Table 5

Differentially regulated genes after pH4.5 treatment (day 4) in L. infantum.

Clone

F

Log2F ± SD

p

GenBank

GSS

e-value

Def.

Id.

Annotated Gene Function

qRT-PCR

Fw

Rv

+/-

F ± SD


Lin9E8

2.03

1.0 ± 0.1

0.003

GS599011

0

0

a

LinJ24_V3.0020

Clathin coat assembly protein, putative

+

7.6 ± 0.4

LinJ24_V3.0030

Hypothetical protein, conserved

N.D.

LinJ24_V3.0040

60S ribosomal protein L17, putative

N.D.

Lin10H12

2.26

1.2 ± 0.1

0.001

GS599012

0

0

a

LinJ31_V3.0860

Triacylglycerol lipase-like protein

N.D.

LinJ31_V3.0870

Lipase precursor-like protein

N.D.

Lin21H10

2.46

1.3 ± 0.1

0.001

GS598910

0

0

b

LinJ26_v3.1670

Sphingolipid delta-4 desaturase, putative

N.D.

Lin33G5

1.76

0.8 ± 0.0

0.000

GS599013

LinJ27_V3.1300

60S acidic ribosomal protein, putative

N.D.

Lin37C10

2.74

1.5 ± 0.2

0.006

GS599014

0

0

b

LinJ33_V3.0280

RNA binding protein rggm, putative

N.D.

Lin58C1

2.32

1.2 ± 0.2

0.001

GS599015

0

0

b

LinJ22_V3.1360

Hypothetical protein, unknown fuction

N.D.

LinJ22_V3.1370

60S ribosomal protein L14

N.D.

LinJ22_V3.1380

Dephospho-CoA kinase, putative

+

-2.9 ± 0.3

Lin63B7

1.83

0.9 ± 0.1

0.002

GS599016

1e-100

1e-103

b

LinJ15_V3.1200

60S acidic ribosomal protein P2

N.D.

Lin66A8

2.28

1.2 ± 0.1

0.006

GS599017

0

0

a

LinJ22_V3.0470

Hypothetical protein, conserved

N.D.

LinJ22_V3.0480

Ubiquitin-conjugating enzyme-like protein

+

-3.1 ± 0.8

Lin80C3

3.15

1.7 ± 0.3

0.004

GS599018

0

0

b

LinJ28_V3.3250

Glucose-6-phosphate N-acetyltransferase

N.D.

Lin 95F10

2.26

1.2 ± 0.1

0.002

GS599019

0

0

a

LinJ28_V3.2360

Ribosomal protein S29, putative

N.D.

Lin100F8

2.12

1.1 ± 0.2

0.007

GS599020

0

2e-161

b

LinJ35_V3.3330

60S ribosomal protein L31, putative

N.D.

LinJ35_V3.3340

60S ribosomal protein L31, putative

N.D.

Lin107C12

2.90

1.5 ± 0.2

0.001

GS599021

7e-130

5e-134

a

LinJ11_V3.1180

40S ribosomal protein S15a, putative

N.D.

Lin122C5

1.93

0.9 ± 0.1

0.005

GS599022

0

0

b

LinJ30_V3.3770

CPSF-domain protein, putative

N.D.

LinJ30_V3.3780

60S acidic ribosomal protein P2, putative

N.D.

LinJ30_V3.3790

60S acidic ribosomal protein P2, putative

N.D.

Lin135F6

2.63

1.4 ± 0.3

0.036

GS599023

0

0

b

LinJ29_V3.1920

40S ribosomal protein S15a, putative

N.D.

LinJ29_V3.1930

Hypothetical protein, conserved

N.D.

Lin137A10

2.00

1.0 ± 0.2

0.019

GS599024

0

0

b

LinJ24_V3.1230

Hypothetical protein, conserved

N.D.

LinJ24_V3.1240

Translation factor SUI1, putative

+

-5.0 ± 0.6

Lin144F11

1.72

0.8 ± 0.2

0.032

GS599025

0

0

a

LinJ31_V3.2210

Prostaglandin F2α synthetase

N.D.

Lin161C9

2.54

1.3 ± 0.1

0.003

GS599026

0

1e-177

b

LinJ26_V3.1670

Sphingolipid delta-4 desaturase, putative

N.D.

Lin162A9

1.97

1.0 ± 0.2

0.024

GS599027

0

0

b

LinJ22_V3.0470

Hypothetical protein, conserved

N.D.

LinJ22_V3.0480

Ubiquitin-conjugating enzyme-like protein

+

-3.1 ± 0.8

Lin182F2

3.27

1.7 ± 0.2

0.009

GS599028

0

0

b

LinJ25_V3.0740

Eukaryotic initiation factor 5a, putative

N.D.

LinJ25_V3.0750

Eukaryotic initiation factor 5a, putative

N.D.

