James Whelan

ARC Centre of Excellence in Plant Energy Biology, La Trobe University

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JoVE Journal Publications

ArticleTotal : 2	Year
Publication title Cited by 15	2018
Publication title Cited by 5	2020

Other Publications

Article	Year
Organellar oligopeptidase (OOP) provides a complementary pathway for targeting peptide degradation in mitochondria and chloroplasts. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 24043784	2013
A Membrane-Bound NAC Transcription Factor, ANAC017, Mediates Mitochondrial Retrograde Signaling in Arabidopsis. The Plant cell\| PubMed ID: 24045017	2013
The membrane-bound NAC transcription factor ANAC013 functions in mitochondrial retrograde regulation of the oxidative stress response in Arabidopsis. The Plant cell\| PubMed ID: 24045019	2013
The plant mitochondrial protein import apparatus - the differences make it interesting. Biochimica et biophysica acta\| PubMed ID: 24080405	2014
Global transcriptome analysis of AtPAP2--overexpressing Arabidopsis thaliana with elevated ATP. BMC genomics\| PubMed ID: 24180234	2013
Spatio-temporal transcript profiling of rice roots and shoots in response to phosphate starvation and recovery. The Plant cell\| PubMed ID: 24249833	2013
Ligand recognition by the TPR domain of the import factor Toc64 from Arabidopsis thaliana. PloS one\| PubMed ID: 24391770	2013
Interaction between plastid and mitochondrial retrograde signalling pathways during changes to plastid redox status. Philosophical transactions of the Royal Society of London. Series B, Biological sciences\| PubMed ID: 24591717	2014
Toward deciphering the genome-wide transcriptional responses of rice to phosphate starvation and recovery. Plant signaling & behavior\| PubMed ID: 24614023	2014
Evidence for interactions between the mitochondrial import apparatus and respiratory chain complexes via Tim21-like proteins in Arabidopsis. Frontiers in plant science\| PubMed ID: 24653731	2014
RNA-seq analysis identifies an intricate regulatory network controlling cluster root development in white lupin. BMC genomics\| PubMed ID: 24666749	2014
Anterograde and retrograde regulation of nuclear genes encoding mitochondrial proteins during growth, development, and stress. Molecular plant\| PubMed ID: 24711293	2014
Mitochondrial biogenesis in plants during seed germination. Mitochondrion\| PubMed ID: 24727594	2014
A Functional Antagonistic Relationship between Auxin and Mitochondrial Retrograde Signaling Regulates Alternative Oxidase1a Expression in Arabidopsis. Plant physiology\| PubMed ID: 24820025	2014
Mutation in xyloglucan 6-xylosytransferase results in abnormal root hair development in Oryza sativa. Journal of experimental botany\| PubMed ID: 24834920	2014
Coordinating metabolite changes with our perception of plant abiotic stress responses: emerging views revealed by integrative-omic analyses. Metabolites\| PubMed ID: 24958149	2013
The mitochondrial outer membrane AAA ATPase AtOM66 affects cell death and pathogen resistance in Arabidopsis thaliana. The Plant journal : for cell and molecular biology\| PubMed ID: 25227923	2014
The mitochondrial protein import component, TRANSLOCASE OF THE INNER MEMBRANE17-1, plays a role in defining the timing of germination in Arabidopsis. Plant physiology\| PubMed ID: 25253887	2014
Protein import into plant mitochondria: signals, machinery, processing, and regulation. Journal of experimental botany\| PubMed ID: 25324401	2014
Next generation sequencing and de novo transcriptomics to study gene evolution. Plant methods\| PubMed ID: 25364374	2014
Decreasing electron flux through the cytochrome and/or alternative respiratory pathways triggers common and distinct cellular responses dependent on growth conditions. Plant physiology\| PubMed ID: 25378695	2015
MPIC: a mitochondrial protein import components database for plant and non-plant species. Plant & cell physiology\| PubMed ID: 25435547	2015
Mechanisms of growth and patterns of gene expression in oxygen-deprived rice coleoptiles. The Plant journal : for cell and molecular biology\| PubMed ID: 25650041	2015
