PubRank

James Whelan

Author PubWeight™ 151.42‹?›

Top papers

Rank Title Journal Year PubWeight™‹?›
1 Experimental analysis of the Arabidopsis mitochondrial proteome highlights signaling and regulatory components, provides assessment of targeting prediction programs, and indicates plant-specific mitochondrial proteins. Plant Cell 2003 2.96
2 Genome-wide analysis of mRNA decay rates and their determinants in Arabidopsis thaliana. Plant Cell 2007 2.51
3 Evidence for a SAL1-PAP chloroplast retrograde pathway that functions in drought and high light signaling in Arabidopsis. Plant Cell 2011 2.16
4 Molecular definition of the ascorbate-glutathione cycle in Arabidopsis mitochondria reveals dual targeting of antioxidant defenses in plants. J Biol Chem 2003 1.96
5 Organization and regulation of mitochondrial respiration in plants. Annu Rev Plant Biol 2011 1.82
6 The absence of ALTERNATIVE OXIDASE1a in Arabidopsis results in acute sensitivity to combined light and drought stress. Plant Physiol 2008 1.73
7 Physiological and transcriptome analysis of iron and phosphorus interaction in rice seedlings. Plant Physiol 2009 1.65
8 The transcription factor ABI4 is a regulator of mitochondrial retrograde expression of ALTERNATIVE OXIDASE1a. Plant Physiol 2009 1.60
9 Alternative oxidases in Arabidopsis: a comparative analysis of differential expression in the gene family provides new insights into function of non-phosphorylating bypasses. Biochim Biophys Acta 2006 1.49
10 TCP transcription factors link the regulation of genes encoding mitochondrial proteins with the circadian clock in Arabidopsis thaliana. Plant Cell 2010 1.47
11 The emerging importance of the SPX domain-containing proteins in phosphate homeostasis. New Phytol 2012 1.47
12 Mapping metabolic and transcript temporal switches during germination in rice highlights specific transcription factors and the role of RNA instability in the germination process. Plant Physiol 2008 1.45
13 Genes for two mitochondrial ribosomal proteins in flowering plants are derived from their chloroplast or cytosolic counterparts. Plant Cell 2002 1.44
14 Stress-induced co-expression of alternative respiratory chain components in Arabidopsis thaliana. Plant Mol Biol 2005 1.41
15 Defining reference genes in Oryza sativa using organ, development, biotic and abiotic transcriptome datasets. BMC Plant Biol 2010 1.41
16 Differential response of gray poplar leaves and roots underpins stress adaptation during hypoxia. Plant Physiol 2008 1.39
17 Approaches to defining dual-targeted proteins in Arabidopsis. Plant J 2008 1.37
18 The Arabidopsis glutathione transferase gene family displays complex stress regulation and co-silencing multiple genes results in altered metabolic sensitivity to oxidative stress. Plant J 2009 1.35
19 The membrane-bound NAC transcription factor ANAC013 functions in mitochondrial retrograde regulation of the oxidative stress response in Arabidopsis. Plant Cell 2013 1.34
20 Pentatricopeptide repeat domain protein 3 associates with the mitochondrial small ribosomal subunit and regulates translation. FEBS Lett 2009 1.29
21 A transcriptomic and proteomic characterization of the Arabidopsis mitochondrial protein import apparatus and its response to mitochondrial dysfunction. Plant Physiol 2004 1.27
22 A membrane-bound NAC transcription factor, ANAC017, mediates mitochondrial retrograde signaling in Arabidopsis. Plant Cell 2013 1.26
23 Defining core metabolic and transcriptomic responses to oxygen availability in rice embryos and young seedlings. Plant Physiol 2009 1.23
24 Towards an analysis of the rice mitochondrial proteome. Plant Physiol 2003 1.22
25 Experimental analysis of the rice mitochondrial proteome, its biogenesis, and heterogeneity. Plant Physiol 2008 1.20
26 Exploring the function-location nexus: using multiple lines of evidence in defining the subcellular location of plant proteins. Plant Cell 2009 1.20
27 Functional definition of outer membrane proteins involved in preprotein import into mitochondria. Plant Cell 2007 1.19
28 Pentatricopeptide repeat domain protein 1 lowers the levels of mitochondrial leucine tRNAs in cells. Nucleic Acids Res 2009 1.19
29 Identification of a dual-targeted protein belonging to the mitochondrial carrier family that is required for early leaf development in rice. Plant Physiol 2013 1.18
