The sensual cell: Feeling and affect in unicellular species
Biosystems. 2024 Mar 29:105197. doi: 10.1016/j.biosystems.2024.105197. Online ahead of print.ABSTRACTOur previous efforts to probe the complex, rich experiential lives of unicellular species have focused on the origins of consciousness (Reber, 2019) and the biomolecular processes that underlie sentience (Reber et al., 2023). Implied, but unexplored, was the assumption that these cognitive functions and associated unicellular organismal behaviors were linked with and often driven by affect, feelings, sensual experiences. In this essay we dig more deeply into these valenced (We're using the term valence here to cover the asp...
Source: Biosystems - March 31, 2024 Category: Biotechnology Authors: Arthur S Reber Franti šek Baluška William B Miller Predrag Slijep čević Source Type: research
A multi-cell model for the C < sub > 4 < /sub > photosynthetic pathway in developing wheat grains based upon tissue-specific transcriptome data
Biosystems. 2024 Mar 29;238:105195. doi: 10.1016/j.biosystems.2024.105195. Online ahead of print.ABSTRACTA non-Kranz C4 photosynthesis of the NAD-ME subtype, specifically in developing wheat grains (14 dpa, days post-anthesis) was originally demonstrated using transcriptome-based RNA-seq. Here we present a re-examination of evidence for C4 photosynthesis in the developing grains of wheat and, more broadly, the Pooideae and an investigation of the evolutionary processes and implications. The expression profiles for the genes associated with C4 photosynthesis (C4- and C3-specific) were evaluated using published transcriptome...
Source: Biosystems - March 30, 2024 Category: Biotechnology Authors: Parimalan Rangan Agnelo Furtado Viswanathan Chinnusamy Robert Henry Source Type: research
A multi-cell model for the C < sub > 4 < /sub > photosynthetic pathway in developing wheat grains based upon tissue-specific transcriptome data
Biosystems. 2024 Mar 28:105195. doi: 10.1016/j.biosystems.2024.105195. Online ahead of print.ABSTRACTA non-Kranz C4 photosynthesis of the NAD-ME subtype, specifically in developing wheat grains (14 dpa, days post-anthesis) was originally demonstrated using transcriptome-based RNA-seq. Here we present a re-examination of evidence for C4 photosynthesis in the developing grains of wheat and, more broadly, the Pooideae and an investigation of the evolutionary processes and implications. The expression profiles for the genes associated with C4 photosynthesis (C4- and C3-specific) were evaluated using published transcriptome dat...
Source: Biosystems - March 30, 2024 Category: Biotechnology Authors: Parimalan Rangan Agnelo Furtado Viswanathan Chinnusamy Robert Henry Source Type: research
Variation in base composition, structure-function relationships, and origins of structural repetition in bacterial rpsA gene
Biosystems. 2024 Mar 25;238:105196. doi: 10.1016/j.biosystems.2024.105196. Online ahead of print.ABSTRACTProtein domain repeats are known to arise due to tandem duplications of internal genes. However, the understanding of the underlying mechanisms of this process is incomplete. The goal of this work was to investigate the mechanism of occurrence of repeat expansion based on studying the sequences of 1324 rpsA genes of bacterial S1 ribosomal proteins containing different numbers of S1 structural domains. The rpsA gene encodes ribosomal S1 protein, which is essential for cell viability as it interacts with both mRNA and pro...
Source: Biosystems - March 27, 2024 Category: Biotechnology Authors: Andrey V Machulin Evgeniya I Deryusheva Oxana V Galzitskaya Source Type: research
Variation in base composition, structure-function relationships, and origins of structural repetition in bacterial rpsA gene
Biosystems. 2024 Mar 25;238:105196. doi: 10.1016/j.biosystems.2024.105196. Online ahead of print.ABSTRACTProtein domain repeats are known to arise due to tandem duplications of internal genes. However, the understanding of the underlying mechanisms of this process is incomplete. The goal of this work was to investigate the mechanism of occurrence of repeat expansion based on studying the sequences of 1324 rpsA genes of bacterial S1 ribosomal proteins containing different numbers of S1 structural domains. The rpsA gene encodes ribosomal S1 protein, which is essential for cell viability as it interacts with both mRNA and pro...
