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Single cell transcriptomics of neighboring hyphae of Aspergillus niger

Charissa de Bekker1, Oskar Bruning2, Martijs J Jonker23, Timo M Breit23 and Han AB Wösten1*

Author Affiliations

1 Microbiology and Kluyver Centre for Genomics of Industrial Fermentations, Institute of Biomembranes, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands

2 Microarray Department and Integrative Bioinformatics Unit, Swammerdam Institute for Life Sciences, University of Amsterdam, Science Park 904, 1098 XH Amsterdam, The Netherlands

3 Netherlands Bioinformatics Centre (NBIC), Geert Grooteplein 28, 6525 GA Nijmegen Nijmegen, the Netherlands

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Genome Biology 2011, 12:R71  doi:10.1186/gb-2011-12-8-r71

Published: 4 August 2011

Abstract

Single cell profiling was performed to assess differences in RNA accumulation in neighboring hyphae of the fungus Aspergillus niger. A protocol was developed to isolate and amplify RNA from single hyphae or parts thereof. Microarray analysis resulted in a present call for 4 to 7% of the A. niger genes, of which 12% showed heterogeneous RNA levels. These genes belonged to a wide range of gene categories.