Table 1 The detailed information of deleted genomic regions and the constructed genome-reduced DSM 7029 mutant strains via two parallel routes.

Wild type

6,476,147 (100%)

–

–

–

–

route 1

Sequential deletions of biosynthetic gene clusters (DC)

 DC1

6,458,953 (99.7%)

BGC5

NRPS/Type1 PKS (glidobactin)

17,308

2,677,295–2,694,602

 DC2

6,383,273 (98.6%)

BGC6

NRPS/trans-AT PKS

75,794

3,068,290–3,144,083

 DC3

6,309,096 (97.4%)

BGC7

NRPS

74,291

3,144,084–3,218,374

 DC4

6,214,376 (95.9%)

BGCs 11 and 12

NRPS

94,834

3,959,099–4,053,932

 DC5

6,189,124 (95.6%)

BGC14

arylpolyene

25,366

4,492,695–4,518,060

 DC6

6,163,542 (95.2%)

BGC16

Type1 PKS/NRPS

25,696

5,022,468–5,048,163

 DC7

6,159,801 (95.1%)

BGC17 (3.8 kb)

PKS/NRPS

3855

6,065,980–6,069,834

route 2

Sequential deletions of transposons, prophages, genomic islands (DT)

 DT1

6,429,987 (99.3%)

Tn1

Transposases, hypothetical proteins

46,274

399,555–445,828

 DT2

6,399,122 (98.8%)

Tn2

Transposases, hypothetical proteins

30,979

1,869,872–1,900,850

 DT3

6,334,697 (97.8%)

Tn34

Transposases, hypothetical proteins

64,539

4,789,725–4,854,263

 DT4

6,307,491 (97.4%)

Tn5-GI3

Transposases, flagellar-related proteins

27,328

5,111,402–5,138,729

 DT5

6,271,463 (96.8%)

Tn6-GI1

Transposases, hypothetical proteins

36,134

6,161,822–6,197,955

 DT6

6,247,380 (96.5%)

Prophage 1

bacteriophage-related proteins

24,197

2,396,164–2,420,360

 DT7

6,187,607 (95.5%)

Prophage 2-GI7

bacteriophage-related genes, genomic island region

59,887

4,682,041–4,741,927

 DT8

6,170,413 (95.3%)

BGC 5

NRPS/Type1 PKS

17,308

2,677,295–2,694,602

 DT9

6,167,154 (95.2%)

BGC 6 (3.4 kb)

NRPS/trans-AT PKS

3373

3,093,895–3,097,267

 DT10

6,159,654 (95.1%)

BGC 7 (7.6 kb)

NRPS

7588

3,195,049–3,202,636