YABBY Genomic sequences

Minimum number of tobacco YABBY genes: 10

Count of tobacco YABBY sequences: 11

Pfam accession:YABBY

SHOULD possess YABBY domain and COULD   possess HMG_box domain

The establishment of abaxial-adaxial polarity in lateral organs involves factors intrinsic to the primordia and interactions with the apical meristem from which they are derived. Recently, a small plant-specific family of genes, the YABBY gene family, has been proposed to specify abaxial cell fate. Each asymmetric above-ground lateral organ expresses at least one member of the family in a polar manner, and loss- and gain-of-function studies indicate that they are sufficient to specify abaxial cell fate and that they act in both distinct and redundant manners.

Members of the YABBY gene family are characterized by two conserved domains, a C2C2 zinc finger-like domain towards the amino terminus and a helix-loop-helix, which we have called the YABBY domain, with sequence similarity to the first two helices of the HMG box towards the carboxyl end of the protein.In addition to the conserved YABBY and zinc finger domains, YAB1, YAB2, YAB3 and YAB5 display some sequence similarity on the carboxyl side of the YABBY domain. The region between the YABBY and zinc finger domains is variable amongst family members.

The presence of these domains suggests these proteins function as transcription factors. Database searches suggest that this family may be plant-specific, as genes with a similar arrangement of zinc finger and YABBY domains do not occur in either Caenorhabditis elegans or Saccharomyces cerevisiae.

The YABBY gene are expressed in a polar manner in all lateral organs produced by apical and flower meristems. Their transcripts are detectable only in the abaxial domains of lateral organs when their primordia emerge and begin to differentiate. Loss of polar expression of these genes results in loss of polar differentiation of cell types in lateral organs, and gain-of-function alleles result in abaxialization of lateral organs. The expression of these genes is precisely correlated with abaxial cell fate in mutants in which abaxial cell fates are found ectopically, reduced or eliminated. We propose that members of this gene family act redundantly to specify abaxial identity in lateral organs produced by the apical and flower meristems in Arabidopsis.

Papers

Bowman, JL; Smyth, DR. CRABS CLAW, a gene that regulates carpel and nectary development in Arabidopsis, encodes a novel protein with zinc finger and helix-loop-helix domains. Development 1999. 126(11):2387-96 PMID: 10225998

Kumaran, MK; Bowman, JL; Sundaresan, V. YABBY polarity genes mediate the repression of KNOX homeobox genes in Arabidopsis. Plant Cell 2002. 14(11):2761-70 PMID: 12417699

Golz, JF; Hudson, A. Plant development: YABBYs claw to the fore. Curr. Biol. 1999. 9(22):R861-3 PMID: 10574752



Number of contigs: 10

Number of singlets: 1

1st and 2nd exons – 5

1st exon – 1

2nd exon – 1

Number of full – 4

Total minimum number – 10




Search sequences and info


Transcription factor sequences
Locus
Description
NCBI
YABBY_1 [comment=1st and 2nd exons. Almost complete] ET050059
YABBY_2 [comment=1st and 2nd exons. Almost complete] ET046894
ET048133
YABBY_3 [comment=full identical to Nicotiana tabacum isolate 1 CRABS CLAW] ET044271
YABBY_4 [comment=1st and 2nd exons. Almost complete] ET046907
ET044639
ET048844
ET044638
ET048843
ET050282
YABBY_5 [comment=1st and 2nd exons. Almost complete] ET051853
YABBY_6 [comment=2nd exon] ET051598
YABBY_7 [comment=full] ET045540
ET044432
ET045549
ET044433
YABBY_8 [comment=full Is identical to CRABS CLAW (AAW83047)] ET049772
ET049898
YABBY_9 [comment=Full] ET048454
ET043253
ET048166
ET048455
YABBY_10 [comment=1st and 2nd exons.] ET049702
ET043107
ET042463
ET043483
ET042462
ET046822
ET051039
YABBY_11 [comment=1st exon] ET043181


Tobacco published genes related to transcription factor family YABBY
Family Genbank ID Name
YABBY AY854800 CRABS CLAW
Authors of this site:

Paul J Rushton
Marta T. Bokowiec
Xianfeng (Jeff) Chen
Thomas (Tom) W Laudeman
Jennifer F. Brannock
Michael P. Timko

Contact:

pr8y@virginia.edu