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Article ; Online: Statistical Properties of Color Matching Functions.

da Fonseca, María / Samengo, Inés

2021 Volume 33, Issue 9, Page(s) 2578–2601

Abstract: In trichromats, color vision entails the projection of an infinite-dimensional space (the one containing all possible electromagnetic power spectra) onto the three-dimensional space that modulates the activity of the three types of cones. This drastic ... ...

Abstract	In trichromats, color vision entails the projection of an infinite-dimensional space (the one containing all possible electromagnetic power spectra) onto the three-dimensional space that modulates the activity of the three types of cones. This drastic reduction in dimensionality gives rise to metamerism, that is, the perceptual chromatic equivalence between two different light spectra. The classes of equivalence of metamerism are revealed by color-matching experiments in which observers adjust the intensity of three monochromatic light beams of three preset wavelengths (the primaries) to produce a mixture that is perceptually equal to a given monochromatic target stimulus. Here we use the linear relation between the color matching functions and the absorption probabilities of each type of cone to find particularly useful triplets of primaries. As a second goal, we also derive an analytical description of the trial-to-trial variability and the correlations of color matching functions stemming from Poissonian noise in photon capture. We analyze how the statistical properties of the responses to color-matching experiments vary with the retinal composition and the wavelengths of peak absorption probability, and compare them with experimental data on subject-to-subject variability obtained previously.
MeSH term(s)	Color Perception/physiology ; Color Vision ; Probability ; Retina ; Retinal Cone Photoreceptor Cells/physiology
Language	English
Publishing date	2021-07-18
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1025692-1
ISSN	1530-888X ; 0899-7667
ISSN (online)	1530-888X
ISSN	0899-7667
DOI	10.1162/neco_a_01421
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Article ; Online: Active search signatures in a free-viewing task exploiting concurrent EEG and eye movements recordings.

Care, Damián / da Fonseca, María / Ison, Matias J / Kamienkowski, Juan E

The European journal of neuroscience

2023 Volume 58, Issue 2, Page(s) 2563–2578

Abstract: Tasks we often perform in our everyday lives, such as reading or looking for a friend in the crowd, are seemingly straightforward but they actually require the orchestrated activity of several cognitive processes. Free-viewing visual search requires a ... ...

Abstract	Tasks we often perform in our everyday lives, such as reading or looking for a friend in the crowd, are seemingly straightforward but they actually require the orchestrated activity of several cognitive processes. Free-viewing visual search requires a plan to move our gaze on the different items, identifying them, and deciding on whether to continue with the search. Little is known about the electrophysiological signatures of these processes in free-viewing because there are technical challenges associated with eye movement artefacts. Here, we aimed to study how category information, as well as ecologically relevant variables such as the task performed, influence brain activity in a free-viewing paradigm. Participants were asked to observe/search from an array of faces and objects embedded in random noise. We concurrently recorded electroencephalogram and eye movements and applied a deconvolution analysis approach to estimate the contribution of the different elements embedded in the task. Consistent with classical fixed-gaze experiments and a handful of free-viewing studies, we found a robust categorical effect around 150 ms in occipital and occipitotemporal electrodes. We also report a task effect, more negative in posterior central electrodes in visual search compared with exploration, starting at around 80 ms. We also found significant effects of trial progression and an interaction with the task effect. Overall, these results generalise the characterisation of early visual face processing to a wider range of experiments and show how a suitable analysis approach allows to discern among multiple neural contributions to the signal, preserving key attributes of real-world tasks.
MeSH term(s)	Humans ; Eye Movements ; Electroencephalography ; Visual Perception/physiology ; Facial Recognition ; Fixation, Ocular
Language	English
Publishing date	2023-06-21
Publishing country	France
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	645180-9
ISSN	1460-9568 ; 0953-816X
ISSN (online)	1460-9568
ISSN	0953-816X
DOI	10.1111/ejn.16057
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Article ; Online: Mood and implicit confidence independently fluctuate at different time scales.

da Fonseca, María / Maffei, Giovanni / Moreno-Bote, Rubén / Hyafil, Alexandre

Cognitive, affective & behavioral neuroscience

2022 Volume 23, Issue 1, Page(s) 142–161

Abstract: Mood is an important ingredient of decision-making. Human beings are immersed into a sea of emotions where episodes of high mood alternate with episodes of low mood. While changes in mood are well characterized, little is known about how these ... ...