Lin200H12

2.54

1.3 ± 0.1

0.005

GS599029

0

0

a

LinJ14_V3.1340

Hypothetical protein, unknown funcion

N.D.

LinJ14_V3. 1350

Ubiquitin/ribosomal protein S27a, putative

+

-4.8 ± 0.4

LinJ14_V3.1360

Hypothetical protein, conserved

N.D.

Lin218E3

1.82

0.9 ± 0.1

0.001

GS599030

0

0

b

LinJ31_V3.2210

Prostaglandin F2α synthase

N.D.

Lin247D7

2.41

1.3 ± 0.4

0.018

GS599031

5e-109

0

a

LinJ28_V3.0090

Adenylate cyclase-like protein

+

-3.5 ± 0.6

LinJ28_V3.0100

Hypothetical protein, conserved

N.D.

LinJ28_V3.0110

Proteasome beta 3 subunit, putative

N.D.

Lin254A4

1.93

0.9 ± 0.2

0.009

GS599032

0

0

b

LinJ04_V3.1250

Actin

N.D.

Lin254H7

1.73

0.8 ± 0.1

0.004

GS599033

0

0

b

LinJ04_V3.1250

Actin

N.D.

Lin261F8

2.84

1.5 ± 0.2

0.007

GS599034

0

0

b

LinJ21_V3.1310

40S ribosomal protein S23, putative

N.D.

Lin266F6

1.79

0.8 ± 0.1

0.009

GS599035

0

0

b

LinJ27_V3.0300

Acyl carrier protein, putative

N.D.

Lin267B9

1.74

0.8 ± 0.2

0.010

GS599036

0

0

b

LinJ36_V3.0580

Hypothetical protein, conserved

N.D.

LinJ36_V3.0590

Ubiquitin-like protein, putative

+

-2.3 ± 0.0

LinJ36_V3.0600

Cdc2-related kinase

N.D.

Lin269B5

2.75

1.5 ± 0.2

0.002

GS599037

0

0

b

LinJ29_V3.2970

40S ribosomal protein S19-like protein

N.D.

Lin282B6

2.44

1.3 ± 0.2

0.009

GS599038

0

0

a

LinJ03_V3.0960

Elongation initiation factor 2α subunit, putative

N.D.

Lin290G8

1.80

0.8 ± 0.1

0.003

GS599039

0

0

a

LinJ17_V3.1520

Otubain cysteine peptidase, Clan CA. family C65, putative

N.D.


Lin43G10

-5.36

-2.4 ± 0.3

0.007

GS599040

0

0

c

LinJ28_V3.3060

Heat-shock protein hsp70, putative

+

-2.1 ± 0.2

Lin130C5

-4.71

-2.2 ± 0.3

0.041

GS599041

0

0

b

LinJ36_V3.3170

Exosome complex exonuclease RRP41, putative

N.D.

LinJ36_V3.3180

Clathrin coat assembly protein-like protein

N.D.

LinJ36_V3.3190

Pre-mRNA branch-site protein p14

+

-4.7 ± 2.3

LinJ36_V3.3200

Hypothetical protein, conserved

N.D.

Lin173E11

-7.74

-3.0 ± 0.4

0.002

GS599042

6e-44

3e-147

b

LinJ36_V3.2280

ER-golgi transport protein erv25 precursor, putative

N.D.

Lin177H3

-5.08

-2.3 ± 0.2

0.001

GS599043

0

4e-60

b

LinJ28_V3.3060

Heat shock protein hsp70, putative

+

-2.1 ± 0.2

Lin197E1

-2.53

-1.3 ± 0.1

0.007

GS599044

0

0

c

LinJ18_V3.0830

Periodic tryptophan protein 2-like protein

-

1.4 ± 0.4

LinJ23_V3.1610

Acetyltransferase-like protein

+

-2.1 ± 0.2

Lin228H5

-7.90

-3.0 ± 0.4

0.012

GS599045

7e-196

0

b

LinJ21_V3.0310

Hexokinase, putative

N.D.

Lin281H8

-2.01

-1.0 ± 0.1

0.001

GS599046

8e-136

2e-102

b

LinJ35_V3.1580

Metacaspase, putative

N.D.

Lihsp70

-4.21

-2.0 ± 0.2

0.004

XM001470292

-

-

-

-

L. infantum hsp70 - DNA microarray control spot

+

-2.1 ± 0.2

Ldohsp70

-4.57

-2.2 ± 0.1

0.028

-

-

-

-

-

L. donovani hsp70 - DNA microarray control spot

N.D.

Lmahsp70

-3.85

-1.9 ± 0.2

0.017

-

-

-

-

-

L. major hsp70 -DNA microarray control spot

N.D.


This table contains clones that map against up- and down-regulated genes (not hypothetical or unknown) under pH decrease (PS). 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; 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 TPS.

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

Open Data