Table 2

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

Clone

F

Log2F ± SD

P

GenBank GSS

e-value

Def.

Id.

Annotated Gene Function (GO terms in Figure S4., additional file 4)

qRT-PCR

Fw

Rv

+/-

F ± SD


Lin1G8

-1.80

-0.8 ± 0.1

0.009

GS598905

5e-35

8e-31

B

LinJ22_V3.1340

Serine/threonine protein phosphatase, putative (dTPS6)

N.D.

Lin4F4

-2.27

-1.2 ± 0.3

0.016

GS598906

0

0

a

LinJ31_V3.0430

Cysteine peptidase, Clan CA, family C2, putative (dTPS0)

+

-3.3 ± 0.1

Lin9B9

-1.71

-0.8 ± 0.2

0.015

GS598907

5e-26

0

a

LinJ36_V3.1010

Dynein heavy chain, putative (dTPS0)

N.D.

Lin15D6

-2.05

-1.0 ± 0.2

0.042

GS598908

0

0

a

LinJ31_V3.0610

Amino acid transporter aATP11, putative (dTPS0)

N.D.

Lin22B1*

-2.03

-1.0 ± 0.2

0.016

GS598909

0

0

a

LinJ23_V3.1400

Coronin, putative (dTPS0)

+

-4.9 ± 0.7

Lin21H10

-1.90

-0.9 ± 0.1

0.001

GS598910

0

0

b

LinJ26_V3.1670

Sphingolipid delta-4 desaturase, putative (dTPS22)

N.D.

Lin24E10*

-1.80

-0.8 ± 0.3

0.038

GS598911

0

0

b

LinJ22_V3.1310

I/6 autoantigen-like protein (dTPS0)

+

-6.7 ± 0.9

Lin27B2

-1.80

-0.8 ± 0.3

0.034

GS598912

0

-

c

LinJ35_V3.1230

Short chain dehydrogenase, putative (dTPS1, dTPS7)

+

-3.2 ± 0.7

Lin28C5

-1.81

-0.9 ± 0.1

0.005

GS598913

0

2e-154

b

LinJ26_V3.1670

Sphingolipid delta-4 desaturase, putative (dTPS22)

N.D.

Lin31H9*

-1.94

-1.0 ± 0.1

0.006

GS598914

0

0

b

LinJ26_V3.1000

Dynein heavy chain, putative (dTPS0)

+

-6.2 ± 0.8

Lin36A9*

-2.15

-1.1 ± 0.2

0.009

GS598915

0

0

b

LinJ26_V3.1000

Dynein heavy chain, putative (dTPS0)

+

-6.2 ± 0.8

Lin40G12*

-1.92

-0.9 ± 0.2

0.013

GS598916

2e-161

0

b

LinJ23_V3.1560

Lathosterol oxidase-like protein (dTPS28, dTPS30)

+

-14.3 ± 1.7

Lin47D8

-4.00

-2.0 ± 0.5

0.023

GS598917

0

0

a

LinJ06_V3.1330

Coproporphyrinogen III oxidase, putative (dTPS33)

+

-5.8 ± 0.1

LinJ06_V3.1340

Protoporphyrinogen oxidase-like protein (dTPS13, dTPS32)

+

-2.2 ± 0.4

Lin49B7

-4.38

-2.1 ± 0.0

0.000

GS598918

0

4e-64

a

LinJ34_V3.4160

Phosphatidylinositol-3-kinase (tor2)-like protein (dTPS0)

N.D.

Lin50H7

-2.32

-1.2 ± 0.1

0.005

GS598919

7e-164

0

b

LinJ28_V3.2380

2,3-bisphosphoglycerate-independent phosphoglycerate mutase-like protein (dTPS9, dTPS35)

+

-3.4 ± 0.3

LinJ28_V3.2390

Cyclin dependent kinase-binding protein, putative (dTPS0)

+

-127.4 ± 7.4

Lin60B1*

-3.84

-1.9 ± 0.1

0.001

GS598920

0

0

c

LinJ31_V3.2370

3'-nucleotidase/nuclease, putative (dTPS4, dTPS29)

+

-4.6 ± 0.4

Lin60E5

-1.80

-0.8 ± 0.3

0.035

GS598921

0

0

b

LinJ26_V3.0970

Hypothetical protein, conserved/HPB (dTPS5, dTPS16)

N.D.

