Emily C. Parke’s research while affiliated with University of Auckland and other places

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Publications (29)


Against Defending Science: Asking Better Questions About Indigenous Knowledge and Science
  • Article
  • Full-text available

October 2023

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130 Reads

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5 Citations

Philosophy of Science

Emily C Parke

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This paper addresses problems with a defensive turn in discussions of science and Indigenous ways of knowing, being and doing. Philosophers and practitioners of science have focused recent discussions on coarse-grained questions of demarcation, epistemic parity and identity—asking questions such as “Is Indigenous knowledge science?” Using representative examples from Aotearoa New Zealand, we expose rampant ambiguities in these arguments, and show that this combative framing can overlook what is actually at stake. We provide a framework for analyzing these problems and suggest better ways forward.

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A The conventional perspective on the origin of life starts with an environment that produces an evolving chemical system. Environmental selection pressures eventually result in modern organisms. B The alternative ‘interactional’ perspective explored in this paper recognises the possibility of ‘ante-organisms’ (pre-evolutionary antecedents of life that are capable of selecting and/or modifying their environment and likely some form of basic replication) and that these actions could have facilitated the emergence of more sophisticated forms of life. We distinguish between ante-organisms: life-like systems that are capable of self-preserving behaviour; proto-organisms that are additionally capable of gene-based Darwinian evolution, but possibly lacking some feature found in all modern organisms; and full-fledged organisms
Abiotic self-preserving regulation of environmental conditions. A Motile oil droplets (Hanczyc and Ikegami 2010). B Ramified charge-transportation networks (Kondepudi et al. 2015). C Bénard convection cells. D reaction-diffusion spots (Pearson 1993)
A common mechanistic structure that accomplished life-like self-preserving behaviour. A Various abiotic dissipative structures, when placed in an environment that contributes asymmetrically to their constituent order-maintaining processes, will move, grow or otherwise reorient to their environment in a way that improves their short term persistence. B A more sophisticated but related form of this ‘metabolism-based’ behaviour is found in modern organisms such as A. brasilense and E. coli
An anthropomorphic simplification that contrasts metabolism-independent and metabolism-based behaviours. In the first case, the choice of action is a function of the environment; in the second case, it is a function of the efficacy of the bacterium’s metabolism. Adapted from Fig. 2 in (Egbert et al. 2010)
Impact of environmental fluctuations with and without viability-based behaviour. In these images the background colour indicates an environmental property, such as pH, and the face indicates a precarious entity whose ideal operating environment is indicated by the colour of the face—here all the same medium shade of gray. In A, a passive entity is operating in ideal environmental conditions, that are serendipitously maintained by extrinsic environmental factors. B The environment changes, and the entity is no longer capable of persisting. We can compare this situation with C, where an ante-organism uses a viability-based behaviour to move to a local region of its environment that is optimal for its self-production. D The environment fluctuates (just as in B, the background becomes darker everywhere), but in this case, the ante-organism can navigate local environmental variation to find conditions in which it can persist

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Behaviour and the Origin of Organisms

May 2023

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577 Reads

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8 Citations

Origins of Life and Evolution of Biospheres

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Martin M. Hanczyc

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Inman Harvey

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[...]

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It is common in origins of life research to view the first stages of life as the passive result of particular environmental conditions. This paper considers the alternative possibility: that the antecedents of life were already actively regulating their environment to maintain the conditions necessary for their own persistence. In support of this proposal, we describe ‘viability-based behaviour’: a way that simple entities can adaptively regulate their environment in response to their health, and in so doing, increase the likelihood of their survival. Drawing on empirical investigations of simple self-preserving abiological systems, we argue that these viability-based behaviours are simple enough to precede neo-Darwinian evolution. We also explain how their operation can reduce the demanding requirements that mainstream theories place upon the environment(s) in which life emerged.


