diff --git a/assays/DNA_extraction/isa.assay.xlsx b/assays/DNA_extraction/isa.assay.xlsx index 6a4e6d819baefd2c48387bac8e40a8acc99c14ab..0cecddb6a347a5271246edfcad4b379dd30eabf6 100644 Binary files a/assays/DNA_extraction/isa.assay.xlsx and b/assays/DNA_extraction/isa.assay.xlsx differ diff --git a/assays/MSA_dissection/isa.assay.xlsx b/assays/MSA_dissection/isa.assay.xlsx index 4ba043f0c5b7713af801b3bcbf62691dfaaa80b6..43ce3d91b80895b18480a43f06ac9e89f6782248 100644 Binary files a/assays/MSA_dissection/isa.assay.xlsx and b/assays/MSA_dissection/isa.assay.xlsx differ diff --git a/assays/biparental_mapping/isa.assay.xlsx b/assays/biparental_mapping/isa.assay.xlsx index 86cf18bbaec63ee37127adc445443140a0afe41f..398e732c136a2e96195371dd60fe07144f344421 100644 Binary files a/assays/biparental_mapping/isa.assay.xlsx and b/assays/biparental_mapping/isa.assay.xlsx differ diff --git a/assays/cDNA_synthesis/isa.assay.xlsx b/assays/cDNA_synthesis/isa.assay.xlsx index 897d0e9596ad7ef56e9bedf03221b47b057de06c..ae7c6c0a977bc582f34929a16ae5b03f38fa068b 100644 Binary files a/assays/cDNA_synthesis/isa.assay.xlsx and b/assays/cDNA_synthesis/isa.assay.xlsx differ diff --git a/assays/embryo_transformation/isa.assay.xlsx b/assays/embryo_transformation/isa.assay.xlsx index e37966eb7f619d604aab251bda64a6390cb12a63..6ff98f841fb28c944b0a5afbe4de9040540942fb 100644 Binary files a/assays/embryo_transformation/isa.assay.xlsx and b/assays/embryo_transformation/isa.assay.xlsx differ diff --git a/assays/leaf_sampling/isa.assay.xlsx b/assays/leaf_sampling/isa.assay.xlsx index 6a6b25d94c5274855eab929bba6fff172649532b..032d4d36f7ee6d68dc7f9dae179fbb332f14ca5e 100644 Binary files a/assays/leaf_sampling/isa.assay.xlsx and b/assays/leaf_sampling/isa.assay.xlsx differ diff --git a/assays/mutant_genotyping/dataset/T0_genotype_results.xlsx b/assays/mutant_genotyping/dataset/T0_genotype_results.xlsx index de90a5718db7c4e8bf61df8b846ade199fce3aa6..f6588e2c3c4ff37401acc8f9d9aa3ca368faf412 100644 Binary files a/assays/mutant_genotyping/dataset/T0_genotype_results.xlsx and b/assays/mutant_genotyping/dataset/T0_genotype_results.xlsx differ diff --git a/assays/mutant_genotyping/dataset/T1_genotype_results.xlsx b/assays/mutant_genotyping/dataset/T1_genotype_results.xlsx index de90a5718db7c4e8bf61df8b846ade199fce3aa6..febba8ac961d87e7604a1a7cadb444f0d29eb384 100644 Binary files a/assays/mutant_genotyping/dataset/T1_genotype_results.xlsx and b/assays/mutant_genotyping/dataset/T1_genotype_results.xlsx differ diff --git a/assays/mutant_genotyping/isa.assay.xlsx b/assays/mutant_genotyping/isa.assay.xlsx index bd112e98b42057a5872f879971c679c50a5c8666..85cce48344541b329b478568ae220402ab19bacf 100644 Binary files a/assays/mutant_genotyping/isa.assay.xlsx and b/assays/mutant_genotyping/isa.assay.xlsx differ diff --git a/assays/mutant_genotyping/protocols/plant_genotyping.md b/assays/mutant_genotyping/protocols/plant_genotyping.md new file mode 100644 index 0000000000000000000000000000000000000000..0a4205e105c40440930cdec0dcdb202fe506cf04 --- /dev/null +++ b/assays/mutant_genotyping/protocols/plant_genotyping.md @@ -0,0 +1,11 @@ +**lwd1 T0 and T1 plants ** + +- DNA was extracted from leaves of all mutants using QIAGEN_DNeasy-Plant_mini protocol +- plants were tested for possible mutations in the CDS of LWD1 by amplifying the full genomic sequence using the primers LWD1_71us_F (5'-ATCAGACCCCTCCAACGACT-3') and LWD1_21ds_R (5'-TTCCTCTTTCTACCCCACCA-3') +- the PCR fragments were Sanger sequenced using different primers: + - plants transformed with