Skip to main content

Advertisement

Springer Nature is making SARS-CoV-2 and COVID-19 research free. View research | View latest news | Sign up for updates

Table 1 The coefficient estimates from the GCVAR regression model

From: Analysis of intra-genomic GC content homogeneity within prokaryotes

Factor Category Chromosomes Average %GC Average size (mbp) Coefficient estimate p-value
Phylum Acidobacteria 2 60 7.8 -0.23 0.05
Phylum Actinobacteria 42 66 4.8 -0.11 0.003
Phylum Bacteroides 16 44 3.6 0.18 <0.001
Phylum Betaproteobacteria 64 64 3.4 0.1 0.002
Phylum Chlamydiae 8 43 1.9 -0.28 <0.001
Phylum Crenarchaeota 16 48 2 0.22 <0.001
Phylum Cyanobacteria 17 48 4.4 0.3 <0.001
Phylum Deltaproteobacteria 18 58 4.7 0.15 0.001
Phylum Epsilonproteobacteria 12 38 1.9 0.1 0.04
Phylum Euryarcheota 31 46 2.4 0.16 <0.001
Phylum Firmicutes 89 37 2.6 0.12 <0.001
Phylum Gammaproteobacteria 92 47 3.7 0.12 <0.001
Phylum Planctomycetes 1 55 7.2 -0.48 0.002
Phylum Spirochaetes 11 37 1.7 0.14 0.01
Oxygen Anaerobic - - - 0.11 <0.001
GC - - - - 0.37 <0.001
  1. The variable GC is continuous while phylum and oxygen are categorical variables. Note that for the phylum variable we have used the sum-to-zero parameterization, i.e. all estimated effects are deviations from the mean phylum effect. For the oxygen requirement variable however, we used a relative parameterization where the category "aerobic" is the reference, i.e. the estimated effect is the deviation from the aerobic effect. In addition, the number of chromosomes, average %GC, and average genomes size in mbp, are included for each phylogenetic group.