Table 1

Up-regulated genes after 37°C/pH4.5 treatment (day 4) in L. infantum.

Clone

F

Log2F ± SD

p

GenBank

e-value

Def.

Id.

Annotated Gene Function (GO terms in Figure S3., additional file 4)

qRT-PCR

GSS

Fw

Rv

+/-

F ± SD


Lin11D7

4.78

2.3 ± 0.2

0.002

GS598854

6e-118

0

b

LinJ31_V3.0460

Amastin, putative (uTPS0)

+

7.8 ± 0.2

Lin19D1

1.88

0.9 ± 0.3

0.028

GS598855

3e-18

0

b

LinJ08_V3.0680

Amastin-like protein (uTPS0)

N.D.

LinJ08_V3.0690

Amastin-like protein (uTPS0)

N.D.

Lin22E12

2.79

1.5 ± 0.1

0.001

GS598856

0

0

b

LinJ31_V3.1850

Amino acid permease (uTPS13)

N.D.

Lin33G2

4.01

2.0 ± 0.8

0.044

GS598857

6e-118

6e-118

b

LinJ34_V3.4370

Amastin-like surface protein, putative (uTPS0)

N.D.

Lin34G1

1.81

0.9 ± 0.1

0.008

GS598858

0

0

a

LinJ16_V3.0790

Chitinase (uTPS18, uTPS8)

N.D.

Lin36B8

1.99

1.0 ± 0.2

0.015

GS598859

0

0

b

LinJ30_V3.3230

3-hydroxy-3-methyglutaryl-CoA reductase, putative (uTPS21, uTPS12)

N.D.

Lin50G2

3.38

1.8 ± 0.1

0.000

GS598860

0

4e-153

b

LinJ34_V3.2660

Amastin-like surface protein (uTPS0)

+

1.8 ± 0.0

Lin54G3

1.84

0.9 ± 0.3

0.027

GS598861

0

0

b

LinJ24_V3.1230

Hypothetical protein, conserved

N.D.

LinJ24_V3.1240

Translation factor SUI1, putative (uTPS0)

+

3.1 ± 0.1

Lin62D3

1.92

0.9 ± 0.4

0.040

GS598862

0

0

b

LinJ05_V3.0340

Hypothetical protein, conserved

N.D.

LinJ05_V3.0350

Trypanothione reductase (uTPS10, uTPS14, uTPS20)

+

3.8 ± 0.4

Lin62D10

1.76

0.8 ± 0.3

0.051

GS598863

0

0

b

LinJ17_V3.1150

Esterase-like protein (uTPS5)

+

18.5 ± 1.5

Lin66A8

3.59

1.8 ± 0.4

0.013

GS598864

0

0

b

LinJ22_V3.0470

Hypothetical protein, conserved

N.D.

LinJ22_V3.0480

Ubiquitin-conjugating enzyme-like protein (uTPS0)

+

2.3 ± 0.2

Lin66F8

1.92

0.9 ± 0.2

0.017

GS598865

0

3e-132

a

LinJ33_V3.2470

Succinyl-CoA:3-ketoacid-CoA transferase, mitochondrial precursor, putative (3-oxoacid-CoA transferase)

-

-1.3 ± 0.3

LinJ33_V3.2480

Hypothetical protein, conserved/RABreg (uTPS17)

N.D.

Lin77H8

5.63

2.5 ± 0.5

0.016

GS598866

0

0

b

LinJ08_V3.0690

Amastin-like protein (uTPS0)

N.D.

Lin86H7

3.06

1.6 ± 0.2

0.004

GS598867

0

2e-101

b

LinJ08_V3.0700

Amastin-like protein (uTPS0)

+

9.5 ± 0.3

Lin87H2

4.20

2.1 ± 0.3

0.008

GS598868

3e-15

3e-33

b

LinJ08_V3.0690

Amastin-like protein (uTPS0)

N.D.

Lin89D9

1.71

0.8 ± 0.3

0.043

GS598869

0

0

b

LinJ21_V3.0770

ATP-binding cassette sub-family E, putative (uTPS9, uTPS11, uTPS24, uTPS28)

N.D.

Lin90B6

1.71

0.8 ± 0.3

0.040

GS598870

0

0

b

LinJ30_V3.0640

Ribosome biogenesis regulatory protein (RRS1), putative (uTPS0)

+

16.4 ± 0.2

LinJ30_V3.0650

Histidyl-tRNA synthetase, putative

N.D.