pMGE599/7-97 (approach 1): LWD1_71us_F + - plants transformed with pMGE599/182-1222 (approach 2): LWD1_qPCR114F (5'-CAGCTCATAGCCCATGACAA-3') +- mutations and the zygosity of the mutations were determined relative to the start codon of LWD1 + +**only in T1 plants**: +- PCR was performed on transformation vector to check presence/absence of Cas9 using the primers pMGE599_M13F (5'-GTTTTCCCAGTCACGAC-3') and pMGE599_R (5'-TGTCGACATCGATAAGCTTGAA-3') \ No newline at end of file diff --git a/assays/mutant_genotyping/protocols/plant_genotyping.txt b/assays/mutant_genotyping/protocols/plant_genotyping.txt deleted file mode 100644 index 6354cb6ee5d593fae2fa249686a5a8cc1b1b3931..0000000000000000000000000000000000000000 --- a/assays/mutant_genotyping/protocols/plant_genotyping.txt +++ /dev/null @@ -1,4 +0,0 @@ -- DNA extracted from plants using QIAGEN protocol -- PCR done with primers lwd f/r -- sent for Sanger sequencing -- Sequences were evaluated: mutations in CDS of lwd1? \ No newline at end of file diff --git a/assays/plant_phenotyping/isa.assay.xlsx b/assays/plant_phenotyping/isa.assay.xlsx index 3c09b64b3e0918cc5b1919e5af250d695ff43abe..529fd1b3db586328e02efdd863a4af9b81f98c3a 100644 Binary files a/assays/plant_phenotyping/isa.assay.xlsx and b/assays/plant_phenotyping/isa.assay.xlsx differ diff --git a/assays/plant_propagation/isa.assay.xlsx b/assays/plant_propagation/isa.assay.xlsx index fa6da002814980765ecb5f7376f5f183f5795db6..a70c797650e7521748c623c3cb8022d44ddbde3f 100644 Binary files a/assays/plant_propagation/isa.assay.xlsx and b/assays/plant_propagation/isa.assay.xlsx differ diff --git a/assays/plant_propagation/protocols/progagation_of_mutant_plants.md b/assays/plant_propagation/protocols/progagation_of_mutant_plants.md new file mode 100644 index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391 diff --git a/studies/MSA_dissection_eam7/isa.study.xlsx b/studies/MSA_dissection_eam7/isa.study.xlsx index 7a8e958d8d2ba2c17440caef99bfcd98d0f8a387..70a3235622a79a7b38b2c2118e2243a7ede1be3a 100644 Binary files a/studies/MSA_dissection_eam7/isa.study.xlsx and b/studies/MSA_dissection_eam7/isa.study.xlsx differ diff --git a/studies/gene_expression_eam7_plants_diurnal/isa.study.xlsx b/studies/gene_expression_eam7_plants_diurnal/isa.study.xlsx index d22df9abc65f39e67d3f0b4b7195da09032488c6..6b77977148b9a9cdb99953d1c96576bca9b58dc2 100644 Binary files a/studies/gene_expression_eam7_plants_diurnal/isa.study.xlsx and b/studies/gene_expression_eam7_plants_diurnal/isa.study.xlsx differ diff --git a/studies/gene_expression_lwd1_mutants_diurnal/isa.study.xlsx b/studies/gene_expression_lwd1_mutants_diurnal/isa.study.xlsx index e7535c34315526f84f60f5ea9da71bcde3150239..f6b7563f7ff49ab24c347ff39b2402eb44b5f049 100644 Binary files a/studies/gene_expression_lwd1_mutants_diurnal/isa.study.xlsx and b/studies/gene_expression_lwd1_mutants_diurnal/isa.study.xlsx differ diff --git a/studies/generating_lwd1_mutants/isa.study.xlsx b/studies/generating_lwd1_mutants/isa.study.xlsx index 17e39f26a40c929bef6f6acd9d86966e7d461d8a..02969f3fafa6a6c1cbd1eeb5b8f6e5813113d234 100644 Binary files a/studies/generating_lwd1_mutants/isa.study.xlsx and b/studies/generating_lwd1_mutants/isa.study.xlsx differ diff --git a/studies/genotyping_lwd1_mutants/isa.study.xlsx b/studies/genotyping_lwd1_mutants/isa.study.xlsx index f257457fc505948f198477d5964907a983e8651f..2bbba55ae8cc9bacfeaea990ccd51dad3216fe4b 100644 Binary files a/studies/genotyping_lwd1_mutants/isa.study.xlsx and b/studies/genotyping_lwd1_mutants/isa.study.xlsx differ