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Open AccessArticle

Bioinformatics Analysis of Phylogeny and Transcription of TAA/YUC Auxin Biosynthetic Genes

1
Department of Biological and Medical Sciences, Oxford Brookes University, Oxford OX3 0BP, UK
2
Department of Biostatistics and Bioinformatics, Rollins School of Public Health, Emory University, Atlanta, GA 30322, USA
*
Author to whom correspondence should be addressed.
Int. J. Mol. Sci. 2017, 18(8), 1791; https://doi.org/10.3390/ijms18081791
Received: 20 June 2017 / Revised: 19 July 2017 / Accepted: 13 August 2017 / Published: 18 August 2017
(This article belongs to the Special Issue Auxin)
Auxin is a main plant growth hormone crucial in a multitude of developmental processes in plants. Auxin biosynthesis via the tryptophan aminotransferase of arabidopsis (TAA)/YUCCA (YUC) route involving tryptophan aminotransferases and YUC flavin-dependent monooxygenases that produce the auxin indole-3-acetic acid (IAA) from tryptophan is currently the most researched auxin biosynthetic pathway. Previous data showed that, in maize and arabidopsis, TAA/YUC-dependent auxin biosynthesis can be detected in endoplasmic reticulum (ER) microsomal fractions, and a subset of auxin biosynthetic proteins are localized to the ER, mainly due to transmembrane domains (TMD). The phylogeny presented here for TAA/TAR (tryptophan aminotransferase related) and YUC proteins analyses phylogenetic groups as well as transmembrane domains for ER-membrane localisation. In addition, RNAseq datasets are analysed for transcript abundance of YUC and TAA/TAR proteins in Arabidopsis thaliana. We show that ER membrane localisation for TAA/YUC proteins involved in auxin biosynthesis is already present early on in the evolution of mosses and club mosses. ER membrane anchored YUC proteins can mainly be found in roots, while cytosolic proteins are more abundant in the shoot. The distribution between the different phylogenetic classes in root and shoot may well originate from gene duplications, and the phylogenetic groups detected also overlap with the biological function. View Full-Text
Keywords: auxin; indole-3-acetic acid (IAA); endoplasmic reticulum (ER); transmembrane domain (TMD); phylogeny; RNAseq; YUCCA (YUC); tryptophan aminotransferase of arabidopsis (TAA); tryptophan aminotransferase related (TAR); gene duplication auxin; indole-3-acetic acid (IAA); endoplasmic reticulum (ER); transmembrane domain (TMD); phylogeny; RNAseq; YUCCA (YUC); tryptophan aminotransferase of arabidopsis (TAA); tryptophan aminotransferase related (TAR); gene duplication
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MDPI and ACS Style

Poulet, A.; Kriechbaumer, V. Bioinformatics Analysis of Phylogeny and Transcription of TAA/YUC Auxin Biosynthetic Genes. Int. J. Mol. Sci. 2017, 18, 1791. https://doi.org/10.3390/ijms18081791

AMA Style

Poulet A, Kriechbaumer V. Bioinformatics Analysis of Phylogeny and Transcription of TAA/YUC Auxin Biosynthetic Genes. International Journal of Molecular Sciences. 2017; 18(8):1791. https://doi.org/10.3390/ijms18081791

Chicago/Turabian Style

Poulet, Axel; Kriechbaumer, Verena. 2017. "Bioinformatics Analysis of Phylogeny and Transcription of TAA/YUC Auxin Biosynthetic Genes" Int. J. Mol. Sci. 18, no. 8: 1791. https://doi.org/10.3390/ijms18081791

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