Accessing select properties of the electron with ImageJ: an open-source image-processing paradigm

Alam, Junaid; Shaheen, Amrozia; Anwar, Muhammad Sabieh

doi:10.1088/0143-0807/35/1/015011

Cited by 9 publications

(8 citation statements)

References 19 publications

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“…The mesentery vascular morphology was captured in two parts. First, vessel tortuosity was captured by hand using a network reconstruction tool ImageJ . This tool allows users to carefully trace the vascular topology, obtaining vessel connectivity's and lengths.…”

Section: Resultsmentioning

confidence: 99%

Hematocrit Distribution and Tissue Oxygenation in Large Microcirculatory Networks

2015

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A simple, novel biphasic blood flow model is introduced with equal or better predictive power when applied to historic raw data sets. It can overcome limitations of prior models pertaining to trifurcations, anastomoses, and loops. This new plasma-skimming law eases the computations of bulk blood flow and hematocrit fields in large microcirculatory networks and converges faster than prior procedures.

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Section: Resultsmentioning

confidence: 99%

Hematocrit Distribution and Tissue Oxygenation in Large Microcirculatory Networks

2015

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“…The plates were developed with a solvent system of ethyl acetate/butanone/formic acid/water in a volume ratio of 5:3:1:1 in a closed TLC chamber and were developed using standard visualization techniques or agents: UV fluorescence (254 nm) or by staining with 10% (v/v) H 2 SO 4 and subsequent charring. If no glucoside standard was available, acceptor and product spot intensities were processed and quantified using ImageJ (Alam et al, ). β‐glucogallin and gallic acid were simultaneously detected with the method of (Takemoto and Davies, ) using a Prevail Organic Acids column (5 μm, Grace, USA) at 30°C and a Varian HPLC system (Agilent technologies, CA).…”

Section: Methodsmentioning

confidence: 99%

Development of an in vivo glucosylation platform by coupling production to growth: Production of phenolic glucosides by a glycosyltransferase of Vitis vinifera

Bruyn

Paepe

Maertens

et al. 2015

Biotech & Bioengineering

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Glycosylation of small molecules can significantly alter their properties such as solubility, stability, and/or bioactivity, making glycosides attractive and highly demanded compounds. Consequently, many biotechnological glycosylation approaches have been developed, with enzymatic synthesis and whole-cell biocatalysis as the most prominent techniques. However, most processes still suffer from low yields, production rates and inefficient UDP-sugar formation. To this end, a novel metabolic engineering strategy is presented for the in vivo glucosylation of small molecules in Escherichia coli W. This strategy focuses on the introduction of an alternative sucrose metabolism using sucrose phosphorylase for the direct and efficient generation of glucose 1-phosphate as precursor for UDP-glucose formation and fructose, which serves as a carbon source for growth. By targeted gene deletions, a split metabolism is created whereby glucose 1-phosphate is rerouted from the glycolysis to product formation (i.e., glucosylation). Further, the production pathway was enhanced by increasing and preserving the intracellular UDP-glucose pool. Expression of a versatile glucosyltransferase from Vitis vinifera (VvGT2) enabled the strain to efficiently produce 14 glucose esters of various hydroxycinnamates and hydroxybenzoates with conversion yields up to 100%. To our knowledge, this fast growing (and simultaneously producing) E. coli mutant is the first versatile host described for the glucosylation of phenolic acids in a fermentative way using only sucrose as a cheap and sustainable carbon source.

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“…The mobile phase for detecting the various flavonols and corresponding glycosides consisted of an ethyl acetate:acetic acid:formic acid:water (100:11:11:27 v/v) mixture [ 63 ]. Product spot intensities of other flavonol glycosides were processed and quantified using ImageJ [ 64 ]. HPLC quantification of sucrose, fructose and glucose was performed using an X-bridge Amide column (35 μm, Waters, USA) as described previously [ 45 ].…”

Section: Methodsmentioning

confidence: 99%

Metabolic engineering of Escherichia coli into a versatile glycosylation platform: production of bio-active quercetin glycosides

et al. 2015

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BackgroundFlavonoids are bio-active specialized plant metabolites which mainly occur as different glycosides. Due to the increasing market demand, various biotechnological approaches have been developed which use Escherichia coli as a microbial catalyst for the stereospecific glycosylation of flavonoids. Despite these efforts, most processes still display low production rates and titers, which render them unsuitable for large-scale applications.ResultsIn this contribution, we expanded a previously developed in vivo glucosylation platform in E. coli W, into an efficient system for selective galactosylation and rhamnosylation. The rational of the novel metabolic engineering strategy constitutes of the introduction of an alternative sucrose metabolism in the form of a sucrose phosphorylase, which cleaves sucrose into fructose and glucose 1-phosphate as precursor for UDP-glucose. To preserve these intermediates for glycosylation purposes, metabolization reactions were knocked-out. Due to the pivotal role of UDP-glucose, overexpression of the interconverting enzymes galE and MUM4 ensured the formation of both UDP-galactose and UDP-rhamnose, respectively. By additionally supplying exogenously fed quercetin and overexpressing a flavonol galactosyltransferase (F3GT) or a rhamnosyltransferase (RhaGT), 0.94 g/L hyperoside (quercetin 3-O-galactoside) and 1.12 g/L quercitrin (quercetin 3-O-rhamnoside) could be produced, respectively. In addition, both strains showed activity towards other promising dietary flavonols like kaempferol, fisetin, morin and myricetin.ConclusionsTwo E. coli W mutants were engineered that could effectively produce the bio-active flavonol glycosides hyperoside and quercitrin starting from the cheap substrates sucrose and quercetin. This novel fermentation-based glycosylation strategy will allow the economically viable production of various glycosides.Electronic supplementary materialThe online version of this article (doi:10.1186/s12934-015-0326-1) contains supplementary material, which is available to authorized users.

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Accessing select properties of the electron with ImageJ: an open-source image-processing paradigm

Cited by 9 publications

References 19 publications

Hematocrit Distribution and Tissue Oxygenation in Large Microcirculatory Networks

Hematocrit Distribution and Tissue Oxygenation in Large Microcirculatory Networks

Development of an in vivo glucosylation platform by coupling production to growth: Production of phenolic glucosides by a glycosyltransferase of Vitis vinifera

Metabolic engineering of Escherichia coli into a versatile glycosylation platform: production of bio-active quercetin glycosides

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