Profiling microRNA expression in Atlantic killifish (Fundulus heteroclitus) gill and responses to arsenic and hyperosmotic stress.

[1]  J. Colbourne,et al.  Arsenic Reduces Gene Expression Response to Changing Salinity in Killifish. , 2018, Environmental science & technology.

[2]  R. D. Di Giulio,et al.  Genome-wide scan reveals signatures of selection related to pollution adaptation in non-model estuarine Atlantic killifish (Fundulus heteroclitus). , 2018, Aquatic toxicology.

[3]  X. Che,et al.  miR-135b-5p Promotes migration, invasion and EMT of pancreatic cancer cells by targeting NR3C2. , 2017, Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie.

[4]  M. Kopeć-Mędrek,et al.  Systemic sclerosis sine scleroderma. , 2017, Advances in clinical and experimental medicine : official organ Wroclaw Medical University.

[5]  A. Whitehead,et al.  When evolution is the solution to pollution: Key principles, and lessons from rapid repeated adaptation of killifish (Fundulus heteroclitus) populations , 2017, Evolutionary applications.

[6]  A. Whitehead,et al.  The Landscape of Extreme Genomic Variation in the Highly Adaptable Atlantic Killifish , 2017, Genome biology and evolution.

[7]  A. Whitehead,et al.  The genomic landscape of rapid repeated evolutionary adaptation to toxic pollution in wild fish , 2016, Science.

[8]  A. Schetter,et al.  A Novel MIF Signaling Pathway Drives the Malignant Character of Pancreatic Cancer by Targeting NR3C2. , 2016, Cancer research.

[9]  B. King,et al.  A Conserved MicroRNA Regulatory Circuit Is Differentially Controlled during Limb/Appendage Regeneration , 2016, PloS one.

[10]  R. Andreassen,et al.  Discovery of miRNAs and Their Corresponding miRNA Genes in Atlantic Cod (Gadus morhua): Use of Stable miRNAs as Reference Genes Reveals Subgroups of miRNAs That Are Highly Expressed in Particular Organs , 2016, PloS one.

[11]  Peng Liu,et al.  Sample size calculation while controlling false discovery rate for differential expression analysis with RNA-sequencing experiments , 2016, BMC Bioinformatics.

[12]  Shikai Liu,et al.  High throughput sequencing of small RNAs transcriptomes in two Crassostrea oysters identifies microRNAs involved in osmotic stress response , 2016, Scientific Reports.

[13]  E. Hovig,et al.  A Uniform System for the Annotation of Vertebrate microRNA Genes and the Evolution of the Human microRNAome. , 2015, Annual review of genetics.

[14]  Yan He,et al.  The zebrafish miR‐462/miR‐731 cluster is induced under hypoxic stress via hypoxia‐inducible factor 1α and functions in cellular adaptations , 2015, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

[15]  R. D. Di Giulio,et al.  The Elizabeth River Story: A Case Study in Evolutionary Toxicology , 2015, Journal of toxicology and environmental health. Part B, Critical reviews.

[16]  E. Izaurralde,et al.  Towards a molecular understanding of microRNA-mediated gene silencing , 2015, Nature Reviews Genetics.

[17]  K. Storey,et al.  Insight into post-transcriptional gene regulation: stress-responsive microRNAs and their role in the environmental stress survival of tolerant animals , 2015, The Journal of Experimental Biology.

[18]  W. Marshall,et al.  Paracellular pathway remodeling enhances sodium secretion by teleost fish in hypersaline environments , 2015, The Journal of Experimental Biology.

[19]  A. Whitehead,et al.  Reciprocal osmotic challenges reveal mechanisms of divergence in phenotypic plasticity in the killifish Fundulus heteroclitus , 2015, The Journal of Experimental Biology.

[20]  Debora S. Marks,et al.  MicroRNA control of protein expression noise , 2015, Science.

[21]  T. Kavanagh,et al.  Arsenic responsive microRNAs in vivo and their potential involvement in arsenic-induced oxidative stress. , 2015, Toxicology and applied pharmacology.

[22]  Matthew E. Ritchie,et al.  limma powers differential expression analyses for RNA-sequencing and microarray studies , 2015, Nucleic acids research.

[23]  R. H. Gross,et al.  Natural Selection Canalizes Expression Variation of Environmentally Induced Plasticity-Enabling Genes , 2014, Molecular biology and evolution.