Abstract	Mood is an important ingredient of decision-making. Human beings are immersed into a sea of emotions where episodes of high mood alternate with episodes of low mood. While changes in mood are well characterized, little is known about how these fluctuations interact with metacognition, and in particular with confidence about our decisions. We evaluated how implicit measurements of confidence are related with mood states of human participants through two online longitudinal experiments involving mood self-reports and visual discrimination decision-making tasks. Implicit confidence was assessed on each session by monitoring the proportion of opt-out trials when an opt-out option was available, as well as the median reaction time on standard correct trials as a secondary proxy of confidence. We first report a strong coupling between mood, stress, food enjoyment, and quality of sleep reported by participants in the same session. Second, we confirmed that the proportion of opt-out responses as well as reaction times in non-opt-out trials provided reliable indices of confidence in each session. We introduce a normative measure of overconfidence based on the pattern of opt-out selection and the signal-detection-theory framework. Finally and crucially, we found that mood, sleep quality, food enjoyment, and stress level are not consistently coupled with these implicit confidence markers, but rather they fluctuate at different time scales: mood-related states display faster fluctuations (over one day or half-a-day) than confidence level (two-and-a-half days). Therefore, our findings suggest that spontaneous fluctuations of mood and confidence in decision making are independent in the healthy adult population.
MeSH term(s)	Adult ; Humans ; Metacognition/physiology ; Reaction Time ; Visual Perception ; Discrimination, Psychological ; Affect ; Decision Making/physiology
Language	English
Publishing date	2022-10-26
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2029088-3
ISSN	1531-135X ; 1530-7026
ISSN (online)	1531-135X
ISSN	1530-7026
DOI	10.3758/s13415-022-01038-4
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Article ; Online: Current challenges in designer cellulosome engineering.

Lamote, Babette / da Fonseca, Maria João Maurício / Vanderstraeten, Julie / Meert, Kenan / Elias, Marte / Briers, Yves

Applied microbiology and biotechnology

2023 Volume 107, Issue 9, Page(s) 2755–2770

Abstract: Designer cellulosomes (DCs) are engineered multi-enzyme complexes, comprising carbohydrate-active enzymes attached to a common backbone, the scaffoldin, via high-affinity cohesin-dockerin interactions. The use of DCs in the degradation of renewable ... ...

Abstract	Designer cellulosomes (DCs) are engineered multi-enzyme complexes, comprising carbohydrate-active enzymes attached to a common backbone, the scaffoldin, via high-affinity cohesin-dockerin interactions. The use of DCs in the degradation of renewable biomass polymers is a promising approach for biorefineries. Indeed, DCs have shown significant hydrolytic activities due to the enhanced enzyme-substrate proximity and inter-enzyme synergies, but technical hurdles in DC engineering have hindered further progress towards industrial application. The challenge in DC engineering lies in the large diversity of possible building blocks and architectures, resulting in a multivariate and immense design space. Simultaneously, the precise DC composition affects many relevant parameters such as activity, stability, and manufacturability. Since protein engineers face a lack of high-throughput approaches to explore this vast design space, DC engineering may result in an unsatisfying outcome. This review provides a roadmap to guide researchers through the process of DC engineering. Each step, starting from concept to evaluation, is described and provided with its challenges, along with possible solutions, both for DCs that are assembled in vitro or are displayed on the yeast cell surface. KEY POINTS: • Construction of designer cellulosomes is a multi-step process. • Designer cellulosome research deals with multivariate construction challenges. • Boosting designer cellulosome efficiency requires exploring a vast design space.
MeSH term(s)	Cellulosomes/metabolism ; Cellulose/metabolism ; Cell Membrane/metabolism ; Cell Cycle Proteins/metabolism ; Multienzyme Complexes/metabolism ; Bacterial Proteins/metabolism
Chemical Substances	Cellulose (9004-34-6) ; Cell Cycle Proteins ; Multienzyme Complexes ; Bacterial Proteins
Language	English
Publishing date	2023-03-21
Publishing country	Germany
Document type	Journal Article ; Review
ZDB-ID	392453-1
ISSN	1432-0614 ; 0171-1741 ; 0175-7598
ISSN (online)	1432-0614
ISSN	0171-1741 ; 0175-7598
DOI	10.1007/s00253-023-12474-8
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Article: Conversion of the free Cellvibrio japonicus xyloglucan degradation system to the cellulosomal mode

Vanderstraeten, Julie / Lamote, Babette / da Fonseca, Maria João Maurício / De Groote, Philippe / Briers, Yves

Applied microbiology and biotechnology. 2022 Sept., v. 106, no. 17

2022

Abstract: Cellulosomes are multi-enzyme complexes produced by specialised micro-organisms. The spatial proximity of synergistically acting enzymes incorporated in these naturally occurring complexes supports the efficient hydrolysis of lignocellulosic biomass. ... ...

