Rathanin Seng, Chalita Chomkatekaew, Sarunporn Tandhavanant, Natnaree Saiprom, Rungnapa Phunpang, Janjira Thaipadungpanit, Elizabeth M Batty, Nicholas Pj Day, Wasun Chantratita, T Eoin West, Nicholas R Thomson, Julian Parkhill, Claire Chewapreecha, Narisara Chantratita
{"title":"Genetic diversity, determinants, and dissemination of <i>Burkholderia pseudomallei</i> lineages implicated in melioidosis in northeast Thailand.","authors":"Rathanin Seng, Chalita Chomkatekaew, Sarunporn Tandhavanant, Natnaree Saiprom, Rungnapa Phunpang, Janjira Thaipadungpanit, Elizabeth M Batty, Nicholas Pj Day, Wasun Chantratita, T Eoin West, Nicholas R Thomson, Julian Parkhill, Claire Chewapreecha, Narisara Chantratita","doi":"10.1101/2023.06.02.543359","DOIUrl":"10.1101/2023.06.02.543359","url":null,"abstract":"<p><p>Melioidosis is an often-fatal neglected tropical disease caused by an environmental bacterium <i>Burkholderia pseudomallei</i>. However, our understanding of the disease-causing bacterial lineages, their dissemination, and adaptive mechanisms remains limited. To address this, we conducted a comprehensive genomic analysis of 1,391 <i>B. pseudomallei</i> isolates collected from nine hospitals in northeast Thailand between 2015 and 2018, and contemporaneous isolates from neighbouring countries, representing the most densely sampled collection to date. Our study identified three dominant lineages with unique gene sets enhancing bacterial fitness, indicating lineage-specific adaptation strategies. Crucially, recombination was found to drive lineage-specific gene flow. Transcriptome analyses of representative clinical isolates from each dominant lineage revealed heightened expression of lineage-specific genes in environmental versus infection conditions, notably under nutrient depletion, highlighting environmental persistence as a key factor in the success of dominant lineages. The study also revealed the role of environmental factors - slope of terrain, altitude, direction of rivers, and the northeast monsoons - in shaping <i>B. pseudomallei</i> geographical dispersal. Collectively, our findings highlight persistence in the environment as a pivotal element facilitating <i>B. pseudomallei</i> spread, and as a prelude to exposure and infection, thereby providing useful insights for informing melioidosis prevention and control strategies.</p>","PeriodicalId":51504,"journal":{"name":"Phenomenology and the Cognitive Sciences","volume":"17 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2023-12-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10723255/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"74295066","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"哲学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Enactivist social ontology","authors":"Joshua Rust","doi":"10.1007/s11097-023-09952-9","DOIUrl":"https://doi.org/10.1007/s11097-023-09952-9","url":null,"abstract":"<p>This paper is an investigation into the possibility of institutional agency and proceeds via the elaboration of two, nested claims. First, if genuine agency is attributable to certain social institutions, it would not be the full-blown, intentional agency that characterizes human activity, but would rather fall under a minimal modality of agency. Moreover, since enactivists aim to articulate minimal conceptions of agency that are applicable across the sphere of the living, this suggests that such accounts of minimal agency might additionally be brought to bear onto some institutions. The second claim concerns which of two ideally typical enactivist accounts of minimal agency can more promisingly be applied to our institutions. Where some enactivists endorse a Jonasian account of minimal agency, which stresses a protentive, forward-looking orientation to a self-persistence goal, other enactivists apply a retentive ideal type of minimal agency, the norms of which are founded on a backward-looking responsiveness to precedent. By way of a critical analysis of structural functionalism, I argue that the retentive approach better explains the kind of agency that would be expressed by some institutions. I also claim that some philosophers, including Christian List, Philip Pettit and Ronald Dworkin, have independently come to the conclusion that institutional agency is retentive agency.</p>","PeriodicalId":51504,"journal":{"name":"Phenomenology and the Cognitive Sciences","volume":"229 1","pages":""},"PeriodicalIF":2.3,"publicationDate":"2023-12-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138564001","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"哲学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"The genesis of the minimal mind: elements of a phenomenological and functional account","authors":"Bence Peter Marosan","doi":"10.1007/s11097-023-09946-7","DOIUrl":"https://doi.org/10.1007/s11097-023-09946-7","url":null,"abstract":"<p>In this article, we endeavour to lay the theoretical fundaments of a phenomenologically based project regarding the origins of conscious experience in the natural world. We assume that a phenomenological analysis (based upon Edmund Husserl’s philosophy) of first-person experience could substantially contribute to related empirical research. In this regard, two phenomenological conceptions provided by Husserl are of fundamental importance. The first relates to the essential and necessary <i>embodiment</i> of every subjective experience; the second concerns the intrinsically <i>holistic and concrete character of consciousness</i>. These considerations have two crucial implications. First, every mental content and capability ultimately refers to a bodily basis as its carrier and realizer (‘embodied manifestation thesis’). Second, there is a minimal set of bodily structures that carries and realizes the minimal mind (‘minimal context thesis’). Based upon these assumptions, <i>we can use phenomenology to select from the empirical theories of consciousness</i>. We argue that currently, Bjorn Merker’s <i>subcortical theory of consciousness</i> appears to be the best candidate for a phenomenological approach. In phenomenological regard, however, it is highly challenging to test a subcortical theory; therefore, we suggest that certain experiments based upon emergence from general anaesthesia might help test such a theory in a phenomenologically legitimate way.