Source: Biosystems - March 27, 2024 Category: Biotechnology Authors: Andrey V Machulin Evgeniya I Deryusheva Oxana V Galzitskaya Source Type: research
Variation in base composition, structure-function relationships, and origins of structural repetition in bacterial rpsA gene
Biosystems. 2024 Mar 25:105196. doi: 10.1016/j.biosystems.2024.105196. Online ahead of print.ABSTRACTProtein domain repeats are known to arise due to tandem duplications of internal genes. However, the understanding of the underlying mechanisms of this process is incomplete. The goal of this work was to investigate the mechanism of occurrence of repeat expansion based on studying the sequences of 1324 rpsA genes of bacterial S1 ribosomal proteins containing different numbers of S1 structural domains. The rpsA gene encodes ribosomal S1 protein, which is essential for cell viability as it interacts with both mRNA and protein...
Source: Biosystems - March 27, 2024 Category: Biotechnology Authors: Andrey V Machulin Evgeniya I Deryusheva Oxana V Galzitskaya Source Type: research
Stress-induced failure of embodied cognition: A general model
Biosystems. 2024 Mar 22:105193. doi: 10.1016/j.biosystems.2024.105193. Online ahead of print.ABSTRACTWe derive the classic, ubiquitous, but enigmatic Yerkes-Dodson effect of applied stress on real-world performance in a highly natural manner from fundamental assumptions on cognition and its dynamics, as constrained by the asymptotic limit theorems of information and control theories. We greatly extend the basic approach by showing how differences in an underlying probability model can affect the dynamics of decision across a broad range of cognitive enterprise. Most particularly, however, this development may help inform o...
Source: Biosystems - March 24, 2024 Category: Biotechnology Authors: Rodrick Wallace Gregory Fricchione Source Type: research
Stress-induced failure of embodied cognition: A general model
Biosystems. 2024 Mar 22:105193. doi: 10.1016/j.biosystems.2024.105193. Online ahead of print.ABSTRACTWe derive the classic, ubiquitous, but enigmatic Yerkes-Dodson effect of applied stress on real-world performance in a highly natural manner from fundamental assumptions on cognition and its dynamics, as constrained by the asymptotic limit theorems of information and control theories. We greatly extend the basic approach by showing how differences in an underlying probability model can affect the dynamics of decision across a broad range of cognitive enterprise. Most particularly, however, this development may help inform o...
Source: Biosystems - March 24, 2024 Category: Biotechnology Authors: Rodrick Wallace Gregory Fricchione Source Type: research
Stress-induced failure of embodied cognition: A general model
Biosystems. 2024 Mar 22:105193. doi: 10.1016/j.biosystems.2024.105193. Online ahead of print.ABSTRACTWe derive the classic, ubiquitous, but enigmatic Yerkes-Dodson effect of applied stress on real-world performance in a highly natural manner from fundamental assumptions on cognition and its dynamics, as constrained by the asymptotic limit theorems of information and control theories. We greatly extend the basic approach by showing how differences in an underlying probability model can affect the dynamics of decision across a broad range of cognitive enterprise. Most particularly, however, this development may help inform o...
Source: Biosystems - March 24, 2024 Category: Biotechnology Authors: Rodrick Wallace Gregory Fricchione Source Type: research
Structural analyzes suggest that MiSSP13 and MiSSP16.5 may act as proteases inhibitors during ectomycorrhiza establishment in Laccaria bicolor
Biosystems. 2024 Mar 19;238:105194. doi: 10.1016/j.biosystems.2024.105194. Online ahead of print.ABSTRACT•The signaling process during mycorrhiza establishment involves intense molecular communication between symbionts. It has been suggested that a group of protein effectors, the so-called MiSSPs, plays a broader function in the symbiosis metabolism, however, many of these remain uncharacterized structurally and functionally. •Herein we used three-dimensional protein structure modeling methods, ligand analysis, and molecular docking to structurally characterize and describe two protein effectors, MiSSP13 and MiSSP16.5,...
