Networks of conscious experience: computational neuroscience in understanding life, death, and consciousness

Cortical Visual Impairment in Childhood: 'Blindsight' and the Sprague Effect Revisited

The paper discusses and provides support for diverse processes of brain plasticity in visual function after damage in infancy and childhood in comparison with injury that occurs in the adult brain. We provide support and description of neuroplastic mechanisms in childhood that do not seemingly exist in the same way in the adult brain. Examples include the ability to foster the development of thalamocortical connectivities that can circumvent the lesion and reach their cortical destination in the occipital cortex as the developing brain is more efficient in building new connections. Supporting this claim is the fact that in those with central visual field defects we can note that the extrastriatal visual connectivities are greater when a lesion occurs earlier in life as opposed to in the neurologically mature adult. The result is a significantly more optimized system of visual and spatial exploration within the ‘blind’ field of view. The discussion is provided within the context of “blindsight” and the “Sprague Effect”.

How does homeostasis happen? Integrative physiological, systems biological, and evolutionary perspectives

Homeostasis is a founding principle of integrative physiology. In current systems biology, however, homeostasis seems almost invisible. Is homeostasis a key goal driving body processes, or is it an emergent mechanistic fact? In this perspective piece, I propose that the integrative physiological and systems biological viewpoints about homeostasis reflect different epistemologies, different philosophies of knowledge. Integrative physiology is concept driven. It attempts to explain biological phenomena by continuous formation of theories that experimentation or observation can test. In integrative physiology, "function" refers to goals or purposes. Systems biology is data driven. It explains biological phenomena in terms of "omics"-i.e., genomics, gene expression, epigenomics, proteomics, and metabolomics-it depicts the data in computer models of complex cascades or networks, and it makes predictions from the models. In systems biology, "function" refers more to mechanisms than to goals. The integrative physiologist emphasizes homeostasis of internal variables such as Pco₂ and blood pressure. The systems biologist views these emphases as teleological and unparsimonious in that the "regulated variable" (e.g., arterial Pco₂ and blood pressure) and the "regulator" (e.g., the "carbistat" and "barostat") are unobservable constructs. The integrative physiologist views systems biological explanations as not really explanations but descriptions that cannot account for phenomena we humans believe exist, although they cannot be observed directly, such as feelings and, ultimately, the conscious mind. This essay reviews the history of the two epistemologies, emphasizing autonomic neuroscience. I predict rapprochement of integrative physiology with systems biology. The resolution will avoid teleological purposiveness, transcend pure mechanism, and incorporate adaptiveness in evolution, i.e., "Darwinian medicine."

Subliminal (latent) processing of pain and its evolution to conscious awareness

By unconscious or covert processing of pain we refer to nascent interactions that affect the eventual deliverance of pain awareness. Thus, internal processes (viz., repeated nociceptive events, inflammatory kindling, reorganization of brain networks, genetic) or external processes (viz., environment, socioeconomic levels, modulation of epigenetic status) contribute to enhancing or inhibiting the presentation of pain awareness. Here we put forward the notion that for many patients, ongoing sub-conscious changes in brain function are significant players in the eventual manifestation of chronic pain. In this review, we provide clinical examples of nascent or what we term pre-pain processes and the neurobiological mechanisms of how these changes may contribute to pain, but also potential opportunities to define the process for early therapeutic interventions.

