[HTML][HTML] Facing climate change: biotechnology of iconic Mediterranean woody crops

C De Ollas, R Morillón, V Fotopoulos… - Frontiers in Plant …, 2019 - frontiersin.org
The Mediterranean basin is especially sensitive to the adverse outcomes of climate change
and especially to variations in rainfall patterns and the incidence of extremely high …

(Differential) co-expression analysis of gene expression: a survey of best practices

HA Chowdhury, DK Bhattacharyya… - IEEE/ACM transactions …, 2019 - ieeexplore.ieee.org
Analysis of gene expression data is widely used in transcriptomic studies to understand
functions of molecules inside a cell and interactions among molecules. Differential co …

Complex scaffold remodeling in plant triterpene biosynthesis

R De La Peña, H Hodgson, JCT Liu, MJ Stephenson… - Science, 2023 - science.org
Triterpenes with complex scaffold modifications are widespread in the plant kingdom.
Limonoids are an exemplary family that are responsible for the bitter taste in citrus (eg …

Combinatorial Regulation of Stilbene Synthase Genes by WRKY and MYB Transcription Factors in Grapevine (Vitis vinifera L.)

A Vannozzi, DCJ Wong, J Höll, I Hmmam… - Plant and Cell …, 2018 - academic.oup.com
Stilbene synthase (STS) is the key enzyme leading to the biosynthesis of resveratrol.
Recently we reported two R2R3-MYB transcription factor (TF) genes that regulate the …

A systems-oriented analysis of the grapevine R2R3-MYB transcription factor family uncovers new insights into the regulation of stilbene accumulation

DCJ Wong, R Schlechter, A Vannozzi, J Höll… - DNA …, 2016 - academic.oup.com
Abstract R2R3-MYB transcription factors (TFs) belong to a large and functionally diverse
protein superfamily in plants. In this study, we explore the evolution and function of this …

Identification of key enzymes responsible for protolimonoid biosynthesis in plants: Opening the door to azadirachtin production

H Hodgson, R De La Peña… - Proceedings of the …, 2019 - National Acad Sciences
Limonoids are natural products made by plants belonging to the Meliaceae (Mahogany) and
Rutaceae (Citrus) families. They are well known for their insecticidal activity, contribution to …

The photomorphogenic factors UV-B RECEPTOR 1, ELONGATED HYPOCOTYL 5, and HY5 HOMOLOGUE are part of the UV-B signalling pathway in grapevine and …

R Loyola, D Herrera, A Mas, DCJ Wong… - Journal of …, 2016 - academic.oup.com
Grapevine (Vitis vinifera L.) is a species well known for its adaptation to radiation. However,
photomorphogenic factors related to UV-B responses have not been molecularly …

[HTML][HTML] Transcriptional regulatory network analysis of MYB transcription factor family genes in rice

S Smita, A Katiyar, V Chinnusamy… - Frontiers in plant …, 2015 - frontiersin.org
MYB transcription factor (TF) is one of the largest TF families and regulates defense
responses to various stresses, hormone signaling as well as many metabolic and …

[HTML][HTML] Distinct tissue-specific transcriptional regulation revealed by gene regulatory networks in maize

J Huang, J Zheng, H Yuan, K McGinnis - BMC plant biology, 2018 - Springer
Abstract Background Transcription factors (TFs) are proteins that can bind to DNA
sequences and regulate gene expression. Many TFs are master regulators in cells that …

[HTML][HTML] Utility and limitations of using gene expression data to identify functional associations

S Uygun, C Peng, MD Lehti-Shiu… - PLoS computational …, 2016 - journals.plos.org
Gene co-expression has been widely used to hypothesize gene function through guilt-by
association. However, it is not clear to what degree co-expression is informative, whether it …