30 Alternative oxidase: a target and regulator of stress responses. Physiol Plant 2009 1.18
31 In-depth temporal transcriptome profiling reveals a crucial developmental switch with roles for RNA processing and organelle metabolism that are essential for germination in Arabidopsis. Plant Physiol 2011 1.17
32 Analysis of the alternative oxidase promoters from soybean. Plant Physiol 2003 1.17
33 Protein transport in organelles: Dual targeting of proteins to mitochondria and chloroplasts. FEBS J 2009 1.17
34 Open abdominal management after damage-control laparotomy for trauma: a prospective observational American Association for the Surgery of Trauma multicenter study. J Trauma Acute Care Surg 2013 1.17
35 Ordered assembly of mitochondria during rice germination begins with pro-mitochondrial structures rich in components of the protein import apparatus. Plant Mol Biol 2006 1.16
36 Refining the definition of plant mitochondrial presequences through analysis of sorting signals, N-terminal modifications, and cleavage motifs. Plant Physiol 2009 1.15
37 Tom22', an 8-kDa trans-site receptor in plants and protozoans, is a conserved feature of the TOM complex that appeared early in the evolution of eukaryotes. Mol Biol Evol 2004 1.15
38 Characterization of the preprotein and amino acid transporter gene family in Arabidopsis. Plant Physiol 2006 1.15
39 Spatio-temporal transcript profiling of rice roots and shoots in response to phosphate starvation and recovery. Plant Cell 2013 1.14
40 Defining the mitochondrial stress response in Arabidopsis thaliana. Mol Plant 2009 1.14
41 A novel in vitro system for simultaneous import of precursor proteins into mitochondria and chloroplasts. Plant J 2002 1.13
42 Comparative analysis between plant species of transcriptional and metabolic responses to hypoxia. New Phytol 2011 1.12
43 Multiple lines of evidence localize signaling, morphology, and lipid biosynthesis machinery to the mitochondrial outer membrane of Arabidopsis. Plant Physiol 2011 1.11
44 Type II NAD(P)H dehydrogenases are targeted to mitochondria and chloroplasts or peroxisomes in Arabidopsis thaliana. FEBS Lett 2008 1.11
45 Phage-type RNA polymerase RPOTmp performs gene-specific transcription in mitochondria of Arabidopsis thaliana. Plant Cell 2009 1.10
46 Molecular distinction between alternative oxidase from monocots and dicots. Plant Physiol 2002 1.10
47 A plant outer mitochondrial membrane protein with high amino acid sequence identity to a chloroplast protein import receptor. FEBS Lett 2004 1.10
48 Nine 3-ketoacyl-CoA thiolases (KATs) and acetoacetyl-CoA thiolases (ACATs) encoded by five genes in Arabidopsis thaliana are targeted either to peroxisomes or cytosol but not to mitochondria. Plant Mol Biol 2006 1.08
49 Identification of regulatory pathways controlling gene expression of stress-responsive mitochondrial proteins in Arabidopsis. Plant Physiol 2008 1.08
50 Mitochondrial biogenesis and function in Arabidopsis. Arabidopsis Book 2008 1.06
51 Oxygen initiation of respiration and mitochondrial biogenesis in rice. J Biol Chem 2007 1.06
52 Differential gene expression and subcellular targeting of Arabidopsis glutathione S-transferase F8 is achieved through alternative transcription start sites. J Biol Chem 2007 1.05
53 Protein import into mitochondria: origins and functions today (review). Mol Membr Biol 2005 1.05
54 Nucleotide and RNA metabolism prime translational initiation in the earliest events of mitochondrial biogenesis during Arabidopsis germination. Plant Physiol 2012 1.05
55 Functional characterization of the rice SPX-MFS family reveals a key role of OsSPX-MFS1 in controlling phosphate homeostasis in leaves. New Phytol 2012 1.04
56 Regulation of alternative oxidase gene expression in soybean. Plant Mol Biol 2002 1.03
57 The RCC1 family protein RUG3 is required for splicing of nad2 and complex I biogenesis in mitochondria of Arabidopsis thaliana. Plant J 2011 1.03
58 Phosphate homeostasis in the yeast Saccharomyces cerevisiae, the key role of the SPX domain-containing proteins. FEBS Lett 2012 1.03
59 Characterization of mitochondrial alternative NAD(P)H dehydrogenases in Arabidopsis: intraorganelle location and expression. Plant Cell Physiol 2005 1.02
