Crystal structure of the flexible tandem repeat domain of bacterial cellulose synthesis subunit C

Nojima, Shingo; Fujishima, Atsushi; Kato, Kuniki; Ohuchi, Kayoko; Yonezawa, Kazuya; Tajima, Kenji; Yao, Min

doi:10.1038/s41598-017-12530-0

Cited by 32 publications

(31 citation statements)

References 49 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…An interesting approach using the CUBIC clearing 52 , describes a clearing and imaging method, compatible with immunohistochemistry and standard histology after rehydration. Applied to specimen of up to 5 mm in size, it produced imaging results of anatomical structures in the lung (alveoli) and lymph-nodes (nodules).…”

Section: Discussionmentioning

confidence: 99%

3D histopathology of human tumours by fast clearing and ultramicroscopy

Sabdyusheva-Litschauer

Becker

Saghafi

et al. 2020

Sci Rep

View full text Add to dashboard Cite

Here, we describe a novel approach that allows pathologists to three-dimensionally analyse malignant tissues, including the tumour-host tissue interface. Our visualization technique utilizes a combination of ultrafast chemical tissue clearing and light-sheet microscopy to obtain virtual slices and 3D reconstructions of up to multiple centimetre sized tumour resectates. For the clearing of tumours we propose a preparation technique comprising three steps: (a) Fixation and enhancement of tissue autofluorescence with formalin/5-sulfosalicylic acid. (b) Ultrafast active chemical dehydration with 2,2-dimethoxypropane and (c) refractive index matching with dibenzyl ether at up to 56 °C. After clearing, the tumour resectates are imaged. The images are computationally post-processed for contrast enhancement and artefact removal and then 3D reconstructed. Importantly, the sequence a–c is fully reversible, allowing the morphological correlation of one and the same histological structures, once visualized with our novel technique and once visualized by standard H&E- and IHC-staining. After reverting the clearing procedure followed by standard H&E processing, the hallmarks of ductal carcinoma in situ (DCIS) found in the cleared samples could be successfully correlated with the corresponding structures present in H&E and IHC staining. Since the imaging of several thousands of optical sections is a fast process, it is possible to analyse a larger part of the tumour than by mechanical slicing. As this also adds further information about the 3D structure of malignancies, we expect that our technology will become a valuable addition for histological diagnosis in clinical pathology.

show abstract

Section: Discussionmentioning

confidence: 99%

3D histopathology of human tumours by fast clearing and ultramicroscopy

Sabdyusheva-Litschauer

Becker

Saghafi

et al. 2020

Sci Rep

View full text Add to dashboard Cite

show abstract

“…Subunits A and B (BcsA and BcsB) are responsible for β-glucan chain formation (Römling and Galperin 2015; Morgan et al 2016). The role of the other two subunits (BcsC and BcsD), which influence the efficiency of cellulose synthesis, is still unclear (Saxena et al 1994; Hu et al 2010; Iyer et al 2011; Du et al 2016; Nojima et al 2017). The genes that encode the subunits of BCS form an operon ( bcsABCD ) and are flanked by the genes encoding endo-β-1,4-glucanase (CMCAx), the cellulose complementing factor (CcpAx) and β-glucosidase (BglAx), which influence the process of cellulose synthesis (Jedrzejczak-Krzepkowska et al 2016).…”

Section: Introductionmentioning

confidence: 99%

Effect of ethanol supplementation on the transcriptional landscape of bionanocellulose producer Komagataeibacter xylinus E25

Ryngajłło

Jacek

Cielecka

et al. 2019

Appl Microbiol Biotechnol

View full text Add to dashboard Cite

Ethanol exerts a strong positive effect on the cellulose yields from the widely exploited microbial producers of the Komagataeibacter genus. Ethanol is postulated to provide an alternative energy source, enabling effective use of glucose for cellulose biosynthesis rather than for energy acquisition. In this paper, we investigate the effect of ethanol supplementation on the global gene expression profile of Komagataeibacter xylinus E25 using RNA sequencing technology (RNA-seq). We demonstrate that when ethanol is present in the culture medium, glucose metabolism is directed towards cellulose production due to the induction of genes related to UDP-glucose formation and the repression of genes involved in glycolysis and acetan biosynthesis. Transcriptional changes in the pathways of cellulose biosynthesis and c-di-GMP metabolism are also described. The transcript level profiles suggest that Schramm-Hestrin medium supplemented with ethanol promotes bacterial growth by inducing protein biosynthesis and iron uptake. We observed downregulation of genes encoding transposases of the IS 110 family which may provide one line of evidence explaining the positive effect of ethanol supplementation on the genotypic stability of K. xylinus E25. The results of this study increase knowledge and understanding of the regulatory effects imposed by ethanol on cellulose biosynthesis, providing new opportunities for directed strain improvement, scaled-up bionanocellulose production, and wider industrial exploitation of the Komagataeibacter species as bacterial cellulose producers. Electronic supplementary material The online version of this article (10.1007/s00253-019-09904-x) contains supplementary material, which is available to authorized users.

show abstract

“…It has been reported that A. thaliana FLO2 is involved in the regulation of translocation and transport of assimilates and in quality control of substance supply or transfer (Kihira et al 2017). The TPR motif has been shown to exhibit great flexibility and variability in terms of its substrate specificity (Nojima et al 2017). FLOC1 was absent in leaves, and, therefore, it was expected that FLO2 would interact with other factors.…”

Section: Discussionmentioning

confidence: 99%

A novel FLOURY ENDOSPERM2 (FLO2)-interacting protein, is involved in maintaining fertility and seed quality in rice

Suzuki

Imamura

Nonaga

et al. 2020

Plant Biotechnology

View full text Add to dashboard Cite

Crop plants accumulate a large amount of storage starch and storage proteins in the endosperm. Genes involved in the biosynthesis of these substances work in concert during development of the rice endosperm. The rice flo2 mutant produces aberrant seeds with reduced grain quality. FLOURRY ENDOSPERM 2 (FLO2), the causative gene of the flo2 mutant, is considered to be a regulatory protein that controls the biosynthesis of seed storage substances. FLO2 contains tetratricopeptide repeat (TPR) motifs that may mediate protein-protein interactions. In this study, we identified the protein that interacts with the TPR motif of FLO2. We generated a transformant that produced the FLAG-tagged fusion FLO2 protein in the flo2 mutant and used this in the shotgun proteomic analysis. A protein, which we named FLOC1, interacted with FLO2. In vitro pull-down assays indicated that the TPR motif was involved in this interaction. A knockdown transformant of FLOC1 showed significantly reducted fertility and generation of seeds with abnormal features. These findings suggest that FLOC1 is involved not only in seed fertility but also in seed quality. These phenotypes were also observed on the RNAi transformants of the flo2 mutant although the effect of the flo2 mutation remained. these findings imply that there is a difference in the functions of FLO2 and FLOC1 although both of appear to be involved in the control of seed quality during seed formation.

show abstract

Crystal structure of the flexible tandem repeat domain of bacterial cellulose synthesis subunit C

Cited by 32 publications

References 49 publications

3D histopathology of human tumours by fast clearing and ultramicroscopy

3D histopathology of human tumours by fast clearing and ultramicroscopy

Effect of ethanol supplementation on the transcriptional landscape of bionanocellulose producer Komagataeibacter xylinus E25

A novel FLOURY ENDOSPERM2 (FLO2)-interacting protein, is involved in maintaining fertility and seed quality in rice

Contact Info

Product

Resources

About