The oldest Archaeopteryx (Theropoda: Avialiae): a new specimen from the Kimmeridgian/Tithonian boundary of Schamhaupten, Bavaria

The iconic primeval bird Archaeopteryx was so far mainly known from the Altmühltal Formation (early Tithonian) of Bavaria, southern Germany, with one specimen having been found in the overlying Mörnsheim Formation. A new specimen (the 12th skeletal specimen) from the earliest Tithonian Painten Formation of Schamhaupten (Bavaria) represents the so far oldest representative of the genus. The new specimen shows several interesting anatomical details, including the presence of a postorbital in contact with the jugal, the presence of a separate prefrontal and coronoid, and opisthocoelous mid-cervical vertebrae. Based on observations on the new specimen, we discuss several problematic issues concerning Archaeopteryx, including the monophyly and diagnosis of the genus, the absence/presence of the sternum, the position of the gastralia, and variation in morphometrics and dental morphology in that genus. Based on a new diagnosis for the genus Archaeopteryx, the Berlin, Eichstätt, Solnhofen, Munich, Daiting, Thermopolis, 11th, and 12th specimens can be referred to this genus with high certainty. The Maxberg specimen is very probably also an Archaeopteryx, based on overall similarity, although none of the diagnostic characters can be evaluated with certainty. The ninth specimen (‘chicken wing’) might be Archaeopteryx, but cannot be referred to the genus with any certainty. In comparison with other paravians, the presence of distally thickened anterior pectoral ribs indicates that a rather large cartilagenous sternum was present in this taxon. In contrast to non-opisthopubic theropods, opisthopubic taxa, such as Archaeopteryx and many other paravians, have the posterior end of the gastral basket preserved at about half-length of the pubis, which might reflect the post-mortem collapse of enlarged abdominal air sacs in these taxa. Specimens that can be referred to Archaeopteryx show a high amount of variation, both in the morphometrics of the limb bones as well as in the dentition. In respect to the latter aspect, variation is found in tooth number, spacing, orientation, and morphology, with no two specimens showing the exact same pattern. The significance of this variation is unclear, and possible explanations reach from high intraspecific (and possibly ontogenetic and/or sexual dimorphic) variation to the possibility that the known specimens represent a ‘species flock’ of Archaeopteryx, possibly due to island speciation after the initial dispersal of the genus into the Solnhofen Archipelago.

Thinking, Walking, Talking: Integratory Motor and Cognitive Brain Function

In this article, we argue that motor and cognitive processes are functionally related and most likely share a similar evolutionary history. This is supported by clinical and neural data showing that some brain regions integrate both motor and cognitive functions. In addition, we also argue that cognitive processes coincide with complex motor output. Further, we also review data that support the converse notion that motor processes can contribute to cognitive function, as found by many rehabilitation and aerobic exercise training programs. Support is provided for motor and cognitive processes possessing dynamic bidirectional influences on each other.

Genetic code evolution reveals the neutral emergence of mutational robustness, and information as an evolutionary constraint

The standard genetic code (SGC) is central to molecular biology and its origin and evolution is a fundamental problem in evolutionary biology, the elucidation of which promises to reveal much about the origins of life. In addition, we propose that study of its origin can also reveal some fundamental and generalizable insights into mechanisms of molecular evolution, utilizing concepts from complexity theory. The first is that beneficial traits may arise by non-adaptive processes, via a process of "neutral emergence". The structure of the SGC is optimized for the property of error minimization, which reduces the deleterious impact of point mutations. Via simulation, it can be shown that genetic codes with error minimization superior to the SGC can emerge in a neutral fashion simply by a process of genetic code expansion via tRNA and aminoacyl-tRNA synthetase duplication, whereby similar amino acids are added to codons related to that of the parent amino acid. This process of neutral emergence has implications beyond that of the genetic code, as it suggests that not all beneficial traits have arisen by the direct action of natural selection; we term these "pseudaptations", and discuss a range of potential examples. Secondly, consideration of genetic code deviations (codon reassignments) reveals that these are mostly associated with a reduction in proteome size. This code malleability implies the existence of a proteomic constraint on the genetic code, proportional to the size of the proteome (P), and that its reduction in size leads to an "unfreezing" of the codon - amino acid mapping that defines the genetic code, consistent with Crick's Frozen Accident theory. The concept of a proteomic constraint may be extended to propose a general informational constraint on genetic fidelity, which may be used to explain variously, differences in mutation rates in genomes with differing proteome sizes, differences in DNA repair capacity and genome GC content between organisms, a selective pressure in the evolution of sexual reproduction, and differences in translational fidelity. Lastly, the utility of the concept of an informational constraint to other diverse fields of research is explored.

