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Table 1 A list of genes strongly correlated with the sugar/acid ratio in orange fruits

From: Gene coexpression network analysis of fruit transcriptomes uncovers a possible mechanistically distinct class of sugar/acid ratio-associated genes in sweet orange

CsGID

Pcc

FDR

Module

AtGID

Arabidopsis gene description

Transport (9)

 Cs1g13320

0.87

1.3E-05

turquoise

At1g15460

BOR4, Requires High Boron 4

 Cs1g25820

0.87

1.4E-05

blue

At5g66110

HIPP27, heavy metal associated isoprenylated plant protein 27

 Cs2g06990

0.89

8.7E-06

blue

At4g05120

FUR1, FUDR Resistant 1

 Cs4g20090

0.89

6.7E-06

brown

At4g32650

KAT3, potassium channel in Arabidopsis thaliana 3

 Cs5g17210

0.81

2.1E-04

blue

At1g17810

Beta-TIP, beta-tonoplast intrinsic protein

 Cs5g24670

−0.87

1.4E-05

blue

At5g48490

Putative lipid transfer/seed storage protein

 Cs5g31010

0.83

1.5E-04

blue

At3g22600

Non-specific lipid-transfer/seed storage protein

 Cs9g18100

0.80

3.2E-04

turquoise

At5g53130

CNGC1, cyclic nucleotide gated channel 1

 orange1.1 t01769

0.82

1.7E-04

blue

At3g62150

ABCB21, ATP-binding cassette B21

Signaling (6)

 Cs1g01170

0.86

3.0E-05

blue

At4g23160

CRK8, cysteine-rich RLK (RECEPTOR-like protein kinase) 8

 Cs1g14800

0.90

5.0E-06

blue

At3g47570

probable LRR receptor-like serine/threonine protein kinase

 Cs2g02680

0.88

8.7E-06

brown

At3g21630

CERK1, chitin elicitor receptor kinase 1

 Cs3g07510

0.80

3.2E-04

blue

At1g03430

AHP5, histidine-containing phosphotransfer factor 5

 Cs6g02710

0.81

2.3E-04

turquoise

At1g16120

WAKL1, wall associated kinase-like 1

 Cs6g05010

0.80

3.5E-04

blue

At3g47570

probable LRR receptorlike serine/threonineprotein kinase

Transcription (7)

 Cs3g01830

0.86

3.0E-05

brown

At3g54460

F-box family protein

 Cs5g03630

0.83

1.4E-04

brown

At5g23750

remorin like

 Cs6g03950

−0.80

3.2E-04

turquoise

At2g37260

TTG2, Transparent testa Glabra 2, WRKY

 Cs7g27620

0.85

4.1E-05

brown

At1g07900

LBD1, LOB domain-containing protein 1

 Cs9g08500

0.80

3.2E-04

turquoise

At5g43630

TZP, tandem zinc knuckle protein

 orange1.1 t00185

0.83

1.2E-04

blue

At4g00050

UNE10, unfertilized embryo sac 10, bHLH

 orange1.1 t00294

0.80

3.2E-04

brown

At4g16110

RR2/ARR2, response regulator 2

Protein degradation (3)

 Cs8g05200

0.80

3.2E-04

blue

At1g47128

RD21A, responsive to dehydration 21A

 orange1.1 t00281

0.88

8.7E-06

brown

At4g00230

XSP1, xylem serine peptidase 1

 orange1.1 t02370

0.83

1.2E-04

blue

At2g31980

CYS2, Phytocystatin 2

Development (2)

 Cs4g15700

0.80

3.0E-04

turquoise

At4g29860

EMB2757, Embryo Deffective 2757

 orange1.1 t02243

0.83

1.4E-04

blue

At5g06760

LEA4–5, Late Embryogenesis Abundant 4–5

Stress response (4)

 Cs5g18450

0.82

1.7E-04

turquoise

At5g17680

Leucine rich repeat-containing protein

 Cs5g19950

0.85

4.3E-05

turquoise

At5g17680

TMV resistance protein N-like

 Cs7g32260

0.80

3.5E-04

turquoise

At5g59720

HSP18.2, heat shock protein 18.2

 orange1.1 t01829

0.84

7.8E-05

turquoise

At5g17680

TMV resistance protein N-like

Metabolism (20)

