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Allen, K. S.

Publications and source records attributed to Allen, K. S..

7 recordsLinked to original sources

Progressive loss of independence in neuronal representations predicts cognitive decline

Intelligent behavior depends on the brains ability to represent multiple features of the environment simultaneously while keeping those representations independent1,2. Patients with Alzheimers disease often mix up objects, people, and events3-7, raising the possibility that disease mixes up the way that information is represented in the brain. Here we show that the independence of visual representations progressively breaks down during early stages of disease progression in a rhesus macaque model of Alzheimers disease and related dementias8-10. In visual area V4, representations of different visual features become progressively less independent, such that the representation of one feature is increasingly influenced by the value of another. We term this loss of independence neuronal feature confusion. This neuronal change predicts a specific behavioral consequence: because feature representations become less independent, preferences associated with one visual feature increasingly influence visually guided choices associated with other, independent features. Using an analogous image-selection task, we found the same behavioral signature in people with mild cognitive impairment, distinguishing them from age-matched controls. These results identify a specific and measurable alteration in neuronal population representations that predicts a behavioral change observed across species. More broadly, these findings demonstrate that neuronal population representations can guide the development of sensitive, non-invasive behavioral methods for early detection of functional changes associated with Alzheimers disease.

neuroscience↗

Behavioural and neuronal insights into multisensory combination of unpracticed cues.

Effective decision-making requires integrating multiple information sources, weighted by their reliability and context. While classic studies show near-optimal cue combination in extensively controlled laboratory settings and lengthy inperson experiments, everyday choices often occur in less controlled environments. We examined cue combination under these conditions using an online perceptual estimation task in large and diverse participant cohorts. Participants combined cues, including visual motion direction, spatial visual information, and sound. We investigated cue combination with and without cue conflict. Performance varied with age and self-reported ADHD or Autism. Visual cues were combined more optimally than audio-visual combinations. We observed qualitative similarities in an analagous task with non-human primates. We used electrical microstimulation in non-human primates, targeting unimodal or cross-modal association areas. Stimulation of visual cortex was integrated with sensory motion cues, while stimulation of prefrontal cortex promoted winner-take-all choices. These findings suggest distinctions between within- and across-modality integration, with deviations potentially informative of age or neurodiversity.

neuroscience↗

Development of a differential panel to identify Peronospora belbahrii races in sweet basil (Ocimum basilicum)

First reported in the United States in 2007, downy mildew of sweet basil (Ocimum basilicum), caused by the oomycete pathogen Peronospora belbahrii, has become a major challenge in global basil production. Downy mildew-resistant cultivars have been developed and commercially available since 2018, but observations of isolates overcoming resistance were reported after each new introduction. The rapid development of pathogens overcoming genetic resistance suggests the evolution of new races under selective pressure. In this study, we report on the development of a differential panel of distinct basil cultivars with varying and differential sources of genetic resistance tested against P. belbahrii strains obtained from geographically diverse multi-year collections from basil-producing locations in the US, Israel, and Italy. Screening multiple P. belbahrii isolates revealed three distinct virulence profiles that distinguished race 0, race 1, and race 2. Races 1 and 2 were defined by virulence in cultivars with single gene resistance loci Pb1 and Pb2, respectively. Evaluation of cultivars with quantitative resistance revealed more variation in susceptibility or partial resistance, suggesting "broad spectrum" (or race-nonspecific) resistance. With continued isolate collection and screening efforts, the denomination of P. belbahrii races may be further expanded, and newly developed resistant cultivars can be added to the proposed panel to definitively evaluate novel P. belbahrii strains. This study lays the groundwork to further explore dynamics of race evolution and mechanisms of resistance breakdown, which will be essential for discovering new sources of resistance for controlling basil downy mildew.

plant biology↗

Humans Optimally Integrate Cutaneous and Proprioceptive Cues In Haptic Size Perception

Sensory perception often relies on the brains integration of multiple noisy inputs (cues), a process known as cue combination. Cue combination within the sense of touch has been understudied. Here, we investigated whether humans optimally combine haptic cutaneous and hand configuration cues when discerning the size (e.g., diameter) of a disk held edge-on between the thumb and index fingers. When these two fingers span the diameter of a disk to contact its perimeter, a hand configuration cue (relating to the perceived distance between the fingers) provides information about the disks size. Less obviously, cutaneous cues to disk size may be provided simultaneously from the indentation of the skin caused by the curvature of the disk (smaller disks cause greater indentation). It is unknown whether humans make use of all these cues when perceiving the size of the held object, and if so, whether they integrate the cues optimally. We considered three hypotheses for how humans might use these cues: they might rely solely on the least noisy cue (Winner-Take-All Model, WTA), combine cues based on a simple arithmetic average (Average-Measurement Model, AVG), or combine cues via an optimal weighted average (Optimally-Weighted Model, OPT). In three experiments involving 34 participants, we measured the reliabilities of these cues and compared participant performance to the predictions of the three models. Each experiment tested participants using a two-interval forced-choice (2IFC) paradigm with 3D printed disk stimuli. On each trial, under occluded vision, participants felt two disks sequentially and responded which felt larger. Participants were tested with each fingers cutaneous cue alone, the configuration cue alone, and all three cues together. In two experiments, the disks presented were circular. In a third experiment, unknown to participants, some of the presented disks were oval-like cue-conflict stimuli. The improvement of accuracy observed in multi-cue conditions over single-cue conditions, and the Point of Subjective Equality (PSE) shifts observed in cue-conflict conditions, were consistent with optimal cue combination. We conclude that humans are capable of combining haptic cutaneous and configuration cues optimally to judge the sizes of held objects.

