Insight into the bZIP Gene Family in Solanum tuberosum: Genome and Transcriptome Analysis to Understand the Roles of Gene Diversification in Spatiotemporal Gene Expression and Function

Quantitative trait loci analysis of potato tuber greening

(2020) Jarosław Plich et al.   MOLECULAR BIOLOGY REPORTS

A Tetrasomic Inheritance Model and Likelihood‐based Method for Mapping Quantitative Trait Loci in Autotetraploid Species

(2020) Jing Chen et al.   NEW PHYTOLOGIST

Multiple ER-to-nucleus stress signaling pathways are activated during Plantago asiatica mosaic virus and Turnip mosaic virus infection in Arabidopsis thaliana

(2020) Mathieu Gayral et al.   PLANT JOURNAL

TBtools: An Integrative Toolkit Developed for Interactive Analyses of Big Biological Data

(2020) Chengjie Chen et al.   Molecular Plant

Construction of a chromosome-scale long-read reference genome assembly for potato

(2020) Gina M Pham et al.   GigaScience

Genome-Wide Identification and Characterization of the AREB/ABF/ABI5 Subfamily Members from Solanum tuberosum

(2019) Tengfei Liu et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Interactive Tree Of Life (iTOL) v4: recent updates and new developments

(2019) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Molecular mechanisms of the protein-protein interaction–regulated binding specificity of basic-region leucine zipper transcription factors

(2019) Qing Li et al.   JOURNAL OF MOLECULAR MODELING

Multilevel Regulation of Endoplasmic Reticulum Stress Responses in Plants: Where Old Roads and New Paths Meet

(2019) Taiaba Afrin et al.   JOURNAL OF EXPERIMENTAL BOTANY

Evolutionary and expression analyses of soybean basic Leucine zipper transcription factor family

(2018) Man Zhang et al.   BMC GENOMICS

The Arabidopsis bZIP transcription factor family — an update

(2018) Wolfgang Dröge-Laser et al.   CURRENT OPINION IN PLANT BIOLOGY

Response to Persistent ER Stress in Plants: A Multiphasic Process That Transitions Cells from Prosurvival Activities to Cell Death

(2018) Renu Srivastava et al.   PLANT CELL

The potato transcription factor StbZIP61 regulates dynamic biosynthesis of salicylic acid in defense against Phytophthora infestans infection

(2018) Xin-Tong Zhou et al.   PLANT JOURNAL

The C/S 1 bZIP Network: A Regulatory Hub Orchestrating Plant Energy Homeostasis

(2018) Wolfgang Dröge-Laser et al.   TRENDS IN PLANT SCIENCE

Linkage analysis and QTL mapping in a tetraploid russet mapping population of potato

(2018) Alicia N. Massa et al.   BMC GENETICS

The Pfam protein families database in 2019

(2018) Sara El-Gebali et al.   NUCLEIC ACIDS RESEARCH

InterPro in 2019: improving coverage, classification and access to protein sequence annotations

(2018) Alex L Mitchell et al.   NUCLEIC ACIDS RESEARCH

UFBoot2: Improving the Ultrafast Bootstrap Approximation

(2017) Diep Thi Hoang et al.   MOLECULAR BIOLOGY AND EVOLUTION

Expression Atlas: gene and protein expression across multiple studies and organisms

(2017) Irene Papatheodorou et al.   NUCLEIC ACIDS RESEARCH

Ensembl 2018

(2017) Daniel R Zerbino et al.   NUCLEIC ACIDS RESEARCH

Ensembl Genomes 2018: an integrated omics infrastructure for non-vertebrate species

(2017) Paul Julian Kersey et al.   NUCLEIC ACIDS RESEARCH

20 years of the SMART protein domain annotation resource

(2017) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Genome-Wide Identification and Structural Analysis of bZIP Transcription Factor Genes in Brassica napus

(2017) Yan Zhou et al.   Genes

SOAPnuke: a MapReduce acceleration-supported software for integrated quality control and preprocessing of high-throughput sequencing data

(2017) Yuxin Chen et al.   GigaScience

IPC – Isoelectric Point Calculator

(2016) Lukasz P. Kozlowski   Biology Direct

The diversification of the basic leucine zipper family in eukaryotes correlates with the evolution of multicellularity

(2016) Katia Jindrich et al.   BMC EVOLUTIONARY BIOLOGY

The IRE1/bZIP60 Pathway and Bax Inhibitor 1 Suppress Systemic Accumulation of Potyviruses and Potexviruses in Arabidopsis and Nicotiana benthamiana Plants

(2016) Omar Arias Gaguancela et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

W-IQ-TREE: a fast online phylogenetic tool for maximum likelihood analysis

(2016) Jana Trifinopoulos et al.   NUCLEIC ACIDS RESEARCH

The drought response of potato reference cultivars with contrasting tolerance

(2016) Heike Sprenger et al.   PLANT CELL AND ENVIRONMENT

Evolution of gene duplication in plants

(2016) Nicholas Panchy et al.   PLANT PHYSIOLOGY

Arabidopsis clade IV TGA transcription factors, TGA10 and TGA9, are involved in ROS-mediated responses to bacterial PAMP flg22

(2016) Masahiro Noshi et al.   PLANT SCIENCE

The phylogeny of C/S1 bZIP transcription factors reveals a shared algal ancestry and the pre-angiosperm translational regulation of S1 transcripts

(2016) Alessia Peviani et al.   Scientific Reports

RNA-Seq analysis of resistant and susceptible potato varieties during the early stages of potato virus Y infection

