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https://www.readbyqxmd.com/read/29793118/efficient-resource-recycling-from-liquid-digestate-by-microalgae-yeast-mixed-culture-and-the-assessment-of-key-gene-transcription-related-to-nitrogen-assimilation-in-microalgae
#1
Lei Qin, Lu Liu, Zhongming Wang, Weining Chen, Dong Wei
To determine the feasibility of microalgae-yeast mixed culture using the liquid digestate of dairy wastewater (LDDW) for biofuels and single cell protein (SCP) production, the cell growth, nutrient removal and outputs evaluation of the mono and mixed culture of Chlorella vulgaris and Yarrowia lipolytica in LDDW were investigated by adding glycerol as carbon source. The results showed that the mixed culture could enhance the biological utilization efficiency of nitrogen and phosphorus, and obtain higher yield of biomass (1...
May 18, 2018: Bioresource Technology
https://www.readbyqxmd.com/read/29792930/functional-genomics-for-the-oleaginous-yeast-yarrowia-lipolytica
#2
Kurt Patterson, James Yu, Jenny Landberg, Ivan Chang, Farbod Shavarebi, Virginia Bilanchone, Suzanne Sandmeyer
Oleaginous yeasts are valuable systems for biosustainable production of hydrocarbon-based chemicals. Yarrowia lipolytica is one of the best characterized of these yeast with respect to genome annotation and flux analysis of metabolic processes. Nonetheless, progress is hampered by a dearth of genome-wide tools enabling functional genomics. In order to remedy this deficiency, we developed a library of Y. lipolytica insertion mutants via transposon mutagenesis. The Hermes DNA transposon was expressed to achieve saturation mutagenesis of the genome...
May 21, 2018: Metabolic Engineering
https://www.readbyqxmd.com/read/29792897/mathematical-modeling-and-numerical-simulation-of-the-mitotic-spindle-orientation-system
#3
Bashar Ibrahim
The mitotic spindle orientation and position is crucial for the fidelity of chromosome segregation during asymmetric cell division to generate daughter cells with different sizes or fates. This mechanism is best understood in the budding yeast Saccharomyces cerevisiae, named the spindle position checkpoint (SPOC). The SPOC inhibits cells from exiting mitosis until the mitotic spindle is properly oriented along the mother-daughter polarity axis. Despite many experimental studies, the mechanisms underlying SPOC regulation remains elusive and unexplored theoretically...
May 21, 2018: Mathematical Biosciences
https://www.readbyqxmd.com/read/29792825/g1-s-transcription-factor-copy-number-is-a-growth-dependent-determinant-of-cell-cycle-commitment-in-yeast
#4
Savanna Dorsey, Sylvain Tollis, Jing Cheng, Labe Black, Stephen Notley, Mike Tyers, Catherine A Royer
To understand how commitment to cell division in late G1 phase (Start) is controlled by growth and nutrients in budding yeast, we determined the absolute concentrations of the G1/S transcription factors SBF (composed of Swi4 and Swi6) and MBF (composed of Mbp1 and Swi6), the transcriptional repressor Whi5, and the G1 cyclins, Cln1 and Cln2, in single live yeast cells using scanning number and brightness (sN&B) microscopy. In rich medium, Whi5, Mbp1, and Swi6 concentrations were independent of cell size, whereas Swi4 concentration doubled in G1 phase, leading to a size-dependent decrease in the Whi5/Swi4 ratio...
May 23, 2018: Cell Systems
https://www.readbyqxmd.com/read/29792796/nano-lc-nsi-ms-refines-lipidomics-by-enhancing-lipid-coverage-measurement-sensitivity-and-linear-dynamic-range
#5
Niklas Danne-Rasche, Cristina Coman, Robert Ahrends
Nano-liquid chromatography (nLC) - nano-electrospray (NSI) is one of the cornerstones of mass spectrometry based bioanalytics. Nevertheless, the application of nLC is not prevailing lipid analyses so far. In this study, we established a reproducible nLC separation for global lipidomics and describe the merits of using such a miniaturized system for lipid analyses. In order to enable comprehensive lipid analyses that is not restricted to specific lipid classes, we particularly optimized sample preparation conditions and reversed phase separation parameters...
