On the public citation graph
Genome Sequencing and Transcriptome Analysis Reveal Recent Species-specific Gene Duplications in the Plastic Gilthead Sea Bream
0 signed · 101 inferred · view as graph
Inferred edges come from two machine sources: sweeps of open repository metadata (mostly SSRN and Zenodo), and a bulk OpenAlex citation snapshot. Every row below is labelled with the one it came from. Neither is a complete citation index — absence here is not evidence of absence.
Is this your work? Sign in with ORCID and put your name on the
claims that are yours.
Reference health. See whether every reference in this work resolves to a
known work and none has been retracted — and get a dated CiteStamped
badge you can embed.
What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1002/jez.1401770108openalex-snapshot
DNA content, ribosomal gene multiplicity, and cell size in fish
inferredcites →https://doi.org/10.1006/anbo.1998.0730openalex-snapshot
Plant Genome Size Estimation by Flow Cytometry: Inter-laboratory Comparison*1
inferredcites →https://doi.org/10.1006/meth.2001.1262openalex-snapshot
Analysis of Relative Gene Expression Data Using Real-Time Quantitative PCR and the 2−ΔΔCT Method
inferredcites →https://doi.org/10.1016/j.applanim.2012.11.008openalex-snapshot
Linking cortisol responsiveness and aggressive behaviour in gilthead seabream Sparus aurata: Indication of divergent coping styles
inferredcites →https://doi.org/10.1016/j.aquaculture.2015.12.008openalex-snapshot
Lasting effects of butyrate and low FM/FO diets on growth performance, blood haematology/biochemistry and molecular growth-related markers in gilthead sea bream (Sparus aurata)
inferredcites →https://doi.org/10.1016/j.aquaculture.2018.02.025openalex-snapshot
Impact of low fish meal and fish oil diets on the performance, sex steroid profile and male-female sex reversal of gilthead sea bream (Sparus aurata) over a three-year production cycle
inferredcites →https://doi.org/10.1016/j.aquaculture.2018.08.080openalex-snapshot
Contributions of MS metabolomics to gilthead sea bream (Sparus aurata) nutrition. Serum fingerprinting of fish fed low fish meal and fish oil diets
inferredcites →https://doi.org/10.1016/j.cbd.2013.02.001openalex-snapshot
Dietary oils mediate cortisol kinetics and the hepatic mRNA expression profile of stress-responsive genes in gilthead sea bream (Sparus aurata) exposed to crowding stress. Implications on energy homeostasis and stress susceptibility
inferredcites →https://doi.org/10.1016/j.crvi.2008.11.002openalex-snapshot
Forte différenciation génétique de la daurade Sparus aurata (L., 1758) entre les deux rives de la Méditerranée occidentale
inferredcites →https://doi.org/10.1016/j.physbeh.2009.04.020openalex-snapshot
Effects of feeding schedule on locomotor activity rhythms and stress response in sea bream
inferredcites →https://doi.org/10.1016/j.tig.2017.07.011openalex-snapshot
Transposable Element Domestication As an Adaptation to Evolutionary Conflicts
inferredcites →https://doi.org/10.1016/j.ygcen.2014.04.016openalex-snapshot
Metabolic and transcriptional responses of gilthead sea bream (Sparus aurata L.) to environmental stress: New insights in fish mitochondrial phenotyping
inferredcites →https://doi.org/10.1016/s0022-2836(05)80360-2openalex-snapshot
Basic Local Alignment Search Tool
inferredcites →https://doi.org/10.1016/s0044-8486(03)00434-4openalex-snapshot
Genetic comparison of wild and cultivated European populations of the gilthead sea bream (Sparus aurata)
inferredcites →https://doi.org/10.1016/s0168-9525(00)02024-2openalex-snapshot
EMBOSS: The European Molecular Biology Open Software Suite
inferredcites →https://doi.org/10.1023/a:1016072014259openalex-snapshot
Transposable elements and the evolution of genome size in eukaryotes
inferredcites →https://doi.org/10.1038/cmi.2016.50openalex-snapshot
Pattern recognition receptors in zebrafish provide functional and evolutionary insight into innate immune signaling pathways
inferredcites →https://doi.org/10.1038/nature03025openalex-snapshot
Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype
inferredcites →https://doi.org/10.1038/nature05846openalex-snapshot
The medaka draft genome and insights into vertebrate genome evolution
