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List of works by Rute R. da Fonseca

"Out of the Can": A Draft Genome Assembly, Liver Transcriptome, and Nutrigenomics of the European Sardine, Sardina pilchardus

scientific article published on 09 October 2018

31° South: The physiology of adaptation to arid conditions in a passerine bird

scientific article published on 06 August 2019

A draft genome sequence of the elusive giant squid, Architeuthis dux

scientific article published on 01 January 2020

A refined model of the genomic basis for phenotypic variation in vertebrate hemostasis

scientific article published on 30 June 2015

A resource for sustainable management: De novo assembly and annotation of the liver transcriptome of the Atlantic chub mackerel, Scomber colias.

scientific article published on 13 March 2018

Adaptive evolution of the Retinoid X receptor in vertebrates

scientific article published on 14 December 2011

Amino acid patterns around disulfide bonds

scientific article published on 18 November 2010

Analysis of complete mitochondrial genomes from extinct and extant rhinoceroses reveals lack of phylogenetic resolution

scientific article (publication date: 11 May 2009)

Ancient genomics

scientific article

Cartilaginous fishes offer unique insights into the evolution of the nuclear receptor gene repertoire in gnathostomes

scientific article published on 08 June 2020

Cephalopod genomics: A plan of strategies and organization

scientific article (publication date: 10 October 2012)

Cephalopods in neuroscience: regulations, research and the 3Rs

scientific article

Combined Transcriptomic and Proteomic Analysis of the Posterior Salivary Gland from the Southern Blue-Ringed Octopus and the Southern Sand Octopus

scientific article

Comparative analysis of complete mitochondrial genomes suggests that relaxed purifying selection is driving high nonsynonymous evolutionary rate of the NADH2 gene in whitefish (Coregonus ssp.).

scientific article published in December 2015

Comparative genomics provides insights into the aquatic adaptations of mammals

scientific article published in 2021

Comparative genomics reveals insights into avian genome evolution and adaptation

scientific article

Complete Inactivation of Sebum-Producing Genes Parallels the Loss of Sebaceous Glands in Cetacea

article

Complexity of avian evolution revealed by family-level genomes

scientific article published in April 2024

Computational insight into anti-mutagenic properties of CYP1A flavonoid ligands

scientific article published in July 2005

Conformational characterization of disulfide bonds: a tool for protein classification

scientific article published on 16 September 2010

Consequences of breed formation on patterns of genomic diversity and differentiation: the case of highly diverse peripheral Iberian cattle

Consequences of breed formation on patterns of genomic diversity and differentiation: the case of highly diverse peripheral Iberian cattle

scientific article published on 03 May 2019

Declining genetic diversity of European honeybees along the twentieth century

scientific article published on 29 June 2020

Dense sampling of bird diversity increases power of comparative genomics

scientific article published on 11 November 2020

DivA: detection of non-homologous and very divergent regions in protein sequence alignments

scientific article

Erratum: The origin and evolution of maize in the Southwestern United States

scholarly article published in Nature Plants

Evolution of the extracytoplasmic function σ factor protein family

scientific article published on 13 January 2020

Genome sequence and effectorome of Moniliophthora perniciosa and Moniliophthora roreri subpopulations.

scientific article published on 3 July 2018

IMPACT: Integrated Multiprogram Platform for Analyses in ConTest ⬇️

scientific article published on March 16, 2011

Identifying loci under positive selection in complex population histories

Identifying loci under positive selection in complex population histories

scientific article published on 30 July 2019

Large-scale ruminant genome sequencing provides insights into their evolution and distinct traits

scientific article published on 21 June 2019

Liver transcriptome resources of four commercially exploited teleost species

scientific article published on 07 July 2020

Losing Genes: The Evolutionary Remodeling of Cetacea Skin ⬇️

scholarly article

Marine genomics: news and views

scientific article

Modelling the metabolic action of human and rat CYP1A2 and its relationship with the carcinogenicity of heterocyclic amines

Molecular clocks indicate turnover and diversification of modern coleoid cephalopods during the Mesozoic Marine Revolution

scientific article published in March 2017

Molecular evolution and the role of oxidative stress in the expansion and functional diversification of cytosolic glutathione transferases

scientific article

Molecular interactions between human cytochrome P450 1A2 and flavone derivatives

scientific article published in July 2006

Natural selection shaped the rise and fall of passenger pigeon genomic diversity.

scientific article

Next-generation biology: Sequencing and data analysis approaches for non-model organisms

scientific article

Patterns of positive selection in six Mammalian genomes

scientific article

Phylogenomic analyses data of the avian phylogenomics project

scientific article

Population genomic footprints of environmental pollution pressure in natural populations of the Mediterranean mussel

scientific article published on 14 November 2018

Positive selection on apoptosis related genes

scientific article published on 22 December 2009

Positive selection on the killer whale mitogenome

scientific article published in September 2010

Proteomic Analysis of a Pleistocene Mammoth Femur Reveals More than One Hundred Ancient Bone Proteins

scientific article (publication date: 3 February 2012)

Proteomic profiling of cytosolic glutathione transferases from three bivalve species: Corbicula fluminea, Mytilus galloprovincialis and Anodonta cygnea

scientific article published on 27 January 2014

Proteomic profiling of gill GSTs in Mytilus galloprovincialis from the North of Portugal and Galicia evidences variations at protein isoform level with a possible relation with water quality

scientific article published on 2 September 2015

Response of an Afro-Palearctic bird migrant to glaciation cycles

scientific article

Shotgun analysis of the marine mussel Mytilus edulis hemolymph proteome and mapping the innate immunity elements

scientific article published on 09 September 2015

Structural divergence and adaptive evolution in mammalian cytochromes P450 2C

article

The adaptive evolution of the mammalian mitochondrial genome

scientific article (publication date: 4 March 2008)

The aggressiveness of cancer care in the last three months of life: a retrospective single centre analysis

scientific article published on 01 September 2007

The elusive nature of adaptive mitochondrial DNA evolution of an arctic lineage prone to frequent introgression.

scientific article

The origin and evolution of maize in the American Southwest

The origin and evolution of maize in the Southwestern United States

scientific article

Theoretical quantitative structure-activity relationships of flavone ligands interacting with cytochrome P450 1A1 and 1A2 isozymes

scientific article published in July 2005

Whole-genome analyses resolve early branches in the tree of life of modern birds

scientific article

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