 Cs1g03610

0.91

4.9E-06

blue

At5g43330

c-NAD-MDH2, cytosolic-NAD-dependent malate dehydrogenase 2

 Cs1g10530

0.81

2.3E-04

turquoise

At2g18950

HPT1, homogentisate phytyltransferase 1

 Cs1g25210

−0.84

9.1E-05

brown

At2g18020

EMB2296, embryo defective 2296, ribosomal protein

 Cs2g27550

0.80

3.2E-04

blue

At3g01570

Oleosin family protein

 Cs3g12560

0.81

2.7E-04

blue

At1g54740

ribosomal protein

 Cs3g24700

0.81

2.3E-04

brown

At5g42740

PGI, glucose-6-phosphate isomerase, cytosolic 1

 Cs4g14130

0.81

2.3E-04

blue

At2g45550

CYP76C4, cytochrome P450, family 76, subfamily C, polypeptide 4

 Cs5g18850

0.82

1.5E-04

blue

At1g71250

GDSL-motif esterase/acyltransferase/lipase

 Cs5g20010

0.83

1.2E-04

turquoise

At1g35190

Hyoscyamine 6-dioxygenase

 Cs7g13310

−0.83

1.2E-04

turquoise

At1g68530

KCS6, 3-ketoacyl-CoA synthase 6

 Cs7g30920

0.81

2.2E-04

blue

At2g40170

GEA6/Em6, Late embryogenesis abundant 6

 Cs7g31620

0.80

3.0E-04

blue

At2g38080

IRX12, Irregular Xylem 12

 Cs8g06880

−0.84

1.1E-04

grey

At4g36750

Minor allergen Alt a, lipid metabolism

 Cs9g06700

0.86

3.0E-05

brown

At1g31690

Copper amine oxidase family protein

 Cs9g07750

−0.89

7.0E-06

brown

At3g22890

APS1, ATP sulfurylase 1

 Cs9g13750

0.81

2.3E-04

blue

At5g07475

Cupredoxin superfamily protein; copper ion binding

 Cs9g17670

0.81

2.3E-04

grey

At4g23420

short chain dehydrogenase/reductase (SDR)

 orange1.1 t00612

0.82

2.0E-04

turquoise

At5g66460

MAN7, endo-beta-mannase 7

 orange1.1 t02858

0.81

2.7E-04

blue

At1g79640

serine/threonine protein kinase, putative

 orange1.1 t03587

0.83

1.2E-04

turquoise

At1g17020

SRG1, senescence-related gene 1

Unknown function (11)

 Cs1g20290

0.80

3.0E-04

blue

  

 Cs1g20300

0.80

3.2E-04

blue

  

 Cs1g23800

0.80

3.2E-04

blue

At2g18540

vicilin GC72A like, cupin

 Cs1g24590

0.81

2.3E-04

blue

  

 Cs2g06500

−0.82

2.0E-04

turquoise

At1g11090

MGL, Monoglyceride lipase

 Cs2g07220

−0.88

1.2E-05

blue

At3g13160

pentatricopeptide repeat-containing protein

 Cs2g20110

0.88

8.7E-06

blue

  

 Cs3g17860

0.81

2.1E-04

brown

 

queuine tRNA ribosyltransferase like

 Cs5g05940

0.80

3.2E-04

blue

  

 Cs5g06080

0.88

9.3E-06

turquoise

At5g50170

C2 and GRAM domain-containing protein

 Cs5g20400

0.81

2.2E-04

turquoise

  

 Cs5g23250

0.81

2.1E-04

turquoise

At5g67550

 

 Cs6g16160

−0.89

7.0E-06

blue

At4g24380

hypothetical protein SORBIDRAFT_02g043510

 Cs7g06285

0.90

4.9E-06

brown

  

 Cs7g23240

0.86

2.9E-05

blue

At5g04830

hypothetical protein ARALYDRAFT_487267

 Cs7g25170

−0.82

1.5E-04

turquoise

  

 Cs7g30380

0.83

1.5E-04

blue

At2g40390

 

 Cs8g10300

0.84

1.1E-04

blue

  

 Cs8g18390

−0.80

3.0E-04

turquoise

  

 Cs8g19210

0.82

2.0E-04

blue

  

 orange1.1 t01135

0.84

7.8E-05

blue

 

hypothetical protein ARALYDRAFT_487267

  1. A total of 72 citrus genes are highly correlated with the sugar/acid ratios in orange fruits of four varieties, with a Pearson correlation coefficient (Pcc) of above 0.80 or below −0.80 and an adjusted p-value (FDR, false discovery rate) of larger than 1.0E-04. CsGID, Cs gene ID. The number of genes for individual biological process is indicated in parenthesis and the module to which the genes belong is inidcated. The most closely related homologs of Arabidopsis gene for each citrus gene is presented as AtGID (At gene ID), with Arabidopsis gene description shown. Absence of AtGID indicates no Arabidopsis homolog for CsGID identified
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BMC Plant Biology

ISSN: 1471-2229

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