Publications

Rechardt O, Mattinen L, Küblbeck J, Honkakoski P, Söderlund H, Rautio JJ: Focused Expression Screening by TRAC in Predictive Toxicology. 2011, Poster. Pdf

Rautio JJ, Kataja K, Satokari R, Penttilä M, Söderlund H, Saloheimo M: Rapid and multiplexed transcript analysis of microbial cultures using capillary electophoresis-detectable oligonucleotide probe pools. J Microbiol Methods 2006, 65:404-416

Kataja K, Satokari RM, Arvas M, Takkinen K, Söderlund H: A highly sensitive and multiplexed method for focused transcript analysis. J Microbiol Methods 2006, 67:102-113

Rautio JJ, Smit BA, Wiebe M, Penttilä M, Saloheimo M: Transcriptional monitoring of steady state and effects of anaerobic phases in chemostat cultures of the filamentous fungus Trichoderma reesei. BMC Genomics 2006, 7:247

Rautio JJ, Bailey M, Kivioja T, Söderlund H, Penttilä M, Saloheimo M: Physiological evaluation of the filamentous fungus Trichoderma reesei in production processes by marker gene expression analysis. BMC Biotechnology 2007, 7:28

Rautio JJ, Huuskonen A, Vuokko H, Vidgren V, Londesborough J: Monitoring yeast physiology during very high gravity wort fermentations by frequent analysis of gene expression. Yeast. 2007, 24:741-60

Gasser B, Maurer M, Rautio J, Sauer M, Bhattacharyya A, Saloheimo M, Penttila M, Mattanovich D: Monitoring of transcriptional regulation in Pichia pastoris under protein production conditions. BMC Genomics. 2007 Jun 19;8:179

Bailey M, Adamitsch B, Rautio J, von Weymarn N, Saloheimo M: Use of a growth-associated control algorithm for efficient production of a heterologous laccase in Trichoderma reesei in fed-batch and continuous cultivation. Enzyme and Microbial Technology, 2007 41, 484-491

Rautio JJ, Satokari R, Vehmaan-Kreula P, Serkkola E, Söderlund H: TRAC in high-content gene expression analysis: applications in microbial population studies, process biotechnology and biomedical research.Expert Rev Mol Diagn. 2008, 8:379-85

Wiebe MG, Rintala E, Tamminen A, Simolin H, Salusjärvi L, Toivari M, Kokkonen JT, Kiuru J, Ketola RA, Jouhten P, Huuskonen A, Maaheimo H, Ruohonen L, Penttilä M: Central carbon metabolism of Saccharomyces cerevisiae in anaerobic, oxygen-limited and fully aerobic steady-state conditions and following a shift to anaerobic conditions. FEMS Yeast Res. 2008, 8:140-54

Rintala E, Wiebe MG, Tamminen A, Ruohonen L, Penttilä M: Transcription of hexose transporters of Saccharomyces cerevisiae is affected by change in oxygen provision. BMC Microbiol. 2008, 28; 8:53

Vidgren V, Huuskonen A, Virtanen H, Ruohonen L, Londesborough J: Improved fermentation performance of a lager yeast after repair of its AGT1 maltose and maltotriose transporter genes. Appl Environ Microbiol. 2009, 75:2333-45

Maukonen J, Satokari R, Mätto J, Söderlund H, Mattila-Sandholm T, Saarela M: Prevalence and temporal stability of selected clostridial groups in irritable bowel syndrome in relation to predominant faecal bacteria. J Med Microbiol 2006, 55:625-633

Satokari RM, Kataja K, Söderlund H: Multiplexed quantification of bacterial 16S rRNA by solution hybridization with oligonucleotide probes and affinity capture. Microb Ecol 2005, 50:120-127

Nisamedtinov I, Kevvai K, Orumets K, Rautio JJ, Paalme T: Glutathione accumulation kinetics in ethanol-stat fed-batch culture of Saccharomyces cerevisiae using continuous addition of cysteine and glycine. Appl Microbiol Biotechnol 2010, 87:175-83

Hynönen U, Åvall-Jääskeläinen S, Palva A: Characterization and separate activities of the two promoters of the Lactobacillus brevis S-layer protein gene. Appl Microbiol Biotechnol 2010, 87:657–668

Junnila S, Kokkola A, Karjalainen-Lindsberg ML, Puolakkainen P, Monni O: Genome-wide gene copy number and expression analysis of primary gastric tumors and gastric cancer cell lines. BMC Cancer 2010, 10:73

Rautio JJ: Multiplex Gene Expression Analysis by TRAC in Fungal Cultures. Methods Mol Biol 2010, 638:165-73