Source: Biosystems - March 21, 2024 Category: Biotechnology Authors: Ariadne N M Furtado S ávio Torres de Farias Mayara Dos Santos Maia Source Type: research
Structural analyzes suggest that MiSSP13 and MiSSP16.5 may act as proteases inhibitors during ectomycorrhiza establishment in Laccaria bicolor
Biosystems. 2024 Mar 19;238:105194. doi: 10.1016/j.biosystems.2024.105194. Online ahead of print.ABSTRACT•The signaling process during mycorrhiza establishment involves intense molecular communication between symbionts. It has been suggested that a group of protein effectors, the so-called MiSSPs, plays a broader function in the symbiosis metabolism, however, many of these remain uncharacterized structurally and functionally. •Herein we used three-dimensional protein structure modeling methods, ligand analysis, and molecular docking to structurally characterize and describe two protein effectors, MiSSP13 and MiSSP16.5,...
Source: Biosystems - March 21, 2024 Category: Biotechnology Authors: Ariadne N M Furtado S ávio Torres de Farias Mayara Dos Santos Maia Source Type: research
Structural analyzes suggest that MiSSP13 and MiSSP16.5 may act as proteases inhibitors during ectomycorrhiza establishment in Laccaria bicolor
Biosystems. 2024 Mar 19:105194. doi: 10.1016/j.biosystems.2024.105194. Online ahead of print.ABSTRACT•The signaling process during mycorrhiza establishment involves intense molecular communication between symbionts. It has been suggested that a group of protein effectors, the so-called MiSSPs, plays a broader function in the symbiosis metabolism, however, many of these remain uncharacterized structurally and functionally. •Herein we used three-dimensional protein structure modeling methods, ligand analysis, and molecular docking to structurally characterize and describe two protein effectors, MiSSP13 and MiSSP16.5, wit...
Source: Biosystems - March 21, 2024 Category: Biotechnology Authors: Ariadne N M Furtado S ávio Torres de Farias Mayara Dos Santos Maia Source Type: research
Life and fate of Ervin Bauer (1890-1938), the eminent scholar and foundational theoretical biologist
Biosystems. 2024 Mar 18:105191. doi: 10.1016/j.biosystems.2024.105191. Online ahead of print.ABSTRACTErvin Bauer (1890-1938) was the first to build a general molecular-based biological theory. He defined the basic principles of theoretical biology from a thermodynamic perspective, focusing on the capacity of biological systems to produce and support the state of sustainable non-equilibrium. His central work "Theoretical Biology" (1935) was written long before modern advances in molecular biology, genetics, and information theory. Ervin Bauer and his wife Stefánia were executed in Stalin's Great Terror. This paper presents...
Source: Biosystems - March 20, 2024 Category: Biotechnology Authors: Svetlana M Bauer Source Type: research
Life and fate of Ervin Bauer (1890-1938), the eminent scholar and foundational theoretical biologist
Biosystems. 2024 Mar 18:105191. doi: 10.1016/j.biosystems.2024.105191. Online ahead of print.ABSTRACTErvin Bauer (1890-1938) was the first to build a general molecular-based biological theory. He defined the basic principles of theoretical biology from a thermodynamic perspective, focusing on the capacity of biological systems to produce and support the state of sustainable non-equilibrium. His central work "Theoretical Biology" (1935) was written long before modern advances in molecular biology, genetics, and information theory. Ervin Bauer and his wife Stefánia were executed in Stalin's Great Terror. This paper presents...
Source: Biosystems - March 20, 2024 Category: Biotechnology Authors: Svetlana M Bauer Source Type: research
Flock members experience gas pressures higher than lone individuals
Biosystems. 2024 Mar 16;238:105192. doi: 10.1016/j.biosystems.2024.105192. Online ahead of print.ABSTRACTLocal interactions between flock members in absence of centralized control generate collective dynamics characterized by coherent large-scale patterns. We investigate whether aggregates of individuals like birds, swarms and fishes behaving in concert with their neighbors may modify the physical properties of the fluid medium in which they are embedded. Using the K-Nearest Neighbors algorithm to simulate collective animal behavior, we showed that the occurrence of collective dynamics can modify the physical parameters of...
Source: Biosystems - March 18, 2024 Category: Biotechnology Authors: Arturo Tozzi Source Type: research