Abstract	Cellulosomes are multi-enzyme complexes produced by specialised micro-organisms. The spatial proximity of synergistically acting enzymes incorporated in these naturally occurring complexes supports the efficient hydrolysis of lignocellulosic biomass. Several functional designer cellulosomes, incorporating naturally non-cellulosomal cellulases, have been constructed and can be used for cellulose saccharification. However, in lignocellulosic biomass, cellulose is tightly intertwined with several hemicelluloses and lignin. One of the most abundant hemicelluloses interacting with cellulose microfibrils is xyloglucan, and degradation of these polymers is crucial for complete saccharification. Yet, designer cellulosome studies focusing on the incorporation of hemicellulases have been limited. Here, we report the conversion of the free Cellvibrio japonicus xyloglucan degradation system to the cellulosomal mode. Therefore, we constructed multiple docking enzyme variants of C. japonicus endoxyloglucanase, β-1,2-galactosidase, α-1,6 xylosidase and β-1,4-glucosidase, using the combinatorial VersaTile technique dedicated to the design and optimisation of modular proteins. We individually optimised the docking enzymes to degrade the xyloglucan backbone and side chains. Finally, we show that a purified designer xyloglucanosome comprising these docking enzymes was able to release xyloglucan oligosaccharides, galactose, xylose and glucose from tamarind xyloglucan. KEY POINTS: • Construction of xyloglucan-degrading designer cellulosome. • Conversion of free Cellvibrio japonicus enzymes to cellulosomal mode. • Type of linker inserted between dockerin and enzyme module affects docking enzyme activity.
Keywords	Cellvibrio ; biomass ; biotechnology ; cellulases ; cellulose ; cellulose microfibrils ; cellulosome ; enzyme activity ; galactose ; glucose ; hemicellulose ; hydrolysis ; lignin ; lignocellulose ; microorganisms ; oligosaccharides ; saccharification ; tamarinds ; xyloglucans ; xylose
Language	English
Dates of publication	2022-09
Size	p. 5495-5509.
Publishing place	Springer Berlin Heidelberg
Document type	Article
ZDB-ID	392453-1
ISSN	1432-0614 ; 0171-1741 ; 0175-7598
ISSN (online)	1432-0614
ISSN	0171-1741 ; 0175-7598
DOI	10.1007/s00253-022-12072-0
Database	NAL-Catalogue (AGRICOLA)

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Book ; Online: Statistical properties of color matching functions

da Fonseca, María / Samengo, Inés

2020

Abstract: In trichromats, color vision entails the projection of an infinite-dimensional space (the one containing all possible electromagnetic power spectra) onto the 3-dimensional space that modulates the activity of the three types of cones. This drastic ... ...

Abstract	In trichromats, color vision entails the projection of an infinite-dimensional space (the one containing all possible electromagnetic power spectra) onto the 3-dimensional space that modulates the activity of the three types of cones. This drastic reduction in dimensionality gives rise to metamerism, that is, the perceptual chromatic equivalence between two different light spectra. The classes of equivalence of metamerism are revealed by color-matching experiments, in which observers adjust the intensity of three monochromatic light beams of three pre-set wavelengths (the primaries) to produce a mixture that is perceptually equal to a given monochromatic target stimulus. Here we use the linear relation between the color matching functions and the absorption probabilities of each type of cone to find particularly useful triplets of primaries. As a second goal, we also derive an analytical description of the trial-to-trial variability and the correlations of color matching functions stemming from Poissonian noise in photon capture. We analyze how the statistical properties of the responses to color-matching experiments vary with the retinal composition and the wavelengths of peak absorption probability, and compare them with experimental data on subject-to-subject variability obtained previously.
Keywords	Quantitative Biology - Neurons and Cognition
Subject code	535
Publishing date	2020-07-04
Publishing country	us
Document type	Book ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Novel Perceptually Uniform Chromatic Space.

da Fonseca, María / Samengo, Inés

Neural computation

2018 Volume 30, Issue 6, Page(s) 1612–1623

Abstract: Chromatically perceptive observers are endowed with a sense of similarity between colors. For example, two shades of green that are only slightly discriminable are perceived as similar, whereas other pairs of colors, for example, blue and yellow, ... ...

