Faculty Opinions recommendation of NMR screening and crystal quality of bacterially expressed prokaryotic and eukaryotic proteins in a structural genomics pipeline.

With the advent of structural genomics a variety of crystallization techniques have been automated and applied to high-throughput pipelines, yet seeding, which is the most common and successful optimization method, is still being performed predominantly manually. The aim of this study was to devise simple automated seeding techniques that can be applied in a routine manner using existing robots and not requiring special tools. Two alternative protocols for automated seeding experiments are described. One involves the delivery of microcrystals from stock to target wells using the robot dispensing tip as a seeding tool. The second harnesses an animal whisker as the seeding tool. Larger and better ordered crystals were obtained using both techniques.

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Improvement of eukaryotic proteins prediction from soil metagenomes

10.1101/2021.11.10.468086 ◽

2021 ◽

Author(s):

Carole Belliardo ◽

Georgios Koutsovoulos ◽

Corinne Rancurel ◽

Mathilde Clement ◽

Justine Lipuma ◽

...

Keyword(s):

Automated Analysis ◽

Metagenomic Data ◽

Analysis Pipeline ◽

Shotgun Metagenomics ◽

Assignment Method ◽

Eukaryotic Proteins ◽

Public Repositories ◽

Soil Proteins ◽

Taxonomic Annotation

Background | During the last decades, shotgun metagenomics and metabarcoding have highlighted the diversity of microorganisms from environmental or host-associated samples. Most assembled metagenome public repositories use annotation pipelines tailored for prokaryotes regardless of the taxonomic origin of contigs and metagenome-assembled genomes (MAGs). Consequently, eukaryotic contigs and MAGs, with intrinsically different gene features, are not optimally annotated, resulting in an incorrect representation of the eukaryotic component of biodiversity, despite their biological relevance. Results | Using an automated analysis pipeline, we have filtered eukaryotic contigs from 6,873 soil metagenomes from the IMG/M database of the Joint Genome Institute. We have re-annotated genes using eukaryote-tailored methods, yielding 5,6 million eukaryotic proteins. Our pipeline improves eukaryotic proteins completeness, contiguity and quality. Moreover, the better quality of eukaryotic proteins combined with a more comprehensive assignment method improves the taxonomic annotation as well. Conclusions | Using public soil metagenomic data, we provide a dataset of eukaryotic soil proteins with improved completeness and quality as well as a more reliable taxonomic annotation. This unique resource is of interest for any scientist aiming at studying the composition, biological functions and gene flux in soil communities involving eukaryotes.

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Enhanced optical crystal quality of strain-compensated InGaAs/InGaAsP quantum-well structures on GaAs substrates by the introduction of intermediate-strain layers

Compound Semiconductors 1997. Proceedings of the IEEE Twenty-Fourth International Symposium on Compound Semiconductors ◽

10.1109/iscs.1998.711573 ◽

1997 ◽

Author(s):

K. Hiramoto ◽

M. Sagawa ◽

S. Fujisaki ◽

T. Toyonaka

Keyword(s):

Quantum Well ◽

Crystal Quality ◽

Quantum Well Structures ◽

Gaas Substrates ◽

Optical Crystal

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The effect of nucleation layer thickness on the structural evolution and crystal quality of bulk GaN grown by a two-step process on cone-patterned sapphire substrate

Journal of Crystal Growth ◽

10.1016/j.jcrysgro.2016.03.008 ◽

2016 ◽

Vol 442 ◽

pp. 89-94 ◽

Cited By ~ 7

Author(s):

Lin Shang ◽

Guangmei Zhai ◽

Fuhong Mei ◽

Wei Jia ◽

Chunyan Yu ◽

...

Keyword(s):

Layer Thickness ◽

Sapphire Substrate ◽

Structural Evolution ◽

Crystal Quality ◽

Nucleation Layer ◽

Patterned Sapphire Substrate ◽

Step Process ◽

Bulk Gan

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The Effect of Modified Crucible Design and Seed Attachment on SiC Crystal Grown by PVT

Materials Science Forum ◽

10.4028/www.scientific.net/msf.740-742.77 ◽

2013 ◽

Vol 740-742 ◽

pp. 77-80

Author(s):

Jung Young Jung ◽

Sang Il Lee ◽

Mi Seon Park ◽

Doe Hyung Lee ◽

Hee Tae Lee ◽

...

Keyword(s):

Crystal Growth ◽

Temperature Gradient ◽

Single Crystals ◽

Crystal Quality ◽

Full Width ◽

Half Maximum ◽

Radial Temperature Gradient ◽

Radial Temperature ◽

Better Than

The present research was focused to investigate the effect of internal crucible design that influenced the 4H-SiC crystal growth onto a 6H-SiC seed by PVT method. The crucible design was modified to produce a uniform radial temperature gradient in the growth cell. The seed attachment was also modified with a use of polycrystalline SiC plate. The crystal quality of 4H-SiC single crystals grown in modified crucible and grown with modified seed attachment was revealed to be better than that of crystal grown in conventional crucible. The full width at half maximum (FWHM) values of grown SiC crystals in the conventional crucible, the modified seed attachment and the modified crucible were 285 arcsec, 134 arcsec and 128 arcsec, respectively. The micropipe density (MPD) of grown SiC crystals in the conventional crucible, the modified seed attachment and the modified crucible were 101ea/cm^2, 81ea/cm^2 and 42ea/cm^2, respectively.

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