inferredcites →https://doi.org/10.1038/ncomms4657openalex-snapshot
The rainbow trout genome provides novel insights into evolution after whole-genome duplication in vertebrates
inferredcites →https://doi.org/10.1038/ncomms6770openalex-snapshot
European sea bass genome and its variation provide insights into adaptation to euryhalinity and speciation
inferredcites →https://doi.org/10.1038/nmeth.1226openalex-snapshot
Mapping and quantifying mammalian transcriptomes by RNA-Seq
inferredcites →https://doi.org/10.1038/nprot.2012.016openalex-snapshot
Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
inferredcites →https://doi.org/10.1038/nrg2626openalex-snapshot
Sequencing technologies — the next generation
inferredcites →https://doi.org/10.1038/nrg2689openalex-snapshot
The evolution of gene duplications: classifying and distinguishing between models
inferredcites →https://doi.org/10.1038/s41559-018-0473-yopenalex-snapshot
Clonal polymorphism and high heterozygosity in the celibate genome of the Amazon molly
inferredcites →https://doi.org/10.1038/s41598-017-13514-wopenalex-snapshot
The circadian transcriptome of marine fish (Sparus aurata) larvae reveals highly synchronized biological processes at the whole organism level
inferredcites →https://doi.org/10.1038/s41598-018-37954-0openalex-snapshot
Annual rhythms of temporal niche partitioning in the Sparidae family are correlated to different environmental variables
inferredcites →https://doi.org/10.1038/s42003-018-0122-7openalex-snapshot
Genomic analysis of Sparus aurata reveals the evolutionary dynamics of sex-biased genes in a sequential hermaphrodite fish
inferredcites →https://doi.org/10.1051/alr:2005008openalex-snapshot
Flow cytometric determination of genome size in European seabass (Dicentrarchus labrax), gilthead seabream (Sparus aurata), thinlip mullet (Liza ramada), and European eel (Anguilla anguilla)
inferredcites →https://doi.org/10.1051/rnd:19780519openalex-snapshot
The gonadal cycle of the captivity-reared hermaphroditic teleost Sparus aurata (L.) during the first two years of life
inferredcites →https://doi.org/10.1073/pnas.0501102102openalex-snapshot
Modeling gene and genome duplications in eukaryotes
inferredcites →https://doi.org/10.1073/pnas.0802432105openalex-snapshot
Transcriptomic and genomic evolution under constant cold in Antarctic notothenioid fish
inferredcites →https://doi.org/10.1073/pnas.1507669112openalex-snapshot
Rapid genome reshaping by multiple-gene loss after whole-genome duplication in teleost fish suggested by mathematical modeling
inferredcites →https://doi.org/10.1089/cmb.2011.0170openalex-snapshot
Opera: Reconstructing Optimal Genomic Scaffolds with High-Throughput Paired-End Sequences
inferredcites →https://doi.org/10.1093/bib/bbr022openalex-snapshot
Evidence for short-time divergence and long-time conservation of tissue-specific expression after gene duplication
inferredcites →https://doi.org/10.1093/bioinformatics/btn013openalex-snapshot
Using native and syntenically mapped cDNA alignments to improve de novo gene finding
inferredcites →https://doi.org/10.1093/bioinformatics/btn230openalex-snapshot
DupTree: a program for large-scale phylogenetic analyses using gene tree parsimony
inferredcites →https://doi.org/10.1093/bioinformatics/btp348openalex-snapshot
trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses
inferredcites →https://doi.org/10.1093/bioinformatics/btq609openalex-snapshot
Assigning duplication events to relative temporal scales in genome-wide studies
inferredcites →https://doi.org/10.1093/bioinformatics/btr011openalex-snapshot
A fast, lock-free approach for efficient parallel counting of occurrences of k -mers
inferredcites →https://doi.org/10.1093/bioinformatics/btr026openalex-snapshot
Quality control and preprocessing of metagenomic datasets
inferredcites →https://doi.org/10.1093/bioinformatics/btx637openalex-snapshot
findGSE : estimating genome size variation within human and Arabidopsis using k -mer frequencies
inferredcites →https://doi.org/10.1093/genetics/166.2.935openalex-snapshot
Genomic Duplication, Fractionation and the Origin of Regulatory Novelty
inferredcites →https://doi.org/10.1093/icesjms/fsr175openalex-snapshot
