Skip to main content

Table 2 The detailed information of genes association with the wheat heading-flowering regulatory network

From: Gene regulatory network and abundant genetic variation play critical roles in heading stage of polyploidy wheat

Gene

Accession number of NCBI

Mutation region

Mutation pattern

Phenotype

Ployploid wheat

Reference

vrn-A1

AY747600

Promoter

A 222-bp foldback element insertion in the promoter region

Later heading

T. aestivum cultivar Triple Dirk C

[79]

Vrn-A1a

Vrn-A1a.1

AY616458

Promoter

A 222-bp foldback element insertion in the promoter region

Early heading

T. aestivum cultivar Triple Dirk C

[17]

Vrn-A1a.3

Early heading

Vrn-A1a.2

KR782255

A 16-bp deletion and 4 single nucleotide deletions within the MITE insertion when compared to Vrn-A1a.1

Early heading

Triticum compactum cultivar Tiroler Fruhe Binkel

[76]

Vrn-A1b

Vrn-A1b

AY616461

A 20-bp deletion at − 157 bp in promoter region

A 20-bp deletion at −157 bp

Early heading

T. aestivum cultivar Spring Marquis

[17]

Vrn-A1b.1

KM047646

A-tract within the VRN-box: AAAAT

Early heading

Triticum turgidum strain PI 264954

[76]

Vrn-A1b.2

KM047641

A-tract within the VRN-box: AACCC

Early heading

Triticum dicoccoides strain PI 233288

[76]

Vrn-A1b.3

KM047647

A-tract within the VRN-box: AAACC

Early heading

Triticum turgidum subsp. dicoccon strain UA0300214

[76]

Vrn-A1b.4

KM047651

A-tract within the VRN-box: AAAAC

Early heading

Triticum dicoccoides strain PI 466941

[76]

Vrn-A1b.5

KM047652

A-tract within the VRN-box: AAACA

Early heading

Triticum turgidum subsp. dicoccon strain UA0300212

[76]

Vrn-A1b.6

KT692944

Takes along a “C- > G” transversion in the C-rich fragment than Vrn-A1b

Early heading

Triticum turgidum subsp. durum strain CItr 10,024

[76]

Vrn-A1c

AY747599

Intron1

Intron 1 deletion in the A genome copy

Early heading

T. aestivum cultivar IL369

[79]

Vrn-A1d

AY616462

Promoter

A 32-bp deletion, which included the complete HDD region and part of the CArG box.

Early heading

Triticum turgidum subsp. dicoccoides

[17]

Vrn-A1e

AY616463

Promoter

A 54-bp deletion, which included the CArG box and HDD regions

Early heading

Triticum turgidum subsp. dicoccum ST27

[17]

Vrn-A1f

DQ146421

Promoter

An 8-bp deletion in the region between −128 and − 120, and a 50-bp deletion in the region between −112 and − 62

Early heading

Triticum monococcum strain PI503874

[29]

Vrn-A1h

GQ451745

Promoter

A 20-bp deletion near the CArG box

Early heading

Triticum monococcum subsp. aegilopoides

[78]

Vrn-A1i

KM016790

Promoter

Nucleotide substitution in promoter region

Weak effect on the vernalization response

Triticum turgidum strain PI 208912

[76]

VRN-A1u

GQ451737

Intron1

A 1.4-kb deletion in intron1

Later heading

Triticum urartu isolate Tu54

[78]

vrn-B1

AY747604

Promoter

 

Later heading

T. aestivum cultivar Triple Dirk C

[79]

Vrn-B1a

AY747603

Intron1

6850-bp deletion at + 836 bp

Early heading

T. aestivum cultivar Triple Dirk B

[79]

Vrn-B1b

FJ766015

Intron1

6850-bp deletion at + 836 bp and 37-bp deletion at + 7992 bp

\

T. aestivum

[80]

Vrn-B1c

HQ593668

Intron1

The deletion of 0.8 kb coupled with the duplication of 0.4 kb in intron1

Early heading

T. aestivum

[81]

Vrn-B1ins

HQ130482

Intron1

817 bp deletion from 798 to 1614 bp, and 432 bp (from 798 to 1614 bp upstream) duplicated

Early heading

T. aestivum cultivar Saratovskaya29

[82]

KR782252

Promoter

A retrotransposon insertion in the promoter

Early heading

Triticum turgidum cultivar Zerdakia

[76]

vrn-D1

AY747606

No.

No.

Later heading

T. aestivum cultivar Triple Dirk C

[79]

Vrn-D1a

AY747597

Intron1

A 4235-bp deletion in intron1 (625–4859 bp)

Later heading

T. aestivum cultivar Triple Dirk E

[79]

Vrn-D1b

JQ406528

Intron1

Deletion in intron 1 identical to Vrn-D1a allele and a single nucleotide mutation C to A at − 161 bp in CArG box in promoter region

Later heading

T. aestivum

[83]

Vrn-D1c

KP721800

Promoter

An 174-bp fragment was inserted into the 5′-UTR at − 601 bp (relative to ATG) of the Vrn-D1 gene

Early maturity

T. aestivum

[85]

Vrn-D1s

KF800714

Intron1

An 844-bp insertion which is a novel transposable DNA element in intron1

 

Triticum spelta strain PI 348700

[84]

vrn-B3

DQ890162

Promoter

A 5295-bp repetitive element insertion that is absent in the CS allele associated with late flowering

Later heading

T. aestivum cultivar Chinese Spring

[18]

Vrn-B3a

DQ890165

Promoter

A 5295-bp repetitive element inserted 591 bp upstream from the start codon

Later heading

T. aestivum cultivar CS(Hope7B)

[18]

Vrn-B3b

JN627519

Promoter

An exact 890-bp fragment was inserted into the 5’ UTR (untranslated region) at − 429 bp

Later heading

T. aestivum

[93]

Vrn-B3c

JQ082311

Promoter

A 20-bp deletions at −3543 bp and a 4-bp deletion at − 3591 bp compared with Vrn-B3a

Later heading

T. aestivum cultivar Ji874–109

[93]

  1. Note, No. Means there are no more information refer to