</p>","PeriodicalId":51504,"journal":{"name":"Phenomenology and the Cognitive Sciences","volume":"94 1","pages":""},"PeriodicalIF":2.3,"publicationDate":"2023-12-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138562921","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"哲学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Giving thickness to the minimal self: coenesthetic depth and the materiality of consciousness","authors":"István Fazakas, Mathilde Bois, Tudi Gozé","doi":"10.1007/s11097-023-09951-w","DOIUrl":"https://doi.org/10.1007/s11097-023-09951-w","url":null,"abstract":"<p>Contemporary phenomenological psychopathology has raised questions concerning selfhood and its possible alterations in schizophrenia spectrum disorders. Although the notion of the self is central to several accounts of anomalies, it remains a question how exactly the radically minimal experiential features of selfhood can be altered. Indeed, the risk is to reduce the notion of selfhood so drastically, that it can no longer account for alterations of experience. Here we propose to give thickness to the minimal self. To do this we first discuss Sartre’s phenomenological definition of coenesthesia as the translucent matter of consciousness articulating it with the notion of existential feelings. We then draw on the historical research on coenesthesia to dig deeper in this translucent materiality identified as the element of the body. We show that selfhood, even in its most minimal level, must be conceived of with a specific elemental thickness, corresponding to a phenomenological materiality of embodiment. We argue that a phenomenological reading of coenesthesia as the bodily element of ipseity can shed a new light on the anomalies of self-experience.</p>","PeriodicalId":51504,"journal":{"name":"Phenomenology and the Cognitive Sciences","volume":"108 1","pages":""},"PeriodicalIF":2.3,"publicationDate":"2023-12-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138563833","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"哲学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Not thinking about the same thing. Enactivism, pragmatism and intentionality","authors":"Pierre Steiner","doi":"10.1007/s11097-023-09949-4","DOIUrl":"https://doi.org/10.1007/s11097-023-09949-4","url":null,"abstract":"<p>Enactivism does not have its primary philosophical roots in pragmatism: phenomenology (from Husserl to Jonas) is its first source of inspiration (with the exception of Hutto & Myin’s radical enactivism). That does not exclude the benefits of pragmatist readings of enactivism, and of enactivist readings of pragmatism. After having sketched those readings, this paper focuses on the philosophical concept of intentionality. I show that whereas enactivists endorse the idea that <i>intentionality</i> is a base-level property of cognition, pragmatism offer(ed) us some reasons not to proceed this way. It is therefore doubtful to hold that pragmatists and enactivists would converge in the defence of a common, non-representational conception of intentionality.</p>","PeriodicalId":51504,"journal":{"name":"Phenomenology and the Cognitive Sciences","volume":"3 2","pages":""},"PeriodicalIF":2.3,"publicationDate":"2023-12-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138512786","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"哲学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Review of Guilherme Messas’ ‘The Existential structure of substance misuse: A psychopathological study’","authors":"Filippo Besana","doi":"10.1007/s11097-023-09947-6","DOIUrl":"https://doi.org/10.1007/s11097-023-09947-6","url":null,"abstract":"","PeriodicalId":51504,"journal":{"name":"Phenomenology and the Cognitive Sciences","volume":"51 20","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135043136","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"哲学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Social phenomena as a challenge to the scaling-up problem","authors":"Enrico Petracca","doi":"10.1007/s11097-023-09944-9","DOIUrl":"https://doi.org/10.1007/s11097-023-09944-9","url":null,"abstract":"","PeriodicalId":51504,"journal":{"name":"Phenomenology and the Cognitive Sciences","volume":"2 4","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135042679","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"哲学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Art and linguistic bodies: a transformative view","authors":"Ståle Finke, Thomas Netland, Mattias Solli","doi":"10.1007/s11097-023-09948-5","DOIUrl":"https://doi.org/10.1007/s11097-023-09948-5","url":null,"abstract":"Abstract This article takes its point of departure from the second (embodied) linguistic turn represented by the enactivist notion of humans as linguistic bodies, using resources from Hans Georg Gadamer in order to propose a view of the relation between art and everyday experience as one of symbolic transformation. Conceiving art as a form of linguistic phenomenon wherein one can engage in original situations of communication, this view rejects both autonomist and direct continuity views of the art-everyday relation. We start by situating the idea of linguistic bodies within the enactive approach, spelling out relevant aspects concerning the significance of language for human life and perception (Sect. 2). Then we embark on a discussion of aspects of Shaun Gallagher’s and Alva Noë’s enactivist perspectives on art experience, highlighting places where their views align with and depart from ours (Sect. 3). The last two sections aim to lay out the transformative view in more detail, proposing a pluralistic understanding of art media and a view of art and art experience as modes of ideational, embodied thought (Sects. 4 and 5).","PeriodicalId":51504,"journal":{"name":"Phenomenology and the Cognitive Sciences","volume":" 6","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135290699","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"哲学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Grief as self-model updating","authors":"J. M. Araya","doi":"10.1007/s11097-023-09945-8","DOIUrl":"https://doi.org/10.1007/s11097-023-09945-8","url":null,"abstract":"","PeriodicalId":51504,"journal":{"name":"Phenomenology and the Cognitive Sciences","volume":"1 12","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135390562","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"哲学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Psychedelic phenomenology and the role of affect in psychological transformation","authors":"Christopher Kochevar","doi":"10.1007/s11097-023-09943-w","DOIUrl":"https://doi.org/10.1007/s11097-023-09943-w","url":null,"abstract":"","PeriodicalId":51504,"journal":{"name":"Phenomenology and the Cognitive Sciences","volume":"61 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135634830","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"哲学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}