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To make plasmids encoding the mad3-ken mutants we introduced point mutations into pKH535 using the Stratagene QuikChange method.

Into these mutants we introduced GSK3 mutations, and in neither case armXM19, GSK3 (Fig. 2 C-C"'), nor armF1a, GSK3 (Fig. 2 E-E"') did the additional mutation have an effect on epithelial patterning.

To confirm that a mutation in LOV1 caused the flowering time change in lov1-4 mutants, we introduced the LOV1 gene into lov1-4 mutants by crossing pLOV1 LOV1 HA and lov1-4 plands and then determined whether the early flowering defect was rescued.

To test whether the different Arabidopsis CRTs could restore the growth defects in the Atcrt1b single, and Atcrt1a crt1b double mutants we introduced two constructs with either an AtCRT1a cDNA or an AtCRT3 cDNA driven by a constitutive 35S promoter into the two mutant lines.

In order to distinguish individual transposon mutants, we introduced 21 bp short oligonucleotide tags that have been used in a previous study.

To display an altered anti-inflammatory capacity of the IRAK-M DD mutants we introduced them in THP-1 macrophages and H292 lung epithelial cells.

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To find such a mutant we introduced, using recombineering [30], a set of five alanine substitutions into the essential region of CIII within the λ genome.

To ask whether this elevated Wg expression contributes to the defects in the mutant, we introduced wg mutant alleles into the miR-965 (KO1/KO2) mutant background.

In order to quantify the surface expression of the G88R mutant, we introduced an extracellular HA epitope in the P2-M4 linker of TASK-4.

In order to elucidate the structural entity responsible for the attenuation of the mptC mutant, we introduced the M. smegmatis mptC (Kaur et al., 2006) in the mutant, which restored mannan core branching whereas elongation of monomannoside caps was still defective (Fig. S1).

To prevent the synthetic lethal phenotype of Δtdh1Δtdh2Δtdh3 triple deletion mutants [26], we introduced a counter-selectable plasmid carrying the E. coli GAPDH paralogue EcoGAP (79% amino acid similarity to Tdh3 by Blossum62) into the parent strain before deletion of the genomic loci.

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