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Table 4 H. volcanii genes with a differential translational repression in exponential phase or in stationary phase*1

From: Genome-wide analysis of growth phase-dependent translational and transcriptional regulation in halophilic archaea

   

Translational repression factor

Identifier

Putative function

length (bp)

exp

stat

   

∅

SD

n

∅

SD

n

451B11

Inosine monophosphate dehydrogenase

365

49.7

56.0

3

8.8

2.9

3

431C4

Phage integrase-site-specific recombinase Xer

644

17.5

19.8

2

1.9

1.2

2

 

Conserved hypothetical protein

528

      

432A4

NAD dependent epimerase-dehydratase

770

12.8

5.6

4

5.4

2.9

3

439E12

Tfb2 – transcription initiation factor IIB

590

10.4

9.0

3

1.6

0.3

2

435D7

Nitrate transporter NarK

606

7.6

3.8

4

3.0

1.1

3

431H5

Alpha amylase AglA

613

5.4

0.5

2

2.4

1.3

3

 

Nitrate transporter NarK

455

      

435A4

  

4.7

2.7

3

1.4

0.8

2

437B8

HoxA-like transcriptional regulator (Hrg)

578

4.5

0.1

2

1.5

0.3

3

 

Transcription regulator

413

      

453C11

Tfb2 – transcription initiation factor IIB

335

3.6

0.3

2

1.9

0.9

3

451G12

Hypothetical protein

581

2.5

0.3

2

0.9

0.9

2

 

Conserved hypothetical protein

441

      

433F2

Glycosyltransferase

953

2.3

1.4

3

0.5

0.1

3

 

Stage V sporulation protein R-like (SpoVR)

593

      

435F2

CRISPR-associated protein, TM1814 family (Cas6)

222

8.6

3.5

4

21.9

12.7

3

432H1

Methyltransferase type 11

415

5.0

4.2

2

13.1

2.7

3

 

Hypothetical protein

362

      
 

Domain of unknown function (DUF309) family

232

      

443B4

Transposase (Tnp)

518

4.5

0.8

4

7.9

3.5

3

441F8

Tat pathway signal sequence domain protein

1008

2.2

0.1

3

4.8

2.6

3

459C3

Cell surface glycoprotein (Csg)

1167

1.1

0.3

4

3.9

2.0

3

445E9

  

0.6

0.4

2

3.3

0.2

2

433A10

Helicase family protein

1307

1.1

0.2

2

3.3

2.1

3

 

Hypothetical protein

431

      

441E1

DSBA-like thioredoxin domain protein

683

1.3

0.1

2

2.8

1.7

3

 

Ferredoxin like protein

377

      
 

Mut-nudix family protein

363

      

443C1

Ubiquinol oxidase subunit I, cyanide insensitive (CydA)

1391

0.9

0.1

3

2.4

1.1

3

431D10

Solute-binding periplasmic ABC transporter

1148

1.0

0.1

3

2.3

0.4

2

 

ABC transporter, permease protein

475

      

452E1

Ferrichrome-binding protein

848

1.2

0.3

4

2.3

0.6

3

451E8

Ribonuclease HII (RnhB)

579

1.1

0.5

4

2.2

0.7

3

 

Preprotein-export translocase chain SecD

408

      

460F5

Preprotein-export translocase chain SecD

988

1.2

0.6

3

2.2

0.2

3

440D1

Conserved hypothetical protein

992

1.0

0.1

3

2.0

0.0

2

444G9

Conserved hypothetical protein

1120

0.5

0.1

3

2.0

0.4

3

 

Fibronectin type III domain protein

408

      
  1. *1All genes are tabulated which have a "translational repression factor" of ≥2 differentially in exponential phase (upper part) or in stationary phase (lower part). The translational repression factor is the quotient of free RNA to polysome-bound RNA (normalized to the average of all genes). The identifier is the clone designation in the onefold coverage genome library used to generate the shotgun DNA microarray [41]. The "putative functions" are derived from blast searches against public databases. The "length" is the partial or total length of the gene which is present in the respective clone. The columns ∅, SD and n list average value, standard deviation and number of biological replicates included in the analysis.
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BMC Genomics

ISSN: 1471-2164

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