Stress induced gene expression drives transient DNA methylation changes at adjacent repetitive elements. eLife\| PubMed ID: 26196146	2015
Phosphorylation and Dephosphorylation of the Presequence of Precursor MULTIPLE ORGANELLAR RNA EDITING FACTOR3 during Import into Mitochondria from Arabidopsis. Plant physiology\| PubMed ID: 26304849	2015
The Design and Structure of Outer Membrane Receptors from Peroxisomes, Mitochondria, and Chloroplasts. Structure (London, England : 1993)\| PubMed ID: 26365798	2015
RNA-Seq analysis identifies key genes associated with haustorial development in the root hemiparasite Santalum album. Frontiers in plant science\| PubMed ID: 26388878	2015
Rice SPX-Major Facility Superfamily3, a Vacuolar Phosphate Efflux Transporter, Is Involved in Maintaining Phosphate Homeostasis in Rice. Plant physiology\| PubMed ID: 26424157	2015
Interaction between hormonal and mitochondrial signalling during growth, development and in plant defence responses. Plant, cell & environment\| PubMed ID: 26763171	2016
Inactivation of Mitochondrial Complex I Induces the Expression of a Twin Cysteine Protein that Targets and Affects Cytosolic, Chloroplastidic and Mitochondrial Function. Molecular plant\| PubMed ID: 26829715	2016
Comprehensive Mitochondrial Metabolic Shift during the Critical Node of Seed Ageing in Rice. PloS one\| PubMed ID: 27124767	2016
Mitochondrial and Chloroplast Stress Responses Are Modulated in Distinct Touch and Chemical Inhibition Phases. Plant physiology\| PubMed ID: 27208304	2016
Mitochondrial Defects Confer Tolerance against Cellulose Deficiency. The Plant cell\| PubMed ID: 27543091	2016
Dissecting the Metabolic Role of Mitochondria during Developmental Leaf Senescence. Plant physiology\| PubMed ID: 27744300	2016
A Transcriptomic Signature of Mouse Liver Progenitor Cells. Stem cells international\| PubMed ID: 27777588	2016
Plant-Specific Preprotein and Amino Acid Transporter Proteins Are Required for tRNA Import into Mitochondria. Plant physiology\| PubMed ID: 27789739	2016
Characterization of a novel β-barrel protein (AtOM47) from the mitochondrial outer membrane of Arabidopsis thaliana. Journal of experimental botany\| PubMed ID: 27811077	2016
A multi-step peptidolytic cascade for amino acid recovery in chloroplasts. Nature chemical biology\| PubMed ID: 27820795	2017
Dynamic and rapid changes in the transcriptome and epigenome during germination and in developing rice (Oryza sativa) coleoptiles under anoxia and re-oxygenation. The Plant journal : for cell and molecular biology\| PubMed ID: 27859855	2017
Two h-Type Thioredoxins Interact with the E2 Ubiquitin Conjugase PHO2 to Fine-Tune Phosphate Homeostasis in Rice. Plant physiology\| PubMed ID: 27895204	2017
Proteomic and Carbonylation Profile Analysis at the Critical Node of Seed Ageing in Oryza sativa. Scientific reports\| PubMed ID: 28094349	2017
The Transcription Factor MYB29 Is a Regulator of ALTERNATIVE OXIDASE1a. Plant physiology\| PubMed ID: 28167700	2017
OsNLA1, a RING-type ubiquitin ligase, maintains phosphate homeostasis in Oryza sativa via degradation of phosphate transporters. The Plant journal : for cell and molecular biology\| PubMed ID: 28229491	2017
Community recommendations on terminology and procedures used in flooding and low oxygen stress research. The New phytologist\| PubMed ID: 28277605	2017
Evidence for Ancient Origins of Bowman-Birk Inhibitors from Selaginella moellendorffii. The Plant cell\| PubMed ID: 28298518	2017
Stepwise Evolution of a Buried Inhibitor Peptide over 45 My. Molecular biology and evolution\| PubMed ID: 28333296	2017
Molecular interaction between PHO2 and GIGANTEA reveals a new crosstalk between flowering time and phosphate homeostasis in Oryza sativa. Plant, cell & environment\| PubMed ID: 28337762	2017
Nutrient stress-induced chromatin changes in plants. Current opinion in plant biology\| PubMed ID: 28441589	2017
Root Cell-Specific Regulators of Phosphate-Dependent Growth. Plant physiology\| PubMed ID: 28465462	2017
Isolation of tissues and preservation of RNA from intact, germinated barley grain. The Plant journal : for cell and molecular biology\| PubMed ID: 28509349	2017
Analysis of Posttranslational Activation of Alternative Oxidase Isoforms. Plant physiology\| PubMed ID: 28596420	2017
