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Table 2 Top 20 operons exhibiting the shortest mRNA half-lives in G. oxydans and their assigned gene expression values FPKM. The arrow lines indicate operon genes and genomic orientation.

From: Global mRNA decay and 23S rRNA fragmentation in Gluconobacter oxydans 621H

 

locus tag / operon

annotation

operon half-life Ø (min)

half-life (min)

FPKM

|

GOX1310a

F1Fo ATP synthase subunit delta

3.1

3.7

6320

|

GOX1311a

F1Fo ATP synthase subunit alpha

 

3.0

1780

|

GOX1312a

F1Fo ATP synthase subunit gamma

 

3.1

1232

|

GOX1313a

F1Fo ATP synthase subunit beta

 

2.9

1651

↓

GOX1314a

F1Fo ATP synthase epsilon chain

 

3.1

6950

|

GOX1737

rod shape-determining protein MreB

2.8

2.4

908

|

GOX1738

rod shape-determining protein MreC

 

2.8

383

↓

GOX1739

hypothetical protein

 

3.0

93

↑

GOX1110a

F1Fo ATP synthase subunit b’

2.8

2.9

937

|

GOX1111a

F1Fo ATP synthase subunit b

 

2.9

1600

|

GOX1112a

F1Fo ATP synthase C chain

 

2.9

1743

|

GOX1113a

F1Fo ATP synthase subunit a

 

2.4

1911

|

GOX0149

cell division protein MraZ

2.8

3.0

2124

|

GOX0150

SAM-dependent methytransferase

 

2.8

528

↓

GOX0151

hypothetical protein

 

2.6

255

↓

GOX1427

FAD-dependent thymidylate synthase

2.7

2.7

1121

↑

GOX0476

putative oxidoreductase

2.7

2.9

658

|

GOX0477

hypothetical protein

 

2.5

847

|

GOX0478

putative oxidoreductase

 

2.8

1202

↑

GOX1596

hypothetical protein

2.7

2.7

119

↓

GOX2462

transcriptional regulator

2.7

2.7

4866

↑

GOX0607

D-alanyl-D-alanine carboxypeptidase

2.7

2.7

1540

|

GOX1430

serine protease

2.7

2.8

170

↓

GOX1431

hypothetical protein

 

2.6

336

|

GOX0024

undecaprenyl pyrophosphate phosphatase

2.6

2.8

198

↓

GOX0025

amino acid permease

 

2.5

142

↑

GOX2207

methylenetetrahydrofolate reductase

2.6

2.6

547

↓

GOX0649

sugar-proton symporter

2.6

2.6

364

↓

GOX2378

short chain alcohol dehydrogenase

2.6

2.6

301

↑

GOX1151

hypothetical protein

2.5

2.5

2854

↑

GOX1696

hypothetical protein

2.5

2.5

35

↑

GOX2067

manganese transport protein MntH

2.5

2.5

526

↓

GOX0942

hypothetical protein

2.5

2.5

178

↑

GOX1652

heme exporter protein C

2.4

2.4

323

↑

GOX0666

outer membrane receptor for ferric iron uptake

2.4

2.4

222

↑

GOX1426

hypothetical protein

2.4

2.4

577

  1. a) For the F1Fo ATP synthase encoded by two operons the data of the operon GOX1310–14, which was close to the top 20, were also included
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BMC Genomics

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