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Series GSE11934 Query DataSets for GSE11934
Status Public on Jul 01, 2008
Title Differential expression of genes in the leaves of sugarcane in response to sugar accumulation
Platform organism Saccharum officinarum
Sample organism Saccharum hybrid cultivar N19
Experiment type Expression profiling by array
Summary In C4 sugarcane (Saccharum spp. hybrids), photosynthetic activity has been shown to be regulated by the demand for carbon from sink tissues. There is evidence, from other plant species, that sink-limitation of photosynthesis is facilitated by sugar-signaling mechanisms in the leaf that affect photosynthesis through regulation of gene expression. In this work, we manipulated leaf sugar levels by cold-girdling leaves (5oC) for 80 h to examine the mechanisms whereby leaf sugar accumulation affects photosynthetic activity and assess whether signaling mechanisms reported for other species operate in sugarcane. During this time, sucrose and hexose concentrations above the girdle increased by 77% and 81%, respectively. Conversely, leaf photosynthetic activity (A) and electron transport rates (ETR) decreased by 66% and 54%, respectively. Quantitative expression profiling by means of an Affymetrix GeneChip Sugarcane Genome Array was used to identify genes responsive to cold-girdling (56 h). A number of genes (74) involved in primary and secondary metabolic pathways were identified as being differentially expressed. Decreased expression of genes related to photosynthesis and increased expression of genes involved in assimilate partitioning, cell wall synthesis, phosphate metabolism and stress were observed. Furthermore four probe sets homologous to trehalose 6-phosphate phosphatase (TPP; EC and trehalose 6-phosphate synthase (TPS; EC were up- and down-regulated, respectively, indicating a possible role for trehalose 6-phosphate (T6P) as a putative sugar-sensor in sugarcane leaves.

Overall design Twelve month-old field grown Saccharum spp. (L.) hybrid cv. N19 (N19) cultivated at Mount Edgecombe, KwaZulu-Natal (SASRI) were used in the study, which was conducted in November, 2006. Plants were grown on a 5 x 15 m plot located on a north-east facing slope with a gradient of ca. 10o. Cold-girdles were attached to sugarcane leaves (n=4) for a period of 56 h prior to harvest. The girdle consisted of 0.75 cm (diameter) soft plastic tubing, firmly clamped around each leaf, approximately 30 cm from the leaf base. Cooled water maintained at 5oC was then pumped through the tubing using a Grant LTD6G cooling bath (Grant Instruments, Barrington, Cambridge, UK). At harvest, leaf samples were immediately frozen in liquid nitrogen (–196oC) and subsequently milled in an A11 Basic Analysis Mill (IKA, Staufen, Germany). Ground leaf tissue was stored at –80oC in 50 ml centrifuge tubes prior to analysis.
Contributor(s) McCormick AJ, Cramer MD, Watt DA
Citation McCormick A, Cramer M, Watt D. Differential expression of genes in the leaves of sugarcane in response to sugar accumulation. Tropical Plant Biology, Volume 1, Number 2, June 2008 , pp. 142-158(17). DOI: 10.1007/s12042-008-9013-2.
Submission date Jun 30, 2008
Last update date Mar 19, 2012
Contact name Alistair James McCormick
Organization name University of Oxford
Department Department of Plant Science
Street address South Parks Rd
City Oxford
ZIP/Postal code OX13RB
Country United Kingdom
Platforms (1)
GPL3844 [Sugar_Cane] Affymetrix Sugar Cane Genome Array
Samples (8)
GSM301553 Control leaf (2)
GSM301554 Control leaf (3)
GSM301555 Control leaf (4)
BioProject PRJNA105783

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE11934_RAW.tar 7.9 Mb (http)(custom) TAR (of CEL, CHP)
Processed data included within Sample table
Processed data provided as supplementary file

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