May 24, 2018: Analytical Chemistry
https://www.readbyqxmd.com/read/29792588/candida-kantuleensis-sp-nov-a-d-xylose-fermenting-yeast-species-isolated-from-peat-in-a-tropical-peat-swamp-forest
#6
Sukanya Nitiyon, Pannida Khunnamwong, Noppon Lertwattanasakul, Savitree Limtong
Three strains (DMKU-XE11T , DMKU-XE15 and DMKU-XE20) representing a single novel anamorphic and d-xylose-fermenting yeast species were obtained from three peat samples collected from Khan Thulee peat swamp forest in Surat Thani province, Thailand. The strains differed from each other by one to two nucleotide substitutions in the sequences of the D1/D2 region of the large subunit (LSU) rRNA gene and zero to one nucleotide substitution in the internal transcribed spacer (ITS) region. Phylogenetic analysis based on the combined sequences of the ITS and the D1/D2 regions showed that the three strains represented a single Candida species that was distinct from the other related species in the Lodderomyces/Candida albicans clade...
May 24, 2018: International Journal of Systematic and Evolutionary Microbiology
https://www.readbyqxmd.com/read/29792161/a-website-to-identify-shared-genes-in-saccharomyces-cerevisiae-homozygous-deletion-library-screens
#7
Mark D Temple
BACKGROUND: The homozygous yeast deletion library includes approximately 4800 diploid strains each containing one deleted non-essential gene. Hundreds of publications have arisen through experimentation using this genome-wide biological resource. As part of this work over 677 genesets have been collated from these experiments representing the phenotypic responses of the library to a diverse set of chemical and physical challenges. DESCRIPTION: A website called the Saccharomyces cerevisiae Homozygous Deletion Library Tools (ScHo DeLiTo-96) has been developed with the primary goal of browsing and identifying genes shared between these responsive phenotypes (available at yeastdb...
May 23, 2018: BMC Bioinformatics
https://www.readbyqxmd.com/read/29791976/a-cipk-protein-kinase-targets-sucrose-transporter-mdsut2-2-at-ser-254-for-phosphorylation-to-enhance-salt-tolerance
#8
Qi-Jun Ma, Mei-Hong Sun, Hui Kang, Jing Lu, Chun-Xiang You, Yu-Jin Hao
Soil salinity is one of the major abiotic stressors that negatively affect crop growth and yield. Salt stress can regulate antioxidants and the accumulation of osmoprotectants. In the study, a sucrose transporter MdSUT2.2 was identified in apple. Overexpression of MdSUT2.2 gene increased salt tolerance in the transgenic apple, compared with the WT control 'Gala'. In addition, it was found that protein MdSUT2.2 was phosphorylated at Ser254 site in response to salt. A DUAL membrane yeast hybridization system through an apple cDNA library demonstrated that a protein kinase MdCIPK13 interacted with MdSUT2...
May 23, 2018: Plant, Cell & Environment
https://www.readbyqxmd.com/read/29791843/cell-cycle-regulation-of-dynamic-chromosome-association-of-the-condensin-complex
#9
Rahul Thadani, Julia Kamenz, Sebastian Heeger, Sofía Muñoz, Frank Uhlmann
Eukaryotic cells inherit their genomes in the form of chromosomes, which are formed from the compaction of interphase chromatin by the condensin complex. Condensin is a member of the structural maintenance of chromosomes (SMC) family of ATPases, large ring-shaped protein assemblies that entrap DNA to establish chromosomal interactions. Here, we use the budding yeast Saccharomyces cerevisiae to dissect the role of the condensin ATPase and its relationship with cell-cycle-regulated chromosome binding dynamics...
May 22, 2018: Cell Reports
https://www.readbyqxmd.com/read/29791811/the-putative-transient-receptor-potential-trp-channel-protein-encoded-by-the-orf19-4805-is-involved-in-cation-sensitivity-antifungal-tolerance-and-filamentation-in-candida-albicans
#10
Linghuo Jiang, Yi Yang
The ancient family of cation channels, transient receptor potential (TRP) channels, is highly conserved in eukaryotes and plays various physiological functions from sensation of ion homeostasis to reception of pain and vision. Calcium-permeable TRP channels have been identified from the plant Arabidopsis thaliana (AtCsc1) and the budding yeast Saccharomyces cerevisiae (ScCsc1), respectively. In this study, we have characterized the functions of the Csc1 homolog, the orf19.4805, in Candida albicans. The orf19...
May 23, 2018: Canadian Journal of Microbiology
https://www.readbyqxmd.com/read/29791444/correction-solving-the-influence-maximization-problem-reveals-regulatory-organization-of-the-yeast-cell-cycle
#11
(no author information available yet)
[This corrects the article DOI: 10.1371/journal.pcbi.1005591.].