60 Superoxide stimulates a proton leak in potato mitochondria that is related to the activity of uncoupling protein. J Biol Chem 2003 1.01
61 Characterization of the targeting signal of dual-targeted pea glutathione reductase. Plant Mol Biol 2003 1.01
62 Gene transfer from mitochondrion to nucleus: novel mechanisms for gene activation from Cox2. Plant J 2002 1.01
63 Qualitative assessment of the inferior vena cava: useful tool for the evaluation of fluid status in critically ill patients. Am Surg 2012 1.01
64 Intracellular gene transfer: reduced hydrophobicity facilitates gene transfer for subunit 2 of cytochrome c oxidase. Proc Natl Acad Sci U S A 2002 1.01
65 A dual-targeted purple acid phosphatase in Arabidopsis thaliana moderates carbon metabolism and its overexpression leads to faster plant growth and higher seed yield. New Phytol 2012 1.00
66 Ethylene is involved in the regulation of iron homeostasis by regulating the expression of iron-acquisition-related genes in Oryza sativa. J Exp Bot 2010 1.00
67 Newfoundland rod-cone dystrophy, an early-onset retinal dystrophy, is caused by splice-junction mutations in RLBP1. Am J Hum Genet 2002 1.00
68 Emergency tracheal intubation immediately following traumatic injury: an Eastern Association for the Surgery of Trauma practice management guideline. J Trauma Acute Care Surg 2012 1.00
69 Chlorophyll biosynthesis. Expression of a second chl I gene of magnesium chelatase in Arabidopsis supports only limited chlorophyll synthesis. Plant Physiol 2002 1.00
70 Unique components of the plant mitochondrial protein import apparatus. Biochim Biophys Acta 2012 0.99
71 Prohibitins: mitochondrial partners in development and stress response. Trends Plant Sci 2010 0.99
72 Dual location of the mitochondrial preprotein transporters B14.7 and Tim23-2 in complex I and the TIM17:23 complex in Arabidopsis links mitochondrial activity and biogenesis. Plant Cell 2012 0.97
73 Common and distinct organ and stress responsive transcriptomic patterns in Oryza sativa and Arabidopsis thaliana. BMC Plant Biol 2010 0.97
74 Antagonistic, overlapping and distinct responses to biotic stress in rice (Oryza sativa) and interactions with abiotic stress. BMC Genomics 2013 0.96
75 AtWRKY40 and AtWRKY63 modulate the expression of stress-responsive nuclear genes encoding mitochondrial and chloroplast proteins. Plant Physiol 2013 0.96
76 Analysis of the rice mitochondrial carrier family reveals anaerobic accumulation of a basic amino acid carrier involved in arginine metabolism during seed germination. Plant Physiol 2010 0.96
77 Zinc-dependent intermembrane space proteins stimulate import of carrier proteins into plant mitochondria. Plant J 2002 0.96
78 Cyclin-dependent kinase E1 (CDKE1) provides a cellular switch in plants between growth and stress responses. J Biol Chem 2012 0.96
79 Findings of a randomized controlled trial using limited transthoracic echocardiogram (LTTE) as a hemodynamic monitoring tool in the trauma bay. J Trauma Acute Care Surg 2014 0.95
80 Using next-generation sequencing for the diagnosis of rare disorders: a family with retinitis pigmentosa and skeletal abnormalities. J Pathol 2011 0.94
81 Identification of a novel mitochondrial protein, short postembryonic roots 1 (SPR1), involved in root development and iron homeostasis in Oryza sativa. New Phytol 2010 0.94
82 Determining degradation and synthesis rates of arabidopsis proteins using the kinetics of progressive 15N labeling of two-dimensional gel-separated protein spots. Mol Cell Proteomics 2012 0.93
83 Limited transthoracic echocardiogram: so easy any trauma attending can do it. J Trauma 2011 0.93
84 Identification of a novel iron regulated basic helix-loop-helix protein involved in Fe homeostasis in Oryza sativa. BMC Plant Biol 2010 0.93
85 Conserved and novel functions for Arabidopsis thaliana MIA40 in assembly of proteins in mitochondria and peroxisomes. J Biol Chem 2010 0.93
86 What makes a mitochondrion? Genome Biol 2003 0.92
87 Why genes persist in organelle genomes. Genome Biol 2005 0.91
88 Environmental stresses inhibit and stimulate different protein import pathways in plant mitochondria. FEBS Lett 2003 0.91
89 Identification, expression, and import of components 17 and 23 of the inner mitochondrial membrane translocase from Arabidopsis. Plant Physiol 2003 0.91