Lin63F3

-2.95

-1.6 ± 0.4

0.018

GS598922

0

0

b

LinJ36_V3.6550

Glucose transporter lmgt2, putative (dTPS47)

+

-8.1 ± 1.1

LinJ36_V3.6560

Glucose transporter, putative (dTPS47)

+

-6.3 ± 1.4

Lin66F10

-2.18

-1.1 ± 0.0

0.000

GS598923

0

0

b

LinJ36_V3.6550

Glucose transporter lmgt2, putative (dTPS47)

+

-8.1 ± 1.1

LinJ36_V3.6560

Glucose transporter, putative (dTPS47)

+

-6.3 ± 1.4

Lin80B3

-2.06

-1.0 ± 0.3

0.024

GS598924

0

0

b

LinJ28_V3.3250

Glucose-6-phosphate-N-acetyltransferase, putative (dTPS46)

N.D.

Lin82C6

-1.74

-0.8 ± 0.3

0.038

GS598925

0

-

c

LinJ31_V3.0440

Cysteine peptidase, Clan CA, family C2, putative (dTPS0)

+

-3.3 ± 0.1

Lin84E8

-2.26

-1.2 ± 0.2

0.007

GS598926

0

0

a

LinJ31_V3.2370

3'-nucleotidase/nuclease, putative (dTPS4, dTPS29)

+

-4.6 ± 0.4

LinJ31_V3.2380

3'-nucleotidase/nuclease precursor, putative (dTPS4, dTPS29)

+

-2.7 ± 0.6

Lin86H3

-2.17

-1.1 ± 0.1

0.004

GS598927

0

8e-130

b

LinJ31_V3.0950

Sodium stibogluconate-resistance protein, putative (dTPS)

N.D.

Lin89F9

-2.93

-1.6 ± 0.4

0.026

GS598928

0

0

b

LinJ31_V3.2370

3'-nucleotidase/nuclease, putative (dTPS4, dTPS29)

+

-4.6 ± 0.4

LinJ31_V3.2380

3'nucleotidase/nuclease precursor, putative (dTPS4, dTPS29)

+

-2.7 ± 0.6

LinJ31_V3.2390

Helicase-like protein

N.D.

Lin92D7*

-2.27

-1.2 ± 0.2

0.005

GS598929

0

0

b

LinJ31_V3.2370

3'-nucleotidase/nuclease, putative (dTPS4, dTPS29)

+

-4.6 ± 0.4

LinJ31_V3.2380

3'-nucleotidase/nuclease precursor, putative (dTPS4, dTPS29)

+

-2.7 ± 0.6

Lin92G9

-2.29

-1.2 ± 0.1

0.004

GS598930

0

0

a

LinJ06_V3.1320

Pteridine transporter, putative (dTPS0)

+

-2.1 ± 0.3

LinJ06_V3.1330

Coproporphyrinogen III oxidase, putative (dTPS33)

+

-5.8 ± 0.1

Lin97D1

-11.57

-3.5 ± 0.2

0.001

GS598931

0

0

a

LinJ06_V3.1320

Pteridine transporter, putative (dTPS0)

+

-2.1 ± 0.3

Lin97F6

-1.80

-0.8 ± 0.3

0.029

GS598932

0

0

b

LinJ26_V3.0460

Hypothetical protein, conserved

N.D.

Lin98C7*

-2.12

-1.1 ± 0.5

0.044

GS598933

0

0

b

LinJ31_V3.2370

3'-nucleotidase/nuclease, putative (dTPS4, dTPS29)

+

-4.6 ± 0.4

LinJ31_V3.2380

3'nucleotidase/nuclease precursor, putative (dTPS4, dTPS29)

+

-2.7 ± 0.6

Lin98F9

-2.43

-1.3 ± 0.3

0.016

GS598934

2e-190

1e-101

b

LinJ32_V3.3120

Minichromosome maintenance (MMC) complex subunit, putative (dTPS8, dTPS38, dTPS48)

N.D.

Lin98G10*

-2.13

-1.1 ± 0.2

0.015

GS598935

0

0

b

LinJ30_V3.2780

Superoxide dismutase, putative (dTPS0)

+

-3.7 ± 0.1

Lin101B5

-2.62

-1.4 ± 0.3

0.011

GS598936

0

0

b

LinJ09_V3.0650

Serine peptidase family S51, peptidase E, putative (dTPS19)

N.D.

Lin105A3

-2.22

-1.1 ± 0.1

0.005

GS598937

0

0

b

LinJ36_V3.1320

Fructose-1,6-bisphosphate aldolase (dTPS37)

N.D.

