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Table 3 Candidate genes with annotations from the SwissProt (SP) database that are involved in environmental stress tolerance, hypoxia, and sulfide metabolism

From: Genomic resources for a model in adaptation and speciation research: characterization of the Poecilia mexicana transcriptome

Category

Gene description

Contig ID

Accession number

Percent coverage

E-value

Number of contigs

General stress responses

Stress-activated protein kinase signaling pathways [69]

Stress-activated protein kinase (JNK3)

comp49081_c0_seq1

P53779

97

2.71E-63

1

Stress-activated protein kinase kinase (SAPKK4)

comp30986_c0_seq1

O14733

96

2.43E-153

1

Highly inducible heat shock proteins [70, 71]

Hsp 70

comp24087_c0_seq1

P27541

92

3.65E-103

1

comp34171_c0_seq1

Q91233

98

1.48E-25

2

Hsp A2

comp24673_c0_seq1

P54652

88

1.47E-54

1

Hsp A4

comp12212_c0_seq1

Q61316

91

3.38E-158

1

comp7589_c0_seq1

P34932

79

<1.00E-180

2

Hsp 90

comp48547_c0_seq1

P07900

77

7.45E-61

2

comp5586_c0_seq1

Q4R4P1

76

<1.00E-180

1

comp32336_c0_seq1

O61998

77

8.80E-33

3

Constitutive heat shock proteins [70, 71]

Hsp83

comp28290_c0_seq1

P12861

95

1.42E-43

3

Hsc20

comp17434_c0_seq1

Q8K3A0

64

3.26E-60

1

Hsc70

comp29081_c0_seq1

Q9U639

80

3.69E-88

1

Hsc71

comp7828_c0_seq1

P08108

98

<1.00E-180

4

Small heat shock proteins [70, 71]

Hsp β8

comp23233_c0_seq1

Q9UJY1

67

6.80E-66

1

Oxidative stress responses

Antioxidant systems [72, 73]

Catalase

comp3837_c0_seq1

Q9PT92

93

<1.00E-180

1

(Cu & Zn) superoxide dismutase

comp21322_c0_seq1

Q751L8

61

2.29E-30

1

comp496_c0_seq1

O73872

87

3.87E-88

2

comp17555_c0_seq1

P82205

64

2.05E-33

1

comp28438_c0_seq1

Q9C0N4

46

2.83E-09

1

(Mn) superoxide dismutase

comp29573_c0_seq1

P41978

57

6.78E-51

1

comp1897_c0_seq1

P07895

86

5.13E-131

1

Glutathione peroxidases

comp37533_c0_seq1

Q4AEH3

61

6.22E-27

2

comp18221_c0_seq1

Q4RSM6

90

5.39E-121

1

comp559_c0_seq1

Q4AEI2

80

9.44E-87

1

comp841_c0_seq1

P00435

81

8.33E-86

1

Thioredoxin and glutathione reductase

comp2236_c0_seq1

Q86VQ6

85

<1.00E-180

1

Thioredoxin

comp26993_c0_seq1

Q9BDJ3

72

4.09E-16

1

comp572_c0_seq1

Q9DGI3

90

7.86E-20

1

Methallothioneins [73]

Metal-responsive element-binding transcription factor 2

comp17857_c0_seq1

Q02395

70

3.28E-164

1

Hypoxia induced responses

Transcription factors [74]

Hypoxia-inducible factor 1α

comp436_c1_seq1

Q9YIB9

76

1.65E-110

1

comp2126_c0_seq1

Q98SW2

78

<1.00E-180

3

Oxygen transport [74]

Erythropoietin

comp50800_c0_seq1

Q5IGQ0

90

7.05E-47

1

Hemoglobin β chain

comp12875_c0_seq1

P84652

87

1.01E-78

1

Myoglobin

comp390_c1_seq1

Q9DGJ1

91

5.58E-72

1

Aerobic/anaerobic metabolism [74]

Malate dehydrogenase

comp11493_c0_seq1

P11708

83

3.41E-37

1

Succinate dehydrogenase

comp898_c0_seq1

Q7ZVF3

94

<1.00E-180

2

Citrate synthase

comp44107_c0_seq1

Q91V92

77

6.21E-39

1

Phosphoglycerate mutase

comp703_c0_seq1

P18669

94

6.82E-163

1

Phosphoglycerate kinase

comp21645_c0_seq1

Q60HD8

76

2.87E-163

1

α-enolase

comp324_c0_seq1

Q9PVK2

96

<1.00E-180

1

Lactate dehydrogenase (A chain, B chain, C chain)

comp4088_c0_seq1

Q92055

99

<1.00E-180

1

comp192_c0_seq1

P20373

98

<1.00E-180

1

comp17481_c0_seq1

Q06176

97

7.12E-128

2

Glycogen phosphorylase

comp28770_c0_seq1

Q9XTL9

79

2.43E-178

3

Metabolic rate suppression [74]

α-tropomyosin

comp1635_c0_seq2

P84335

99

4.56E-56

2

comp1488_c0_seq1

P13105

96

1.61E-37

1

Myosin heavy chain

comp37734_c0_seq1

Q63357

87

2.22E-41

1

Insulin-like growth factor binding protein 1

comp12811_c0_seq1

P24591

55

5.49E-43

1

Sulfide detoxification

Sulfide metabolism and toxicity [75–77]

Sulfide:quinone oxidoreductase

comp1919_c0_seq1

Q9Y6N5

85

<1.00E-180

1

Sulfite oxidase

comp25579_c0_seq1

P07850

78

2.59E-93

2

Sulfur dioxygenase (ETHE1)

comp1681_c0_seq1

Q9DCM0

78

3.54E-104

2

Thiosulfate sulfurtransferase (Rhodanese)

comp2624_c0_seq1

Q8NFU3

62

2.19E-28

2

comp12736_c0_seq1

Q3U269

71

1.22E-176

1

Mercaptopyruvate sulfurtransferase

comp1051_c1_seq7

P97532

74

1.81E-15

1

Cytochrome c oxidase complex (complex III subunit 6, subunit 3)

comp513_c0_seq3

P07919

84

1.75E-18

1

  

comp4_c0_seq1

Q96133

93

3.16E-141

1

  1. For each candidate genes, we reported the database and accession number, percent similarity and E-value, as well as the total number of contigs that matched to a specific database record.
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BMC Genomics

ISSN: 1471-2164

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