90 Comparison of transcriptional changes to chloroplast and mitochondrial perturbations reveals common and specific responses in Arabidopsis. Front Plant Sci 2012 0.91
91 AtPAP2 is a tail-anchored protein in the outer membrane of chloroplasts and mitochondria. Plant Signal Behav 2012 0.90
92 Organellar oligopeptidase (OOP) provides a complementary pathway for targeting peptide degradation in mitochondria and chloroplasts. Proc Natl Acad Sci U S A 2013 0.90
93 MRPS27 is a pentatricopeptide repeat domain protein required for the translation of mitochondrially encoded proteins. FEBS Lett 2012 0.90
94 How unique is the low oxygen response? An analysis of the anaerobic response during germination and comparison with abiotic stress in rice and Arabidopsis. Front Plant Sci 2013 0.90
95 Characterization of the regulatory and expression context of an alternative oxidase gene provides insights into cyanide-insensitive respiration during growth and development. Plant Physiol 2007 0.90
96 Rice DB: an Oryza Information Portal linking annotation, subcellular location, function, expression, regulation, and evolutionary information for rice and Arabidopsis. Plant J 2013 0.90
97 Mitochondrial and nuclear localization of a novel pea thioredoxin: identification of its mitochondrial target proteins. Plant Physiol 2009 0.89
98 An mRNA splice variant of the AFX gene with altered transcriptional activity. J Biol Chem 2002 0.89
99 TGD1, -2, and -3 proteins involved in lipid trafficking form ATP-binding cassette (ABC) transporter with multiple substrate-binding proteins. J Biol Chem 2012 0.89
100 Functional and composition differences between mitochondrial complex II in Arabidopsis and rice are correlated with the complex genetic history of the enzyme. Plant Mol Biol 2009 0.89
101 An in silico analysis of the mitochondrial protein import apparatus of plants. BMC Plant Biol 2010 0.89
102 Mechanisms of growth and patterns of gene expression in oxygen-deprived rice coleoptiles. Plant J 2015 0.89
103 Identification of OsbHLH133 as a regulator of iron distribution between roots and shoots in Oryza sativa. Plant Cell Environ 2012 0.87
104 The mitochondrial outer membrane AAA ATPase AtOM66 affects cell death and pathogen resistance in Arabidopsis thaliana. Plant J 2014 0.87
105 The outer mitochondrial membrane in higher plants. Trends Plant Sci 2013 0.86
106 LETM proteins play a role in the accumulation of mitochondrially encoded proteins in Arabidopsis thaliana and AtLETM2 displays parent of origin effects. J Biol Chem 2012 0.86
107 Identification of AtNDI1, an internal non-phosphorylating NAD(P)H dehydrogenase in Arabidopsis mitochondria. Plant Physiol 2003 0.86
108 Assessing modularity using a random matrix theory approach. Stat Appl Genet Mol Biol 2011 0.86
109 Identification of signals required for import of the soybean F(A)d subunit of ATP synthase into mitochondria. Plant Mol Biol 2004 0.85
110 Bioenergetic differences selectively sensitize tumorigenic liver progenitor cells to a new gold(I) compound. Carcinogenesis 2008 0.85
111 Acquisition, conservation, and loss of dual-targeted proteins in land plants. Plant Physiol 2012 0.85
112 Subcomplexes of ancestral respiratory complex I subunits rapidly turn over in vivo as productive assembly intermediates in Arabidopsis. J Biol Chem 2012 0.85
113 Just read the message: a model for sorting of proteins between mitochondria and chloroplasts. Trends Plant Sci 2004 0.85
114 REDOX regulation of mitochondrial function in plants. Plant Cell Environ 2011 0.85
115 Sulphur dioxide evokes a large scale reprogramming of the grape berry transcriptome associated with oxidative signalling and biotic defence responses. Plant Cell Environ 2011 0.85
116 The C-terminal region of TIM17 links the outer and inner mitochondrial membranes in Arabidopsis and is essential for protein import. J Biol Chem 2005 0.85
117 The Mitochondrial Protein Import Machinery of Plants (MPIMP) database. Nucleic Acids Res 2003 0.85
118 What happens to plant mitochondria under low oxygen? An omics review of the responses to low oxygen and reoxygenation. Plant Cell Environ 2014 0.85
119 Processing of the dual targeted precursor protein of glutathione reductase in mitochondria and chloroplasts. J Mol Biol 2004 0.83