Characterizing Life: Four Dimensions and their Relevance to Origin of Life Research

February 2023

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51 Reads

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3 Citations

The question “What is life?” has been debated since antiquity and continues to confound scientists and philosophers today. There are more than 100 proposed answers to that question in the literature. Some authors continue to propose new answers, and others argue about whether or not we should just give up. Following several recent contributions to the latter “meta‐debate” about life, this chapter suggests a pluralist approach to characterizing life: multiple characterizations of life can coexist for different but often complementary purposes. After discussing the relevance of characterizing life for origin of life research, this chapter offers a new way to think about the landscape of characterizing life in terms of four conceptual dimensions: (1) treating life as an all‐or‐nothing phenomenon or as a matter of degree and characterizing life (2) materially or functionally, (3) at the individual or community level, and (4) minimally or inclusively. Depending on which agenda is at stake within origin of life research—for example, explaining the actual origin of life on Earth versus explaining how life could, in principle, emerge anywhere at all—the sorts of features we might want in a characterization of life can vary along these four dimensions.


Going big by going small: Trade-offs in microbiome explanations of cancer

December 2022

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30 Reads

Studies in History and Philosophy of Science Part A

Microbial factors have been implicated in cancer risk, disease progression, treatment and prevention. The key word, however, is “implicated.” Our aim in this paper is to map out some of the tensions between competing methods, goals, and standards of evidence in cancer research with respect to the causal role of microbial factors. We discuss an array of pragmatic and epistemic trade-offs in this research area: prioritizing coarse-grained versus fine-grained explanations of the roles of microbiota in cancer; explaining general versus specific cancer targets; studying model organisms versus human patients; and understanding and explaining cancer versus developing diagnostic tools and treatments. In light of these trade-offs and the distinctive complexity and heterogeneity on both sides of the microbiome-cancer relationship, we suggest that it would be more productive and intellectually honest to frame much of this work, at least currently, in terms of generating causal hypotheses to investigate further. Claims of established causal connections between the microbiome and cancer are in many cases overstated. We also discuss the value of “black boxing” microbial causal variables in this research context and draw some general cautionary lessons for ongoing discussions of microbiomes and cancer.



Charting just futures for Aotearoa New Zealand: philosophy for and beyond the Covid-19 pandemic

March 2021

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38 Reads

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4 Citations

Journal of the Royal Society of New Zealand

The global pandemic needs to mark a turning point for the peoples of Aotearoa New Zealand. How can we make sure that our culturally diverse nation charts an equitable and sustainable path through and beyond this new world? In a less affluent future, how can we ensure that all New Zealanders have fair access to opportunities? One challenge is to preserve the sense of common purpose so critical to protecting each other in the face of Covid-19. How can we centre what we have learnt about resilience within Māori and wider Pacific communities in our reforms? How can public understanding of Covid-19 science create a platform for the future social valuing of expertise? How can we ensure that the impact of Covid-19 in New Zealand results in a more sustainable, and inclusive workforce – for instance by expanding our perceptions of the value of our workers through promoting digital inclusion? To meet these challenges, we must reimagine our existing traditions of thought, breathing new life into perennial concepts and debates. Our paper indicates some of the ways that Philosophy is central to this collective reimagining, highlighting solutions to be found across our rich philosophical traditions.


Trivial, Interesting, or Overselling? The Microbiome and “What It Means to Be Human”

March 2021

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86 Reads

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11 Citations

BioScience

Discussions of microbiome research increasingly refer to the microbiome’s impact on ‘what it means to be human’. These claims are rarely carefully explained or justified. Given the increasing importance of microbiome research across the life sciences, philosophy and the public sphere, it is worth exercising more care in these discussions. This paper offers a guide for doing so. There are many different ways to interpret the details of ambiguous claims about the microbiome and ‘what it means to be human’. I discuss some possible interpretations, and show how the resulting claims can range from trivial, to suggestive of interesting research, to controversial and overhyped. I recommend greater caution and clarity in ongoing discussions of microbiome research and its implications.


