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Abstract Detail


Developmental and Structural Section

Russell, Scott D. [1], Gou, Xiaoping [1], Wong, Annie C. E. [2], Yuan, Tong [1], Wei, Xiaoping [1], Singh, Mohan B [2], Bhalla, Prem [2].

Genomic Profiling of Rice Sperm Cells.

Anthesis anthers were collected from disease-free, field grown Oryza sativa ssp. japonica, cultivar Katy plants for transcriptional profiling of male gametophytes of rice. Triplicate biological/technical samples were collected from three fields and processed separately for use with the Affymetrix Rice 57K GeneChip microarray, which provides nearly genomic coverage. The Rice Annotation Project (version 6, http://rice.plantbiology.msu.edu/), International Rice Genome Sequencing Project (IRGSP, RAP-DB) were used as annotation reference, facilitated by http://www.ricechip.org/. RMA, GCRMA, PLM, dChip and GCOS were used for normalization of signal. Samples displayed high consistency as indicated by Pearson’s coefficient of correlation for sperm: 0.9829±0.0063, pollen: 0.9933±0.0037 and Seedling: 0.9231±0.0016. Total microarray coverage is 34,282 unique sequences (normalized for unique loci), with 1668 (4.87%) unique for sperm cells, 626 sequences (1.83%) unique for the pollen vegetative cell, 5947 (17.35%) unique for seedlings, and 5537 (16.15%) found in all cells. Shared sequences included 750 (2.19%) in pollen-sperm, 2777 (8.10%) in sperm-seedling, and 1188 (3.47%) in pollen-seedling. Pearson’s coefficient of correlation for sperm-pollen was 0.249±0.007 and for sperm-seedling was 0.239±0.008, reflecting strong divergence. Principal component analysis indicates pollen and sperm cells diverge strongly from sporophytic tissues, from each other and also from other available GEO datasets.


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1 - University of Oklahoma, Department of Botany and Microbiology, 770 Van Vleet Oval, Norman, Oklahoma, 73019, USA
2 - University of Melbourne, Melbourne School of Land and Environment, ARC Centre of Excellence for Integrative Legume Research, Parkville, VIC, 3052, Australia

Keywords:
transcriptome
Oryza sativa ssp. japonica
sperm
pollen
fertilization.

Presentation Type: Oral Paper:Papers for BSA Sections
Session: 51
Location: Maybird/Cliff Lodge - Level C
Date: Tuesday, July 28th, 2009
Time: 4:45 PM
Number: 51008
Abstract ID:830


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