Journal
NEW PHYTOLOGIST
Volume 205, Issue 2, Pages 869-881Publisher
WILEY
DOI: 10.1111/nph.13004
Keywords
abiotic stress; abscisic acid (ABA); cold acclimation; microarray; moss; orphan genes; Physcomitrella patens; transcriptome
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Funding
- Deutsche Forschungsgemeinschaft [GRK 1305]
- Excellence Initiative of the German Federal Government [EXC294]
- Excellence Initiative of the German State Government [EXC294]
- German Federal Ministry of Education and Research [BMBF FRISYS 0313921]
- EU [A17 'ITP-TIP']
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The whole-genome transcriptomic cold stress response of the moss Physcomitrella patens was analyzed and correlated with phenotypic and metabolic changes. Based on time-series microarray experiments and quantitative real-time polymerase chain reaction, we characterized the transcriptomic changes related to early stress signaling and the initiation of cold acclimation. Transcription-associated protein (TAP)-encoding genes of P.patens and Arabidopsis thaliana were classified using generalized linear models. Physiological responses were monitored with pulse-amplitude-modulated fluorometry, high-performance liquid chromatography and targeted high-performance mass spectrometry. The transcript levels of 3220 genes were significantly affected by cold. Comparative classification revealed a global specialization of TAP families, a transcript accumulation of transcriptional regulators of the stimulus/stress response and a transcript decline of developmental regulators. Although transcripts of the intermediate to later response are from evolutionarily conserved genes, the early response is dominated by species-specific genes. These orphan genes may encode as yet unknown acclimation processes.
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