Lin105B9

-6.13

-2.6 ± 0.2

0.001

GS598938

0

0

a

LinJ06_V3.1320

Pteridine transporter, putative (dTPS0)

+

-2.1 ± 0.3

Lin109F4

-3.16

-1.7 ± 0.5

0.024

GS598939

0

0

a

LinJ06_V3.1330

Coproporphyrinogen III oxidase, putative (dTPS33)

+

-5.8 ± 0.1

LinJ06_V3.1340

Protoporphyrinogen oxidase-like protein (dTPS13, dTPS32)

+

-2.2 ± 0.4

Lin111C2

-3.14

-1.7 ± 0.1

0.001

GS598940

0

0

b

LinJ09_V3.0650

Serine peptidase family S51, peptidase E, putative (dTPS19)

N.D.

Lin111F3

-2.09

-1.1 ± 0.4

0.035

GS598941

0

0

a

LinJ31_V3.2210

Prostaglandin F2α synthetase (dTPS31)

N.D.

Lin125H5

-1.95

-1.0 ± 0.2

0.022

GS598942

0

0

b

LinJ36_V3.1590

Serine/threonine protein kinase, putative (dTPS43)

N.D.

Lin144F11

-2.28

-1.2 ± 0.1

0.004

GS598943

0

0

a

LinJ31_V3.2210

Prostaglandin F2α synthetase (dTPS31)

N.D.

Lin144H10

-1.85

-0.9 ± 0.1

0.007

GS598944

0

0

a

LinJ22_V3.1300

Cyclophilin, putative (dTPS0)

+

-4.1 ± 0.6

LinJ19_V3.1310

I/6-autoantigen-like protein (dTPS0)

N.D.

Lin144H11

-2.32

-1.2 ± 0.1

0.003

GS598945

0

0

b

LinJ36_V3.2700

Membrane-bound acid phosphatase precursor (dTPS42)

N.D.

Lin150E4

-1.86

-0.9 ± 0.4

0.048

GS598946

0

0

b

LinJ13_V3.1060

Calmodulin, putative (dTPS16)

N.D.

Lin153D1

-1.80

-0.8 ± 0.1

0.002

GS598947

0

0

b

LinJ27_V3.0530

Amino acid permease, putative (dTPS26)

N.D.

Lin155H12

-2.52

-1.3 ± 0.4

0.024

GS598948

0

0

a

LinJ36_V3.0250

Peptidyl-prolyl cis-trans isomerase, putative (dTPS18, dTPS25)

N.D.

Lin157D8

-2.78

-1.5 ± 0.2

0.005

GS598949

0

0

b

LinJ31_V3.2370

3'-nucleotidase/nuclease, putative (dTPS4, dTPS29)

+

-4.6 ± 0.4

Lin158A10

-2.40

-1.3 ± 0.2

0.008

GS598950

0

0

b

LinJ23_V3.0870

Hypothetical protein, conserved

N.D.

Lin177E10

-1.72

-0.8 ± 0.3

0.042

GS598951

7e-167

0

b

LinJ16_V3.0600

Histone H3, putative (dTPS8)

N.D.

LinJ16_V3.0610

Histone H3, putative (dTPS8)

N.D.

Lin182F2

-2.18

-1.1 ± 0.3

0.022

GS598952

0

0

b

LinJ25_V3.0740

Eukaryotic initiation factor 5a, putative (dTPS15)

N.D.

LinJ25_V3.0750

Eukaryotic initiation factor 5a, putative (dTPS15)

N.D.

Lin187C10

-4.02

-2.0 ± 0.3

0.003

GS598953

0

0

b

LinJ06_V3.1320

Pteridine transporter, putative (dTPS0)

+

-2.1 ± 0.3

Lin193E6

-2.00

-1.0 ± 0.4

0.040

GS598954

0

0

b

LinJ23_V3.1230

SHERP (dTPS0)

N.D.

Lin194A4

-1.70

-0.8 ± 0.2

0.016

GS598955

0

1e-11

b

LinJ22_V3.1270

Aquaporin, putative (dTPS3)

N.D.

