publisher={Grand Central Publishing}
}


@article{
Cheng2019,
author = {Xianrui Cheng  and James E. Ferrell },
title = {Spontaneous emergence of cell-like organization in Xenopus egg extracts},
journal = {Science},
volume = {366},
number = {6465},
pages = {631-637},
year = {2019},
doi = {10.1126/science.aav7793},
URL = {https://www.science.org/doi/abs/10.1126/science.aav7793},
eprint = {https://www.science.org/doi/pdf/10.1126/science.aav7793},
abstract = {Extracts of the very large eggs of the African clawed frog, Xenopus laevis, have proven a valuable model system for the study of cell division. Cheng and Ferrell found that after homogenization, such cytoplasm can reorganize back into cell-like structures and undergo multiple rounds of division (see the Perspective by Mitchison and Field). This reorganization apparently occurs without the usual factors that are known to lead to such structural changes during cell division, such as F-actin, myosin II, various individual kinesins, aurora kinase A, or DNA. What is required is energy from adenosine triphosphate, microtubule polymerization, cytoplasmic dynein activity, and a specific kinase-involved cell cycle progression. Nongenetic information in the cytoplasm is apparently sufficient for basic spatial organization of the cell. Science, this issue p. 631; see also p. 569 Homogenized frog egg extracts can rearrange themselves into cell-like structures. Every daughter cell inherits two things from its mother: genetic information and a spatially organized complement of macromolecular complexes and organelles. The extent to which de novo self-organization, as opposed to inheritance of an already organized state, can suffice to yield functional cells is uncertain. We used Xenopus laevis egg extracts to show that homogenized interphase egg cytoplasm self-organizes over the course of ~30 minutes into compartments 300 to 400 micrometers in length that resemble cells. Formation of these cell-like compartments required adenosine triphosphate and microtubule polymerization but did not require added demembranated sperm nuclei with their accompanying centrosomes or actin polymerization. In cycling extracts with added sperm, the compartments underwent multiple cycles of division and reorganization, with mother compartments giving rise to two daughters at the end of each mitotic cycle. These results indicate that the cytoplasm can generate much of the spatial organization and cell cycle function of the early embryo.}}

@article{
Williams2013,
author = {Chiaolong Hsiao and I-Chun Chou and C. Denise Okafor and Jessica C. Bowman and Eric B. O'Neill and Shreyas S. Athavale and Anton S. Petrov and Nicholas V. Hud and Roger M. Wartell and Stephen C. Harvey and Loren Dean Williams},
title = {RNA with iron(II) as a cofactor catalyses electron transfer},
journal = {Nature Chemistry},
volume = {5},
pages = {525–528},
year = {2013},
doi = {10.1038/nchem.1649}
}

@article{Duncan2022,
author = {G. Duncan and A. Avery and J. Thorson and E. Nilsson and D. Beck and W. Skinner},
title={Epigenome-wide association study of physical activity and physiological parameters in discordant monozygotic twins},
journal={Scientific Reports},
year={2022},
 volume={12},
  number={1},
  pages={20166},
  URL = {https://dx.doi.org/10.1038/s41598-022-24642-3},
  }
@article{he2019,
  title={Possible links between extreme oxygen perturbations and the Cambrian radiation of animals},
  author={He, Tianchen and Zhu, Maoyan and Mills, Benjamin JW and Wynn, Peter M and Zhuravlev, Andrey Yu and Tostevin, Rosalie and Pogge von Strandmann, Philip AE and Yang, Aihua and Poulton, Simon W and Shields, Graham A},
  journal={Nature Geoscience},
  volume={12},
  number={6},
  pages={468--474},
  year={2019},
  publisher={Nature Publishing Group}
}

@article{
StrotherFoster2021,
author = {Paul K. Strother  and Clinton Foster },
title = {A fossil record of land plant origins from charophyte algae},
journal = {Science},
volume = {373},
number = {6556},
pages = {792-796},
year = {2021},
doi = {10.1126/science.abj2927},
URL = {https://www.science.org/doi/abs/10.1126/science.abj2927},
eprint = {https://www.science.org/doi/pdf/10.1126/science.abj2927},
abstract = {Until now, the first fossil evidence of land plants was from the Devonian era 420 million years ago. However, molecular phylogenetic evidence has suggested an earlier origin in the Cambrian. Strother et al. describe an assemblage of fossil spores from Ordivician deposits in Australia dating to approximately 480 million years ago (see the Perspective by Gensel). These spores are of intermediate morphology between confirmed land plant spores and earlier forms of uncertain relationship. This finding may help to resolve discrepancies between molecular and fossil data for the timing of land plant origins. —AMS Spore-like microfossils help to resolve a discontinuity between molecular and fossil records of the origins of land plants. Molecular time trees indicating that embryophytes originated around 500 million years ago (Ma) during the Cambrian are at odds with the record of fossil plants, which first appear in the mid-Silurian almost 80 million years later. This time gap has been attributed to a missing fossil plant record, but that attribution belies the case for fossil spores. Here, we describe a Tremadocian (Early Ordovician, about 480 Ma) assemblage with elements of both Cambrian and younger embryophyte spores that provides a new level of evolutionary continuity between embryophytes and their algal ancestors. This finding suggests that the molecular phylogenetic signal retains a latent evolutionary history of the acquisition of the embryophytic developmental genome, a history that perhaps began during Ediacaran-Cambrian time but was not completed until the mid-Silurian (about 430 Ma).}}

