title: Genome-wide transcriptome and proteome analyses of tobacco psaA and psbA deletion mutants.
abstract: Photosynthesis in higher land plants is a complex process involving several proteins encoded by both nuclear and chloroplast genomes that require a highly coordinated gene expression. Significant changes in plastid differentiation and biochemical processes are associated with the deletion of chloroplast genes. In this study we report the genome-wide responses caused by the deletion of tobacco psaA and psbA genes coding core components of photosystem I (PSI) and photosystem II (PSII), respectively, generated through a chloroplast genetic engineering approach. Transcriptomic and quantitative proteomic analysis showed the down regulation of specific groups of nuclear and chloroplast genes involved in photosynthesis, energy metabolism and chloroplast biogenesis. Moreover, our data show simultaneous activation of several defense and stress responsive genes including those involved in reactive oxygen species (ROS) scavenging mechanisms. A major finding is the differential transcription of the plastome of deletion mutants: genes known to be transcribed by the plastid encoded polymerase (PEP) were generally down regulated while those transcribed by the nuclear encoded polymerase (NEP) were up regulated, indicating simultaneous activation of multiple signaling pathways in response to disruption of PSI and PSII complexes. The genome wide transcriptomic and proteomic analysis of the ∆psaA and ∆psbA deletion mutants revealed a simultaneous up and down regulation of the specific groups of genes located in nucleus and chloroplasts suggesting a complex circuitry involving both retrograde and anterograde signaling mechanisms responsible for the coordinated expression of nuclear and chloroplast genomes.
authors.affiliation: Plant Transformation Group, International Center for Genetic Engineering and Biotechnology, Aruna Asaf Ali Marg, New Delhi 110067, India.
authors.forename: Sadhu
authors.initials: S
authors.lastname: Leelavathi
authors.forename: Amit
authors.initials: A
authors.lastname: Bhardwaj
authors.forename: Saravanan
authors.initials: S
authors.lastname: Kumar
authors.forename: Abhishek
authors.initials: A
authors.lastname: Dass
authors.forename: Ranjana
authors.initials: R
authors.lastname: Pathak
authors.forename: Shiv S
authors.initials: SS
authors.lastname: Pandey
authors.forename: Baishnab C
authors.initials: BC
authors.lastname: Tripathy
authors.forename: K V
authors.initials: KV
authors.lastname: Padmalatha
authors.forename: Gurusamy
authors.initials: G
authors.lastname: Dhandapani
authors.forename: Mogilicherla
authors.initials: M
authors.lastname: Kanakachari
authors.forename: Amolkumar Uddhaorao
authors.initials: AU
authors.lastname: Solanke
authors.forename: Polumetla Ananda
authors.initials: PA
authors.lastname: Kumar
authors.forename: Rino
authors.initials: R
authors.lastname: Cella
authors.forename: V
authors.initials: V
authors.lastname: Siva Reddy
mesh_terms: D001483:Base Sequence; D002853:Chromatography, Liquid; D017931:DNA Primers; D017353:Gene Deletion; D020869:Gene Expression Profiling; D018745:Genome, Plant; D010940:Plant Proteins / Q000235:genetics*; D020543:Proteome; D020133:Reverse Transcriptase Polymerase Chain Reaction; D019032:Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization; D014026:Nicotiana / Q000235:genetics* / Q000378:metabolism / Q000502:physiology
chemical_list: D017931:DNA Primers; D010940:Plant Proteins; D020543:Proteome