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. 2012 Jul 26;2:98. doi: 10.3389/fcimb.2012.00098

Table 1.

Overview of the CSIs and CSPs that have been identified for some major prokaryotic taxa.

Taxonomic group Number of CSPs/CSIs References
Archaea Archaeal Kingdom specific: 16 CSPs Gao and Gupta, 2007; Gupta and Shami, 2011
Subgroups: Thaumarchaeota—6 CSIs/201 CSPs, Euryarchaeota—6 CSPs, Thermoacidophiles—77 CSPs, Halophiles—127 CSPs, Methanogens—31 CSPs, Thermococcus-Pyrococcus clade—141 CSPs
Crenarchaeota Phylum specific: 6 CSIs, 13 CSPs Gupta and Shami, 2011
Subgroups: Sulfolobales—3 CSIs/151 CSPs, Thermoproteales—5 CSIs/25 CSPs, Desulfurococcales—4CSPs, Sulfolobales-Desulfurococcales clade—2 CSIs/18 CSPs
Thaumarchaeota >200 CSPs Gupta and Shami, 2011
Thermotogae Phylum specific: 18 CSIs Gupta and Bhandari, 2011
Subgroups: Thermotoga genus—13 CSIs, Thermosipho genus—7 CSIs, Thermosipho-Fervidobacterium clade—13 CSIs, Thermotoga-Thermosipho-Fervidobacterium clade—5 CSIs, Petrotoga-Kosmotoga clade—4 CSIs
Cyanobacteria Phylum specific: 39 CSPs/10 CSIs Gupta, 2009; Gupta and Mathews, 2010
Subgroups: Cyanobacterial Clade A—14 CSPs/1 CSI, Other Cyanobacteria (outside clade A)—5 CSPs/4 CSIs, Cyanobacterial Clade C—60 CSPs, Nostocales—65 CSPs, Chroococcales—8 CSPs, Synechococcus—14 CSPs, Prochlorococcus—19 CSPs, Low B/A type Prochlorococcus—67 CSPs
Chlamydiae Phylum specific: 59 CSPs/8 CSIs Gupta and Griffiths, 2006
Subgroups: Chlamydiaceae—79 CSPs, Chlamydophila—20 CSPs, Chlamydia—20 CSPs
Bacteroidetes, chlorobi and fibrobacteres Phylum specific: 1 CSP/2 CSIs Gupta, 2004
Subgroup specific: Bacteroidetes—27 CSPs/2 CSIs, Chlorobi—51 CSPs/2 CSIs, Bacteroidetes and Chlorobi clade—5 CSPs/3CSIs
Actinobacteria Phylum specific: 24 CSPs/4 CSIs Gao and Gupta, 2005, 2012b; Gao et al., 2006
Subgroup specific: CMN group—13 CSPs, Mycobacterium and Nocardia—14 CSIs, Mycobacterium—24 CSPs, Micrococcineae—24 CSPs, Corynebacteriales—4 CSPs/2 CSIs, Bifidobacteriales—14 CSPs/1 CSI
Deinococcus-thermus Phylum specific: 65 CSPs/8 CSIs Griffiths and Gupta, 2004a, 2007a
Subgroup specific: Deinococci—206 SPs
Aquificae Phylum specific: 10 CSPs/5 CSIs Griffiths and Gupta, 2006b, 2004b
α-proteobacteria Class specific: 6 CSPs/13 CSIs Gupta and Mok, 2007
Subgroups: Rickettsiales—3 CSPs/2 CSIs, Rickettsiaceae—4 CSPs/5 CSIs, Anaplasmataceae—5 CSPs/2 CSIs, Rhodobacterales-Caulobacter-Rhizobiales clade—2 CSIs, Rhodobacterales-Caulobacter clade—1 CSI, Rhizobiales—6 CSPs/1CSI, Bradyrhizobiaceae—62 CSPs/2CSIs
γ-proteobacteria Class specific: 4 CSPs/1 CSI Gao et al., 2009
Subgroups: 20 CSPs, 2 CSIs for various subgroup combinations of subgroups
ε-proteobacteria Class specific: 49 CSPs/4 CSIs Gupta, 2006
Subgroups: Wolinella-Helicobacter clade—11 CSPs/2 CSIs, Campylobacter genus—18 CSPs/1 CSI
Pasteurellales Order specific: 44 CSIs Naushad and Gupta, 2012
Subgroups: Pasteurellales Clade I—13 CSIs, Pasteurellales Clade II—9 CSIs
Clostridia sensu stricto Genus specific: 10 CSPs/3 CSIs Gupta and Gao, 2009

The table provides general information regarding the number of CSIs and CSPs identified for many taxonomic groups on which genomic studies have been conducted. Further details can be obtained from the corresponding studies.