title: Reconstruction and applications of consensus yeast metabolic network based on RNA sequencing.
abstract: One practical application of genome-scale metabolic reconstructions is to interrogate multispecies relationships. Here, we report a consensus metabolic model in four yeast species (Saccharomyces cerevisiae, S. paradoxus, S. mikatae, and S. bayanus) by integrating metabolic network simulations with RNA sequencing (RNA-seq) datasets. We generated high-resolution transcriptome maps of four yeast species through de novo assembly and genome-guided approaches. The transcriptomes were annotated and applied to build the consensus metabolic network, which was verified using independent RNA-seq experiments. The expression profiles reveal that the genes involved in amino acid and lipid metabolism are highly coexpressed. The diverse phenotypic characteristics, such as cellular growth and gene deletions, can be simulated using the metabolic model. We also explored the applications of the consensus model in metabolic engineering using yeast-specific reactions and biofuel production as examples. Similar strategies will benefit communities studying genome-scale metabolic networks of other organisms.
authors.affiliation: State Key Laboratory of Genetic Resources and Evolution Kunming Institute of Zoology Chinese Academy of Sciences Yunnan China.
authors.forename: Yuqi
authors.initials: Y
authors.lastname: Zhao
authors.affiliation: Key Laboratory of Animal Models and Human Disease Mechanisms of Chinese Academy of Sciences and Yunnan Province Kunming Institute of Zoology Chinese Academy of Sciences Yunnan China.
authors.forename: Yanjie
authors.initials: Y
authors.lastname: Wang
authors.affiliation: Department of General Surgery First People's Hospital of Yunnan Province Kunming China.
authors.forename: Lei
authors.initials: L
authors.lastname: Zou
authors.affiliation: State Key Laboratory of Genetic Resources and Evolution Kunming Institute of Zoology Chinese Academy of Sciences Yunnan China; Collaborative Innovation Center for Natural Products and Biological Drugs of Yunnan Kunming Yunnan China.
authors.forename: Jingfei
authors.initials: J
authors.lastname: Huang
keywords: RNA sequencing; Saccharomyces species; metabolic engineering; metabolic network