Abstract	Chromatically perceptive observers are endowed with a sense of similarity between colors. For example, two shades of green that are only slightly discriminable are perceived as similar, whereas other pairs of colors, for example, blue and yellow, typically elicit markedly different sensations. The notion of similarity need not be shared by different observers. Dichromat and trichromat subjects perceive colors differently, and two dichromats (or two trichromats, for that matter) may judge chromatic differences inconsistently. Moreover, there is ample evidence that different animal species sense colors diversely. To capture the subjective metric of color perception, here we construct a notion of distance in color space based on the physiology of the retina, and is thereby individually tailored for different observers. By applying the Fisher metric to an analytical model of color representation, we construct a notion of distance that reproduces behavioral experiments of classical discrimination tasks. We then derive a coordinate transformation that defines a new chromatic space in which the Euclidean distance between any two colors is equal to the perceptual distance, as seen by one individual subject, endowed with an arbitrary number of color-sensitive photoreceptors, each with arbitrary absorption probability curves and appearing in arbitrary proportions.
Language	English
Publishing date	2018-03-22
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1025692-1
ISSN	1530-888X ; 0899-7667
ISSN (online)	1530-888X
ISSN	0899-7667
DOI	10.1162/NECO_a_01073
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Article ; Online: Conversion of the free Cellvibrio japonicus xyloglucan degradation system to the cellulosomal mode.

Vanderstraeten, Julie / Lamote, Babette / da Fonseca, Maria João Maurício / De Groote, Philippe / Briers, Yves

Applied microbiology and biotechnology

2022 Volume 106, Issue 17, Page(s) 5495–5509

Abstract	Cellulosomes are multi-enzyme complexes produced by specialised micro-organisms. The spatial proximity of synergistically acting enzymes incorporated in these naturally occurring complexes supports the efficient hydrolysis of lignocellulosic biomass. Several functional designer cellulosomes, incorporating naturally non-cellulosomal cellulases, have been constructed and can be used for cellulose saccharification. However, in lignocellulosic biomass, cellulose is tightly intertwined with several hemicelluloses and lignin. One of the most abundant hemicelluloses interacting with cellulose microfibrils is xyloglucan, and degradation of these polymers is crucial for complete saccharification. Yet, designer cellulosome studies focusing on the incorporation of hemicellulases have been limited. Here, we report the conversion of the free Cellvibrio japonicus xyloglucan degradation system to the cellulosomal mode. Therefore, we constructed multiple docking enzyme variants of C. japonicus endoxyloglucanase, β-1,2-galactosidase, α-1,6 xylosidase and β-1,4-glucosidase, using the combinatorial VersaTile technique dedicated to the design and optimisation of modular proteins. We individually optimised the docking enzymes to degrade the xyloglucan backbone and side chains. Finally, we show that a purified designer xyloglucanosome comprising these docking enzymes was able to release xyloglucan oligosaccharides, galactose, xylose and glucose from tamarind xyloglucan. KEY POINTS: • Construction of xyloglucan-degrading designer cellulosome. • Conversion of free Cellvibrio japonicus enzymes to cellulosomal mode. • Type of linker inserted between dockerin and enzyme module affects docking enzyme activity.
MeSH term(s)	Bacterial Proteins ; Cellulose ; Cellulosomes ; Cellvibrio ; Glucans ; Xylans
Chemical Substances	Bacterial Proteins ; Glucans ; Xylans ; xyloglucan (37294-28-3) ; Cellulose (9004-34-6)
Language	English
Publishing date	2022-07-23
Publishing country	Germany
Document type	Journal Article
ZDB-ID	392453-1
ISSN	1432-0614 ; 0171-1741 ; 0175-7598
ISSN (online)	1432-0614
ISSN	0171-1741 ; 0175-7598
DOI	10.1007/s00253-022-12072-0
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Article: Are ambulatory blood pressure parameters associated more with central adiposity than with total adiposity? Results of the ELSA-Brasil study.

de Souza, Ângela Maria Natal / Griep, Rosane Harter / Hermsdorff, Helen Hermana Miranda / da Fonseca, Maria de Jesus Mendes / Juvanhol, Leidjaira Lopes

Frontiers in cardiovascular medicine

2023 Volume 10, Page(s) 1286726

Abstract: Background: Worldwide obesity has a high prevalence, as well as carries a high risk of several chronic diseases, including hypertension. Studies of the association between obesity and ambulatory blood pressure (BP) are scarce and most use only body mass ...