neuroscience↗

Stepwise Isolation of Diverse Metabolic Cell Populations Using Sorting by Interfacial Tension (SIFT)

We present here a passive and label-free droplet microfluidic platform to sort cells stepwise by lactate and proton secretion from glycolysis. A technology developed in our lab, Sorting by Interfacial Tension (SIFT), sorts droplets containing single cells into two populations based on pH by using interfacial tension. Cellular glycolysis lowers the pH of droplets through proton secretion, enabling passive selection based on interfacial tension and hence single-cell glycolysis. The SIFT technique is expanded here by exploiting the dynamic droplet acidification from surfactant adsorption that leads to a concurrent increase in interfacial tension. This allows multiple microfabricated rails at different downstream positions to isolate cells with distinct glycolytic levels. The device is used to correlate sorted cells with three levels of glycolysis with a conventional surface marker for T-cell activation. As glycolysis is associated with both disease and cell state, this technology facilitates the sorting and analysis of crucial cell subpopulations for applications in oncology, immunology and immunotherapy.

bioengineering↗

CUR(E)ating a New Approach to Study Fungal Effectors and Enhance Undergraduate Education through Authentic Research

Course-based Undergraduate Research Experiences (CUREs) integrate active, discovery-based learning into undergraduate curriculums, adding tremendous value to Biochemistry and Molecular Biology (BMB) education. There are multiple challenges in transforming a research project into a CURE, such as the readiness of students, the time commitment of the instructor, and the productivity of the research. In this article, we report a CURE course developed and offered in the University of Massachusetts Amherst BMB Department since 2018 that addresses these challenges. Our CURE focuses on fungal effectors which are proteins secreted by a destructive pathogenic fungus Fusarium oxysporum, one of the top five most devastating plant pathogens. By studying this group of proteins, students are connected to real-world problems and participate in the search for potential solutions. A three-week "standard Bootcamp" is implemented to help students familiarize themselves with all basic techniques and boost their confidence. Next, molecular cloning, a versatile technique with modularity and repeatability, is used as the bedrock of the course. Our past five years of experience have confirmed that we have developed a novel and feasible CURE protocol. Measurable progress documented by students who took this course includes stimulated active learning and increased career trajectory to pursue hypothesis-based research to address societal needs. In addition, data generated through the course advance ongoing lab research. Collectively, we encourage the implementation of CURE among research-intensive faculty to provide a more inclusive research experience to all students, an important element in predicting career success.

scientific communication and education↗

Identification of novel basil downy mildew resistance genes using de novo comparative transcriptomics

O_LISweet basil (Ocimum basilicum L.) production is threatened by the oomycete pathogen Peronospora belbahrii causing basil downy mildew (BDM); BDM resistant cultivar Mrihani (MRI) was identified in a germplasm screen, and fertile progeny were produced through a breeding program with BDM-susceptible Newton (SB22), but the molecular mechanisms conferring resistance in MRI and progeny remained unknown C_LIO_LIComparative transcriptomics was performed to identify candidate resistance genes and potential mechanisms for BDM resistance; RNA samples from BDM-infected MRI and SB22 plants were harvested at 4 time points during the first 3 days of infection to differentiate interactions in resistant and susceptible plants. C_LIO_LIThree categories of genes uniquely induced in resistant MRI upon pathogen challenge were identified: nucleotide-binding leucine rich repeat proteins (NLRs), multi-functional receptor-like kinases (RLKs), and secondary metabolic enzymes; validation of the top resistance candidate NLR gene confirmed its unique presence in MRI as well as in two of four resistant MRIxSB22 F2 progeny. C_LIO_LIIn MRI, pathogen challenge also upregulated transcripts in the salicylic acid synthesis pathway, suggesting its role in BDM resistance, and demonstrating the application of using comparative transcriptomics to identify resistance genes and mechanisms in non-model crops for marker-assisted breeding approaches. C_LI

plant biology↗