From 95b7552e665a704b9c636a208545f9ae7a35f26b Mon Sep 17 00:00:00 2001 From: Viktoria Petrova <vipet103@hhu.de> Date: Mon, 8 Jan 2024 20:25:35 +0100 Subject: [PATCH] add figure caprions --- .../README.md | 17 ++++++++++++++++ .../dataset/gr3b_lrg.jpg | 3 +++ .../dataset/gr4a_lrg.jpg | 3 +++ assays/MALDI-TOFAnalysis/README.md | 8 ++++++++ assays/MALDI-TOFAnalysis/dataset/gr3c_lrg.jpg | 3 +++ .../README.md | 8 ++++++++ .../dataset/gr1a_lrg.jpg | 3 +++ .../README.md | 8 ++++++++ .../dataset/gr6c_lrg.jpg | 3 +++ .../StainingForConfocalMicroscopy/README.md | 8 ++++++++ .../dataset/gr6a_lrg.jpg | 3 +++ assays/qRT-PCR/README.md | 20 +++++++++++++++++++ assays/qRT-PCR/dataset/gr1c_lrg.jpg | 3 +++ assays/qRT-PCR/dataset/gr6d_lrg.jpg | 3 +++ 14 files changed, 93 insertions(+) create mode 100644 assays/EnzymaticCarbohydrateDigestionAndTLC/dataset/gr3b_lrg.jpg create mode 100644 assays/EnzymaticCarbohydrateDigestionAndTLC/dataset/gr4a_lrg.jpg create mode 100644 assays/MALDI-TOFAnalysis/dataset/gr3c_lrg.jpg create mode 100644 assays/MS-MSAnalysisOfThePull-downProteins/dataset/gr1a_lrg.jpg create mode 100644 assays/QuantificationAndStatisticalAnalyses/dataset/gr6c_lrg.jpg create mode 100644 assays/StainingForConfocalMicroscopy/dataset/gr6a_lrg.jpg create mode 100644 assays/qRT-PCR/dataset/gr1c_lrg.jpg create mode 100644 assays/qRT-PCR/dataset/gr6d_lrg.jpg diff --git a/assays/EnzymaticCarbohydrateDigestionAndTLC/README.md b/assays/EnzymaticCarbohydrateDigestionAndTLC/README.md index e69de29..182b843 100644 --- a/assays/EnzymaticCarbohydrateDigestionAndTLC/README.md +++ b/assays/EnzymaticCarbohydrateDigestionAndTLC/README.md @@ -0,0 +1,17 @@ +<img src=dataset\gr3b_lrg.jpg width=60%> + +### Figure 3 B) caption + +**Figure 3 B).** Analysis of the β-1,3-glycosidic activity of heterologously expressed and purified GBP1 and mutant GBP1E500A on laminarin from *Laminaria digitata*. After overnight incubation at 25°C, the digestion products were analyzed by thin-layer chromatography. The experiment was repeated at least four times with similar results. + +### Figure 3 B) source +https://www.cell.com/current-biology/fulltext/S0960-9822(23)01449-5?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS0960982223014495%3Fshowall%3Dtrue#secsectitle0065 + +<img src=dataset\gr4a_lrg.jpg width=60%> + +### Figure 4 A) caption + +**Figure 4 A).** The digestion products resulting from the enzymatic breakdown of laminarin by GBP1 over time were analyzed using thin-layer chromatography (TLC). Untreated (UT) and GBP1E500A-treated laminarin (20 h) served as controls. Digestion was performed at 25°C. + +### Figure 4 A) source +https://www.cell.com/current-biology/fulltext/S0960-9822(23)01449-5?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS0960982223014495%3Fshowall%3Dtrue#secsectitle0065 \ No newline at end of file diff --git a/assays/EnzymaticCarbohydrateDigestionAndTLC/dataset/gr3b_lrg.jpg b/assays/EnzymaticCarbohydrateDigestionAndTLC/dataset/gr3b_lrg.jpg new file mode 100644 index 0000000..50dce6e --- /dev/null +++ b/assays/EnzymaticCarbohydrateDigestionAndTLC/dataset/gr3b_lrg.jpg @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:8f4ec161eb5a319a908ac6228b044d03d10b188522d431a8ca162097ed365121 +size 260769 diff --git a/assays/EnzymaticCarbohydrateDigestionAndTLC/dataset/gr4a_lrg.jpg