(2015) Aymeric Goyer et al.   BMC GENOMICS

StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

(2015) Mihaela Pertea et al.   NATURE BIOTECHNOLOGY

The TOPCONS web server for consensus prediction of membrane protein topology and signal peptides

(2015) Konstantinos D. Tsirigos et al.   NUCLEIC ACIDS RESEARCH

The Elucidation of the Interactome of 16 Arabidopsis bZIP Factors Reveals Three Independent Functional Networks

(2015) Carles Marco Llorca et al.   PLoS One

Abscisic-acid-dependent basic leucine zipper (bZIP) transcription factors in plant abiotic stress

(2015) Aditya Banerjee et al.   PROTOPLASMA

GSDS 2.0: an upgraded gene feature visualization server

(2014) Bo Hu et al.   BIOINFORMATICS

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Basic Leucine Zipper Family in Barley: Genome-Wide Characterization of Members and Expression Analysis

(2014) Ehsan Pourabed et al.   MOLECULAR BIOTECHNOLOGY

FourArabidopsis AREB/ABF transcription factors function predominantly in gene expression downstream of SnRK2 kinases in abscisic acid signalling in response to osmotic stress

(2014) TAKUYA YOSHIDA et al.   PLANT CELL AND ENVIRONMENT

A Review of Imaging Techniques for Plant Phenotyping

(2014) Lei Li et al.   SENSORS

Protter: interactive protein feature visualization and integration with experimental proteomic data

(2013) Ulrich Omasits et al.   BIOINFORMATICS

Insights into organ-specific pathogen defense responses in plants: RNA-seq analysis of potato tuber-Phytophthora infestans interactions

(2013) Liangliang Gao et al.   BMC GENOMICS

Ultrafast Approximation for Phylogenetic Bootstrap

(2013) B. Q. Minh et al.   MOLECULAR BIOLOGY AND EVOLUTION

BINDING PROTEIN Is a Master Regulator of the Endoplasmic Reticulum Stress Sensor/Transducer bZIP28 in Arabidopsis

(2013) R. Srivastava et al.   PLANT CELL

Genome-Wide Analysis of bZIP-Encoding Genes in Maize

(2012) K. Wei et al.   DNA RESEARCH

From Pioneers to Team Players: TGA Transcription Factors Provide a Molecular Link Between Different Stress Pathways

(2012) Christiane Gatz   MOLECULAR PLANT-MICROBE INTERACTIONS

Family-based linkage and association mapping reveals novel genes affectingPlum pox virusinfection inArabidopsis thaliana

(2012) Gaëlle Pagny et al.   NEW PHYTOLOGIST

New and continuing developments at PROSITE

(2012) Christian J. A. Sigrist et al.   NUCLEIC ACIDS RESEARCH

MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity

(2012) Y. Wang et al.   NUCLEIC ACIDS RESEARCH

Genome sequence and analysis of the tuber crop potato

(2011) Xun Xu et al.   NATURE

The Unfolded Protein Response Is Triggered by a Plant Viral Movement Protein

(2011) C. Ye et al.   PLANT PHYSIOLOGY

The Transcriptome of the Reference Potato Genome Solanum tuberosum Group Phureja Clone DM1-3 516R44

(2011) Alicia N. Massa et al.   PLoS One

Transcriptome analysis reveals absence of unintended effects in drought-tolerant transgenic plants overexpressing the transcription factor ABF3

(2010) Ashraf Abdeen et al.   BMC GENOMICS

Transcriptional regulatory network triggered by oxidative signals configures the early response mechanisms of japonica rice to chilling stress

(2010) Kil-Young Yun et al.   BMC PLANT BIOLOGY

Genome-wide Expansion and Expression Divergence of the Basic Leucine Zipper Transcription Factors in Higher Plants with an Emphasis on SorghumF

(2010) Jizhou Wang et al.   Journal of Integrative Plant Biology

bZIP28 and NF-Y Transcription Factors Are Activated by ER Stress and Assemble into a Transcriptional Complex to Regulate Stress Response Genes in Arabidopsis

(2010) J. X. Liu et al.   PLANT CELL

Arabidopsis Basic Leucine-Zipper Transcription Factors TGA9 and TGA10 Interact with Floral Glutaredoxins ROXY1 and ROXY2 and Are Redundantly Required for Anther Development

(2010) J. Murmu et al.   PLANT PHYSIOLOGY

AtBAG7, an Arabidopsis Bcl-2-associated athanogene, resides in the endoplasmic reticulum and is involved in the unfolded protein response

(2010) B. Williams et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

A Pivotal Role of the Basic Leucine Zipper Transcription Factor bZIP53 in the Regulation of Arabidopsis Seed Maturation Gene Expression Based on Heterodimerization and Protein Complex Formation

(2009) R. Alonso et al.   PLANT CELL

Identification of an Arabidopsis transmembrane bZIP transcription factor involved in the endoplasmic reticulum stress response

(2008) Hiromi Tajima et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Expression patterns within the Arabidopsis C/S1 bZIP transcription factor network: availability of heterodimerization partners controls gene expression during stress response and development

(2008) Fridtjof Weltmeier et al.   PLANT MOLECULAR BIOLOGY

Tobacco Transcription Factors: Novel Insights into Transcriptional Regulation in the Solanaceae

(2008) P. J. Rushton et al.   PLANT PHYSIOLOGY

The Role of bZIP Transcription Factors in Green Plant Evolution: Adaptive Features Emerging from Four Founder Genes

(2008) Luiz Gustavo Guedes Corrêa et al.   PLoS One