120 Isolation of Intact Mitochondria from the Model Plant Species Arabidopsis thaliana and Oryza sativa. Methods Mol Biol 2015 0.83
121 Mitochondrial protein import: convergent solutions for receptor structure. Curr Biol 2006 0.83
122 Interaction between plastid and mitochondrial retrograde signalling pathways during changes to plastid redox status. Philos Trans R Soc Lond B Biol Sci 2014 0.83
123 Chromosomal clustering of nuclear genes encoding mitochondrial and chloroplast proteins in Arabidopsis. Trends Genet 2006 0.82
124 Accumulation of newly synthesized F1 in vivo in arabidopsis mitochondria provides evidence for modular assembly of the plant F1Fo ATP synthase. J Biol Chem 2012 0.82
125 How do plants make mitochondria? Planta 2012 0.82
126 Overexpression of OsPAP10a, a root-associated acid phosphatase, increased extracellular organic phosphorus utilization in rice. J Integr Plant Biol 2012 0.82
127 Widespread dual targeting of proteins in land plants: when, where, how and why. Plant Signal Behav 2013 0.81
128 N-terminal domain of the dual-targeted pea glutathione reductase signal peptide controls organellar targeting efficiency. J Mol Biol 2002 0.81
129 RNA-seq analysis identifies an intricate regulatory network controlling cluster root development in white lupin. BMC Genomics 2014 0.81
130 The N-terminal extension of plant mitochondrial carrier proteins is removed by two-step processing: the first cleavage is by the mitochondrial processing peptidase. J Mol Biol 2004 0.81
131 Global transcriptome analysis of AtPAP2--overexpressing Arabidopsis thaliana with elevated ATP. BMC Genomics 2013 0.80
132 The N-terminal cleavable extension of plant carrier proteins is responsible for efficient insertion into the inner mitochondrial membrane. J Mol Biol 2005 0.80
133 The dual targeting ability of type II NAD(P)H dehydrogenases arose early in land plant evolution. BMC Plant Biol 2013 0.79
134 ModuleFinder and CoReg: alternative tools for linking gene expression modules with promoter sequences motifs to uncover gene regulation mechanisms in plants. Plant Methods 2006 0.79
135 Cloning and characterization of AtNUDT13, a novel mitochondrial Arabidopsis thaliana Nudix hydrolase specific for long-chain diadenosine polyphosphates. FEBS J 2007 0.79
136 Adaptations required for mitochondrial import following mitochondrial to nucleus gene transfer of ribosomal protein S10. Plant Physiol 2005 0.78
137 Investigations on the in vitro import ability of mitochondrial precursor proteins synthesized in wheat germ transcription-translation extract. Plant Mol Biol 2003 0.78
138 Building the Powerhouse: What are the Signals Involved in Plant Mitochondrial Biogenesis? Plant Signal Behav 2007 0.78
139 Multicenter validation of American Association for the Surgery of Trauma grading system for acute colonic diverticulitis and its use for emergency general surgery quality improvement program. J Trauma Acute Care Surg 2016 0.78
140 Respiratory gene expression in soybean cotyledons during post-germinative development. Plant Mol Biol 2003 0.77
141 A molecular link between mitochondrial preprotein transporters and respiratory chain complexes. Plant Signal Behav 2012 0.77
142 Exploring multicollinearity using a random matrix theory approach. Stat Appl Genet Mol Biol 2012 0.77
143 Flat inferior vena cava: indicator of poor prognosis in trauma and acute care surgery patients. Am Surg 2012 0.77
144 Mitochondrial targeting of the Arabidopsis F1-ATPase γ-subunit via multiple compensatory and synergistic presequence motifs. Plant Cell 2012 0.76
145 A, B, C, D, echo: limited transthoracic echocardiogram is a useful tool to guide therapy for hypotension in the trauma bay--a pilot study. J Trauma Acute Care Surg 2013 0.76
146 Exploring ligand recognition, selectivity and dynamics of TPR domains of chloroplast Toc64 and mitochondria Om64 from Arabidopsis thaliana. J Mol Recognit 2014 0.75
147 Toward deciphering the genome-wide transcriptional responses of rice to phosphate starvation and recovery. Plant Signal Behav 2014 0.75
148 1591: NEGATIVE RESULTS, POSITIVE OUTCOMES: DIRECT LARYNGOSCOPY AFTER SUSPECTED THERMAL AIRWAY INJURY. Crit Care Med 2016 0.75
149 Plant mitochondrial transcriptomics by quantitative RT-PCR. Methods Mol Biol 2007 0.75
150 Geriatric education for surgical residents: identifying a major need. Am Surg 2011 0.75