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90 k whole genome microarray  (CombiMatrix)
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CombiMatrix 90 k whole genome microarray
Validation of gene expression patterns of Physcomitrella patens . Selected expression profiles were validated with quantitative real-time polymerase chain reaction (qPCR). Two genes encode transcription factors (AP2/EREBP, APETALA2/ethylene-responsive element binding protein: Pp1s373_18V6.1, PpABI3b ; abscisic acid insensitive 3: Pp1s173_143V6.1). Further genes encode a sucrose synthase (Pp1s93_98V6.1), an S -adenosylmethionine decarboxylase (SAMDC, Pp1s335_22V6.1), a putative polyunsaturated fatty acid desaturase (PUFA desaturase, Pp1s286_53V6.1), a glutathione peroxidase (GPX, PpGPX1 : Pp1s98_2V6.1) and a calcium-dependent protein kinase (CDPK, Pp1s309_91V6.1). A late embryogenesis abundant (LEA)-like protein-coding gene (Pp1s267_21V6.1) and the dehydrin-coding gene PpCOR47 (cold-responsive, Pp1s442_22V6.2) were late induced. Gray bars, mean fold changes of expression obtained from qPCR for at least three biological replicates. Error bars represent the standard error of the mean. Black lines, means of expression fold changes from <t>microarray</t> analyses. Asterisks show significant induction (black, microarray; gray, qPCR): *, P < 0.05.
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Validation of gene expression patterns of Physcomitrella patens . Selected expression profiles were validated with quantitative real-time polymerase chain reaction (qPCR). Two genes encode transcription factors (AP2/EREBP, APETALA2/ethylene-responsive element binding protein: Pp1s373_18V6.1, PpABI3b ; abscisic acid insensitive 3: Pp1s173_143V6.1). Further genes encode a sucrose synthase (Pp1s93_98V6.1), an S -adenosylmethionine decarboxylase (SAMDC, Pp1s335_22V6.1), a putative polyunsaturated fatty acid desaturase (PUFA desaturase, Pp1s286_53V6.1), a glutathione peroxidase (GPX, PpGPX1 : Pp1s98_2V6.1) and a calcium-dependent protein kinase (CDPK, Pp1s309_91V6.1). A late embryogenesis abundant (LEA)-like protein-coding gene (Pp1s267_21V6.1) and the dehydrin-coding gene PpCOR47 (cold-responsive, Pp1s442_22V6.2) were late induced. Gray bars, mean fold changes of expression obtained from qPCR for at least three biological replicates. Error bars represent the standard error of the mean. Black lines, means of expression fold changes from microarray analyses. Asterisks show significant induction (black, microarray; gray, qPCR): *, P < 0.05.

Journal: The New Phytologist

Article Title: Insights from the cold transcriptome of Physcomitrella patens : global specialization pattern of conserved transcriptional regulators and identification of orphan genes involved in cold acclimation

doi: 10.1111/nph.13004

Figure Lengend Snippet: Validation of gene expression patterns of Physcomitrella patens . Selected expression profiles were validated with quantitative real-time polymerase chain reaction (qPCR). Two genes encode transcription factors (AP2/EREBP, APETALA2/ethylene-responsive element binding protein: Pp1s373_18V6.1, PpABI3b ; abscisic acid insensitive 3: Pp1s173_143V6.1). Further genes encode a sucrose synthase (Pp1s93_98V6.1), an S -adenosylmethionine decarboxylase (SAMDC, Pp1s335_22V6.1), a putative polyunsaturated fatty acid desaturase (PUFA desaturase, Pp1s286_53V6.1), a glutathione peroxidase (GPX, PpGPX1 : Pp1s98_2V6.1) and a calcium-dependent protein kinase (CDPK, Pp1s309_91V6.1). A late embryogenesis abundant (LEA)-like protein-coding gene (Pp1s267_21V6.1) and the dehydrin-coding gene PpCOR47 (cold-responsive, Pp1s442_22V6.2) were late induced. Gray bars, mean fold changes of expression obtained from qPCR for at least three biological replicates. Error bars represent the standard error of the mean. Black lines, means of expression fold changes from microarray analyses. Asterisks show significant induction (black, microarray; gray, qPCR): *, P < 0.05.

Article Snippet: The microarray experiments were performed with a 90 K whole genome microarray (Combimatrix Corp., Mukilteo, WA, USA) and a probe design as described previously (Wolf et al ., ).

Techniques: Biomarker Discovery, Gene Expression, Expressing, Real-time Polymerase Chain Reaction, Binding Assay, Microarray