Psychophysiology of dissociated consciousness

Recent study of consciousness provides an evidence that there is a limit of consciousness, which presents a barrier between conscious and unconscious processes. This barrier likely is specifically manifested as a disturbance of neural mechanisms of consciousness that through distributed brain processing, attentional mechanisms and memory processes enable to constitute integrative conscious experience. According to recent findings a level of conscious integration may change during certain conditions related to experimental cognitive manipulations, hypnosis, or stressful experiences that can lead to dissociation of consciousness. In psychopathological research the term dissociation was proposed by Pierre Janet for explanation of processes related to splitting of consciousness due to traumatic events or during hypnosis. According to several recent findings dissociation of consciousness likely is related to deficits in global distribution of information and may lead to heightened levels of "neural complexity" that reflects brain integration or differentiation based on numbers of independent neural processes in the brain that may be specifically related to various mental disorders.

The mind-brain relationship as a mathematical problem

This paper aims to frame certain fundamental aspects of the human mind (content and meaning of mental states) and foundational elements of brain computation (spatial and temporal patterns of neural activity) so as to enable at least in principle their integration within one and the same quantitative representation. Through the history of science, similar approaches have been instrumental to bridge other seemingly mysterious scientific phenomena, such as thermodynamics and statistical mechanics, optics and electromagnetism, or chemistry and quantum physics, among several other examples. Identifying the relevant levels of analysis is important to define proper mathematical formalisms for describing the brain and the mind, such that they could be mapped onto each other in order to explain their equivalence. Based on these premises, we overview the potential of neural connectivity to provide highly informative constraints on brain computational process. Moreover, we outline approaches for representing cognitive and emotional states geometrically with semantic maps. Next, we summarize leading theoretical framework that might serve as an explanatory bridge between neural connectivity and mental space. Furthermore, we discuss the implications of this framework for human communication and our view of reality. We conclude by analyzing the practical requirements to manage the necessary data for solving the mind-brain problem from this perspective.

Technology-aided leisure and communication opportunities for two post-coma persons emerged from a minimally conscious state and affected by multiple disabilities

This study assessed technology-aided programs for helping two post-coma persons, who had emerged from a minimally conscious state and were affected by multiple disabilities, to (a) engage with leisure stimuli and request caregiver's procedures, (b) send out and listen to text messages for communication with distant partners, and (c) combine leisure engagement and procedure requests with text messaging within the same sessions. The program for leisure engagement and procedure requests relied on the use of a portable computer with commercial software, and a microswitch for the participants' response. The program for text messaging communication involved the use of a portable computer, a GSM modem, a microswitch for the participants' response, and specifically developed software. Results indicated that the participants were successful at each of the three stages of the study, thus providing relevant evidence concerning performance achievements only minimally documented. The implications of the findings in terms of technology and practical opportunities for post-coma persons with multiple disabilities are discussed.

Promoting adaptive behavior in persons with acquired brain injury, extensive motor and communication disabilities, and consciousness disorders

These two studies extended the evidence on the use of technology-based intervention packages to promote adaptive behavior in persons with acquired brain injury and multiple disabilities. Study I involved five participants in a minimally conscious state who were provided with intervention packages based on specific arrangements of optic, tilt, or pressure microswitches (linked to preferred environmental stimuli) and eyelid, toe and finger responses. Study II involved three participants who were emerging from a minimally conscious state and were provided with intervention packages based on computer presentations of stimulus options (i.e., preferred stimuli, functional caregiver's procedures, and non-preferred stimuli) and pressure microswitches to choose among them. Intervention data of Study I showed that the participants acquired relatively high levels of microswitch responding (thus engaging widely with preferred environmental stimuli) and kept that responding consistent except for one case. Intervention data of Study II showed that the participants were active in choosing among preferred stimuli and positive caregivers' procedures, but generally abstained from non-preferred stimuli. The results were discussed in terms of the successful use of fairly new/infrequent microswitch-response arrangements (Study I) and the profitable inclusion of functional caregiver's procedures among the options available to choice (Study II).