b/assays/EnzymaticCarbohydrateDigestionAndTLC/dataset/gr4a_lrg.jpg new file mode 100644 index 0000000..bc32f63 --- /dev/null +++ b/assays/EnzymaticCarbohydrateDigestionAndTLC/dataset/gr4a_lrg.jpg @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:26d76139621d7ae81ec7eb548796745aec3be62807b0500dd79722dd6e0af92b +size 415901 diff --git a/assays/MALDI-TOFAnalysis/README.md b/assays/MALDI-TOFAnalysis/README.md index e69de29..5dad650 100644 --- a/assays/MALDI-TOFAnalysis/README.md +++ b/assays/MALDI-TOFAnalysis/README.md @@ -0,0 +1,8 @@ +<img src=dataset\gr3c_lrg.jpg width=60%> + +### Figure 3 C) caption + +**Figure 3 C).** The activity of GBP1 and GBP1E500A was tested on laminarihexaose (β-1,3-glucan hexamer), laminaritriose (β-1,3-glucan trimer), cellohexaose (β-1,4-glucan hexamer), and XXXG (xyloglucan heptasaccharide). After overnight digestion at 25°C, the products were analyzed by MALDI-TOF mass spectrometry. The ion signal ladder between 500 and 1,000 Da represents an unknown contamination present in the GBP1 preparation and is thus unrelated to any digested carbohydrate. Digestion assays were performed twice with similar results. UT, untreated; XXXG, xyloglucan heptasaccharide. + +### Figure 3 C) source +https://www.cell.com/current-biology/fulltext/S0960-9822(23)01449-5?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS0960982223014495%3Fshowall%3Dtrue#secsectitle0065 \ No newline at end of file diff --git a/assays/MALDI-TOFAnalysis/dataset/gr3c_lrg.jpg b/assays/MALDI-TOFAnalysis/dataset/gr3c_lrg.jpg new file mode 100644 index 0000000..81fe1b7 --- /dev/null +++ b/assays/MALDI-TOFAnalysis/dataset/gr3c_lrg.jpg @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:ef505e7e58117c71f58b75bfdf672df7c10fbd63270382282acc2de11e0c7a90 +size 299643 diff --git a/assays/MS-MSAnalysisOfThePull-downProteins/README.md b/assays/MS-MSAnalysisOfThePull-downProteins/README.md index e69de29..31a628a 100644 --- a/assays/MS-MSAnalysisOfThePull-downProteins/README.md +++ b/assays/MS-MSAnalysisOfThePull-downProteins/README.md @@ -0,0 +1,8 @@ +<img src=dataset\gr1a_lrg.jpg width=60%> + +### Figure 1 A) caption + +**Figure 1 A).** Venn diagram of barley proteins identified by liquid chromatography-tandem mass spectrometry (LC-MS/MS) analysis with biotinylated β-glucan laminarin, biotinylated elf18 (peptide derived from bacterial elongation factor Tu), or non-biotinylated β-glucan laminarin as bait. Only the proteins whose peptides were identified in three out of four replicates are listed. + +### Figure 1 A) source +https://www.cell.com/current-biology/fulltext/S0960-9822(23)01449-5?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS0960982223014495%3Fshowall%3Dtrue#secsectitle0065 \ No newline at end of file diff --git a/assays/MS-MSAnalysisOfThePull-downProteins/dataset/gr1a_lrg.jpg b/assays/MS-MSAnalysisOfThePull-downProteins/dataset/gr1a_lrg.jpg new file mode 100644 index 0000000..6897596 --- /dev/null +++ b/assays/MS-MSAnalysisOfThePull-downProteins/dataset/gr1a_lrg.jpg @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:eb567c30d29cc18c062cccf692afd51aa516124a3ed41181492584d72427af54 +size 136041 diff --git a/assays/QuantificationAndStatisticalAnalyses/README.md b/assays/QuantificationAndStatisticalAnalyses/README.md index e69de29..4447228 100644 --- a/assays/QuantificationAndStatisticalAnalyses/README.md +++ b/assays/QuantificationAndStatisticalAnalyses/README.md @@ -0,0 +1,8 @@ +<img src=dataset\gr6c_lrg.jpg width=60%> + +### Figure 6 C caption + +**Figure 6 C).