ArticleBMC genomics2010
Transcriptomic changes arising during light-induced sporulation in Physarum polycephalum.
Article in BMC genomics, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Who cites it
7 citing papers in PubMed, 27 citations in OpenAlex.
- Quantifying 35 transcripts in a single tube: model-based calibration of the GeXP multiplex RT-PCR assay.BMC biotechnology · 2021Article
- Transcriptome reprogramming during developmental switching in Physarum polycephalum involves extensive remodeling of intracellular signaling networks.Scientific reports · 2017Article
- Effect of oxidative stress from nanoscale TiOEnvironmental science and pollution research international · 2017Article
- Myb transcription factors and light regulate sporulation in the oomycete Phytophthora infestans.PloS one · 2014Article
- A survey of PPR proteins identifies DYW domains like those of land plant RNA editing factors in diverse eukaryotes.RNA biology · 2013Article
- Futile attempts to differentiate provide molecular evidence for individual differences within a population of cells during cellular reprogramming.FEMS microbiology letters · 2012Article
- A next-generation sequencing approach to study the transcriptomic changes during the differentiation of physarum at the single-cell level.Gene regulation and systems biology · 2012Article
Corrections and comments
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Authors and funding
4 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundPhysarum polycephalum is a free-living amoebozoan protist displaying a complex life cycle, including alternation between single- and multinucleate stages through sporulation, a simple form of cell differentiation. Sporulation in Physarum can be experimentally induced by several external factors, and Physarum displays many biochemical features typical for metazoan cells, including metazoan-type signaling pathways, which makes this organism a model to study cell cycle, cell differentiation and cellular reprogramming.
resultsIn order to identify the genes associated to the light-induced sporulation in Physarum, especially those related to signal transduction, we isolated RNA before and after photoinduction from sporulation- competent cells, and used these RNAs to synthesize cDNAs, which were then analyzed using the 454 sequencing technology. We obtained 16,669 cDNAs that were annotated at every computational level. 13,169 transcripts included hit count data, from which 2,772 displayed significant differential expression (upregulated: 1,623; downregulated: 1,149). Transcripts with valid annotations and significant differential expression were later integrated into putative networks using interaction information from orthologs.
conclusionsGene ontology analysis suggested that most significantly downregulated genes are linked to DNA repair, cell division, inhibition of cell migration, and calcium release, while highly upregulated genes were involved in cell death, cell polarization, maintenance of integrity, and differentiation. In addition, cell death- associated transcripts were overrepresented between the upregulated transcripts. These changes are associated to a network of actin-binding proteins encoded by genes that are differentially regulated before and after light induction.
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