microRNA expression variation as a potential molecular mechanism contributing to adaptation to hydrogen sulphide

Too Many False Targets for MicroRNAs: Challenges and Pitfalls in Prediction of miRNA Targets and Their Gene Ontology in Model and Non‐model Organisms

(2019) Arie Fridrich et al.   BIOESSAYS

Antarctic blackfin icefish genome reveals adaptations to extreme environments

(2019) Bo-Mi Kim et al.   Nature Ecology & Evolution

Unification of miRNA and isomiR research: the mirGFF3 format and the mirtop API

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MicroRNA Gene Regulation in Extremely Young and Parallel Adaptive Radiations of Crater Lake Cichlid Fish

(2019) Paolo Franchini et al.   MOLECULAR BIOLOGY AND EVOLUTION

Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype

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Expression analyses of cave mollies ( Poecilia mexicana ) reveal key genes involved in the early evolution of eye regression

(2019) Kerry L. McGowan et al.   Biology Letters

MirGeneDB 2.0: the metazoan microRNA complement

(2019) Bastian Fromm et al.   NUCLEIC ACIDS RESEARCH

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(2019) Sean E. McGeary et al.   SCIENCE

Metazoan MicroRNAs

(2018) David P. Bartel   CELL

Extreme environments and the origins of biodiversity: Adaptation and speciation in sulphide spring fishes

(2018) Michael Tobler et al.   MOLECULAR ECOLOGY

The Evolution of Gene Expression in cis and trans

(2018) Sarah A. Signor et al.   TRENDS IN GENETICS

Clonal polymorphism and high heterozygosity in the celibate genome of the Amazon molly

(2018) Wesley C. Warren et al.   Nature Ecology & Evolution

Involvement of MicroRNA-133a in the Protective Effect of Hydrogen Sulfide against Ischemia/Reperfusion-Induced Endoplasmic Reticulum Stress and Cardiomyocyte Apoptosis

(2018) Lin Ren et al.   PHARMACOLOGY

Cis- andTrans-regulatory Effects on Gene Expression in a Natural Population ofDrosophila melanogaster

(2017) Naoki Osada et al.   GENETICS

Complexities of gene expression patterns in natural populations of an extremophile fish (Poecilia mexicana , Poeciliidae)

(2017) Courtney N. Passow et al.   MOLECULAR ECOLOGY

The roles of plasticity and evolutionary change in shaping gene expression variation in natural populations of extremophile fish

(2017) Courtney N. Passow et al.   MOLECULAR ECOLOGY

Differential miRNA expression in the three-spined stickleback, response to environmental changes

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Cis- andTrans-regulatory Effects on Gene Expression in a Natural Population ofDrosophila melanogaster

(2017) Naoki Osada et al.   GENETICS

The Evolutionary Ecology of Animals Inhabiting Hydrogen Sulfide–Rich Environments

(2016) Michael Tobler et al.   Annual Review of Ecology Evolution and Systematics

The Role of microRNAs in the Repeated Parallel Diversification of Lineages of Midas Cichlid Fish from Nicaragua

(2016) Paolo Franchini et al.   Genome Biology and Evolution

Mechanisms Underlying Adaptation to Life in Hydrogen Sulfide–Rich Environments

(2016) Joanna L. Kelley et al.   MOLECULAR BIOLOGY AND EVOLUTION

Impact of MicroRNA Levels, Target-Site Complementarity, and Cooperativity on Competing Endogenous RNA-Regulated Gene Expression

(2016) Rémy Denzler et al.   MOLECULAR CELL

Phylogenetic analyses of the subgenus Mollienesia ( Poecilia , Poeciliidae, Teleostei) reveal taxonomic inconsistencies, cryptic biodiversity, and spatio-temporal aspects of diversification in Middle America

(2016) Maura Palacios et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons

(2016) Ingo Braasch et al.   NATURE GENETICS

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

(2015) Mihaela Pertea et al.   NATURE BIOTECHNOLOGY

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(2015) Daniel Holoch et al.   NATURE REVIEWS GENETICS

Towards a molecular understanding of microRNA-mediated gene silencing

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miRNA Nomenclature: A View Incorporating Genetic Origins, Biosynthetic Pathways, and Sequence Variants

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Expanding the annotation of zebrafish microRNAs based on small RNA sequencing

