Next Article in Journal
Photoconvertible Fluorescent Proteins and the Role of Dynamics in Protein Evolution
Next Article in Special Issue
Evolution Analysis of the Aux/IAA Gene Family in Plants Shows Dual Origins and Variable Nuclear Localization Signals
Previous Article in Journal
Dysfunctional Natural Killer Cells in the Aftermath of Cancer Surgery
Previous Article in Special Issue
Plants under Stress: Involvement of Auxin and Cytokinin
Article Menu
Issue 8 (August) cover image

Export Article

Open AccessArticle
Int. J. Mol. Sci. 2017, 18(8), 1791; doi:10.3390/ijms18081791

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.
Received: 20 June 2017 / Revised: 19 July 2017 / Accepted: 13 August 2017 / Published: 18 August 2017
(This article belongs to the Special Issue Auxin)
View Full-Text   |   Download PDF [4018 KB, uploaded 18 August 2017]   |  

Abstract

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
Figures

This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

Supplementary material

Scifeed alert for new publications

Never miss any articles matching your research from any publisher
  • Get alerts for new papers matching your research
  • Find out the new papers from selected authors
  • Updated daily for 49'000+ journals and 6000+ publishers
  • Define your Scifeed now

SciFeed Share & Cite This Article

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.

Show more citation formats Show less citations formats

Note that from the first issue of 2016, MDPI journals use article numbers instead of page numbers. See further details here.

Related Articles

Article Metrics

Article Access Statistics

1

Comments

[Return to top]
Int. J. Mol. Sci. EISSN 1422-0067 Published by MDPI AG, Basel, Switzerland RSS E-Mail Table of Contents Alert
Back to Top