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Table 2 Expression changes accompanying environmental challenge in T. brucei.

From: The trypanosome transcriptome is remodelled during differentiation but displays limited responsiveness within life stages

   

Fold up (down) vs control

Experiment

Gene

Accession

array

qRT-PCR

SMB grown with 0%FBS 5 mg/ml BSA vs with 10% FBS

Gp63 (TbMSP-C)

Tb10.70.5290

2.9

2.2

 

procyclin

Tb10.6k15.0030

2.4

2.4

 

procyclin

Tb927.6.450

2.0

2.3

 

cysteine peptidase

Tb927.6.960

1.9

3.6

 

ESAG6

H25N7.15

1.8

3.9

 

ESAG7

N19B2.155

1.6

4.7

 

14-3-3-like

Tb11.02.4700

(1.9)

 

SMB grown with 0%FBS, 5 mg/ml BSA, 0.3 mg/mg Tfn vs with 10% FBS

Gp63 (TbMSP-C)

Tb10.70.5290

3.1

1.5

 

procyclin

Tb10.6k15.0030

2.2

1.9

 

cysteine peptidase

Tb927.6.960

2.0

4.6

 

ESAG6

H25N7.15

2.0

4.1

 

ESAG7

N19B2.155

1.4

3.5

SMB grown with 30%FBS vs with 10% FBS

ISG65-like

Tb927.5.410

(2.9)

(4.1)

 

CAMK4 kinase

Tb927.4.3770

(2.2)

 
 

procyclin

Tb10.6k15.0030

(1.9)

(3.6)

SMB grown for 1 hr with 1 mM DTT vs without

GTP1/OBG/Hsr1

Tb927.2.5060

2.4

 
 

putative ABC transporter

Tb10.329.0040

2.2

 
 

ISG65-like

Tb927.5.410

(2.9)

(1.9)

 

ESAG7

N19B2.155

(2.2)

(2.0)

 

MAP kinase

Tb10.70.2070

(2.1)

 
 

Rab3GAP

Tb10.6k15.1390

(2.1)

 
 

dual-specificity protein phosphatase

Tb927.5.3620

(1.9)

 

SMB grown for 4 hr with 1 mM DTT vs without

TbGRP

Tb10.6k15.1520

3.6

 
 

hypothetical ER chaperone

Tb11.01.8120

3.0

3.3

 

Ubiquitin conjugating

Tb927.7.6960

2.8

 
 

Vta1-like

Tb927.7.7140

2.7

 
 

syntaxin

Tb10.61.1980

2.7

 
 

Hsp60 chaperonin

Tb10.70.0280

(3.0)

 
 

GMP-PDE delta

Tb927.2.4580

(2.8)

 
 

Rab11a

Tb927.8.4330

(2.8)

(1.8)

 

Ser peptidase (Bem46-like)

Tb09.211.2310

(2.4)

 
 

Sec24

Tb927.3.5420

(2.4)

 

SMB grown for 4 hr with 5 ug/ml Tunicamycin vs without

procyclin

Tb10.6k15.0030

2.4

2.1

 

ESAG6

H25N7.15

1.9

2.3

 

procyclin

Tb927.6.450

1.7

2.3

 

AP2-kinase1

Tb09.160.4770

(2.0)

 

SMB grown for 24 hr with 5 ug/ml Tunicamycin vs without

procyclin

Tb10.6k15.0030

4.2

7.8

 

procyclin

Tb927.6.450

2.7

8.8

 

ESAG7

N19B2.155

2.6

4.3

 

ESAG6

H25N7.15

2.2

2.8

 

RabGAP

Tb10.6k15.1790

2.1

 
 

GOLD domain

Tb927.7.3600

2.1

 
 

PDI/ERp72

Tb10.6k15.2290

(2.3)

 

VSG RNAi induced vs uninduced Day1

RabGEF/Vps9

Tb927.3.2430

2.1

 

VSG RNAi induced vs uninduced Day3

nothing

   

CLH RNAi induced vs uninduced 24 hr

Gp63 (TbMSP-C)

Tb10.70.5290

2.7

3.6

 

ISG65-like

Tb927.5.410

2.8

3.8

 

CLH

Tb10.70.0830

(2.5)

 
 

GMP-PDE delta

Tb927.2.4580

(2.3)

 
 

CBL-interacting protein kinase 9

Tb927.8.870

(2.0)

 

Rab5AWT overexpressing PCF line vs PCF WT (both with 20% FBS)

alpha tubulin

Tb927.1.2400

2.9

1.7

 

histone H3

Tb927.1.2430

2.7

1.5

 

Rab5a

Tb10.389.0550

2.6

9.5

 

RabX3

Tb11.01.6670

2.5

3.5

 

40S ribosomal protein S25

Tb927.3.1370

2.2

1.2

 

Amphiphysin

Tb11.01.6740

2.2

 
 

Hsp70

Tb927.6.3740

2.0

 
 

cysteine peptidase

Tb927.6.960

2.0

 
 

COPI epsilon

Tb11.01.6530

2.0

2.6

 

adenylate kinase 3

Tb10.70.5150

2.0

3.1

 

CBL-interacting protein kinase 9

Tb927.8.870

(2.3)

1.6

 

Ubiquitin conjugating

Tb11.02.0815

(2.1)

1.6

 

ARPC5

Tb10.406.0320

(2.0)

 

Rab5AQL overexpressing PCF line vs PCF WT

histone H3

Tb927.1.2430

2.3

1.6

 

40S ribosomal protein S25

Tb927.3.1370

2.1

1.1

 

Rab5a

Tb10.389.0550

2.0

9.8

 

adenylate kinase 3

Tb10.70.5150

1.6

3.8

 

alpha tubulin

Tb927.1.2400

1.6

2.1

 

COPI epsilon

Tb11.01.6530

1.4

3.0

 

RabX3

Tb11.01.6670

1.3

3.4

 

mitochondrial intermediate peptidase

Tb10.6k15.0490

(2.4)

 
 

mitochondrial zinc metallopeptidase

Tb927.4.3300

(2.0)

 

Rab5BQL overexpressing PCF line vs PCF WT

Rab5b

Tb11.02.2160

2.5

16.7

 

adenylate kinase 3

Tb10.70.5150

1.6

3.5

 

COPI epsilon

Tb11.01.6530

1.5

3.4

 

RabX3

Tb11.01.6670

1.5

2.8

  1. The most significantly altered mRNAs detected by microarray for differing serum conditions, dithiothreitol and tunicamycin treatment, RNAi of VSG or CLH, and Rab5 overexpressing PCF lines are shown. The ratios obtained by qRT-PCR for selected transcripts are also shown. Ratios are given on a linear (not log) scale, and those indicating a reduction compared to the control state are in parentheses. Only ORFs that display at least a two-fold change, by either qRT-PCR or array, are included; except the 4 hour DTT treatment, where only the top ten hits are shown. Ratios which correspond to a value >1 for the B-statistic in limma analysis are shown in bold.
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