Low levels of population genetic structure in the gilthead sea bream, Sparus aurata, along the coast of Italy
inferredcites →https://doi.org/10.1093/nar/gki198openalex-snapshot
MAFFT version 5: improvement in accuracy of multiple sequence alignment
inferredcites →https://doi.org/10.1093/nar/gki394openalex-snapshot
OrfPredictor: predicting protein-coding regions in EST-derived sequences
inferredcites →https://doi.org/10.1093/nar/gkl091openalex-snapshot
M-Coffee: combining multiple sequence alignment methods with T-Coffee
inferredcites →https://doi.org/10.1093/nar/gkm260openalex-snapshot
FatiGO +: a functional profiling tool for genomic data. Integration of functional annotation, regulatory motifs and interaction data with microarray experiments
inferredcites →https://doi.org/10.1093/nar/gkm286openalex-snapshot
LTR_FINDER: an efficient tool for the prediction of full-length LTR retrotransposons
inferredcites →https://doi.org/10.1093/nar/gkq1061openalex-snapshot
The Gypsy Database (GyDB) of mobile genetic elements: release 2.0
inferredcites →https://doi.org/10.1093/nar/gkt1177openalex-snapshot
PhylomeDB v4: zooming into the plurality of evolutionary histories of a genome
inferredcites →https://doi.org/10.1093/sysbio/syq010openalex-snapshot
New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0
inferredcites →https://doi.org/10.1098/rsob.160009openalex-snapshot
Structure and evolutionary history of a large family of NLR proteins in the zebrafish
inferredcites →https://doi.org/10.1098/rspb.2012.1108openalex-snapshot
Gene duplication as a mechanism of genomic adaptation to a changing environment
inferredcites →https://doi.org/10.1098/rspb.2013.2881openalex-snapshot
A well-constrained estimate for the timing of the salmonid whole genome duplication reveals major decoupling from species diversification
inferredcites →https://doi.org/10.1101/gr.092759.109openalex-snapshot
Circos: An information aesthetic for comparative genomics
inferredcites →https://doi.org/10.1101/gr.094607.109openalex-snapshot
JBrowse: A next-generation genome browser
inferredcites →https://doi.org/10.1101/gr.170720.113openalex-snapshot
Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads
inferredcites →https://doi.org/10.1101/gr.215087.116openalex-snapshot
Canu: scalable and accurate long-read assembly via adaptive k -mer weighting and repeat separation
inferredcites →https://doi.org/10.1101/gr.229202openalex-snapshot
BLAT —The BLAST -Like Alignment Tool
inferredcites →https://doi.org/10.1111/j.1444-2906.2004.00879.xopenalex-snapshot
Microsatellite markers reveal population structure in gilthead sea bream Sparus auratus from the Atlantic Ocean and Mediterranean Sea
inferredcites →https://doi.org/10.1111/jfd.12481openalex-snapshot
Characterization of the gilthead seabream (Sparus aurata L.) immune response under a natural lymphocystis disease virus outbreak
inferredcites →https://doi.org/10.1126/sciadv.aav0547openalex-snapshot
De novo assembly of the goldfish ( Carassius auratus ) genome and the evolution of genes after whole-genome duplication
inferredcites →https://doi.org/10.1126/science.290.5494.1151openalex-snapshot
The Evolutionary Fate and Consequences of Duplicate Genes
inferredcites →https://doi.org/10.1126/science.aav6202openalex-snapshot
Large-scale ruminant genome sequencing provides insights into their evolution and distinct traits
inferredcites →https://doi.org/10.1186/1471-2105-11-24openalex-snapshot
ETE: a python Environment for Tree Exploration
inferredcites →https://doi.org/10.1186/1471-2105-5-113openalex-snapshot
MUSCLE: a multiple sequence alignment method with reduced time and space complexity
inferredcites →https://doi.org/10.1186/1471-2105-6-298openalex-snapshot
Kalign – an accurate and fast multiple sequence alignment algorithm
inferredcites →https://doi.org/10.1186/1471-2105-9-278openalex-snapshot
Scipio: Using protein sequences to determine the precise exon/intron structures of genes and their orthologs in closely related species
inferredcites →https://doi.org/10.1186/1471-2164-11-193openalex-snapshot
Use of microarray technology to assess the time course of liver stress response after confinement exposure in gilthead sea bream (Sparus aurata L.)
