Unknown,Transcriptomics,Genomics,Proteomics

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Global gene expression profiles of the reticulate mutants cue1-6 and lcd1-1 compared to the wild type (Col-0)

ABSTRACT: This experiment aims at the identification of commonly differentially regulated genes in leaves of cue1-6 and lcd1-1 compared to the wild type. Although different genes are knocked out in both mutants, these defects result in a common reticulate leaf phenotype. Hence the overlap of differentially regulated genes might provide information as to the mechanistic background leading to metabolic and/or developmental constraints.

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Rainer Hausler

PROVIDER: E-MTAB-2846 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Project description:Despite their key role in immunity our understanding of primary and secondary lymphoid stromal cell heterogeneity and ontogeny remains limited. Here, using genome-wide expression profiling and phenotypic and localization studies, we identify a functionally distinct subset of BP3-PDPN+PDGFRÎ²+/Î±+CD34+ stromal adventitial cells in both lymph nodes and thymus that is located within the perivascular niche surrounding PDPN-PDGFRÎ²+/Î±-Esam-1+ITGA7+ pericytes. In re-aggregate organ grafts adult CD34+ adventitial cells gave rise to multiple thymic and lymph node mesenchymal subsets including pericytes, FRC-, MRC- and FDC-like cells, the development of which was lymphoid environment dependent. During thymic ontogeny pericytes developed from a transient population of BP3-PDPN+PDGFRÎ²+/Î±+CD34-/lo anlage-seeding progenitors that subsequently up-regulated CD34 and we provide evidence suggesting that similar embryonic progenitors give rise to lymph node mesenchymal subsets. These findings extend the current understanding of lymphoid mesenchymal cell heterogeneity and highlight a role of the CD34+ vascular adventitia as a potential ubiquitous source of lymphoid stromal precursors in postnatal tissues. To comprehensively study the differences and similarities between mesenchymal stromal subsets in the thymus and lymph nodes, global gene expression analysis was performed on sorted PDPN-, BP-3-PDPN+ and BP-3+PDPN+ PDGFRb+ lymph node mesenchymal cells (LNMC) as well as PDPN- and BP-3-PDPN+ PDGFRb+ thymic mesenchymal cells (TMC) from 2 w old mice by microarray. Total RNA was prepared from TMC and LNMC (pooled inguinal, brachial and axillary LN) subsets sorted from 3 (TMC) and 10-11 (LNMC) 2 weeks old mice per experiment. Isolated RNA from 3 individual experiments was amplified and prepared for hybridization to the Affymetrix Mouse Gene 1.1 ST Array at a genomics core facility: Center of Excellence for Fluorescent Bioanalytics (KFB, University of Regensburg, Germany)

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Global gene expression profiles of the reticulate mutants cue1-6 and lcd1-1 compared to the wild type (Col-0)

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