[24]  T. Bizuayehu,et al.  MicroRNA in Teleost Fish , 2014, Genome biology and evolution.

[25]  A. Olshan,et al.  Prenatal arsenic exposure and the epigenome: Altered microRNAs associated with innate and adaptive immune signaling in newborn cord blood , 2014, Environmental and molecular mutagenesis.

[26]  Philip C J Donoghue,et al.  Evolutionary history of plant microRNAs. , 2014, Trends in plant science.

[27]  M. E. Hahn,et al.  Genetic variation at aryl hydrocarbon receptor (AHR) loci in populations of Atlantic killifish (Fundulus heteroclitus) inhabiting polluted and reference habitats , 2014, BMC Evolutionary Biology.

[28]  Ana Kozomara,et al.  miRBase: annotating high confidence microRNAs using deep sequencing data , 2013, Nucleic Acids Res..

[29]  Audrey Nailor,et al.  miRNAs: small genes with big potential in metazoan phylogenetics. , 2013, Molecular biology and evolution.

[30]  E. Kure,et al.  Molecular responses to toxicological stressors: profiling microRNAs in wild Atlantic salmon (Salmo salar) exposed to acidic aluminum-rich water. , 2013, Aquatic toxicology.

[31]  A. Kulkarni,et al.  MicroRNA-135b acts as a tumor promoter by targeting the hypoxia-inducible factor pathway in genetically defined mouse model of head and neck squamous cell carcinoma. , 2013, Cancer letters.

[32]  Habibul Ahsan,et al.  The Broad Scope of Health Effects from Chronic Arsenic Exposure: Update on a Worldwide Public Health Problem , 2013, Environmental health perspectives.

[33]  B. Yan,et al.  miR-429 regulation of osmotic stress transcription factor 1 (OSTF1) in tilapia during osmotic stress. , 2012, Biochemical and biophysical research communications.

[34]  B. Yan,et al.  MiR-30c: a novel regulator of salt tolerance in tilapia. , 2012, Biochemical and biophysical research communications.

[35]  B. Stanton,et al.  Mitogen activated protein kinase 14-1 regulates serum glucocorticoid kinase 1 during seawater acclimation in Atlantic killifish, Fundulus heteroclitus. , 2012, Comparative biochemistry and physiology. Part A, Molecular & integrative physiology.

[36]  A. Whitehead,et al.  Salinity- and population-dependent genome regulatory response during osmotic acclimation in the killifish (Fundulus heteroclitus) gill , 2012, Journal of Experimental Biology.

[37]  J. Mendell,et al.  MicroRNAs in Stress Signaling and Human Disease , 2012, Cell.

[38]  P. Stadler,et al.  ViennaRNA Package 2.0 , 2011, Algorithms for Molecular Biology : AMB.

[39]  P. Hwang,et al.  Ion regulation in fish gills: recent progress in the cellular and molecular mechanisms. , 2011, American journal of physiology. Regulatory, integrative and comparative physiology.

[40]  A. Whitehead,et al.  Genomic mechanisms of evolved physiological plasticity in killifish distributed along an environmental salinity gradient , 2011, Proceedings of the National Academy of Sciences.

[41]  P. Sharp,et al.  MicroRNA functions in stress responses. , 2010, Molecular cell.

[42]  J. Bomberger,et al.  Arsenic inhibits SGK1 activation of CFTR Cl- channels in the gill of killifish, Fundulus heteroclitus. , 2010, Aquatic toxicology.

[43]  Scott B. Dewell,et al.  Transcriptome-wide Identification of RNA-Binding Protein and MicroRNA Target Sites by PAR-CLIP , 2010, Cell.

[44]  Mark D. Robinson,et al.  edgeR: a Bioconductor package for differential expression analysis of digital gene expression data , 2009, Bioinform..

[45]  J. G. Patton,et al.  miR-8 microRNAs regulate the response to osmotic stress in zebrafish embryos , 2009, The Journal of cell biology.

[46]  D. Bartel MicroRNAs: Target Recognition and Regulatory Functions , 2009, Cell.

[47]  P. Schulte,et al.  Structure and regulation of the cystic fibrosis transmembrane conductance regulator (CFTR) gene in killifish: A comparative genomics approach. , 2008, Comparative biochemistry and physiology. Part D, Genomics & proteomics.

