Identification and Expression Dynamics of Three WUSCHEL Related Homeobox 13 (WOX13) Genes in Peanut

Overview

Journal Dev Genes Evol

Specialty Biology

Date 2015 Jun 28

PMID 26115849

Citations 2

Authors

Pengfei Wang

Changsheng Li

Cui Li

Chuanzhi Zhao

Han Xia

Shuzhen Zhao

Lei Hou

Chao Gao

Shubo Wan

Xingjun Wang

Affiliations

Soon will be listed here.

Abstract

WUSCHEL-related homeobox (WOX) genes play key roles in plant stem cell maintenance and development. WOX genes showed specific expression patterns which are important for their functions. WOX13 subfamily genes as the ancestor genes of this family were less studied in the past. In this study, we cloned three Arachis hypogaea (peanut) WOX13 (AhWOX13) subfamily genes from peanut: WOX13A and WOX13B1, 2. WOX13B1 encoded a same protein as WOX13B2, and there were only two-base difference between these two genes. Differential expression patterns were observed for these three AhWOX13 subfamily genes in different tissues and developmental stages. Phylogenic trees analysis showed that these AhWOX13 subfamily genes were the most conserved WOX genes and belonged to the ancient clade of WOX family. This was also supported by the conserved motif analysis. Selective pressure analysis showed that the WOX family genes mainly underwent weak purifying selection (ω = 0.58097), while many positive mutations accumulated during the evolution history. Under the purifying selection, gene duplication event and loss of duplicated gene play important roles in the expansion and evolution of WOX family.

Citing Articles

Analysis of bHLH genes from foxtail millet (Setaria italica) and their potential relevance to drought stress.

Wang P, Wang H, Wang Y, Ren F, Liu W PLoS One. 2018; 13(11):e0207344.

PMID: 30412624 PMC: 6226204. DOI: 10.1371/journal.pone.0207344.

Genome-Wide Analysis Suggests the Relaxed Purifying Selection Affect the Evolution of Genes in , , , and .

Cao Y, Han Y, Meng D, Li G, Li D, Abdullah M Front Genet. 2017; 8:78.

PMID: 28663757 PMC: 5471313. DOI: 10.3389/fgene.2017.00078.

References

Vandenbussche M, Horstman A, Zethof J, Koes R, Rijpkema A, Gerats T . Differential recruitment of WOX transcription factors for lateral development and organ fusion in Petunia and Arabidopsis. Plant Cell. 2009; 21(8):2269-83. PMC: 2751957. DOI: 10.1105/tpc.109.065862. View

Dai M, Hu Y, Zhao Y, Liu H, Zhou D . A WUSCHEL-LIKE HOMEOBOX gene represses a YABBY gene expression required for rice leaf development. Plant Physiol. 2007; 144(1):380-90. PMC: 1913789. DOI: 10.1104/pp.107.095737. View

Xia H, Zhao C, Hou L, Li A, Zhao S, Bi Y . Transcriptome profiling of peanut gynophores revealed global reprogramming of gene expression during early pod development in darkness. BMC Genomics. 2013; 14:517. PMC: 3765196. DOI: 10.1186/1471-2164-14-517. View

Deveaux Y, Toffano-Nioche C, Claisse G, Thareau V, Morin H, Laufs P . Genes of the most conserved WOX clade in plants affect root and flower development in Arabidopsis. BMC Evol Biol. 2008; 8:291. PMC: 2584047. DOI: 10.1186/1471-2148-8-291. View

Sakakibara K, Reisewitz P, Aoyama T, Friedrich T, Ando S, Sato Y . WOX13-like genes are required for reprogramming of leaf and protoplast cells into stem cells in the moss Physcomitrella patens. Development. 2014; 141(8):1660-70. DOI: 10.1242/dev.097444. View

Yang Z . PAML 4: phylogenetic analysis by maximum likelihood. Mol Biol Evol. 2007; 24(8):1586-91. DOI: 10.1093/molbev/msm088. View