@book{Harari2015,
  title={Sapiens: A Brief History of Humankind},
  author={Harari, Y.N.},
  isbn={9780062316103},
  lccn={2014028418},
  year={2015},
  address={New York, USA},
  publisher={HarperCollins}
}

@book{Blanton1996,
  title={Radical Honesty: How To Transform Your Life By Telling The Truth},
  author={Blanton, B.},
  isbn={9780440507543},
  lccn={96162551},
  year={1996},
  publisher={Random House Publishing Group},
  address={New York, USA}
}

@book{Kahneman2012,
  title={Thinking, Fast and Slow},
  author={Kahneman, Daniel},
  isbn={9780141033570},
  lccn={2011027143},
  series={Penguin: Psychology},
  year={2012},
  publisher={Farrar, Straus and Giroux},
  address={New York, USA}
}

@book{toro2008,
  title={Biodanza},
  author={Toro, R.},
  year={2008},
  publisher={Editorial Cuarto Propio}
}

@article{Montanari2023,
  title={Biodanza y Epigenética},
  author={Montanari, A. and Sant'Anna, C.},  
  year={2023},
  journal={Online Conference for AIPOB, 18 February 2023}
}




@book{Kimmerer2013,
  title={Braiding Sweetgrass: Indigenous Wisdom, Scientific Knowledge and the Teachings of Plants},
  author={Kimmerer, R.},
  year={2013},
  publisher={Milkweed Editions}
}

@book{bohm1980,
  title={Wholeness and the Implicate Order},
  author={Bohm, D.},
  series={Routledge classics},
  year=1980,
  publisher={Routledge}
}

@book{davies1987,
  title={The Cosmic Blueprint},
  author={Davies, P.C.W.},
  isbn={9780434177028},
  lccn={43417702},
  series={annual Teilhard Lecture},
  year={1987},
  publisher={Teilhard Centre for the Future of Man}
}


@book{margulis1999,
  title={The Symbiotic Planet: A New Look at Evolution},
  author={Margulis, L.},
  isbn={9780753807859},
  lccn={98038921},
  series={Science masters},
  year={1999},
  publisher={Phoenix}
}

@article{Meaney2009,
author = {McGowan, Patrick and Sasaki, Aya and D'Alessio, Ana and Dymov, Sergiy and Labonté, Benoit and Szyf, Moshe and Turecki, Gustavo and Meaney, Michael},
year = {2009},
month = {04},
pages = {342-8},
title = {Epigenetic regulation of the glucocorticoid receptor in human brain associates with childhood abuse},
volume = {12},
journal = {Nature neuroscience},
doi = {10.1038/nn.2270}
}


@article{Meaney2004,
author = {Weaver, Ian and Cervoni, Nadia and Champagne, Frances and D'Alessio, Ana and Sharma, Shakti and Seckl, Jonathan and Dymov, Sergiy and Szyf, Moshe and Meaney, Michael},
year = {2004},
month = {09},
pages = {847-54},
title = {Epigenetic Programming by Maternal Behavior},
volume = {7},
journal = {Nature neuroscience},
doi = {10.1038/nn1276}
}

@article{Meaney2005,
author = {Weaver, Ian and Champagne, Frances and Brown, Shelley and Dymov, Sergiy and Sharma, Shakti and Meaney, Michael and Szyf, Moshe},
year = {2005},
month = {12},
pages = {11045-54},
title = {Reversal of Maternal Programming of Stress Responses in Adult Offspring Through Methyl Supplementation: Altering Epigenetic Marking Later in Life},
volume = {25},
journal = {The Journal of neuroscience : the official journal of the Society for Neuroscience},
doi = {10.1523/JNEUROSCI.3652-05.2005}
}