inferredcites →https://doi.org/10.1186/1471-2164-13-1openalex-snapshot
Optimizing illumina next-generation sequencing library preparation for extremely at-biased genomes
inferredcites →https://doi.org/10.1186/1471-2164-13-246openalex-snapshot
Profiling of gene duplication patterns of sequenced teleost genomes: evidence for rapid lineage-specific genome expansion mediated by recent tandem duplications
inferredcites →https://doi.org/10.1186/1471-2164-14-178openalex-snapshot
Deep sequencing for de novo construction of a marine fish (Sparus aurata)transcriptome database with a large coverage of protein-coding transcripts
inferredcites →https://doi.org/10.1186/1471-2164-14-604openalex-snapshot
L_RNA_scaffolder: scaffolding genomes with transcripts
inferredcites →https://doi.org/10.1186/1741-7007-7-7openalex-snapshot
A large new subset of TRIM genes highly diversified by duplication and positive selection in teleost fish
inferredcites →https://doi.org/10.1186/1759-8753-3-19openalex-snapshot
Genomic impact of eukaryotic transposable elements
inferredcites →https://doi.org/10.1186/2047-217x-1-18openalex-snapshot
SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler
inferredcites →https://doi.org/10.1186/gb-2007-8-11-r251openalex-snapshot
Conservation and divergence of gene families encoding components of innate immune response systems in zebrafish
inferredcites →https://doi.org/10.1186/gb-2009-10-3-r25openalex-snapshot
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
inferredcites →https://doi.org/10.1186/gb-2010-11-3-r28openalex-snapshot
Detection and correction of false segmental duplications caused by genome mis-assembly
inferredcites →https://doi.org/10.1186/s12864-018-4516-1openalex-snapshot
Comparative genome analysis of 52 fish species suggests differential associations of repetitive elements with their living aquatic environments
inferredcites →https://doi.org/10.1186/s12864-019-5581-9openalex-snapshot
Acting locally - affecting globally: RNA sequencing of gilthead sea bream with a mild Sparicotyle chrysophrii infection reveals effects on apoptosis, immune and hypoxia related genes
inferredcites →https://doi.org/10.1186/s12983-017-0220-2openalex-snapshot
Gene expression profiling of whole blood cells supports a more efficient mitochondrial respiration in hypoxia-challenged gilthead sea bream (Sparus aurata)
inferredcites →https://doi.org/10.1186/s13059-014-0410-6openalex-snapshot
Corset: enabling differential gene expression analysis for de novoassembled transcriptomes
inferredcites →https://doi.org/10.1186/s13071-018-3007-1openalex-snapshot
Hints on T cell responses in a fish-parasite model: Enteromyxum leei induces differential expression of T cell signature molecules depending on the organ and the infection status
inferredcites →https://doi.org/10.1186/s13100-015-0041-9openalex-snapshot
Repbase Update, a database of repetitive elements in eukaryotic genomes
inferredcites →https://doi.org/10.1242/bio.024299openalex-snapshot
Dietary supplementation of heat-treatedGracilariaandUlvaseaweeds enhanced acute hypoxia tolerance in gilthead seabream (Sparus aurata)
inferredcites →https://doi.org/10.1371/journal.pbio.0030314openalex-snapshot
Two Rounds of Whole Genome Duplication in the Ancestral Vertebrate
inferredcites →https://doi.org/10.1371/journal.pcbi.0020115openalex-snapshot
Striking Similarities in the Genomic Distribution of Tandemly Arrayed Genes in Arabidopsis and Rice
inferredcites →https://doi.org/10.1371/journal.pone.0001838openalex-snapshot
A Role for Gene Duplication and Natural Variation of Gene Expression in the Evolution of Metabolism
inferredcites →https://doi.org/10.1371/journal.pone.0047768openalex-snapshot
Mind the Gap: Upgrading Genomes with Pacific Biosciences RS Long-Read Sequencing Technology
inferredcites →https://doi.org/10.1371/journal.pone.0166564openalex-snapshot
Dietary Butyrate Helps to Restore the Intestinal Status of a Marine Teleost (Sparus aurata) Fed Extreme Diets Low in Fish Meal and Fish Oil
inferredcites →https://doi.org/10.1371/journal.pone.0218085openalex-snapshot
De novo European eel transcriptome provides insights into the evolutionary history of duplicated genes in teleost lineages
inferredcites →https://doi.org/10.14806/ej.17.1.200openalex-snapshot
Cutadapt removes adapter sequences from high-throughput sequencing reads
inferredcites →https://doi.org/10.3109/07420520903421922openalex-snapshot
SYNCHRONIZATION TO LIGHT AND RESTRICTED-FEEDING SCHEDULES OF BEHAVIORAL AND HUMORAL DAILY RHYTHMS IN GILTHEAD SEA BREAM(SPARUS AURATA)
inferredcites →https://doi.org/10.3109/07420528.2015.1058271openalex-snapshot
Daily rhythms of clock gene expression and feeding behavior during the larval development in gilthead seabream,Sparus aurata
inferredcites →https://doi.org/10.3389/fimmu.2013.00028openalex-snapshot
The Astonishing Diversity of Ig Classes and B Cell Repertoires in Teleost Fish
inferredcites →https://doi.org/10.3389/fphys.2019.00840openalex-snapshot
Tissue-Specific Orchestration of Gilthead Sea Bream Resilience to Hypoxia and High Stocking Density
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1016/j.fsi.2021.05.013openalex-snapshot
Re-evaluation of common carp (Cyprinus carpio L.) housekeeping genes for gene expression studies – considering duplicated genes
Editorial review for independent work. ICSAC — the Institute for Complexity
Science and Advanced Computing — runs a structured editorial panel for researchers
publishing outside journals, and publishes on CiteStamp rails. Submission is free
and goes through ORCID: icsacinstitute.org/submit.