LinJ30_V3.0660

Hypothetical protein, conserved

N.D.

Lin90H2

1.76

0.8 ± 0.1

0.005

GS598871

0

0

b

LinJ30_V3.2200

RNA-binding protein (uTPS3, uTPS6, uTPS15, uTPS16)

N.D.

Lin91B12

5.24

2.4 ± 0.3

0.004

GS598872

0

0

b

LinJ34_V3.2660

Amastin-like surface protein (uTPS0)

+

1.8 ± 0.0

Lin92H5

2.48

1.3 ± 0.5

0.041

GS598873

0

0

b

LinJ28_V3.2060

Zinc transporter, putative (uTPS23)

+

45.7 ± 0.5

LinJ28_V3.2070

Hypothetical protein, conserved

N.D.

Lin93E3

1.83

0.9 ± 0.4

0.033

0

0

b

LinJ10_V3.0410

Pteridine transporter ft3, putative (uTPS0)

N.D.

Lin104C10

6.68

2.7 ± 0.1

0.001

GS598874

0

0

b

LinJ08_V3.1320

Amastin-like protein (uTPS0)

N.D.

Lin106A1

2.43

1.3 ± 0.0

0.000

GS598875

0

0

c

LinJ06_V3.1200

Hypothetical protein, conserved

N.D.

LinJ31_V3.0590

Amino acid transporter aATP11, putative (uTPS13)

+

2.6 ± 0.0

Lin113C3

1.87

0.9 ± 0.1

0.040

GS598876

3e-74

0

a

LinJ14_V3.1440

Pteridine transporter (uTPS0)

+

1.9 ± 0.0

LinJ14_V3.1450

Myo-inositol-1-phosphate synthase (uTPS0)

+

2.1 ± 0.3

Lin118A11

2.90

1.5 ± 0.3

0.010

GS598877

0

7e-28

c

LinJ30_V3.0630

Nitrate reductase, putative (uTPS0)

+

3.7 ± 0.3

LinJ36_V3.2480

Glyceraldehyde-3-phosphate dehydrogenase, putative

N.D.

Lin119F3

3.40

1.8 ± 0.2

0.005

GS598878

0

0

b

LinJ25_V3.2570

Phosphoglycan beta-1,3-galactosyltransferase 6 (uTPS22)

N.D.

Lin123D6

2.91

1.5 ± 0.1

0.002

GS598879

-

0

c

LinJ34_V3.2660

Amastin-like surface protein (uTPS0)

+

1.8 ± 0.0

Lin137A10

1.98

1.0 ± 0.3

0.039

GS598880

0

0

b

LinJ24_V3.1230

Hypothetical protein, conserved

N.D.

LinJ24_V3.1240

Translation factor SUI1, putative (uTPS0)

+

3.1 ± 0.1

Lin142H9

1.74

0.8 ± 0.1

0.004

GS598881

0

0

b

LinJ31_V3.0460

Amastin, putative (uTPS0)

+

7.8 ± 0.2

Lin146E3

2.35

1.2 ± 0.4

0.038

GS598882

0

0

b

LinJ31_V3.0590

Amino acid transporter aATP11, putative (uTPS13)

+

2.6 ± 0.0

Lin156B2

1.82

0.9 ± 0.2

0.025

GS598883

0

0

b

LinJ33_V3.2960

Hypothetical protein, conserved/Transcription regulator (uTPS 1, uTPS4, uTPS7)

N.D.

Lin162A9

4.29

2.1 ± 0.2

0.004

GS598884

0

0

b

LinJ22_V3.0470

Hypothetical protein, conserved

N.D.

LinJ22_V3.0480

Ubiquitin-conjugating enzyme-like protein (uTPS0)

+

2.3 ± 0.2

Lin165E2

3.48

1.8 ± 0.2

0.004

GS598885

0

0

b

LinJ22_V3.0680

3'a2rel-related protein (uTPS0)

+

4.0 ± 0.4

Lin183A3

1.75

0.8 ± 0.1

0.010

GS598886

0

0

b

LinJ24_V3.2250

Hypothetical protein, conserved/GPDE (uTPS26)

N.D.

Lin185A12

4.53

2.2 ± 0.2

0.002

GS598887

0

0

b

LinJ34_V3.2660

Amastin-like surface protein, putative (uTPS0)

+

1.8 ± 0.0

Lin188H2

3.20

1.7 ± 0.6

0.042

GS598888

0

0

c

LinJ08_V3.0680

Amastin-like protein (uTPS0)

N.D.