Lin H, Niu L, McHale N, Ohme-Takagi M, Mysore K, Tadege M . Evolutionarily conserved repressive activity of WOX proteins mediates leaf blade outgrowth and floral organ development in plants. Proc Natl Acad Sci U S A. 2012; 110(1):366-71. PMC: 3538250. DOI: 10.1073/pnas.1215376110. View

Moctezuma E, Feldman L . The role of amyloplasts during gravity perception in gynophores of the peanut plant (Arachis hypogaea). Ann Bot. 2001; 84(6):709-14. DOI: 10.1006/anbo.1999.0963. View

van der Graaff E, Laux T, Rensing S . The WUS homeobox-containing (WOX) protein family. Genome Biol. 2010; 10(12):248. PMC: 2812940. DOI: 10.1186/gb-2009-10-12-248. View

10.

Moretzsohn M, Gouvea E, Inglis P, Leal-Bertioli S, Valls J, Bertioli D . A study of the relationships of cultivated peanut (Arachis hypogaea) and its most closely related wild species using intron sequences and microsatellite markers. Ann Bot. 2012; 111(1):113-26. PMC: 3523650. DOI: 10.1093/aob/mcs237. View

11.

Haecker A, Gross-Hardt R, Geiges B, Sarkar A, Breuninger H, Herrmann M . Expression dynamics of WOX genes mark cell fate decisions during early embryonic patterning in Arabidopsis thaliana. Development. 2004; 131(3):657-68. DOI: 10.1242/dev.00963. View

12.

Liu B, Wang L, Zhang J, Li J, Zheng H, Chen J . WUSCHEL-related Homeobox genes in Populus tomentosa: diversified expression patterns and a functional similarity in adventitious root formation. BMC Genomics. 2014; 15:296. PMC: 4023605. DOI: 10.1186/1471-2164-15-296. View

13.

Ji J, Shimizu R, Sinha N, Scanlon M . Analyses of WOX4 transgenics provide further evidence for the evolution of the WOX gene family during the regulation of diverse stem cell functions. Plant Signal Behav. 2010; 5(7):916-20. PMC: 3014546. DOI: 10.4161/psb.5.7.12104. View

14.

Moctezuma E, Feldman L . Growth rates and auxin effects in graviresponding gynophores of the peanut, Arachis hypogaea (Fabaceae). Am J Bot. 2001; 85(10):1369-76. View

15.

Nei M . The new mutation theory of phenotypic evolution. Proc Natl Acad Sci U S A. 2007; 104(30):12235-42. PMC: 1941456. DOI: 10.1073/pnas.0703349104. View

16.

Laux T . The stem cell concept in plants: a matter of debate. Cell. 2003; 113(3):281-3. DOI: 10.1016/s0092-8674(03)00312-x. View

17.

Freitas F, Moretzsohn M, Valls J . Genetic variability of Brazilian Indian landraces of Arachis hypogaea L. Genet Mol Res. 2007; 6(3):675-84. View

18.

Nakata M, Matsumoto N, Tsugeki R, Rikirsch E, Laux T, Okada K . Roles of the middle domain-specific WUSCHEL-RELATED HOMEOBOX genes in early development of leaves in Arabidopsis. Plant Cell. 2012; 24(2):519-35. PMC: 3315230. DOI: 10.1105/tpc.111.092858. View

19.

Wu X, Dabi T, Weigel D . Requirement of homeobox gene STIMPY/WOX9 for Arabidopsis meristem growth and maintenance. Curr Biol. 2005; 15(5):436-40. DOI: 10.1016/j.cub.2004.12.079. View

20.

Nardmann J, Ji J, Werr W, Scanlon M . The maize duplicate genes narrow sheath1 and narrow sheath2 encode a conserved homeobox gene function in a lateral domain of shoot apical meristems. Development. 2004; 131(12):2827-39. DOI: 10.1242/dev.01164. View