title: Network analysis of postharvest senescence process in citrus fruits revealed by transcriptomic and metabolomic profiling.
abstract: Citrus (Citrus spp.), a nonclimacteric fruit, is one of the most important fruit crops in global fruit industry. However, the biological behavior of citrus fruit ripening and postharvest senescence remains unclear. To better understand the senescence process of citrus fruit, we analyzed data sets from commercial microarrays, gas chromatography-mass spectrometry, and liquid chromatography-mass spectrometry and validated physiological quality detection of four main varieties in the genus Citrus. Network-based approaches of data mining and modeling were used to investigate complex molecular processes in citrus. The Citrus Metabolic Pathway Network and correlation networks were constructed to explore the modules and relationships of the functional genes/metabolites. We found that the different flesh-rind transport of nutrients and water due to the anatomic structural differences among citrus varieties might be an important factor that influences fruit senescence behavior. We then modeled and verified the citrus senescence process. As fruit rind is exposed directly to the environment, which results in energy expenditure in response to biotic and abiotic stresses, nutrients are exported from flesh to rind to maintain the activity of the whole fruit. The depletion of internal substances causes abiotic stresses, which further induces phytohormone reactions, transcription factor regulation, and a series of physiological and biochemical reactions.
authors: Key Laboratory of Horticultural Plant Biology (Ministry of Education) and Key Laboratory of Horticultural Crop Biology and Genetic Improvement, Central Region (Ministry of Agriculture), Wuhan 430070, China (Y.D., Q.M., S.L., S.J., J.H., R.X., A.Z., Y.L., J.X., Q.X., Y.Z., X.D., Y.C.); andAgricultural Bioinformatics Key Laboratory of Hubei Province, College of Information, Huazhong Agricultural University, Wuhan 430070, China (J.C., L.C., J.G.).
authors: Yuduan
authors: Y
authors: Ding
authors: Key Laboratory of Horticultural Plant Biology (Ministry of Education) and Key Laboratory of Horticultural Crop Biology and Genetic Improvement, Central Region (Ministry of Agriculture), Wuhan 430070, China (Y.D., Q.M., S.L., S.J., J.H., R.X., A.Z., Y.L., J.X., Q.X., Y.Z., X.D., Y.C.); andAgricultural Bioinformatics Key Laboratory of Hubei Province, College of Information, Huazhong Agricultural University, Wuhan 430070, China (J.C., L.C., J.G.).
authors: Jiwei
authors: J
authors: Chang
authors: Key Laboratory of Horticultural Plant Biology (Ministry of Education) and Key Laboratory of Horticultural Crop Biology and Genetic Improvement, Central Region (Ministry of Agriculture), Wuhan 430070, China (Y.D., Q.M., S.L., S.J., J.H., R.X., A.Z., Y.L., J.X., Q.X., Y.Z., X.D., Y.C.); andAgricultural Bioinformatics Key Laboratory of Hubei Province, College of Information, Huazhong Agricultural University, Wuhan 430070, China (J.C., L.C., J.G.).
authors: Qiaoli
authors: Q
authors: Ma
authors: Key Laboratory of Horticultural Plant Biology (Ministry of Education) and Key Laboratory of Horticultural Crop Biology and Genetic Improvement, Central Region (Ministry of Agriculture), Wuhan 430070, China (Y.D., Q.M., S.L., S.J., J.H., R.X., A.Z., Y.L., J.X., Q.X., Y.Z., X.D., Y.C.); andAgricultural Bioinformatics Key Laboratory of Hubei Province, College of Information, Huazhong Agricultural University, Wuhan 430070, China (J.C., L.C., J.G.).
authors: Lingling
authors: L
authors: Chen
authors: Key Laboratory of Horticultural Plant Biology (Ministry of Education) and Key Laboratory of Horticultural Crop Biology and Genetic Improvement, Central Region (Ministry of Agriculture), Wuhan 430070, China (Y.D., Q.M., S.L., S.J., J.H., R.X., A.Z., Y.L., J.X., Q.X., Y.Z., X.D., Y.C.); andAgricultural Bioinformatics Key Laboratory of Hubei Province, College of Information, Huazhong Agricultural University, Wuhan 430070, China (J.C., L.C., J.G.).
