Acute thermal stress elicits interactions between gene expression and alternative splicing in a fish of conservation concern

The importance of alternative splicing in adaptive evolution

(2022) Pooja Singh et al.   MOLECULAR ECOLOGY

Plasma Hsp90 levels in patients with systemic sclerosis and relation to lung and skin involvement: a cross-sectional and longitudinal study

(2021) Hana Štorkánová et al.   Scientific Reports

The role of mechanistic physiology in investigating impacts of global warming on fishes

(2021) Sjannie Lefevre et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Alternative splicing and gene expression play contrasting roles in the parallel phenotypic evolution of a salmonid fish

(2021) Arne Jacobs et al.   MOLECULAR ECOLOGY

The evolution of critical thermal limits of life on Earth

(2021) Joanne M. Bennett et al.   Nature Communications

RNA sequencing describes both population structure and plasticity-selection dynamics in a non-model fish

(2021) Matt J. Thorstensen et al.   BMC GENOMICS

Effects of acclimation to elevated water temperature and hypoxia on thermal tolerance of the threatened Pugnose Shiner Notropis anogenus

(2021) Laura H. McDonnell et al.   CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES

Choosing source populations for conservation reintroductions: lessons from variation in thermal tolerance among populations of the imperilled redside dace

(2021) Andy J Turko et al.   CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES

Alternative splicing: An overlooked mechanism contributing to local adaptation?

(2021) Sarah J. Salisbury et al.   MOLECULAR ECOLOGY

The use of non-lethal sampling for transcriptomics to assess the physiological status of wild fishes

(2021) Ken M. Jeffries et al.   COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY B-BIOCHEMISTRY & MOLECULAR BIOLOGY

Diet mediates thermal performance traits: implications for marine ectotherms

(2021) Emily A. Hardison et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Histone Acetylation as a Regenerative Target in the Dentine-Pulp Complex

(2020) Yukako Yamauchi et al.   Frontiers in Genetics

mRNAs, proteins and the emerging principles of gene expression control

(2020) Christopher Buccitelli et al.   NATURE REVIEWS GENETICS

Introduction to the special issue: Comparative biology of cellular stress responses in animals

(2020) Dietmar Kültz et al.   Journal of Experimental Zoology Part A-Ecological and Integrative Physiology

Rapid-warming tolerance correlates with tolerance to slow warming but not growth at non-optimal temperatures in zebrafish

(2020) ER. Åsheim et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Transcriptional flexibility during thermal challenge corresponds with expanded thermal tolerance in an invasive compared to native fish

(2020) Lisa M. Komoroske et al.   Evolutionary Applications

Targeted Next Generation Sequencing Revealed a Novel Homozygous Loss-of-Function Mutation in ILDR1 Gene Causes Autosomal Recessive Nonsyndromic Sensorineural Hearing Loss in a Chinese Family

(2019) Jinxia An et al.   Frontiers in Genetics

Patterns of alternative splicing in response to cold acclimation in fish

(2019) Timothy M. Healy et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Divergent transcriptomic signatures in response to salinity exposure in two populations of an estuarine fish

(2019) Ken M. Jeffries et al.   Evolutionary Applications

Alternative Splicing and Protein Diversity: Plants Versus Animals

(2019) Saurabh Chaudhary et al.   Frontiers in Plant Science

Multiple threats imperil freshwater biodiversity in the Anthropocene

(2019) David Dudgeon   CURRENT BIOLOGY

Histone and RNA-binding protein interaction creates crosstalk network for regulation of alternative splicing

(2018) Yong-Eun Kim et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Multiple sub-lethal thresholds for cellular responses to thermal stressors in an estuarine fish

(2018) Ken M. Jeffries et al.   COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY A-MOLECULAR & INTEGRATIVE PHYSIOLOGY

Species’ thermal ranges predict changes in reef fish community structure during 8 years of extreme temperature variation

(2018) Paul B. Day et al.   DIVERSITY AND DISTRIBUTIONS

Acute hypoxia stress induced abundant differential expression genes and alternative splicing events in heart of tilapia

(2018) Jun Hong Xia et al.   GENE

High Temperature, Oxygen, and Performance: Insights from Reptiles and Amphibians

(2018) Eric J Gangloff et al.   INTEGRATIVE AND COMPARATIVE BIOLOGY

The utility of transcriptomics in fish conservation

(2018) Richard E. Connon et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Alternative Splicing Control of Abiotic Stress Responses

(2018) Tom Laloum et al.   TRENDS IN PLANT SCIENCE

The Krebs Cycle Connection: Reciprocal Influence Between Alternative Splicing Programs and Cell Metabolism

(2018) Giuseppe Biamonti et al.   Frontiers in Oncology

STRING v11: protein–protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets

(2018) Damian Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

Heat stress induced alternative splicing in catfish as determined by transcriptome analysis

(2018) Suxu Tan et al.   Comparative Biochemistry and Physiology D-Genomics & Proteomics

Plasticity in gene transcription explains the differential performance of two invasive fish species