Extensive transcriptomic and epigenomic remodelling occurs during Arabidopsis thaliana germination. Genome biology\| PubMed ID: 28911330	2017
Alternative oxidase isoforms are differentially activated by tricarboxylic acid cycle intermediates. Plant physiology\| PubMed ID: 29208641	2017
The Phosphate Fast-Responsive Genes and Affect Phosphocholine and Phosphoethanolamine Content. Plant physiology\| PubMed ID: 29475899	2018
Stress responsive mitochondrial proteins in Arabidopsis thaliana. Free radical biology & medicine\| PubMed ID: 29555593	2018
Alternative Oxidase Is Positive for Plant Performance. Trends in plant science\| PubMed ID: 29665989	2018
AgriSeqDB: an online RNA-Seq database for functional studies of agriculturally relevant plant species. BMC plant biology\| PubMed ID: 30231853	2018
Accumulation of endogenous peptides triggers a pathogen stress response in Arabidopsis thaliana. The Plant journal : for cell and molecular biology\| PubMed ID: 30242930	2018
Alternative Splicing Plays a Critical Role in Maintaining Mineral Nutrient Homeostasis in Rice (). The Plant cell\| PubMed ID: 30254029	2018
A family of small, cyclic peptides buried in preproalbumin since the Eocene epoch. Plant direct\| PubMed ID: 30417166	2018
Mitochondrial function modulates touch signalling in Arabidopsis thaliana. The Plant journal : for cell and molecular biology\| PubMed ID: 30537160	2019
Identification and characterisation of hypomethylated DNA loci controlling quantitative resistance in . eLife\| PubMed ID: 30608232	2019
Interplay between Jasmonic Acid, Phosphate Signaling and the Regulation of Glycerolipid Homeostasis in Arabidopsis. Plant & cell physiology\| PubMed ID: 30753691	2019
Dual and dynamic intracellular localization of Arabidopsis thaliana SnRK1.1. Journal of experimental botany\| PubMed ID: 30753728	2019
Composition of Mitochondrial Complex I during the Critical Node of Seed Aging in Oryza sativa. Journal of plant physiology\| PubMed ID: 30840921	2019
ANAC017 Coordinates Organellar Functions and Stress Responses by Reprogramming Retrograde Signaling. Plant physiology\| PubMed ID: 30872424	2019
An Ancient Peptide Family Buried within Vicilin Precursors. ACS chemical biology\| PubMed ID: 30973714	2019
Arabidopsis DGD1 SUPPRESSOR1 Is a Subunit of the Mitochondrial Contact Site and Cristae Organizing System and Affects Mitochondrial Biogenesis. The Plant cell\| PubMed ID: 31118221	2019
The Soybean Sugar Transporter GmSWEET15 Mediates Sucrose Export from Endosperm to Early Embryo. Plant physiology\| PubMed ID: 31221732	2019
SPX4 Acts on PHR1-Dependent and -Independent Regulation of Shoot Phosphorus Status in Arabidopsis. Plant physiology\| PubMed ID: 31262954	2019
A transcription factor OsbHLH156 regulates Strategy II iron acquisition through localising IRO2 to the nucleus in rice. The New phytologist\| PubMed ID: 31574173	2020
A Mitochondrial LYR Protein Is Required for Complex I Assembly. Plant physiology\| PubMed ID: 31601645	2019
Temporal tissue-specific regulation of transcriptomes during barley (Hordeum vulgare) seed germination. The Plant journal : for cell and molecular biology\| PubMed ID: 31628689	2020
Transcriptional and biochemical analyses of gibberellin expression and content in germinated barley grain. Journal of experimental botany\| PubMed ID: 31819970	2020
Direct comparison of Arabidopsis gene expression reveals different responses to melatonin versus auxin. BMC plant biology\| PubMed ID: 31856719	2019
Molecular and physiological responses during thermal acclimation of leaf photosynthesis and respiration in rice. Plant, cell & environment\| PubMed ID: 31860752	2020
Mitochondrial signalling is critical for acclimation and adaptation to flooding in Arabidopsis thaliana. The Plant journal : for cell and molecular biology\| PubMed ID: 32064696	2020
Cyclic Peptides in Seed of Are Ribosomally Synthesized. Journal of natural products\| PubMed ID: 32239926	2020
Linking mitochondrial and chloroplast retrograde signalling in plants. Philosophical transactions of the Royal Society of London. Series B, Biological sciences\| PubMed ID: 32362265	2020