authors: Shuzhen
authors: S
authors: Liu
authors: Key Laboratory of Horticultural Plant Biology (Ministry of Education) and Key Laboratory of Horticultural Crop Biology and Genetic Improvement, Central Region (Ministry of Agriculture), Wuhan 430070, China (Y.D., Q.M., S.L., S.J., J.H., R.X., A.Z., Y.L., J.X., Q.X., Y.Z., X.D., Y.C.); andAgricultural Bioinformatics Key Laboratory of Hubei Province, College of Information, Huazhong Agricultural University, Wuhan 430070, China (J.C., L.C., J.G.).
authors: Shuai
authors: S
authors: Jin
authors: Key Laboratory of Horticultural Plant Biology (Ministry of Education) and Key Laboratory of Horticultural Crop Biology and Genetic Improvement, Central Region (Ministry of Agriculture), Wuhan 430070, China (Y.D., Q.M., S.L., S.J., J.H., R.X., A.Z., Y.L., J.X., Q.X., Y.Z., X.D., Y.C.); andAgricultural Bioinformatics Key Laboratory of Hubei Province, College of Information, Huazhong Agricultural University, Wuhan 430070, China (J.C., L.C., J.G.).
authors: Jingwen
authors: J
authors: Han
authors: Key Laboratory of Horticultural Plant Biology (Ministry of Education) and Key Laboratory of Horticultural Crop Biology and Genetic Improvement, Central Region (Ministry of Agriculture), Wuhan 430070, China (Y.D., Q.M., S.L., S.J., J.H., R.X., A.Z., Y.L., J.X., Q.X., Y.Z., X.D., Y.C.); andAgricultural Bioinformatics Key Laboratory of Hubei Province, College of Information, Huazhong Agricultural University, Wuhan 430070, China (J.C., L.C., J.G.).
authors: Rangwei
authors: R
authors: Xu
authors: Key Laboratory of Horticultural Plant Biology (Ministry of Education) and Key Laboratory of Horticultural Crop Biology and Genetic Improvement, Central Region (Ministry of Agriculture), Wuhan 430070, China (Y.D., Q.M., S.L., S.J., J.H., R.X., A.Z., Y.L., J.X., Q.X., Y.Z., X.D., Y.C.); andAgricultural Bioinformatics Key Laboratory of Hubei Province, College of Information, Huazhong Agricultural University, Wuhan 430070, China (J.C., L.C., J.G.).
authors: Andan
authors: A
authors: Zhu
authors: Key Laboratory of Horticultural Plant Biology (Ministry of Education) and Key Laboratory of Horticultural Crop Biology and Genetic Improvement, Central Region (Ministry of Agriculture), Wuhan 430070, China (Y.D., Q.M., S.L., S.J., J.H., R.X., A.Z., Y.L., J.X., Q.X., Y.Z., X.D., Y.C.); andAgricultural Bioinformatics Key Laboratory of Hubei Province, College of Information, Huazhong Agricultural University, Wuhan 430070, China (J.C., L.C., J.G.).
authors: Jing
authors: J
authors: Guo
authors: Key Laboratory of Horticultural Plant Biology (Ministry of Education) and Key Laboratory of Horticultural Crop Biology and Genetic Improvement, Central Region (Ministry of Agriculture), Wuhan 430070, China (Y.D., Q.M., S.L., S.J., J.H., R.X., A.Z., Y.L., J.X., Q.X., Y.Z., X.D., Y.C.); andAgricultural Bioinformatics Key Laboratory of Hubei Province, College of Information, Huazhong Agricultural University, Wuhan 430070, China (J.C., L.C., J.G.).
authors: Yi
authors: Y
authors: Luo
authors: Key Laboratory of Horticultural Plant Biology (Ministry of Education) and Key Laboratory of Horticultural Crop Biology and Genetic Improvement, Central Region (Ministry of Agriculture), Wuhan 430070, China (Y.D., Q.M., S.L., S.J., J.H., R.X., A.Z., Y.L., J.X., Q.X., Y.Z., X.D., Y.C.); andAgricultural Bioinformatics Key Laboratory of Hubei Province, College of Information, Huazhong Agricultural University, Wuhan 430070, China (J.C., L.C., J.G.).
