Skip to main content

Table 3 Unique CDS of M. parvum strain Indiana and M. suis strain Illinois: subcellular localization and protein sorting signals (PSORTb v3.0.2), presence of signal peptide cleavage sites (SignalP), and presence of lipoproteins (LipoP).

From: Microscopy and genomic analysis of Mycoplasma parvum strain Indiana

Software & parameters M. parvum- unique CDS not in paralogous families M. parvum- unique CDS in paralogous families M. suis- unique CDS not in paralogous families M. suis- unique CDS in paralogous families
PSORTb     
Subcellular localization:     
Unknown 34 (54.0%) 37 (57.8%) 83 (54.2%) 125 (66.5%)
Cytoplasmic Membrane 13 (20.6%) 3 (4.7%) 31 (20.3%) 12 (6.4%)
Cytoplasmic 11 (17.5%) 23 (35.9%) 29 (18.97%) 43 (22.9%)
Extracellular 5 (7.9%) 1 (1.6%) 10 (6.53%) 8 (4.2%)
Features:     
1 internal helix found 30 (47.6%) 20 (31.25%) 77 (50.3%) 153 (81.4%)
2 internal helices found 0 0 7 (4.6%) 0
3 internal helices found 0 0 2 (1.3%) 0
Signal peptide detected 3 (4.8%) 1 (1.6%) 18 (11.8%) 31 (16.5%)
None 30 (47.6%) 43 (67.15%) 49 (32%) 4 (2.1%)
SignalP     
YES 3 (4.8%) 0 11 (7.2%) 8 (4.2%)
NO 60 (95.2%) 64 (100%) 142 (92.8%) 180 (95.8%)
LipoP     
SpI 8 (12.7%) 9 (14.0%) 36 (23.5%) 65 (34.6%)
SpII 0 1 (1.6%) 1 (0.65%) 1 (0.53%)
TMH 2 (3.2%) 3 (4.7%) 18 (11.8%) 29 (15.4%)
None 53 (84.1%) 51 (79.7%) 98 (64.05%) 93 (49.47%)
Total 63 64 153 188
  1. PSORTb: results were obtained using the output for Gram-negative bacteria without outer membrane.
  2. SignalP: YES: signal peptide present, NO: signal peptide absent.
  3. LipoP: SpI: signal peptide (signal peptidase I), SpII: lipoprotein signal peptide (signal peptidase II), TMH: n-terminal transmembrane helix. Note from the software: TMH is generally not a very reliable prediction and should be tested. This part of the model is mainly there to avoid transmembrane helices being falsely predicted as signal peptide.