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Patterns of MiRNA Expression in Arctic Charr Development

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Parallel evolution of cox genes in H2S-tolerant fish as key adaptation to a toxic environment

(2014) Markus Pfenninger et al.   Nature Communications

MicroRNA-Mediated Regulation of Dp53 in the Drosophila Fat Body Contributes to Metabolic Adaptation to Nutrient Deprivation

(2014) Lara Barrio et al.   Cell Reports

Evolution of mir-92a Underlies Natural Morphological Variation in Drosophila melanogaster

(2013) Saad Arif et al.   CURRENT BIOLOGY

miRBase: annotating high confidence microRNAs using deep sequencing data

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The Rediscovery of a Long Described Species Reveals Additional Complexity in Speciation Patterns of Poeciliid Fishes in Sulfide Springs

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Homosexual behaviour increases male attractiveness to females

(2012) D. Bierbach et al.   Biology Letters

Balancing noise and plasticity in eukaryotic gene expression

(2012) Djordje Bajić et al.   BMC GENOMICS

Genomic resources for a model in adaptation and speciation research: characterization of the Poecilia mexicana transcriptome

(2012) Joanna L Kelley et al.   BMC GENOMICS

MicroRNAs in Stress Signaling and Human Disease

(2012) Joshua T. Mendell et al.   CELL

Roles for MicroRNAs in Conferring Robustness to Biological Processes

(2012) Margaret S. Ebert et al.   CELL

A plant microRNA regulates the adaptation of roots to drought stress

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Phylogeny and biogeography of the Poecilia sphenops species complex (Actinopterygii, Poeciliidae) in Central America

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Comparative studies of gene expression and the evolution of gene regulation

(2012) Irene Gallego Romero et al.   NATURE REVIEWS GENETICS

Predator-induced changes of female mating preferences: innate and experiential effects

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EVOLUTION IN EXTREME ENVIRONMENTS: REPLICATED PHENOTYPIC DIFFERENTIATION IN LIVEBEARING FISH INHABITING SULFIDIC SPRINGS

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Molecular spandrels: tests of adaptation at the genetic level

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(2011) R. J. Kinsella et al.   Database-The Journal of Biological Databases and Curation

MicroRNAs and Cellular Phenotypy

(2010) Kenneth S. Kosik   CELL

Toxic hydrogen sulfide and dark caves: life-history adaptations in a livebearing fish (Poecilia mexicana, Poeciliidae)

(2010) Rüdiger Riesch et al.   ECOLOGY

Evolution of MicroRNAs and the Diversification of Species

(2010) Yong-Hwee E. Loh et al.   Genome Biology and Evolution

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MicroRNA Functions in Stress Responses

(2010) Anthony K.L. Leung et al.   MOLECULAR CELL

Ancient animal microRNAs and the evolution of tissue identity

(2010) Foteini Christodoulou et al.   NATURE

MicroRNAs in Cancer

(2009) Ramiro Garzon et al.   Annual Review of Medicine

The Sequence Alignment/Map format and SAMtools

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Reduced opsin gene expression in a cave-dwelling fish

(2009) M. Tobler et al.   Biology Letters

GOrilla: a tool for discovery and visualization of enriched GO terms in ranked gene lists

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Origins and Mechanisms of miRNAs and siRNAs

(2009) Richard W. Carthew et al.   CELL

Offspring number in a livebearing fish (Poecilia mexicana, Poeciliidae): reduced fecundity and reduced plasticity in a population of cave mollies

(2008) Rüdiger Riesch et al.   ENVIRONMENTAL BIOLOGY OF FISHES

TOXIC HYDROGEN SULFIDE AND DARK CAVES: PHENOTYPIC AND GENETIC DIVERGENCE ACROSS TWO ABIOTIC ENVIRONMENTAL GRADIENTS INPOECILIA MEXICANA

(2008) Michael Tobler et al.   EVOLUTION

Let Me Count the Ways: Mechanisms of Gene Regulation by miRNAs and siRNAs

(2008) Ligang Wu et al.   MOLECULAR CELL

Transcriptomic variation and plasticity in rufous-collared sparrows (Zonotrichia capensis) along an altitudinal gradient

(2008) ZACHARY A. CHEVIRON et al.   MOLECULAR ECOLOGY