title: Transcriptome profiles reveal gene regulation of peanut (Arachis hypogaea L.) nodulation.
abstract: The molecular mechanisms of symbiosis in cultivated peanut with a 'crack entry' infection process are largely understudied. In this study, we investigated the root transcriptional profiles of two pairs of non-nodulating (nod-) and nodulating (nod+) sister inbred peanut lines, E4/E5 and E7/E6, and their nod+ parents, F487A and PI262090 during rhizobial infection and nodule initiation by using RNA-seq technology. A total of 143, 101, 123, 215, 182, and 289 differentially expressed genes (DEGs) were identified in nod- E4, E7 and nod+ E5, E6, F487A, and PI262090 after inoculation with Bradyrhizobium sp. Different deficiencies at upstream of symbiotic signaling pathway were revealed in the two nod- genotypes. DEGs specific in nod+ genotypes included orthologs to some known symbiotic signaling pathway genes, such as NFR5, NSP2, NIN, ERN1, and many other novel and/or functionally unknown genes. Gene ontology (GO) enrichment analysis of nod+ specific DEGs revealed 54 significantly enriched GO terms, including oxidation-reduction process, metabolic process, and catalytic activity. Genes related with plant defense systems, hormone biosynthesis and response were particularly enriched. To our knowledge, this is the first report revealing symbiosis-related genes in a genome-wide manner in peanut representative of the 'crack entry' species.
authors.affiliation: Agronomy Department, University of Florida, Gainesville, FL 32610, USA.
authors.forename: Ze
authors.initials: Z
authors.lastname: Peng
authors.affiliation: Agronomy Department, University of Florida, Gainesville, FL 32610, USA.|State Key Laboratory of Plant Physiology and Biochemistry, National Center for Evaluation of Agricultural Wild Plants (Rice), China Agricultural University, Beijing 100193, China.
authors.forename: Fengxia
authors.initials: F
authors.lastname: Liu
authors.affiliation: Agronomy Department, University of Florida, Gainesville, FL 32610, USA.
authors.forename: Liping
authors.initials: L
authors.lastname: Wang
authors.affiliation: Agronomy Department, University of Florida, Gainesville, FL 32610, USA.|State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Key Laboratory of Plant Functional Genomics and Biotechnology of Guangdong Provincial Higher Education Institutions, College of Life Sciences, South China Agricultural University, Guangzhou 510642, China.
authors.forename: Hai
authors.initials: H
authors.lastname: Zhou
authors.affiliation: Agronomy Department, University of Florida, Gainesville, FL 32610, USA.
authors.forename: Dev
authors.initials: D
authors.lastname: Paudel
authors.affiliation: Agronomy Department, University of Florida, Gainesville, FL 32610, USA.|State Key Laboratory of Plant Physiology and Biochemistry, National Center for Evaluation of Agricultural Wild Plants (Rice), China Agricultural University, Beijing 100193, China.
authors.forename: Lubin
authors.initials: L
authors.lastname: Tan
authors.affiliation: Agronomy Department, University of Florida, Gainesville, FL 32610, USA.
authors.forename: James
authors.initials: J
authors.lastname: Maku
authors.affiliation: Delaware Valley University, PA 18901, USA.
authors.forename: Maria
authors.initials: M
authors.lastname: Gallo
authors.affiliation: Agronomy Department, University of Florida, Gainesville, FL 32610, USA.|Genetics Institute, Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA.
authors.forename: Jianping
authors.initials: J
authors.lastname: Wang
mesh_terms: D010367:Arachis / Q000235:genetics* / Q000254:growth & development* / Q000382:microbiology; D020369:Bradyrhizobium / Q000254:growth & development*; D018506:Gene Expression Regulation, Plant; D055170:Plant Root Nodulation; D017423:Sequence Analysis, RNA; D059467:Transcriptome