MOESM3 of Evolutionary freedom in the regulation of the conserved itaconate cluster by Ria1 in related Ustilaginaceae

Additional file 3: Fig. S3. Schematic overview of the influence of overexpression of Umag_ria1, Uc_ria1, Pt_ria1 and Si_ria1, on itatartarate (ITT) production. Differences in itatartarate production were determined after 120 h or 384 h System Duetz® cultivations in screening medium containing glucose or glycerol, respectively

MOESM5 of Evolutionary freedom in the regulation of the conserved itaconate cluster by Ria1 in related Ustilaginaceae

Additional file 5: Table S1. Oligonucleotides used for overexpression constructs

MOESM4 of Evolutionary freedom in the regulation of the conserved itaconate cluster by Ria1 in related Ustilaginaceae

Additional file 4: Fig. S4. Malate and itatartarate production by various Ustilaginaceae and their mutants transformed with Umag_ria1, Uc_ria1, Pt_ria1, Si_ria1. Malate (gMal g GLC −1 , gITA g GLY −1 ) yield and itatartarate titer after 120 h or 384 h System Duetz® cultivations in screening medium containing glucose (GLC) and glycerol (GLY), respectively. A dash (–) indicates the negative control without an overexpression construct. Error bars indicate standard deviation from the mean (n = 3)

MOESM1 of Evolutionary freedom in the regulation of the conserved itaconate cluster by Ria1 in related Ustilaginaceae

Additional file 1: Fig. S1. Malate and itatartarate production by various Ustilaginaceae on glucose and glycerol. Malate concentrations and itatartarate UV area after 120 h or 384 h System Duetz® cultivations in screening medium with glucose or glycerol, respectively. U. maydis MB215 ΔUmag_ria1 was used as a negative control. Error bars indicate standard deviation from the mean (n = 3)

MOESM2 of Evolutionary freedom in the regulation of the conserved itaconate cluster by Ria1 in related Ustilaginaceae

Additional file 2: Fig. S2. Glucose and glycerol consumption by various Ustilaginaceae. Glucose and glycerol consumption in % after 120 h or 384 h System Duetz® cultivations in screening medium with glucose or glycerol, respectively. Error bars indicate standard deviation from the mean (n = 3)

MOESM1 of Improved microscale cultivation of Pichia pastoris for clonal screening

Additional file 1. Supplemental material

Phylogenetic relationships of the algae scraping cyprinid genus Capoeta (Teleostei: Cyprinidae)

We reconstructed the matrilineal phylogeny of Asian algae-eating fishes of the genus Capoeta based on complete mitochondrial gene for cytochrome b sequences obtained from 20 species sampled from the majority of the range and 44 species of closely related barbs of the genera Barbus s. str. and Luciobarbus. The results of this study show that Capoeta forms a strongly supported monophyletic subclade nested within the Luciobarbus clade, suggesting that specialized scraping morphology appeared once in the evolutionary history of the genus. We detected three main groups of Capoeta: the Mesopotamian group, which includes three species from the Tigris–Euphrates system and adjacent water bodies, the Anatolian– Iranian group, which has the most diversified structure and encompasses many species distributed throughout Anatolian and Iranian inland waters, and the Aralo-Caspian group, which consists of species distributed in basins of the Caspian and Aral Seas, including many dead-end rivers in Central Asia and Northern Iran. The most probable origination pathway of the genus Capoeta is hypothesized to occur as a result of allopolyploidization. The origin of Capoeta was found around the Langhian–Serravallian boundary according to our molecular clock. The diversification within the genus occurred along Middle Miocene–Late Pliocene periods.This work was funded in part by RFBR 11-04-00109a, 11-04-01252a, by the Spanish Ministry of Science and Innovation (CGL2010-15231BOS), by the Ministry of Education, Youth and Sports of the Czech Republic (LC06073), and by the Academy of Sciences of the Czech Republic (IRP IAPG AV0Z50450515). We are grateful to Lourdes Alcaraz, Carlos Pedraza-Lara, Patricia Ornelas-García for their valuable help in laboratory and to Jan Dušek for help with samples collecting.Peer Reviewe

MOESM1 of Designer rhamnolipids by reduction of congener diversity: production and characterization

Additional file 1. Compilation of extra information for better comprehension of the contents of the study. The file contains a more detailed description of some methods, as well as some additional figures for the presented results

Additional file 2: of The trade-off of availability and growth inhibition through copper for the production of copper-dependent enzymes by Pichia pastoris

Percentage copper adsorbed to the cells. (XLS 19 kb

Additional file 6: of The trade-off of availability and growth inhibition through copper for the production of copper-dependent enzymes by Pichia pastoris

Carbon source and Optical density of shake flask cultivation. (XLS 20 kb