Lin194E2

3.22

1.7 ± 0.4

0.023

GS598889

7e-56

4e-153

b

LinJ08_V3.0710

Amastin-like protein (uTPS0)

+

9.5 ± 0.3

Lin197A12

1.95

1.0 ± 0.2

0.016

GS598890

0

0

a

LinJ31_V3.2540

Lipase, putative (uTPS19)

N.D.

Lin201F8

2.00

1.0 ± 0.4

0.041

GS598891

0

0

b

LinJ31_V3.3330

Phosphoglycan beta-1,3-galactosyltransferase 5 (uTPS22)

N.D.

Lin206B6

5.40

2.4 ± 0.5

0.012

GS598892

7e-133

0

b

LinJ22_V3.0680

3'a2rel-related protein (uTPS0)

+

4.0 ± 0.4

Lin210C4

2.77

1.5 ± 0.1

0.003

GS598893

0

0

b

LinJ08_V3.0690

Amastin-like protein (uTPS0)

N.D.

Lin223F2

1.73

0.8 ± 0.3

0.044

GS598894

0

0

b

LinJ13_V3.0330

Unknown/Tubulin associated GTPase (uTPS2, uTPS25, uTPS27)

N.D.

Lin224G2

2.20

1.1 ± 0.2

0.023

GS598895

0

0

b

LinJ08_V3.0720

Amastin-like protein (uTPS0)0

N.D.

Lin235G8

3.16

1.7 ± 0.2

0.003

GS598896

0

0

b

LinJ08_V3.1320

Amastin-like protein (uTPS0)

N.D.

Lin245E2

2.61

1.4 ± 0.4

0.040

GS598897

0

0

b

LinJ22_V3.0680

3'a2rel-related protein (uTPS0)

+

4.0 ± 0.4

Lin267D9

2.06

1.0 ± 0.2

0.010

GS598898

9e-111

0

b

LinJ16_V3.0590

Carbamoyl-phosphate synthetase, putative (uTPS0)

+

2.9 ± 0.4

LinJ16_V3.0600

Histone H3, putative

-

1.3 ± 0.2

Lin274G6

5.77

2.5 ± 0.2

0.003

GS598899

0

0

b

LinJ08_V3.0680

Amastin-like protein (uTPS0)

N.D.

LinJ08_V3.0690

Amastin-like protein (uTPS0)

N.D.

Lin275A8

2.72

1.4 ± 0.2

0.006

GS598900

0

4e-168

b

LinJ08_V3.0720

Amastin-like protein (uTPS0)

N.D.

Lin276B6

1.76

0.8 ± 0.3

0.041

GS598901

0

0

b

LinJ31_V3.2540

Lipase, putative (uTPS19)

N.D.

Lin294A11

4.86

2.3 ± 0.1

0.001

GS598902

0

0

b

LinJ08_V3.1320

Amastin-like protein (uTPS0)

N.D.

Lin295D9

4.40

2.1 ± 0.1

0.000

GS598903

0

0

b

LinJ34_V3.1720

Amastin-like surface protein, putative (uTPS0)

N.D.

Lin310F2

2.34

1.2 ± 0.5

0.046

GS598904

0

0

b

LinJ23_V3.1220

Hydrophilic surface protein (HASPB) (uTPS0)

N.D.

cLinA2

6.45

2.7 ± 0.1

0.000

S69693

-

-

-

-

L. infantum A2 gene -- DNA microarray control spot

cLdoA2

2.51

1.3 ± 0.3

0.021

-

-

-

-

-

L. donovani A2 gene -- DNA microarray control spot


This table contains clones that map against up-regulated genes (not hypothetical or unknown) with the combined effect of temperature increase and pH decrease (TPS). The features described are: clone number; F; base-two logarithmic scale F and SD values; p; GenBank GSS accession numbers; e-values; Def. according to mapping outcomes a, b or c (see brief explanation in the text); Id.; annotated gene function (codes for Additional file 4: Figure S3,); qRT-PCR. When a given clone overlaps with more than one annotation, stage-specific regulation is only demonstrated if the qRT-PCR result is positive (+). Genes in bold are also up-regulated under TS.

Alcolea et al. BMC Genomics 2010 11:31   doi:10.1186/1471-2164-11-31

Open Data