Table 1

A. Definition of the variables (MC, Ar, SI) used in SpolDB4 to define : (1) the geographic index C1 (Endemic, Localized, Ubiquitous) (2) the quantitative index C2 (Epidemic, Common, Recurrent, Rare). B. Distribution of the 1939 Shared-types in 12 classes.

Name

Abbreviation

Type of data, Def.

Rules for Definition of Qualifiers (C1 and C2)


A Definitions

Matching Code

MC

1–8 digits, built by linking region codes

If 1 digit, then C1 = Endemic (genotype found in one macroregion only)

If 2 digits, then C1 = Localized (genotype found in two macroregions)

If ≥ 3 digits, go to Area section below for further interpretation

Area

Ar

numeric, n° of countries in which a given SIT is found

If MC ≥ 3 digits and Areas ≤ 5; C1 = Localized

If MC ≥ 3 digits and Areas ≥ 6; C1 = Ubiquitous (genotype found in more than three macroregions)

Spreading Index

SI

numeric, mean indicator of spreading independent of geography SI = n/Ar where n is the absolute value for a given shared-type

If SI ≥ 25; C2 = Epidemic

If 10 < SI < 24; C2 = Common

If 3 < SI < 9; C2 = Recurrent

If SI ≤ 2; C2 = Rare

B Distribution of the 1939 genotypes in 12 class

Endemic Epidemic

6

Endemic Recurrent

286

Localized Epidemic

2

Localized Recurrent

207

Ubiquitous Epidemic

6

Ubiquitous Recurrent

176

Endemic Common

31

Endemic Rare

501

Localized Common

14

Localized Rare

587

Ubiquitous Common

20

Ubiquitous Rare

82

NA*

21

Total

1939

*not applicable


Brudey et al. BMC Microbiology 2006 6:23   doi:10.1186/1471-2180-6-23

Open Data