Abstract	Background: Worldwide obesity has a high prevalence, as well as carries a high risk of several chronic diseases, including hypertension. Studies of the association between obesity and ambulatory blood pressure (BP) are scarce and most use only body mass index (BMI) as indicator of adiposity. Thus, we aimed to examine for associations between total and central adiposity and ambulatory BP parameters (BP means and variability, nocturnal dipping and morning surge) among participants in the Brazilian Longitudinal Study of Adult Health (ELSA-Brasil). Methods: This cross-sectional study (2012-2014) used a subsample of participants ( Results: Overweight (BMI) and abdominal obesity (WC and WHR) associated positively with mean 24-hour (Coef = 2.71, 3.09 and 4.00, respectively), waking (Coef = 2.87, 3.26 and 4.16, respectively), and sleeping (Coef = 2.30, 2.74 and 3.50, respectively) SBP; mean DBP associated with high WHR in these three periods (Coef = 2.00, 2.10 and 1.68, respectively) and with WC in the waking period (Coef = 1.44). Overweight and abdominal obesity (WC and WHR) were positively associated with SBP variability over 24 h (Coef = 0.53, 0.45 and 0.49, respectively) and in sleep (Coef = 0.80, 0.74 and 0.59, respectively), and with DBP variability in 24 h (Coef = 0.64, 0.73 and 0.58, respectively), wakefulness (Coef = 0.50, 0.52 and 0.52, respectively) and sleep (Coef = 0.53, 0.45 and 0.49); excess BF associated positively with DBP variability over 24 h (Coef = 0.43) and in wakefulness (Coef = 0.38). Lastly, high WHR and excess BF were associated with higher odds of extreme dipping (OR = 1.03 for both), while high WC and WHR associated with higher odds of exacerbated diastolic morning surge (OR = 3.18 and 3.66, respectively). Conclusion: Indicators of adiposity were associated with the BP means and variability, nocturnal dipping and morning surge, with more substantial results for indicators of central adiposity that the others.
Language	English
Publishing date	2023-12-14
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2781496-8
ISSN	2297-055X
ISSN	2297-055X
DOI	10.3389/fcvm.2023.1286726
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Article ; Online: Derivation of Human Chromatic Discrimination Ability from an Information-Theoretical Notion of Distance in Color Space.

da Fonseca, María / Samengo, Inés

Neural computation

2016 Volume 28, Issue 12, Page(s) 2628–2655

Abstract: The accuracy with which humans detect chromatic differences varies throughout color space. For example, we are far more precise when discriminating two similar orange stimuli than two similar green stimuli. In order for two colors to be perceived as ... ...

Abstract	The accuracy with which humans detect chromatic differences varies throughout color space. For example, we are far more precise when discriminating two similar orange stimuli than two similar green stimuli. In order for two colors to be perceived as different, the neurons representing chromatic information must respond differently, and the difference must be larger than the trial-to-trial variability of the response to each separate color. Photoreceptors constitute the first stage in the processing of color information; many more stages are required before humans can consciously report whether two stimuli are perceived as chromatically distinguishable. Therefore, although photoreceptor absorption curves are expected to influence the accuracy of conscious discriminability, there is no reason to believe that they should suffice to explain it. Here we develop information-theoretical tools based on the Fisher metric that demonstrate that photoreceptor absorption properties explain about 87% of the variance of human color discrimination ability, as tested by previous behavioral experiments. In the context of this theory, the bottleneck in chromatic information processing is determined by photoreceptor absorption characteristics. Subsequent encoding stages modify only marginally the chromatic discriminability at the photoreceptor level.
MeSH term(s)	Color ; Color Perception ; Humans ; Neurons/physiology ; Photic Stimulation
Language	English
Publishing date	2016-10-20
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1025692-1
ISSN	1530-888X ; 0899-7667
ISSN (online)	1530-888X
ISSN	0899-7667
DOI	10.1162/NECO_a_00903
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