May 2018: PLoS Computational Biology
https://www.readbyqxmd.com/read/29791245/pi-3-5-p-2-controls-vacuole-potassium-transport-to-support-cellular-osmoregulation
#12
Zachary N Wilson, Amber L Scott, Robin D Dowell, Greg Odorizzi
Lysosomes are dynamic organelles with critical roles in cellular physiology. The lysosomal signaling lipid phosphatidylinositol 3,5-bisphosphate (PI(3,5)P2 ) is a key regulator that has been implicated to control lysosome ion homeostasis, but the scope of ion transporters targeted by PI(3,5)P2 and the purpose of this regulation is not well understood. Through an unbiased screen in Saccharomyces cerevisiae, we identified loss-of-function mutations in the vacuolar H+ -ATPase (V-ATPase) and in Vnx1, a vacuolar monovalent cation/proton antiporter, as suppressor mutations that relieve the growth defects and osmotic swelling of vacuoles (lysosomes) in yeast lacking PI(3,5)P2 ...
May 23, 2018: Molecular Biology of the Cell
https://www.readbyqxmd.com/read/29791047/cell-surface-engineering-for-advanced-cell-therapy
#13
Jung Kyu Lee, Insung S Choi, Tong In Oh, EunAh Lee
Stem cells opened great opportunity to overcome diseases that conventional therapy had only limited success. Use of scaffolds made from biomaterials not only helps handling of stem cells for delivery or transplantation but also supports enhanced cell survival. Likewise, cell encapsulation can provide stability for living animal cells even in a state of separateness. Although various chemical reactions were tried to encapsulate stolid microbial cells such as yeasts, a culture environment for the growth of animal cells allows only highly biocompatible reactions...
May 23, 2018: Chemistry: a European Journal
https://www.readbyqxmd.com/read/29790489/inhibitory-effect-of-hop-fractions-against-gram-positive-multi-resistant-bacteria-a-pilot-study
#14
Katerina Bogdanova, Milan Kolar, Katerina Langova, Martin Dusek, Alexandr Mikyska, Vanda Bostikova, Pavel Bostik, Jana Olsovska
AIM: Our research focused on the antimicrobial effects of purified hop (Humulus lupulus L.) fractions including α-bitter acids (humulones), β-bitter acids (lupulones) and xanthohumol, and a commercial CO2 hop extract of bitter acids against reference and multi-resistant strains of Gram-positive and Gram-negative bacteria and against selected yeast strains. METHODS: In vitro testing of antimicrobial activity was performed according to standard testing protocols (EUCAST)...
May 23, 2018: Biomedical Papers of the Medical Faculty of the University Palacký, Olomouc, Czechoslovakia
https://www.readbyqxmd.com/read/29790350/glutaredoxin-deletion-shortens-chronological-life-span-in-saccharomyces-cerevisiae-via-ros-mediated-ras-pka-activation
#15
Yan Liu, Fan Yang, Siying Li, Junbiao Dai, Haiteng Deng
Glutaredoxins (GRXs), small redox proteins that use reduced glutathione (GSH) as an electron donor, are key components of the cellular antioxidant system. In this study, we used Saccharomyces cerevisiae as a model system to investigate the effects of GRX deletion on yeast chronological life span (CLS). Deletion of either Grx1 or Grx2 shortened yeast CLS. Quantitative proteomics revealed that GRX deletion decreased expression of stress-response proteins, leading to increased cellular reactive oxygen species (ROS) accumulation and, subsequently, intracellular acidification...
May 23, 2018: Journal of Proteome Research
https://www.readbyqxmd.com/read/29790175/mechanisms-of-cell-regulation-proteolysis-the-big-surprise
#16
Dieter H Wolf, Ruth Menssen
Precise regulation of cellular processes is essential for life. Concerning proteins, many regulatory mechanisms were explored over the years, such as posttranslational modifications (e.g. phosphorylation), enzyme activation or inhibition by small molecules, and modulation of protein-protein interactions. Complete removal of a protein via proteolysis as a regulatory mechanism, however, was denied for a long time, mainly due to economical considerations. Scientists could not believe that a protein which is synthesized at the expense of a lot of energy could be destroyed again...