** Percent area of the root showing CW response in barley control and *gbp1 gbp2* mutant lines. Letters represent statistically significant differences in Con A signal based on a Kruskal-Wallis test and Dunn’s post hoc test (significance threshold: p ≤ 0.05, n = 24). + +### Figure 6 C) source +https://www.cell.com/current-biology/fulltext/S0960-9822(23)01449-5?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS0960982223014495%3Fshowall%3Dtrue#fx1 \ No newline at end of file diff --git a/assays/QuantificationAndStatisticalAnalyses/dataset/gr6c_lrg.jpg b/assays/QuantificationAndStatisticalAnalyses/dataset/gr6c_lrg.jpg new file mode 100644 index 0000000..c035b36 --- /dev/null +++ b/assays/QuantificationAndStatisticalAnalyses/dataset/gr6c_lrg.jpg @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:b09480c84bf7681a8510f84029b87469cdea1fa53198f03a8eee9c52d784e8af +size 118860 diff --git a/assays/StainingForConfocalMicroscopy/README.md b/assays/StainingForConfocalMicroscopy/README.md index e69de29..618080b 100644 --- a/assays/StainingForConfocalMicroscopy/README.md +++ b/assays/StainingForConfocalMicroscopy/README.md @@ -0,0 +1,8 @@ +<img src=dataset\gr6a_lrg.jpg width=60%> + +### Figure 6 A caption + +**Figure 6 A).** Barley root CW responses of control and *gbp1 gbp2* mutant lines colonized by *S. indica*. Samples were fluorescently labeled with concanavalin A (Con A-AF633, cyan) and wheat germ agglutinin (WGA-AF488, green) for visualization of CWAs and fungal structures, respectively, then analyzed by confocal laser scanning microscopy. + +### Figure 6 A) source +https://www.cell.com/current-biology/fulltext/S0960-9822(23)01449-5?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS0960982223014495%3Fshowall%3Dtrue#fx1 \ No newline at end of file diff --git a/assays/StainingForConfocalMicroscopy/dataset/gr6a_lrg.jpg b/assays/StainingForConfocalMicroscopy/dataset/gr6a_lrg.jpg new file mode 100644 index 0000000..b18fdd5 --- /dev/null +++ b/assays/StainingForConfocalMicroscopy/dataset/gr6a_lrg.jpg @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:ffb8e56c085d2b4bbedc1a8d26b03415d98ffb35cf8f8633352827bac800588b +size 995257 diff --git a/assays/qRT-PCR/README.md b/assays/qRT-PCR/README.md index 3d60cee..18190fd 100644 --- a/assays/qRT-PCR/README.md +++ b/assays/qRT-PCR/README.md @@ -1,3 +1,13 @@ +<img src=dataset\gr1c_lrg.jpg width=60%> + +### Figure 1 C) caption + +**Figure 1 C).** Fungal colonization assays in roots of control and *gbp1 gbp2* mutant lines. The expression of *S. indica* and *S. vermifera* housekeeping genes was quantified by RT-PCR and normalized to the barley housekeeping gene ubiquitin (*HvUBI*). *R. irregularis* colonization was assessed using light microscopy to quantify the presence of ink-stained *R. irregularis* structures in roots. Root sections were considered to be colonized when arbuscules, intraradical hyphae (IRH), or vesicles were present. A total of 300 randomly chosen sections (covering 30 cm of root) were analyzed per replicate (n = 4). +Boxplot elements in this figure: center line, median; box limits, upper and lower quartiles; whiskers, 1.5× interquartile range. Data points from independent experiments are indicated by different shapes. Different letters represent statistically significant differences based on one-way ANOVA and Tukey’s post hoc test (significance threshold: p ≤ 0.05). + +### Figure 1 C) source +https://www.cell.com/current-biology/fulltext/S0960-9822(23)01449-5?