Intentionality and "free-will" from a neurodevelopmental perspective

The nature of free-will as a subset of intentionality and probabilistic and deterministic function is explored with the indications being that human behavior is highly predictable which in turn, should compromise the notion of free-will. Data supports the notion that age relates to the ability to progressively effectively establish goals performed by fixed action patterns and that these FAPs produce outcomes that in turn modify choices (free-will) for which FAPs need to be employed. Early goals require behaviors that require greater automation in terms of FAPs that lead to goals being achieved or not; if not, then one can change behavior and that in turn is free-will. Goals change with age based on experience which is similar to the way in which movement functions. We hypothesize that human prefrontal cortex development was a natural expansion of the evolutionarily earlier developed areas of the frontal lobe and that goal-directed movements and behavior, including choice and free-will, provided for an expansion of those areas. The same regions of the human central nervous system that were already employed for better control, coordination, and timing of movements, expanded in parallel with the frontal cortex. The initial focus of the frontal lobes was the control of motor activity, but as the movements became more goal-directed, greater cognitive control over movement was necessitated leading to voluntary control of FAPs or free-will. The paper reviews the neurobiology, neurohistology, and electrophysiology of brain connectivities developmentally, along with the development of those brain functions linked to decision-making from a developmental viewpoint. The paper reviews the neurological development of the frontal lobes and inter-regional brain connectivities in the context of optimization of communication systems within the brain and nervous system and its relation to free-will.

More than a feeling: Pervasive influences of memory without awareness of retrieval

The subjective experiences of recollection and familiarity have featured prominently in the search for neurocognitive mechanisms of memory. However, these two explicit expressions of memory, which involve conscious awareness of memory retrieval, are distinct from an entire category of implicit expressions of memory that do not entail such awareness. This review summarizes recent evidence showing that neurocognitive processing related to implicit memory can powerfully influence the behavioral and neural measures typically associated with explicit memory. Although there are striking distinctions between the neurocognitive processing responsible for implicit versus explicit memory, tests designed to measure only explicit memory nonetheless often capture implicit memory processing as well. In particular, the evidence described here suggests that investigations of familiarity memory are prone to the accidental capture of implicit memory processing. These findings have considerable implications for neurocognitive accounts of memory, as they suggest that many neural and behavioral measures often accepted as signals of explicit memory instead reflect the distinct operation of implicit memory mechanisms that are only sometimes related to explicit memory expressions. Proper identification of the explicit and implicit mechanisms for memory is vital to understanding the normal operation of memory, in addition to the disrupted memory capabilities associated with many neurological disorders and mental illnesses. We suggest that future progress requires utilizing neural, behavioral, and subjective evidence to dissociate implicit and explicit memory processing so as to better understand their distinct mechanisms as well as their potential relationships. When searching for the neurocognitive mechanisms of memory, it is important to keep in mind that memory involves more than a feeling.

Post-coma persons emerged from a minimally conscious state and showing multiple disabilities learn to manage a radio-listening activity

This study assessed microswitch-based technology to enable three post-coma adults, who had emerged from a minimally conscious state but presented motor and communication disabilities, to operate a radio device. The material involved a modified radio device, a microprocessor-based electronic control unit, a personal microswitch, and an amplified MP3 player. The study was carried out according to a non-concurrent multiple baseline design across participants. During the intervention, all three participants learned to operate the radio device, changing stations and tuning on some of them longer amounts of time than on others (i.e., suggesting preferences among the topics covered by those stations). They also ended a number of sessions before the maximum length of time allowed for them had elapsed. The practical (rehabilitation) implications of the findings were discussed.