May 22, 2018: FEBS Letters
https://www.readbyqxmd.com/read/29789819/exploring-the-cellular-uptake-and-localisation-of-phosphorescent-rhenium-fac-tricarbonyl-metallosurfactants-as-a-function-of-lipophilicity
#17
Andrew J Hallett, Emeline Placet, Roxane Prieux, Danielle McCafferty, James A Platts, David Lloyd, Marc Isaacs, Anthony J Hayes, Simon J Coles, Mateusz B Pitak, Sarah Marchant, Stephen N Marriott, Rudolf K Allemann, Athanasia Dervisi, Ian A Fallis
A systematic study of the cellular uptake of emissive complexes as a function of their lipophilicity is presented. Here a series of amphiphilic rhenium fac-tricarbonyl bisimine complexes bearing axial substituted imidazole or thiazole ligands, [Re(bpy)(CO)3(ImCnHm)]+ {n = 1 m = 3 (1+), n = 4 m = 9 (2+), n = 8 m = 17 (3+), n = 12 m = 25 (4+), n = 16 m = 33 (5+), n = 2 m = 3 (6+); bpy = 2,2'-bipyridine, Im = imidazole} and [Re(bpy)(CO)3(L)]+ {L = 1-mesitylimidazole, ImMes (7+), 4,5-dimethylthiazole, dmt (8+) and 4-methyl-5-thiazole-ethanol, mte (9+)} is reported...
May 23, 2018: Dalton Transactions: An International Journal of Inorganic Chemistry
https://www.readbyqxmd.com/read/29789594/in-vitro-dna-scramble
#18
Yi Wu, Rui-Ying Zhu, Leslie A Mitchell, Lu Ma, Rui Liu, Meng Zhao, Bin Jia, Hui Xu, Yun-Xiang Li, Zu-Ming Yang, Yuan Ma, Xia Li, Hong Liu, Duo Liu, Wen-Hai Xiao, Xiao Zhou, Bing-Zhi Li, Ying-Jin Yuan, Jef D Boeke
The power of synthetic biology has enabled the expression of heterologous pathways in cells, as well as genome-scale synthesis projects. The complexity of biological networks makes rational de novo design a grand challenge. Introducing features that confer genetic flexibility is a powerful strategy for downstream engineering. Here we develop an in vitro method of DNA library construction based on structural variation to accomplish this goal. The "in vitro SCRaMbLE system" uses Cre recombinase mixed in a test tube with purified DNA encoding multiple loxPsym sites...
May 22, 2018: Nature Communications
https://www.readbyqxmd.com/read/29789590/heterozygous-diploid-and-interspecies-scrambleing
#19
Michael J Shen, Yi Wu, Kun Yang, Yunxiang Li, Hui Xu, Haoran Zhang, Bing-Zhi Li, Xia Li, Wen-Hai Xiao, Xiao Zhou, Leslie A Mitchell, Joel S Bader, Yingjin Yuan, Jef D Boeke
SCRaMbLE (Synthetic Chromosome Rearrangement and Modification by LoxP-mediated Evolution) is a genome restructuring technique that can be used in synthetic genomes such as that of Sc2.0, the synthetic yeast genome, which contains hundreds to thousands of strategically positioned loxPsym sites. SCRaMbLE has been used to induce rearrangements in yeast strains harboring one or more synthetic chromosomes, as well as plasmid DNA in vitro and in vivo. Here we describe a collection of heterozygous diploid strains produced by mating haploid semisynthetic Sc2...
May 22, 2018: Nature Communications
https://www.readbyqxmd.com/read/29789567/precise-control-of-scramble-in-synthetic-haploid-and-diploid-yeast
#20
Bin Jia, Yi Wu, Bing-Zhi Li, Leslie A Mitchell, Hong Liu, Shuo Pan, Juan Wang, Hao-Ran Zhang, Nan Jia, Bo Li, Michael Shen, Ze-Xiong Xie, Duo Liu, Ying-Xiu Cao, Xia Li, Xiao Zhou, Hao Qi, Jef D Boeke, Ying-Jin Yuan
Compatibility between host cells and heterologous pathways is a challenge for constructing organisms with high productivity or gain of function. Designer yeast cells incorporating the Synthetic Chromosome Rearrangement and Modification by LoxP-mediated Evolution (SCRaMbLE) system provide a platform for generating genotype diversity. Here we construct a genetic AND gate to enable precise control of the SCRaMbLE method to generate synthetic haploid and diploid yeast with desired phenotypes. The yield of carotenoids is increased to 1...
May 22, 2018: Nature Communications
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