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS0960982223014495%3Fshowall%3Dtrue#fx1 + <img src=dataset\gr2_lrg.jpg width=60%> ### Figure 2 caption @@ -6,4 +16,14 @@ To test the impact of GBP mutation on the compatibility of pathogenic fungi, barley roots and shoots were inoculated with B. sorokiniana (left graph) and B. hordei (right graph), respectively. Barley control and gbp mutant lines were inoculated with B. sorokiniana and grown in jars under axenic conditions for 7 days (Figure S3C). To assess the degree of root colonization, the expression of B. sorokiniana housekeeping gene BsTEF was quantified by RT-PCR and normalized to the barley housekeeping gene ubiquitin HvUBI. Barley leaves colonized by B. hordei were analyzed for penetration success using bright-field microscopy (Figure S3D). Boxplot represents quantification of B. hordei penetration success at 48 h. Boxplot elements in this figure: center line, median; box limits, upper and lower quartiles; whiskers, 1.5× interquartile range. Data points from independent experiments are indicated by data point shape. Different letters represent statistically significant differences based on one-way ANOVA and Tukey’s post hoc test (significance threshold: p ≤ 0.05). ### Figure 2 source +https://www.cell.com/current-biology/fulltext/S0960-9822(23)01449-5?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS0960982223014495%3Fshowall%3Dtrue#fx1 + +<img src=dataset\gr6d_lrg.jpg width=60%> + +### Figure 6 D caption + +**Figure 6 D).** Barley control and *gbp1 gbp2* mutant lines were inoculated with sterile water (mock) or *S. indica* and grown under axenic conditions. Root tissues were harvested at 6 days post inoculation (dpi). The expression of the barley defense gene *HvPR10* was analyzed by RT-PCR and normalized to the barley housekeeping gene *HvUBI*. +Data were analyzed by one-way ANOVA and Tukey’s post hoc test (significance threshold: p ≤ 0.05). Con A, concanavalin A; CW(A), cell wall (appositions); WGA, wheat germ agglutinin. + +### Figure 6 D) source https://www.cell.com/current-biology/fulltext/S0960-9822(23)01449-5?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS0960982223014495%3Fshowall%3Dtrue#fx1 \ No newline at end of file diff --git a/assays/qRT-PCR/dataset/gr1c_lrg.jpg b/assays/qRT-PCR/dataset/gr1c_lrg.jpg new file mode 100644 index 0000000..39446c7 --- /dev/null +++ b/assays/qRT-PCR/dataset/gr1c_lrg.jpg @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:a8897c64ea8e6fa15a25eaef7ef035595051a49d29ccdda3c533ce0e9b697a9f +size 389864 diff --git a/assays/qRT-PCR/dataset/gr6d_lrg.jpg b/assays/qRT-PCR/dataset/gr6d_lrg.jpg new file mode 100644 index 0000000..5dd051b --- /dev/null +++ b/assays/qRT-PCR/dataset/gr6d_lrg.jpg @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:ec89a7aefe3ff5fbb4bd65dfc419f0d1b0384aef5c7b3ff1e88ec718d7320916 +size 174934 -- GitLab