PIVlab – Towards User-friendly, Affordable and Accurate Digital Particle Image Velocimetry in MATLAB

Thielicke, William; Stamhuis, Eize

doi:10.5334/jors.bl

Cited by 1,779 publications

(1,299 citation statements)

References 46 publications

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“…Using particle image velocimetry (PIV) [36], we found that the flow fields and relative flow rates into the growth chamber and bypass channel match the design criteria (figure 1d). Furthermore, the ratio of flow rates Q bypass / Q inlet , 1 remain constant even after 24 h of bacterial flow, ensuring that delivery of nutrients is consistent throughout the experiment (see the electronic supplementary material, methods for details).…”

Section: Results (A) Development Of a Custom Worm Growthchipmentioning

confidence: 99%

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A size threshold governsCaenorhabditis elegansdevelopmental progression

Uppaluri

Brangwynne

2015

Proc. R. Soc. B.

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The growth of organisms from humans to bacteria is affected by environmental conditions. However, mechanisms governing growth and size control are not well understood, particularly in the context of changes in food availability in developing multicellular organisms. Here, we use a novel microfluidic platform to study the impact of diet on the growth and development of the nematode Caenorhabditis elegans . This device allows us to observe individual worms throughout larval development, quantify their growth as well as pinpoint the moulting transitions marking successive developmental stages. Under conditions of low food availability, worms grow very slowly, but do not moult until they have achieved a threshold size. The time spent in larval stages can be extended by over an order of magnitude, in agreement with a simple threshold size model. Thus, a critical worm size appears to trigger developmental progression, and may contribute to prolonged lifespan under dietary restriction.

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Section: Results (A) Development Of a Custom Worm Growthchipmentioning

confidence: 99%

“…One micrometre green fluorescent polystyrene beads suspended in the S-Medium supplemented with OP50 E. coli were used to visualize and quantify flow fields using PIVLab [36].…”

Section: (E) Particle Image Velocimetrymentioning

confidence: 99%

A size threshold governsCaenorhabditis elegansdevelopmental progression

Uppaluri

Brangwynne

2015

Proc. R. Soc. B.

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“…Cell motility was also studied by particle image velocimetry [39] using PIVlab 1.35 software [40] of MATLAB (The MathWorks, Natick, MA). Image sequences recorded for 255 min with Δt´= 15 min were filtered and analyzed with an interrogation window of 82 × 82 pixels with 50% overlap.…”

Section: Evaluation Of Cell Displacementsmentioning

confidence: 99%

Spatio-temporal morphology changes in and quenching effects on the 2D spreading dynamics of cell colonies in both plain and methylcellulose-containing culture media

et al. 2016

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To deal with complex systems, microscopic and global approaches become of particular interest. Our previous results from the dynamics of large cell colonies indicated that their 2D front roughness dynamics is compatible with the standard Kardar-Parisi-Zhang (KPZ) or the quenched KPZ equations either in plain or methylcellulose (MC)-containing gel culture media, respectively. In both cases, the influence of a non-uniform distribution of the colony constituents was significant. These results encouraged us to investigate the overall dynamics of those systems considering the morphology and size, the duplication rate, and the motility of single cells. For this purpose, colonies with different cell populations (N) exhibiting quasi-circular and quasi-linear growth fronts in plain and MC-containing culture media are investigated. For small N, the average radial front velocity and its change with time depend on MC concentration. MC in the medium interferes with cell mitosis, contributes to the local enlargement of cells, and increases the distribution of spatio-temporal cell density heterogeneities. Colony spreading in MC-containing media proceeds under two main quenching effects, I and II; the former mainly depending on the culture medium composition and structure and the latter caused by the distribution of enlarged local cell domains. For large N, colony spreading occurs at constant velocity. The characteristics of cell motility, assessed by measuring their trajectories and the corresponding velocity field, reflect the effect of enlarged, slowmoving cells and the structure of the medium. Local average cell size distribution and individual cell motility data from plain and MC-containing media are qualitatively consistent with the predictions of both the extended cellular Potts models and the observed transition of the front roughness dynamics from a standard KPZ to a quenched KPZ. In this case, quenching J Biol Phys (2016) 42:477-502 DOI 10.1007

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“…This velocity is found to remain uniform over a substantial region of the device until the time that the cloud runs out of dust particles. We have measured this velocity for different lowering of hill height by open PIV tool in MATLAB [5]. For subsonic flow of the dust fluid, wake fields are excited in the left side of the wire traveling at the speed of ≈ 2.30 cm/s.…”

Section: Resultsmentioning

confidence: 99%