Characterizing life: four dimensions and their relevance to origin of life research

January 2021

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62 Reads

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2 Citations

The question ‘What is life?’ has been debated since antiquity, and continues to confound scientists and philosophers today. There are over 100 proposed answers to that question in the literature. Some authors continue to propose new answers, and others argue about whether or not we should just give up. Following several recent contributions to the latter ‘meta-debate’ about life, this chapter suggests a pluralist approach to characterizing life: multiple characterizations of life can co-exist, for different but often complementary purposes. After discussing the relevance of characterizing life for origin of life research, this chapter offers a new way to think about the landscape of characterizing life in terms of four conceptual dimensions: (1) treating life as an all-or-nothing phenomenon or as a matter of degree, and characterizing life (2) materially or functionally, (3) at the individual or community level, and (4) minimally or inclusively. Depending on which agenda is at stake within origin of life research—for example, explaining the actual origin of life on Earth, versus explaining how life could, in principle, emerge anywhere at all—the sorts of features we might want in a characterization of life can vary along these four dimensions.



Dimensions of Life Definitions

May 2020

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24 Reads

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2 Citations

This chapter argues that the concept of “life” is used in several rather distinct ways: sometimes as an all-or-nothing phenomenon and other times as a matter of degree; sometimes referring to individual organisms and other times to communities; sometimes based on specific chemistries and other times on functions. In contrast to biologists in general, astrobiologists cannot take the status of their subject matter as living or nonliving for granted. There are at least two reasons to think astrobiologists need an understanding of what counts as life. The first is to set search criteria for finding “life as we don’t know it” in the universe. The second is to set success conditions conducive to agreement about when life has been found and when it has not. In addition to particular cases like the recent Mars finding by NASA, the meaning of “life” figures into a broader agenda in astrobiology: looking for biosignatures.


Citations (21)


... Furthermore, in countries with histories of White colonialism, indigenous approaches to, and critiques of, science communication challenge what science communication might look like (see, for example, Bang et al., 2014;Kankaria and Chakraborty, 2024;McEntee et al., 2024;Marandino and Meneses, 2024;Orthia, 2020;Palmer et al., 2021;Parke and Hikuroa, 2023). For instance, by organising a US-based science engagement project through the lens of indigenous knowledges and practices, Bang et al. (2014) and the young people they worked with made visible both indigenous and colonial entanglements with science. ...

Reference:

Science communication, politics and power: Social justice perspectives
Against Defending Science: Asking Better Questions About Indigenous Knowledge and Science

Philosophy of Science

... Similarly, increased daytime temperatures accelerated key chemical reactions but also caused the separation of double-stranded polynucleotides, leading to hydrolysis, particularly of single-stranded RNA. We hypothesize that a protocell would need to move in its environment in a way that is referred to as "viability-based behavior" [11], defined as "a way that simple entities can adaptively regulate their environment in response to their health, and in so doing, increase the likelihood of their survival". ...

Behaviour and the Origin of Organisms

Origins of Life and Evolution of Biospheres

... Because protocells do not yet exist, there is no need today for special measures or institutions to regulate them. However, it is useful and wise to begin thinking today about preparing for our future with protocells, and for the ethical, social, and regulatory issues they will generate (see Bedau and Parke 2009a, b). ...

Social and Ethical Issues Concerning Protocells
  • Citing Chapter
  • November 2008

... In so doing, they have worked to navigate fertile space for critical conversations and/ or tested the extent to which radically different ideas and methods can be combined and/or remade (see for example : Kawharu, 1977, Kawharu, 1989Walker, 1978Walker, , 2004Jackson, 1992;Tapsell, 1997Tapsell, , 2021Kawharu, 2000;Jones & Hoskins, 2017;Matiu & Mutu, 2003;Smith, 1997Smith, , 1999Smith et al., 2016;Mika, 2016;Stewart, 2007). Amidst increased calls to diversify the discipline of philosophy (Brooks, 2014;Dotson, 2012aDotson, , 2012bMills, 2015;Mulgan et al., 2021;Van Norden, 2017), these kinds of critical explorations are now taken seriously within philosophy departments too. In line with these movements, I take Kingsbury's project to draw on taniwha (often thought of as powerful water creatures 1 ) to take some first steps toward creating space for deeper and much harder intercultural conversations to follow. ...