@book{rosenberg2008,
  title={Philosophy of Biology: A Contemporary Introduction},
  author={Rosenberg, A. and McShea, D.W.},
  isbn={9780415315920},
  lccn={2007040181},
  series={Routledge contemporary introductions to philosophy},
  url={https://books.google.be/books?id=TyqEp2dn0_wC},
  year={2008},
  publisher={Routledge}
}

@article{flyMut,
    doi = {10.1371/journal.pone.0205905},
    author = {Altamirano-Torres, Claudia AND Salinas-Hernández, Jannet E. AND Cárdenas-Chávez, Diana L. AND Rodríguez-Padilla, Cristina AND Reséndez-Pérez, Diana},
    journal = {PLOS ONE},
    publisher = {Public Library of Science},
    title = {Transcription factor TFIIEβ interacts with two exposed positions in helix 2 of the Antennapedia homeodomain to control homeotic function in Drosophila},
    year = {2018},
    month = {10},
    volume = {13},
    url = {https://doi.org/10.1371/journal.pone.0205905},
    pages = {1-14},
    abstract = {Homeoproteins contain the conserved homeodomain (HD) and have an important role determining embryo body plan during development. HDs increase their DNA-binding specificity by interacting with additional cofactors outlining a Hox interactome with a multiplicity of protein-protein interactions. In Drosophila, the first link of functional contact with a general transcription factor (GTF) was found between Antennapedia (Antp) and BIP2 (TFIID complex). Hox proteins also interact with other components of Pol II machinery such as the subunit Med19 from Mediator (MED) complex, TFIIEβ and transcription-pausing factor M1BP. All these interactions clearly demonstrate Hox-driven transcriptional regulation, but the precise molecular mechanism remains unclear. In this paper, we focused on the Antp-TFIIEβ protein-protein interface to establish the specific contacts as well as its functional role. Using Bimolecular Fluorescence Complementation (BiFC) in cell culture and in vivo we found that TFIIEβ interacts with Antp through the HD independently of the YPWM motif and the direct physical interaction is at helix 2, specifically aminoacidic positions I32 and H36 of Antp. We also found, through ectopic assays, that these two positions in helix 2 are crucial for Antp homeotic function in head involution, and thoracic and antenna-to tarsus transformations. Interestingly, overexpression of Antp and TFIIEβ in the antennal disc showed that this interaction is required for the antenna-to-tarsus transformation. In conclusion, interaction of Antp with TFIIEβ is important for the functional specificity of Antennapedia, and amino acids 32 and 36 in Antp HD helix 2 are key for this interaction. Our results open the possibility to more broadly analyze Antp-TFIIEβ interaction on the transcriptional control for the activation and/or repression of target genes in the Hox interactome during Drosophila development.},
    number = {10}
}

@conference{toro2009,
  author = {Rolando Toro},
  title  = {L’échelle évolutive de liens : un chemin vers l’inconscient numineux},
  year = {2009},
  editor = {Paula Roulin Prat},
  booktitle = {Stage: La genèse de l’Amour à Nîmes les 16-18 octobre 2009}
}

@article{grinan2016,
  title={Environmental enrichment modified epigenetic mechanisms in SAMP8 mouse hippocampus by reducing oxidative stress and inflammaging and achieving neuroprotection},
  author={Gri{\~n}an-Ferr{\'e}, Christian and Puigoriol-Illamola, Dolors and Palomera-{\'A}valos, Ver{\'o}nica and P{\'e}rez-C{\'a}ceres, David and Companys-Alemany, J{\'u}lia and Camins, Antonio and Ortu{\~n}o-Sahag{\'u}n, Daniel and Rodrigo, M Teresa and Pall{\`a}s, Merc{\`e}},
  journal={Frontiers in Aging Neuroscience},
  volume={8},
  pages={241},
  year={2016},
  publisher={Frontiers Media SA}
}

@article{baroncelli2010,
  title={Nurturing brain plasticity: impact of environmental enrichment},
  author={Baroncelli, L and Braschi, C and Spolidoro, M and Begenisic, T and Sale, A and Maffei, L},
  journal={Cell Death \& Differentiation},
  volume={17},
  number={7},
  pages={1092--1103},
  year={2010},
  publisher={Nature Publishing Group}
}

@article{zocher2021,
  title={Environmental enrichment preserves a young DNA methylation landscape in the aged mouse hippocampus},
  author={Zocher, Sara and Overall, Rupert W and Lesche, Mathias and Dahl, Andreas and Kempermann, Gerd},
  journal={Nature Communications},
  volume={12},
  number={1},
  pages={3892},
  year={2021},
  publisher={Nature Publishing Group UK London}
}