Hierarchies in light sensing and dynamic interactions between ocular and extraocular sensory networks in a flatworm

Shettigar, Nishan; Joshi, A.; Dalmeida, Rimple; Gopalkrishna, Rohini; Chakravarthy, Anirudh; Patnaik, Siddharth; Mathew, Manoj; Palakodeti, Dasaradhi; Gulyani, Akash

doi:10.1126/sciadv.1603025

Cited by 35 publications

(57 citation statements)

References 67 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…To demonstrate the power of this approach in biology, we applied it to the imaging of the flatworm Schmidtea mediterranea, a model organism for studying tissue regeneration. This organism is exceptionally sensitive to even moderate amounts of laser light [35], suffering muscle flinching at desirable illumination levels even when anesthetized (Supp. Video 1).…”

Section: Resultsmentioning

confidence: 99%

Content-Aware Image Restoration: Pushing the Limits of Fluorescence Microscopy

Weigert

Schmidt

Boothe

et al. 2017

Preprint

127

217

View full text Add to dashboard Cite

Fluorescence microscopy is a key driver of discoveries in the life-sciences, with observable phenomena being limited by the optics of the microscope, the chemistry of the fluorophores, and the maximum photon exposure tolerated by the sample. These limits necessitate tradeoffs between imaging speed, spatial resolution, light exposure, and imaging depth. In this work we show how deep learning enables biological observations beyond the physical limitations of microscopes. On seven concrete examples we illustrate how microscopy images can be restored even if 60-fold fewer photons are used during acquisition, how isotropic resolution can be achieved even with a 10-fold under-sampling along the axial direction, and how diffraction-limited structures can be resolved at 20-times higher frame-rates compared to state-of-the-art methods. All developed image restoration methods are freely available as open source software.

show abstract

Section: Resultsmentioning

confidence: 99%

Content-Aware Image Restoration: Pushing the Limits of Fluorescence Microscopy

Weigert

Schmidt

Boothe

et al. 2017

Preprint

127

217

View full text Add to dashboard Cite

show abstract

“…We first demonstrate the utility of CARE on microscopy acquisitions of the flatworm Schmidtea mediterranea, a model organism for studying tissue regeneration. This organism is exceptionally sensitive to even moderate amounts of laser light [34], suffering muscle flinching at desirable illumination levels even when anesthetized (Supp. Video 1).…”

Section: Image Restoration With Physically Acquired Training Datamentioning

confidence: 99%

Content-aware image restoration: pushing the limits of fluorescence microscopy

et al. 2018

View full text Add to dashboard Cite

Fluorescence microscopy is a key driver of discoveries in the life-sciences, with observable phenomena being limited by the optics of the microscope, the chemistry of the fluorophores, and the maximum photon exposure tolerated by the sample. These limits necessitate trade-offs between imaging speed, spatial resolution, light exposure, and imaging depth. In this work we show how image restoration based on deep learning extends the range of biological phenomena observable by microscopy. On seven concrete examples we demonstrate how microscopy images can be restored even if 60-fold fewer photons are used during acquisition, how near isotropic resolution can be achieved with up to 10-fold under-sampling along the axial direction, and how tubular and granular structures smaller than the diffraction limit can be resolved at 20-times higher frame-rates compared to state-of-the-art methods. All developed image restoration methods are freely available as open source software in Python, FIJI, and KNIME.

show abstract

“…All behavioral experiments were performed in a dark room with only a red light, the wavelength of which does not induce a behavioral response by planarians [32–34]. Planarians were kept in the dark for at least 60 min in breeding water before the experiment.…”

Section: Methodsmentioning

confidence: 99%

Calcium ions in the aquatic environment drive planarians to food

et al. 2019

View full text Add to dashboard Cite

BackgroundEven subtle changes in environmental factors can exert behavioral effects on creatures, which may alter interspecific interactions and eventually affect the ecosystem. However, how changes in environmental factors impact complex behaviors regulated by neural processes is largely unknown. The freshwater planarian Dugesia japonica, a free-living flatworm, displays distinct behavioral traits mediated by sensitive perception of environmental cues. Planarians are thus useful organisms for examining interactions between environmental changes and specific behaviors of animals.ResultsHere we found that feeding behavior was suppressed when the concentration of ions in the breeding water was low, while other behaviors were unaffected, resulting in differences in population size. Notably, the decline in feeding behavior was reversed in an ion-concentration-dependent manner soon after the planarians were moved to ion-containing water, which suggests that ions in environmental water rapidly promote feeding behavior in planarians. Moreover, the concentration of ions in the environmental water affected the feeding behavior by modulating the sensitivity of the response to foods. Finally, we found that calcium ions in the aquatic environment were required for the feeding behavior, and exposure to higher levels of calcium ions enhanced the feeding behavior, showing that there was a good correlation between the concentration of calcium ions and the responsiveness of planarians to foods.ConclusionsEnvironmental calcium ions are indispensable for and potentiate the activity level of the feeding behavior of planarians. Our findings suggest that the ions in the aquatic environment profoundly impact the growth and survival of aquatic animals via modulating their neural activities and behaviors.

show abstract

Hierarchies in light sensing and dynamic interactions between ocular and extraocular sensory networks in a flatworm

Abstract: Light matters! Flatworms reveal stunning complexity in light-induced behaviors and comparative processing.

Cited by 35 publications

References 67 publications

Content-Aware Image Restoration: Pushing the Limits of Fluorescence Microscopy

Content-Aware Image Restoration: Pushing the Limits of Fluorescence Microscopy

Content-aware image restoration: pushing the limits of fluorescence microscopy

Calcium ions in the aquatic environment drive planarians to food

Contact Info

Product

Resources

About