authors: Juan
authors: J
authors: Xu
authors: Key Laboratory of Horticultural Plant Biology (Ministry of Education) and Key Laboratory of Horticultural Crop Biology and Genetic Improvement, Central Region (Ministry of Agriculture), Wuhan 430070, China (Y.D., Q.M., S.L., S.J., J.H., R.X., A.Z., Y.L., J.X., Q.X., Y.Z., X.D., Y.C.); andAgricultural Bioinformatics Key Laboratory of Hubei Province, College of Information, Huazhong Agricultural University, Wuhan 430070, China (J.C., L.C., J.G.).
authors: Qiang
authors: Q
authors: Xu
authors: Key Laboratory of Horticultural Plant Biology (Ministry of Education) and Key Laboratory of Horticultural Crop Biology and Genetic Improvement, Central Region (Ministry of Agriculture), Wuhan 430070, China (Y.D., Q.M., S.L., S.J., J.H., R.X., A.Z., Y.L., J.X., Q.X., Y.Z., X.D., Y.C.); andAgricultural Bioinformatics Key Laboratory of Hubei Province, College of Information, Huazhong Agricultural University, Wuhan 430070, China (J.C., L.C., J.G.).
authors: YunLiu
authors: Y
authors: Zeng
authors: Key Laboratory of Horticultural Plant Biology (Ministry of Education) and Key Laboratory of Horticultural Crop Biology and Genetic Improvement, Central Region (Ministry of Agriculture), Wuhan 430070, China (Y.D., Q.M., S.L., S.J., J.H., R.X., A.Z., Y.L., J.X., Q.X., Y.Z., X.D., Y.C.); andAgricultural Bioinformatics Key Laboratory of Hubei Province, College of Information, Huazhong Agricultural University, Wuhan 430070, China (J.C., L.C., J.G.).
authors: Xiuxin
authors: X
authors: Deng
authors: Key Laboratory of Horticultural Plant Biology (Ministry of Education) and Key Laboratory of Horticultural Crop Biology and Genetic Improvement, Central Region (Ministry of Agriculture), Wuhan 430070, China (Y.D., Q.M., S.L., S.J., J.H., R.X., A.Z., Y.L., J.X., Q.X., Y.Z., X.D., Y.C.); andAgricultural Bioinformatics Key Laboratory of Hubei Province, College of Information, Huazhong Agricultural University, Wuhan 430070, China (J.C., L.C., J.G.) yjcheng@mail.hzau.edu.cn.
authors: Yunjiang
authors: http://orcid.org/0000-0002-9159-9455
authors: Y
authors: Cheng
mesh_terms: D005075:Biological Evolution; D002853:Chromatography, Liquid; D002957:Citrus / Q000033:anatomy & histology / Q000235:genetics* / Q000254:growth & development* / Q000378:metabolism; D016000:Cluster Analysis; D005638:Fruit / Q000187:drug effects / Q000235:genetics* / Q000254:growth & development* / Q000378:metabolism; D008401:Gas Chromatography-Mass Spectrometry; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant / Q000187:drug effects; D053263:Gene Regulatory Networks / Q000187:drug effects; D017343:Genes, Plant; D026901:Membrane Transport Proteins / Q000378:metabolism; D053858:Metabolic Networks and Pathways / Q000187:drug effects / Q000235:genetics; D055442:Metabolome / Q000235:genetics; D055432:Metabolomics; D008954:Models, Biological; D020411:Oligonucleotide Array Sequence Analysis; D010937:Plant Growth Regulators / Q000494:pharmacology; D010940:Plant Proteins / Q000235:genetics / Q000378:metabolism; D014157:Transcription Factors / Q000378:metabolism
chemical_list: D026901:Membrane Transport Proteins; D010937:Plant Growth Regulators; D010940:Plant Proteins; D014157:Transcription Factors