Results 71 to 80 of about 297,984 (312)

Cell geometry and membrane protein crowding constrain Escherichia coli growth rate, overflow metabolism, respiration, and maintenance energy

FEBS Letters, EarlyView.
The physical dimensions and shape of bacterial cells define the surface area available to acquire nutrients and the volume available for synthesizing proteins and DNA. Here, we use computational systems biology to decode the importance of cell geometry as a major determinant of prokaryotic phenotype, including growth rate and metabolic efficiency. This
Ross P. Carlson, Tomáš Gedeon, Mauricio Garcia Benitez, Campbell Putnam, William R. Harcombe, Radhakrishnan Mahadevan, Ashley E. Beck   +6 more
wiley   +1 more source

Mind the Gap: Mapping Mass Spectral Databases in Genome-Scale Metabolic Networks Reveals Poorly Covered Areas

Metabolites, 2018
The use of mass spectrometry-based metabolomics to study human, plant and microbial biochemistry and their interactions with the environment largely depends on the ability to annotate metabolite structures by matching mass spectral features of the ...
Clément Frainay, Emma L. Schymanski, Steffen Neumann, Benjamin Merlet, Reza M. Salek, Fabien Jourdan, Oscar Yanes   +6 more
doaj   +1 more source

Age-Related Changes in Topological Properties of Individual Brain Metabolic Networks in Rats

Frontiers in Aging Neuroscience, 2022
Normal aging causes profound changes of structural degeneration and glucose hypometabolism in the human brain, even in the absence of disease. In recent years, with the extensive exploration of the topological characteristics of the human brain, related ...
Xin Xue, Jia-Jia Wu, Bei-Bei Huo, Xiang-Xin Xing, Xiang-Xin Xing, Jie Ma, Yu-Lin Li, Dong Wei, Yu-Jie Duan, Chun-Lei Shan, Chun-Lei Shan, Chun-Lei Shan, Mou-Xiong Zheng, Mou-Xiong Zheng, Xu-Yun Hua, Xu-Yun Hua, Jian-Guang Xu, Jian-Guang Xu, Jian-Guang Xu   +18 more
doaj   +1 more source

Control of fluxes in metabolic networks [PDF]

Genome Research, 2016
Understanding the control of large-scale metabolic networks is central to biology and medicine. However, existing approaches either require specifying a cellular objective or can only be used for small networks. We introduce new coupling types describing the relations between reaction activities, and develop an efficient computational framework, which ...
Basler, Georg, Nikoloski, Zoran, Larhlimi, Abdelhalim, Barabási, Albert-László, Liu, Yang-Yu   +4 more
openaire   +4 more sources

Hypergraph models of metabolism [PDF]

, 2014
In this paper, we employ a directed hypergraph model to investigate the extent to which environmental variability influences the set of available biochemical reactions within a living cell.
Crofts, JJ, Chuzhanova, N, Pearcy, N
core  

Pan-cancer analysis of the metabolic reaction network [PDF]

, 2020
Metabolic reprogramming is considered a hallmark of malignant transformation. However, it is not clear whether the network of metabolic reactions expressed by cancers of different origin differ from each other or from normal human tissues. In this study,
Gatto, Francesco, Ferreira, Raphael, Ferreira, Raphael,, Nielsen, Jens B, Nielsen, Jens B,, Gatto, Francesco,   +5 more
core   +1 more source

Microbiome−host proteostasis crosstalk—An emerging perspective on mechanisms and interventions toward healthy longevity

FEBS Letters, EarlyView.
Proteostasis and the gut microbiota play a key role in shaping host physiology. Microbiota‐derived metabolites, vitamins, and RNA modulate host proteostasis. Findings from model systems, including C. elegans, indicate microbes can either stabilize or disrupt host proteostasis.
Abhishek Anil Dubey, Maria Ermolaeva
wiley   +1 more source

A Review of Genomic, Transcriptomic, and Proteomic Applications in Edible Fungi Biology: Current Status and Future Directions

Journal of Fungi
Edible fungi, a group of globally significant macrofungi, are highly valued for their unique flavors and substantial nutritional and medicinal properties.
Muyun Xie, Jing Wang, Feixiang Wang, Jinfeng Wang, Yunjin Yan, Kun Feng, Baixiong Chen   +6 more
doaj   +1 more source

Reconstruction of an in silico metabolic model of _Arabidopsis thaliana_ through database integration [PDF]

, 2009
The number of genome-scale metabolic models has been rising quickly in recent years, and the scope of their utilization encompasses a broad range of applications from metabolic engineering to biological discovery.
Karin Radrich, Albert Gevorgyan, Yoshimasa Tsuruoka, Jean-Marc Schwartz, Neil Swainston, Paul Dobson   +5 more
core   +1 more source

Metabolic network changes during skotomorphogenesis in Arabidopsis thaliana mutant (atdfb‐3)

Plant Direct, 2022
The metabolic networks underlying skotomorphogenesis in seedlings remain relatively unknown. On the basis of our previous study on the folate metabolism in seedlings grown in darkness, the plastidial folylpolyglutamate synthetase gene (AtDFB) T‐DNA ...
Xingjuan Li, Hongyan Meng, Liqing Liu, Cuiyun Hong, Chunyi Zhang   +4 more
doaj   +1 more source