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Table 2 QTL information for co-localized genes in the forward SSH library

From: Identification of transcriptome induced in roots of maize seedlings at the late stage of waterlogging

Chr. No.

Unigene

IDa

QTLb

Annotationc

1

278

HO068217

Ph1-1

calpain-like protein

1

245

HO068192

Ph1-1

protein kinase C inhibitor

1

118

HO068078

Ph1-1

WD-repeat protein-like

1

281

HO068220

Ph1-1

40 S ribosomal protein

1

78

HO068280

Ph1-1

ADP-ribosylation factor 1

1

292

HO068229

Ph1-1

pyruvate dehydrogenase E1

1

160

HO068116

Ph1-1

26 S proteasome regulatory particle non-ATPase subunit5

1

22

HO068177

Ph1-1/Ph1-3

vacuolar protein sorting 26

1

1

HO068150

Ph1-1/Ph1-3

alanine aminotransferase 2

1

10

HO068069

Ph1-1/Ph1-3

alanine aminotransferase 2

1

210

HO068162

Ph1-1/Ph1-3

wound responsive protein

1

115

HO068075

Ph1-1/Ph1-3

putative glutathione peroxidase

1

116

HO068076

Ph1-1/Ph1-3

putative glutathione peroxidase

1

13

HO068100

Ph1-1/Ph1-3

hypothetical protein

1

102

HO068062

Ph1-1/Ph1-3

succinyl-CoA ligase alpha-chain 2

1

100

HO068060

Ph1-1/Ph1-3

vacuolar ATP synthase

1

52

HO068258

Ph1-1/Ph1-3

hypothetical protein

1

34

HO068239

Ph1-1/rdw1

putative cystatin

1

215

HO068166

Ph1-2/ph1-4

tryptophanyl-tRNA synthetase

1

139

HO068099

sdw-1

hypothetical protein

1

140

HO068101

sdw-1

hypothetical protein

2

102

HO068062

Ph2-1

succinyl-CoA ligase alpha-chain 2

2

25

HO068205

Ph2-1

sirohydrochlorin ferrochelatase

2

198

HO068147

Ph2-1/Ph2-3

60 S ribosomal protein

2

23

HO068187

Ph2-1/Ph2-3

topoisomerase-like protein

2

145

HO068106

Ph2-2

pyruvate kinase

2

137

HO068097

Ph2-2

hypothetical protein

2

138

HO068098

Ph2-2

hypothetical protein

2

171

HO068125

Ph2-2

hypothetical protein

2

117

HO068077

Ph2-2

tRNA-splicing endonuclease subunit

3

15

HO068115

Rl3-1

hypothetical protein

3

164

HO068119

Rl3-1

NADP-dependent malic enzyme

4

50

HO068256

Ph4-1/sdw4-1/tdw4-1

CAAX prenyl protease 1

4

194

HO068144

Ph4-1/sdw4-1/tdw4-1

hypothetical protein

4

176

HO068128

Ph4-1/sdw4-1/tdw4-1

glyceroldehyde-3-phosphate dehydrogenase GAPC3

4

135

HO068095

Ph4-1/sdw4-1/tdw4-1

CAAX prenyl protease 1

4

136

HO068096

Ph4-1/sdw4-1/tdw4-1

CAAX prenyl protease 1

4

8

HO068291

Ph4-1/sdw4-1/tdw4-1/sdw4-2/tdw4-2/ph4-2/tdw4-3

CAAX prenyl protease 1

4

232

HO068180

Ph4-3

pollen signalling protein with adenylyl cyclase activity

4

247

HO068194

Ph4-3

pollen signalling protein with adenylyl cyclase activity

4

7

HO068281

Ph4-3

pollen signalling protein with adenylyl cyclase activity

4

162

HO068118

Ph4-3

hypothetical protein

4

244

HO068191

Ph4-3

CAND1 binding (CAND1)

4

78

HO068280

Ph4-4/sdw4-4

ADP-ribosylation factor 1

4

202

HO068153

Ph4-4/sdw4-4

hypothetical protein

4

9

HO068295

Ph4-4/sdw4-4

hypothetical protein

4

219

HO068168

Ph4-4/sdw4-4

nucleotide binding protein

4

17

HO068131

Sdw4-3/sdw4-2/tdw4-2/ph4-2/tdw4-3

alcohol dehydrogenase2

4

236

HO068184

Sdw4-3/sdw4-2/tdw4-2/ph4-2/tdw4-3

hypothetical protein

4

177

HO068129

Sdw4-3/sdw4-2/tdw4-2/ph4-2/tdw4-3

hypothetical protein

6

207

HO068158

ph6/rdw6/Sdw6-2

hypothetical protein

6

287

HO068224

ph6/rdw6/Sdw6-2

CCR4-NOT transcription complex subunit 6

6

129

HO068088

ph6/rdw6/Sdw6-2

hypothetical protein

6

178

HO068130

Sdw6-1/Sdw6-2

hypothetical protein

6

109

HO068068

Sdw6-1/Sdw6-2

vacuolar ATP synthase subunit B

6

110

HO068070

Sdw6-1/Sdw6-2

vacuolar ATP synthase subunit B

6

230

HO068178

Sdw6-2

hypothetical protein

6

161

HO068117

Sdw6-2

transport protein particle subunit

6

96

HO068293

Sdw6-2

MPK17-1 - putative MAPK

10

13

HO068100

Ph10-1

hypothetical protein

10

234

HO068182

Ph10-1

glucose-6-phosphate 1-dehydrogenase

10

141

HO068102

Ph10-1

acetyl-coenzyme A carboxylase

10

72

HO068275

Ph10-1

hypothetical protein

  1. a Accession numbers of unigenes.
  2. b The QTLs were identified by Qiu, and sdw = shoot dry weight; ph = plant height; rl = root length; rdw = root dry weight; tdw = total dry weight. For all the QTL names, the first number following the letters represents the chromosome locations of the QTL and the second number represents the orders of the QTL located on the same chromosome by the same trait.The sequence was searched in MaizeGDB using blastn of an inclusion score >100 and E-value < 10-5.
  3. c The annotation was obtained by a similarity search using blastn and blastx at NCBI.