Additional file 1 of Comparative genomics and genomic diversity of Pseudomonas syringae clade 2b-a in Australia
Creators: name: Djitro, Noel
name: Roach, Rebecca
name: Mann, Rachel
name: Campbell, Paul R.
name: Rodoni, Brendan
name: Gambley, Cherie
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology
subject: Computational Biology

description: Additional file 1: Table S1. Biolog results of isolate 77-4C, KFR003-1 and KL004-k1. Table S2. Assembly statistics of Pseudomonas syringae strains used in this study. Isolates from this study are indicated with bold text. Table S3. Average percent identity within P. syringae clade 2b-a clusters. Table S4. Protein sequence of cucurbit associated orthologous groups identified using Scoary. Table S5. Protein sequence of P. syringae clade unique 2b-a orthologous groups (OGs) identified using Scoary. Table S6. Protein sequence that corresponded to the difference in carbohydrate active enzymes (CAZYmes) family. Table S7. Regions of genome plasticity position in isolate 77-4C. Coding sequences were predicted using Prokka [2]. Table S8. Pseudomonas syringae strains used in this study. Isolates from this study are indicated with bold text. Table S9. Genes included in the phytotoxin database manually created for this study. Table S10. Genes in the siderophore database manually created for this study. Table S11. Ice nucleation protein sequences. Figure S1. Type III effector profile of Pseudomonas syringae phylogroup 2 isolated from Cucurbitaceae. Colour indicates copies of effector in the genome as shown in the key. Cluster and phylogroup are also indicated by colours described in the key. Figure S2. Disease severity rating scale. 0 = no symptom, 1 = leaf spot, 2 = necrotic lesions covering &lt;25% of the leaf surface, 3 = necrotic lesions covering from 25 to 49% of the leaf surface, 4 = necrotic lesions covering from 50 to 74% and 5 = necrotic lesions covering ≥75% of the leaf surface. Figure S3. Representative of leaf symptoms in Cucurbitaceae hosts with spray inoculation of isolates 77-4C, KFR003-1 and KL004-k1. Figure S4. Comparison of RGP_3 DNA sequence in phylogroup 2. The lines indicate the presence of the region in the corresponding strain. Figure S5. Structural comparison of KL004-k1 hopZ1 (green) and KFR003-1 hopZ5 (blue). These protein structures were predicted using AlphaFold and compared using PyMOL. Figure S6. Mean disease severity rating of isolates 77-4C, KFR003-1 and KL004-k1 on cucurbit hosts. Isolates are identified by colour as shown in the key. ‘Eva’ and ‘Rosa’ are varieties of zucchini. The experiment was conducted in a growth cabinet. Five replicates were used for each isolate on each plant variety. Disease severity was rated from 0-5 which 0 = no symptom, 1 = leaf spots without necrotic lesions, 2 to 5 represented &lt;25%, 25 to 49%, 50 to 74% and ≥75%, necrotic lesions covering the leaf surface, respectively. The vertical lines represent one standard error mean (0.376) calculated with GenStat. Significant differences are shown with a letter above the bar (LSD = 1.07, α = 0.05).