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Gene sharing and genome evolution: networks in trees and trees in networks

Robert G. Beiko

Biology and Philosophy 25 (4):659-673 (2010)

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¿La transferencia genética horizontal, la simbiogénesis, la especiación por hibridación y la introgresión traen realmente dificultades para la concepción cladogenética de la evolución?Gustavo Caponi - 2022 - Culturas Cientificas 3 (1):03-18.details En los últimos años, algunos autores han venido sosteniendo que la validez de la representación arborescente del patrón filético generado por la evolución está siendo menoscabada por el reconocimiento del impacto evolutivo que tendrían la transferencia genética horizontal, la simbiogénesis, la especiación por hibridación y la introgresión. Esa concepción o representación cladogenética de la evolución sólo nos dejaría ver un aspecto parcial de las relaciones de filiación que conectan a los diferentes linajes de seres vivos; ocultando otro aspecto cuya representación (...) Download Export citation Bookmark
Trashing life’s tree.L. R. Franklin-Hall - 2010 - Biology and Philosophy 25 (4):689-709.details The Tree of Life has traditionally been understood to represent the history of species lineages. However, recently researchers have suggested that it might be better interpreted as representing the history of cellular lineages, sometimes called the Tree of Cells. This paper examines and evaluates reasons offered against this cellular interpretation of the Tree of Life. It argues that some such reasons are bad reasons, based either on a false attribution of essentialism, on a misunderstanding of the problem of lineage identity, (...) Download Export citation Bookmark 6 citations
When integration fails: Prokaryote phylogeny and the tree of life.Maureen A. O’Malley - 2013 - Studies in History and Philosophy of Science Part C: Studies in History and Philosophy of Biological and Biomedical Sciences 44 (4a):551-562.details Much is being written these days about integration, its desirability and even its necessity when complex research problems are to be addressed. Seldom, however, do we hear much about the failure of such efforts. Because integration is an ongoing activity rather than a final achievement, and because today’s literature about integration consists mostly of manifesto statements rather than precise descriptions, an examination of unsuccessful integration could be illuminating to understand better how it works. This paper will examine the case of (...) Download Export citation Bookmark 26 citations
Pluralization through epistemic competition: scientific change in times of data-intensive biology.Fridolin Gross, Nina Kranke & Robert Meunier - 2019 - History and Philosophy of the Life Sciences 41 (1):1.details We present two case studies from contemporary biology in which we observe conflicts between established and emerging approaches. The first case study discusses the relation between molecular biology and systems biology regarding the explanation of cellular processes, while the second deals with phylogenetic systematics and the challenge posed by recent network approaches to established ideas of evolutionary processes. We show that the emergence of new fields is in both cases driven by the development of high-throughput data generation technologies and the (...) Download Export citation Bookmark 6 citations
Organizing Microbial Diversity and Interspecies Relations through Diagrams: Trees, Maps, and the Visual Semiotics of the Living.Valeria Burgio & Roberta Raffaetà - forthcoming - Biosemiotics:1-28.details This paper aims to understand how and why tree diagrams are of central importance to microbiome scientists in their practices of meaning making. The interfaces that scientists use are, in fact, topological structures that organize the genetic data generated by sequencing technology. They establish relationships among microbes and also between microbes and the conditions of the ecological niche they help construct. The tree structure is a powerful _topos_ of knowledge organization in Western culture. However, biomolecular research has revealed the existence (...) Download Export citation Bookmark

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