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Table 2 The maize circadian clock orchestrated coordinated expression of genes involved in multiple key physiological processes

From: Coordination of the maize transcriptome by a conserved circadian clock

Biological Process

     

Maize protein ID

Atgene ID

Zmphase

1Atphase

PlantCyc Pathway

2Function Zmto At

Photosynthesis

GRMZM2G097457

AT4G15530

ZT0

ZT22

C4 carbon dioxide fixation

PPDK

GRMZM2G121878

AT5G14740

ZT0

ZT18

C4 carbon dioxide fixation

CA2

GRMZM2G083841

AT2G42600

ZT20

ZT19

C4 carbon dioxide fixation

PEPC

GRMZM2G105644

AT1G74470

ZT0

ZT3

Chlorophyll a/b Biosynthesis

GGR

GRMZM2G162672

AT3G51820

ZT16

ZT19

Chlorophyll a/b Biosynthesis

CS

GRMZM2G351977

AT2G34420

ZT4

ZT5

Photosystem II

LHCB

GRMZM2G033885

AT3G08940

ZT4

ZT4

Photosystem II

LHCB

GRMZM2G155216

AT2G34420

ZT4

ZT5

Photosystem II

LHCB

GRMZM2G113033

AT5G38410

ZT20

ZT19

Calvin Cycle

RBCS-3B

GRMZM2G162200

AT2G39730

ZT0

ZT1

Calvin Cycle

RCA

GRMZM2G057823

AT2G36460

ZT0

nc

Calvin Cycle

FBAase2

GRMZM2G155253

AT4G38970

ZT20

ZT21

Calvin Cycle

FBAase1

GRMZM2G026807

AT5G61410

ZT0

ZT19

Calvin Cycle

RPE

GRMZM2G431708

AT1G18270

ZT16

ZT7

Calvin Cycle

KPBA

GRMZM2G463280

AT1G32060

ZT16

ZT20

Calvin Cycle

PRK

GRMZM2G033208

AT3G60750

ZT20

ZT16

Calvin Cycle

KETOLASE

GRMZM2G382914

AT1G79550

ZT20

ZT23

Calvin Cycle

PGK

GRMZM2G065928

AT3G19270

ZT4

nc

Carotenoid Biosynthesis

AAH

GRMZM2G127139

AT5G67030

ZT4

ZT2

Carotenoid Biosynthesis

ZEO

GRMZM2G454425

AT4G25700

ZT20

ZT21

Carotenoid Biosynthesis

BCH1

GRMZM2G149317

AT5G17230

ZT20

ZT22

Carotenoid Biosynthesis

PSY

GRMZM2G124455

AT3G10920

ZT8

nc

Superoxide Radical Removal

MSD1

GRMZM2G079348

AT1G20620

ZT8

ZT11

Superoxide Radical Removal

CAT3

Carbohydrate Metabolism

GRMZM2G080375

AT4G26270

ZT0

ZT15

Glycolysis

PFK3

GRMZM2G132069

AT4G26270

ZT20

ZT15

Glycolysis

PFK3

GRMZM2G127717

AT2G22480

ZT20

ZT5

Glycolysis

PFK5

GRMZM2G051004

AT1G16300

ZT0

ZT23

Glycolysis

GADP-2

GRMZM2G089136

AT1G56190

ZT20

ZT19

Glycolysis

PGK

GRMZM2G002807

AT2G21170

ZT16

nc

Glycolysis

TPI

GRMZM2G079888

AT5G66760

ZT0

nc

TCA cycle

SDH1

GRMZM2G055331

AT5G20280

ZT0

nc

Sucrose Biosynthesis

SPS1F

GRMZM2G032003

AT5G17310

ZT0

ZT0

Sucrose Degradation

UDPase

GRMZM2G089836

AT1G62660

ZT0

nc

Sucrose Degradation

BFRUCT3

GRMZM2G084694

AT1G56560

ZT20

nc

Sucrose Degradation

BFRUCT

GRMZM2G391936

AT5G19220

ZT20

nc

Starch Biosynthesis

AGPL1

GRMZM2G126988

AT3G01180

ZT0

ZT2

Starch Biosynthesis

SS2

GRMZM2G008263

AT1G32900

ZT4

ZT1

Starch Biosynthesis

SS

GRMZM2G147770

AT3G46970

ZT12

ZT12

Starch Degradation

PHS2

AC207628.4_FGP006

AT1G69830

ZT16

ZT11

Starch Degradation

AMY3

Cell Wall

     

GRMZM2G055795

AT4G18780

ZT20

nc

Cellulose Biosynthesis

IRX1

GRMZM2G142898

AT5G17420

ZT0

nc

Cellulose Biosynthesis

IXR3

GRMZM2G445905

AT5G44030

ZT20

nc

Cellulose Biosynthesis

CESA4

GRMZM2G113137

AT5G64740

ZT20

ZT21

Cellulose Biosynthesis

CESA6

GRMZM2G052149

AT3G03050

ZT20

nc

Cellulose Biosynthesis

CSLD3

GRMZM2G477603

AT1G65610

ZT20

ZT0

Cellulose Metabolism

GUN7

GRMZM2G110735

AT5G49720

ZT0

nc

Cellulose Metabolism

GUN25

GRMZM2G131205

AT1G15950

ZT0

ZT1

Lignin Biosynthesis

CCR1/IXR4

GRMZM2G110175

AT3G19450

ZT0

ZT22

Lignin Biosynthesis

CAD4

GRMZM2G054013

AT1G65060

ZT16

ZT21

Flavonol Biosynthesis

4-CL3

Growth and Development

GRMZM2G164405

AT4G11280

ZT0

nc

Ethylene Biosynthesis

ACS6

GRMZM2G117198

AT3G17390

ZT20

nc

Ethylene Biosynthesis

MTO3

GRMZM2G081554

AT4G02780

ZT4

nc

Gibberellin Biosynthesis

GA1

GRMZM2G093195

AT2G32440

ZT16

ZT8

Gibberellin Biosynthesis

KAO2

GRMZM2G147882

AT1G35190

ZT20

ZT2

Gibberellin Biosynthesis

OR

GRMZM2G001457

AT3G45780

ZT8

ZT7

Blue light response

PHOT1

GRMZM2G067702

AT3G46640

ZT12

ZT14

Circadian Clock

LUX

GRMZM2G095727

AT5G02810

ZT8

ZT7

Circadian Clock

PRR7

GRMZM2G107101

AT1G22770

ZT12

ZT11

Circadian Clock/Flowering

GI1A

GRMZM2G149786

AT3G13682

ZT12

nc

Flowering

LDL1

GRMZM2G065276

AT4G16280

ZT12

nc

Flowering

FCA

GRMZM2G405368

AT5G15850

ZT16

ZT1

Flowering

COL1

  1. 1Phase of Arabidopsis transcript expression from the DIURNAL web tool [71], where phase is determined with HAYSTACK [35]. "nc" indicates noncycling transcript with a waveform assigned a PCC < 0.7 by HAYSTACK analysis.
  2. 2Function of maize protein inferred from the function of the Arabidopsis ortholog according to Kyoto Encyclopedia of Genes and Genomes [70].