(2017) Kyle W. Wellband et al.   Evolutionary Applications

The Role of Alternative Splicing and Differential Gene Expression in Cichlid Adaptive Radiation

(2017) Pooja Singh et al.   Genome Biology and Evolution

Evidence of nuclei-encoded spliceosome mediating splicing of mitochondrial RNA

(2017) Roberto H. Herai et al.   HUMAN MOLECULAR GENETICS

Elevated temperature and acclimation time affect metabolic performance in the heavily exploited Nile perch of Lake Victoria

(2017) Elizabeth A. Nyboer et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Oxygen- and capacity-limited thermal tolerance: bridging ecology and physiology

(2017) Hans-O. Pörtner et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Salmon provides fast and bias-aware quantification of transcript expression

(2017) Rob Patro et al.   NATURE METHODS

Alternative Splicing May Not Be the Key to Proteome Complexity

(2017) Michael L. Tress et al.   TRENDS IN BIOCHEMICAL SCIENCES

A Tissue-Mapped Axolotl De Novo Transcriptome Enables Identification of Limb Regeneration Factors

(2017) Donald M. Bryant et al.   Cell Reports

MultiQC: summarize analysis results for multiple tools and samples in a single report

(2016) Philip Ewels et al.   BIOINFORMATICS

Effects of feed restriction on the upper temperature tolerance and heat shock response in juvenile green and white sturgeon

(2016) Seunghyung Lee et al.   COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY A-MOLECULAR & INTEGRATIVE PHYSIOLOGY

Enrichr: a comprehensive gene set enrichment analysis web server 2016 update

(2016) Maxim V. Kuleshov et al.   NUCLEIC ACIDS RESEARCH

Global variability in gene expression and alternative splicing is modulated by mitochondrial content

(2015) Raul Guantes et al.   GENOME RESEARCH

Rapid and highly variable warming of lake surface waters around the globe

(2015) Catherine M. O'Reilly et al.   GEOPHYSICAL RESEARCH LETTERS

The effects of temperature on aerobic metabolism: towards a mechanistic understanding of the responses of ectotherms to a changing environment

(2015) P. M. Schulte   JOURNAL OF EXPERIMENTAL BIOLOGY

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

RNA-seq: impact of RNA degradation on transcript quantification

(2014) Irene Gallego Romero et al.   BMC BIOLOGY

Regulation of gene expression programmes by serine–arginine rich splicing factors

(2014) Minna-Liisa Änkö   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Stress, genomic adaptation, and the evolutionary trade-off

(2014) Steven D. Horne et al.   Frontiers in Genetics

nhmmer: DNA homology search with profile HMMs

(2013) T. J. Wheeler et al.   BIOINFORMATICS

Transcriptional repressors: multifaceted regulators of gene expression

(2013) N. Reynolds et al.   DEVELOPMENT

Alternative splicing: a pivotal step between eukaryotic transcription and translation

(2013) Alberto R. Kornblihtt et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote

(2013) Yang Liao et al.   NUCLEIC ACIDS RESEARCH

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Detecting differential usage of exons from RNA-seq data

(2012) S. Anders et al.   GENOME RESEARCH

Physiological Correlates of Geographic Range in Animals

(2011) Francisco Bozinovic et al.   Annual Review of Ecology Evolution and Systematics

Regulation of Primary Response Genes

(2011) Trent Fowler et al.   MOLECULAR CELL

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Controlling gene expression in response to stress

(2011) Eulàlia de Nadal et al.   NATURE REVIEWS GENETICS

REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms

(2011) Fran Supek et al.   PLoS One

Flow regime, temperature, and biotic interactions drive differential declines of trout species under climate change

(2011) S. J. Wenger et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Differences in Thermal Tolerance Among Sockeye Salmon Populations

(2011) E. J. Eliason et al.   SCIENCE

Effect of temperature on excess post-exercise oxygen consumption in juvenile southern catfish (Silurus meridionalis Chen) following exhaustive exercise

(2010) Ling-Qing Zeng et al.   FISH PHYSIOLOGY AND BIOCHEMISTRY

The Heat Shock Response: Life on the Verge of Death

(2010) Klaus Richter et al.   MOLECULAR CELL

Translational Regulation of Gene Expression during Conditions of Cell Stress

(2010) Keith A. Spriggs et al.   MOLECULAR CELL

Emerging properties of animal gene regulatory networks

(2010) Eric H. Davidson   NATURE

Expansion of the eukaryotic proteome by alternative splicing

(2010) Timothy W. Nilsen et al.   NATURE

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Regulation of Translation Initiation in Eukaryotes: Mechanisms and Biological Targets

(2009) Nahum Sonenberg et al.   CELL

Climate change and freshwater biodiversity: detected patterns, future trends and adaptations in northern regions

(2008) Jani Heino et al.   BIOLOGICAL REVIEWS

Fulton's body condition factor K correlates with survival time in a thermal challenge experiment in juvenile Lahontan cutthroat trout (Oncorhynchus clarki henshawi)

(2008) M.L. Robinson et al.   JOURNAL OF THERMAL BIOLOGY