Charting just futures for Aotearoa New Zealand: philosophy for and beyond the Covid-19 pandemic

Journal of the Royal Society of New Zealand

... Others have rejected binary categorizations entirely, criticizing attempts to draw arbitrary lines between the living and nonliving. These perspectives reframe the conversation around characterizing life as existing along multiple continuous dimensions rather than as a categorical distinction [20][21][22][23]. More radically, some scholars question the utility of defining life at all, suggesting that such attempts are either conceptually futile or entirely misguided [24][25][26]. ...

Characterizing life: four dimensions and their relevance to origin of life research
  • Citing Article
  • January 2021

... Irrespective of the nuanced details within these definitions, which can be informative and valuable in their own right, a crucial observation emerges-they generally portray life as a binary construct, embodying a dichotomy between the living and the non-living [18]. This conceptualization inevitably gives rise to the identification of thresholds, occasionally situated at varying points, as is, for instance, the case with definitions that accentuate individual and collective properties in disparate manners [19][20][21][22]. ...

Dimensions of life definitions
  • Citing Article
  • January 2020

... In so doing, the article has partly contributed to debates in bioeconomy too, by bringing attention to the nexus of scientific inquiry and marketdriven innovation. Echoing Hendrickx's (2022) provocative piece on the importance of embracing weirdness in (anthropocentric) scientific research, we-together with others-caution against rhetoric that overlooks the ambiguities and tensions of the microbial condition (Paxson, Helmreich (2014) ;Benezra, 2023;Kotliar and Grosglik, 2023;Wolf-Meyer, 2024;Parke, 2021). This issue becomes apparent once we understand how the microbial gut participates in the currently-ongoing processes of appropriation and marketization. ...

Trivial, Interesting, or Overselling? The Microbiome and “What It Means to Be Human”
  • Citing Article
  • March 2021

BioScience

... They aim, not to nail down 'the truth', but (in this case) to explore possibilities, identify key causal processes, and generate action-guiding predictions (Matthewson and Weisberg 2009;Weisberg 2012;Matthewson 2017, pp. 226-229;Potochnik 2017;Parke and Plutynski 2020). This feature of model-based science needs to be widely recognised, to avoid misunderstandings when such models are found to not perfectly mirror the post-intervention reality. ...

What Is the Nature of Theories and Models in Biology?
  • Citing Chapter
  • September 2020

... For one, this context presents a "perfect storm" for causal misattribution and overblown claims. It brings together two research areas where causal attribution, and separating correlation from causation, present major problems on their own within each field, with potentially serious consequences for human health (Sekirov et al. 2010;Hanage 2014;Hacquard et al. 2015;Fischbach 2018;Gilbert et al. 2018;Plutynski 2018;Lynch et al. 2019Lynch et al. , 2020Walter et. al. 2020). ...

Microbiome causality: further reflections (a response to our commentators)

Biology & Philosophy

... Furthermore, the emphasis placed on a narrow set of factors can also come hand-in-hand with strong claims about the causal capacities and strength of these factors. In the case of the microbiome, the claims that the microbiome has a crucial and linear causal relationship, with outcomes including 'obesity' and mental health states, has been the subject of criticism (Lynch et al., 2019;O'Malley & Skillings, 2018). ...

How Causal are Microbiomes? A Comparison with the Helicobacter pylori Explanation of Ulcers

Biology & Philosophy