Table 1

The core genome components and lineage-specific expansions (LSEs) in five Streptomyces species.

Strains

Accession ID

Genome size (Mbp)

# Genes (# ORFs) in genome

% core in genome

# LSE families

# LSE genes

% LSEs in genome


Lineage-unique

Typical LSEs


S. avermitilis MA-4680

NC_003155 (chr)

NC_004719 (plasmid SAP1)

9.1

7765 (7676)

41.87

38

112

312

4.06

S. bingchenggensis BCW-1

CP002047 (chr)

11.9

10025 (10023)

33.35

219

232

1127

11.24

S. coelicolor A3(2)

NC_003888 (chr)

NC_003903 (plasmid SCP1)

NC_003904 (plasmid SCP2)

9.1

8300 (8153)

39.42

98

163

568

6.97

S. griseus IFO 13350

NC_010572 (chr)

8.5

7224 (7136)

44.63

116

105

471

6.60

S. scabiei 87-22

NC_013929 (chr)

10.1

8901 (8746)

36.47

116

186

689

7.88


The inter-genomic search yielded a core genome comprised of 3,096 orthologous proteins.

Zhou et al. BMC Bioinformatics 2012 13(Suppl 10):S8   doi:10.1186/1471-2105-13-S10-S8

Open Data