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Table 1 Up-regulated genes after 37°C/pH4.5 treatment (day 4) in L. infantum.

From: Temperature increase prevails over acidification in gene expression modulation of amastigote differentiation in Leishmania infantum

Clone F Log 2 F ± 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   
  1. 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.