[48]  A. Whitehead,et al.  Fundulus as the premier teleost model in environmental biology: opportunities for new insights using genomics. , 2007, Comparative biochemistry and physiology. Part D, Genomics & proteomics.

[49]  J. Davey,et al.  Arsenic as an Endocrine Disruptor: Arsenic Disrupts Retinoic Acid Receptor–and Thyroid Hormone Receptor–Mediated Gene Regulation and Thyroid Hormone–Mediated Amphibian Tail Metamorphosis , 2007, Environmental health perspectives.

[50]  J. Gosse,et al.  Arsenic as an endocrine disruptor: effects of arsenic on estrogen receptor-mediated gene expression in vivo and in cell culture. , 2007, Toxicological sciences : an official journal of the Society of Toxicology.

[51]  Carol Kim,et al.  Effects of low concentrations of arsenic on the innate immune system of the zebrafish (Danio rerio). , 2007, Toxicological sciences : an official journal of the Society of Toxicology.

[52]  L. Durant,et al.  Role of glucocorticoid receptor in acclimation of killifish (Fundulus heteroclitus) to seawater and effects of arsenic. , 2007, American journal of physiology. Regulatory, integrative and comparative physiology.

[53]  Karl T Kelsey,et al.  MicroRNA responses to cellular stress. , 2006, Cancer research.

[54]  Akshata Nayak,et al.  Arsenic ecotoxicology and innate immunity. , 2006, Integrative and comparative biology.

[55]  D. Baltimore,et al.  NF-κB-dependent induction of microRNA miR-146, an inhibitor targeted to signaling proteins of innate immune responses , 2006, Proceedings of the National Academy of Sciences.

[56]  B. Stanton,et al.  Arsenic Inhibits CFTR-Mediated Chloride Secretion by Killifish (Fundulus heteroclitus) Opercular Membrane , 2006, Cellular Physiology and Biochemistry.

[57]  Michael T. McManus,et al.  The RNaseIII enzyme Dicer is required for morphogenesis but not patterning of the vertebrate limb. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[58]  H. Horvitz,et al.  MicroRNA Expression in Zebrafish Embryonic Development , 2005, Science.

[59]  J. Castle,et al.  Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs , 2005, Nature.

[60]  C. Burge,et al.  Conserved Seed Pairing, Often Flanked by Adenosines, Indicates that Thousands of Human Genes are MicroRNA Targets , 2005, Cell.

[61]  B. Forbush,et al.  Changes in gene expression in gills of the euryhaline killifish Fundulus heteroclitus after abrupt salinity transfer. , 2004, American journal of physiology. Cell physiology.

[62]  D. Bartel MicroRNAs Genomics, Biogenesis, Mechanism, and Function , 2004, Cell.

[63]  D. Bartel,et al.  MicroRNAs Modulate Hematopoietic Lineage Differentiation , 2004, Science.

[64]  Anton J. Enright,et al.  MicroRNA targets in Drosophila , 2003, Genome Biology.

[65]  T. Kaneko,et al.  Short-term transformation and long-term replacement of branchial chloride cells in killifish transferred from seawater to freshwater, revealed by morphofunctional observations and a newly established `time-differential double fluorescent staining' technique , 2003, Journal of Experimental Biology.

[66]  G. Churchill,et al.  Variation in gene expression within and among natural populations , 2002, Nature Genetics.

[67]  T. Tuschl,et al.  Identification of Tissue-Specific MicroRNAs from Mouse , 2002, Current Biology.

[68]  W. J. Kent,et al.  BLAT--the BLAST-like alignment tool. , 2002, Genome research.

[69]  M. E. Hahn,et al.  Acquired resistance to Ah receptor agonists in a population of Atlantic killifish (Fundulus heteroclitus) inhabiting a marine superfund site: in vivo and in vitro studies on the inducibility of xenobiotic metabolizing enzymes. , 2001, Toxicological sciences : an official journal of the Society of Toxicology.

[70]  V. Ambros,et al.  The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14 , 1993, Cell.

[71]  E. Myers,et al.  Basic local alignment search tool. , 1990, Journal of molecular biology.

[72]  Benjamin M. Wheeler,et al.  The deep evolution of metazoan microRNAs , 2009, Evolution & development.

[73]  Stefanie Dimmeler,et al.  Targeting microRNA expression to regulate angiogenesis. , 2008, Trends in pharmacological sciences.

[74]  Maqc Consortium The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements , 2006, Nature Biotechnology.