Lin197D2*

-3.32

-1.7 ± 0.3

0.007

GS598956

0

0

b

LinJ07_V3.0150

Acyl-CoA dehydrogenase, mitochondrial precursor, putative (dTPS21, dTPS27)

+

-2.4 ± 0.2

LinJ07_V3.0170

Maoc family protein

-

-1.1 ± 0.3

Lin206C10*

-1.99

-1.0 ± 0.3

0.032

GS598957

6e-69

1e-82

b

LinJ07_V3.0940

Cytochrome b5-like protein (dTPS0)

+

-1.7 ± 0.0

Lin206H7*

-1.90

-0.9 ± 0.2

0.015

GS598958

0

0

b

LinJ31_V3.1240

Vacuolar-type proton translocating pyrophosphatase 1, putative (dTPS0)

+

-3.4 ± 0.7

Lin208F2*

-2.10

-1.1 ± 0.3

0.026

GS598959

2e-86

3e-64

b

LinJ31_V3.1240

Vacuolar-type proton-translocating pyrophosphatase 1, putative

+

-3.4 ± 0.7

Lin208H10

-2.68

-1.4 ± 0.4

0.010

GS598960

0

0

a

LinJ18_V3.1070

Cysteine peptidase, Clan CA, family C2, putative (dTPS0)

+

-3.3 ± 0.1

LinJ18_V3.1080

Vacuolar protein sorting complex subunit, putative (dTPS 0)

-

-1.2 ± 0.3

Lin219A10*

-1.89

-0.9 ± 0.1

0.004

GS598961

0

0

b

LinJ19_V3.0710

Glycosomal malate dehydrogenase (dTPS1, dTPS30)

+

-2.3 ± 0.0

Lin228D4*

-1.86

-0.9 ± 0.2

0.014

GS598962

0

0

a

LinJ19_V3.0090

Fibrillarin, putative (dTPS0)

+

-4.1 ± 0.8

Lin229E6

-9.63

-3.3 ± 0.2

0.002

GS598963

0

0

a

LinJ06_V3.1320

Pteridine transporter, putative (dTPS0)

+

-2.1 ± 0.3

LinJ06_V3.1330

Coproporphyrinogen III oxidase, putative (dTPS33)

+

-5.8 ± 0.1

Lin231G4

-1.73

-0.8 ± 0.2

0.013

GS598964

0

0

b

LinJ31_V3.1240

Vacuolar-type proton translocating pyrophosphatase 1, putative (dTPS0)

+

LinJ31_V3.1250

Hypothetical protein, unknown function

N.D.

Lin234C9

-1.77

-0.8 ± 0.3

0.038

GS598965

0

0

b

LinJ20_V3.1220

Cysteine peptidase, Clan CA, family C2, putative (dTPS41)

+

-3.3 ± 0.1

Lin242E2

-2.85

-1.5 ± 0.4

0.025

GS598966

0

0

b

LinJ31_V3.2370

3'-nucleotidase/nuclease, putative (dTPS4, dTPS29)

+

-4.6 ± 0.4

LinJ31_V3.2380

3'-nucleotidase/nuclease precursor, putative (dTPS4, dTPS29)

+

-2.7 ± 0.6

Lin252B11

-2.12

-1.1 ± 0.3

0.028

GS598967

0

0

b

LinJ17_V3.170/200

Elongation factor 1αg(dTPS14, dTPS39, dTPS44p

N.D.

Lin265E2

-1.89

-0.9 ± 0.3

0.042

GS598968

1e-165

0

b

LinJ29_V3.1880

Paraflagellar rod protein 1D, putative (dTPS0)

N.D.

Lin270H10*

-1.96

-1.0 ± 0.2

0.010

GS598969

0

0

b

LinJ31_V3.1150

Monoglyceride lipase, putative (dTPS0)

+

-1.9 ± 0.0

Lin271C2*

-1.9

-0.9 ± 0.3

0.043

GS598970

0

0

b

LinJ28_V3.0090

Adenylate cyclase-like protein (dTPS9, dTPS12, dTPS23, dTPS24)

+

-2.3 ± 0.0

Lin285H1

-2.12

-1.1 ± 0.2

0.012

GS598971

0

0

b

LinJ36_V3.6550

Glucose transporter lmgt2, putative (dTPS47)

+

-8.1 ± 1.1

LinJ36_V3.6560

Glucose transporter, putative (dTPS47)

+

-6.3 ± 1.4

Lin294G4*

-2.00

-1.0 ± 0.2

0.013

GS598972

0

0

b

LinJ31_V3.1640

Dipthine synthase, putative

-

LinJ31_V3.1660

Putative 3-ketoacyl-CoA thiolase-like protein (dTPS0)

+

-3.6 ± 0.5


This table contains clones that map against down-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 S4,); 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 (+). The asterisk indicates that the clone contains more gene sequences that have not been checked by qRT-PCR. Genes in bold are also down-regulated under TS.

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

Open Data