Adaptation and evolution of deep-sea scale worms (Annelida: Polynoidae): insights from transcriptome comparison with a shallow-water species

Transcription, Signaling Receptor Activity, Oxidative Phosphorylation, and Fatty Acid Metabolism Mediate the Presence of Closely Related Species in Distinct Intertidal and Cold-Seep Habitats

(2015) Jelle Van Campenhout et al.   Genome Biology and Evolution

Low Temperature Adaptation Is Not the Opposite Process of High Temperature Adaptation in Terms of Changes in Amino Acid Composition

(2015) Ling-Ling Yang et al.   Genome Biology and Evolution

Landscape of the lipidome and transcriptome under heat stress in Arabidopsis thaliana

(2015) Yasuhiro Higashi et al.   Scientific Reports

Transcriptome sequencing of three Ranunculus species (Ranunculaceae) reveals candidate genes in adaptation from terrestrial to aquatic habitats

(2015) Ling-Yun Chen et al.   Scientific Reports

High-throughput transcriptome sequencing of the cold seep mussel Bathymodiolus platifrons

(2015) Yue Him Wong et al.   Scientific Reports

Selective forces acting during multi-domain protein evolution: the case of multi-domain globins

(2015) Joana Projecto-Garcia et al.   SpringerPlus

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

Comprehensive Transcriptome Analysis Reveals Accelerated Genic Evolution in a Tibet Fish, Gymnodiptychus pachycheilus

(2014) Liandong Yang et al.   Genome Biology and Evolution

The InterPro protein families database: the classification resource after 15 years

(2014) Alex Mitchell et al.   NUCLEIC ACIDS RESEARCH

Deep transcriptome-sequencing and proteome analysis of the hydrothermal vent annelid Alvinella pompejana identifies the CvP-bias as a robust measure of eukaryotic thermostability

(2013) Thomas Holder et al.   Biology Direct

A comparison across non-model animals suggests an optimal sequencing depth for de novo transcriptome assembly

(2013) Warren R Francis et al.   BMC GENOMICS

THE COMPLEX EVOLUTIONARY HISTORY OF SEEING RED: MOLECULAR PHYLOGENY AND THE EVOLUTION OF AN ADAPTIVE VISUAL SYSTEM IN DEEP-SEA DRAGONFISHES (STOMIIFORMES: STOMIIDAE)

(2013) Christopher P. Kenaley et al.   EVOLUTION

Origins of New Genes and Evolution of Their Novel Functions

(2012) Yun Ding et al.   Annual Review of Ecology Evolution and Systematics

ParaAT: A parallel tool for constructing multiple protein-coding DNA alignments

(2012) Zhang Zhang et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Genome Evolution in the Cold: Antarctic Icefish Muscle Transcriptome Reveals Selective Duplications Increasing Mitochondrial Function

(2012) Alessandro Coppe et al.   Genome Biology and Evolution

PcarnBase: Development of a Transcriptomic Database for the Brain Coral Platygyra carnosus

(2012) Jin Sun et al.   MARINE BIOTECHNOLOGY

Phylogeny of scale-worms (Aphroditiformia, Annelida), assessed from 18SrRNA, 28SrRNA, 16SrRNA, mitochondrial cytochrome c oxidase subunit I (COI), and morphology

(2012) Erika Norlinder et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Exploration of the Deep-Sea Fauna of Papua New Guinea

(2012) Eric Pante et al.   OCEANOGRAPHY

ProtTest 3: fast selection of best-fit models of protein evolution

(2011) Diego Darriba et al.   BIOINFORMATICS

miRFam: an effective automatic miRNA classification method based on n-grams and a multiclass SVM

(2011) Jiandong Ding et al.   BMC BIOINFORMATICS

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Rapid Evolution of Coral Proteins Responsible for Interaction with the Environment

(2011) Christian R. Voolstra et al.   PLoS One

CD-HIT Suite: a web server for clustering and comparing biological sequences

(2010) Ying Huang et al.   BIOINFORMATICS

High-throughput sequencing and analysis of the gill tissue transcriptome from the deep-sea hydrothermal vent mussel Bathymodiolus azoricus

(2010) Raul Bettencourt et al.   BMC GENOMICS

Applications of next generation sequencing in molecular ecology of non-model organisms

(2010) R Ekblom et al.   HEREDITY

Colour polymorphism in the polychaete Harmothoe imbricata (Linnaeus, 1767)

(2010) Arne Nygren et al.   Marine Biology Research

Biogeography and Potential Exchanges Among the Atlantic Equatorial Belt Cold-Seep Faunas

(2010) Karine Olu et al.   PLoS One

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Origin and Evolution of the Unique Tetra-Domain Hemoglobin from the Hydrothermal Vent Scale Worm Branchipolynoe

(2009) J. Projecto-Garcia et al.   MOLECULAR BIOLOGY AND EVOLUTION

GOEAST: a web-based software toolkit for Gene Ontology enrichment analysis

(2008) Qi Zheng et al.   NUCLEIC ACIDS RESEARCH

Transcriptomic and genomic evolution under constant cold in Antarctic notothenioid fish

(2008) Z. Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA