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Rosa Fernández

Other affiliations: Harvard University, Macalester College, Cardiff University  ...read more
Bio: Rosa Fernández is an academic researcher from Pompeu Fabra University. The author has contributed to research in topics: Species complex & Monophyly. The author has an hindex of 23, co-authored 74 publications receiving 1779 citations. Previous affiliations of Rosa Fernández include Harvard University & Macalester College.


Papers
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Journal ArticleDOI
Helen Phillips1, Carlos A. Guerra2, Marie Luise Carolina Bartz3, Maria J. I. Briones4, George G. Brown5, Thomas W. Crowther6, Olga Ferlian1, Konstantin B. Gongalsky7, Johan van den Hoogen6, Julia Krebs1, Alberto Orgiazzi, Devin Routh6, Benjamin Schwarz8, Elizabeth M. Bach, Joanne M. Bennett2, Ulrich Brose9, Thibaud Decaëns, Birgitta König-Ries9, Michel Loreau, Jérôme Mathieu, Christian Mulder10, Wim H. van der Putten11, Kelly S. Ramirez, Matthias C. Rillig12, David J. Russell13, Michiel Rutgers, Madhav P. Thakur, Franciska T. de Vries, Diana H. Wall14, David A. Wardle, Miwa Arai15, Fredrick O. Ayuke16, Geoff H. Baker17, Robin Beauséjour, José Camilo Bedano18, Klaus Birkhofer19, Eric Blanchart, Bernd Blossey20, Thomas Bolger21, Robert L. Bradley, Mac A. Callaham22, Yvan Capowiez, Mark E. Caulfield11, Amy Choi23, Felicity Crotty24, Andrea Dávalos25, Andrea Dávalos20, Darío J. Díaz Cosín, Anahí Domínguez18, Andrés Esteban Duhour26, Nick van Eekeren, Christoph Emmerling27, Liliana B. Falco26, Rosa Fernández, Steven J. Fonte14, Carlos Fragoso, André L.C. Franco, Martine Fugère, Abegail T Fusilero28, Shaieste Gholami29, Michael J. Gundale, Mónica Gutiérrez López, Davorka K. Hackenberger30, Luis M. Hernández, Takuo Hishi31, Andrew R. Holdsworth32, Martin Holmstrup33, Kristine N. Hopfensperger34, Esperanza Huerta Lwanga11, Veikko Huhta, Tunsisa T. Hurisso14, Tunsisa T. Hurisso35, Basil V. Iannone, Madalina Iordache36, Monika Joschko, Nobuhiro Kaneko37, Radoslava Kanianska38, Aidan M. Keith39, Courtland Kelly14, Maria Kernecker, Jonatan Klaminder, Armand W. Koné40, Yahya Kooch41, Sanna T. Kukkonen, H. Lalthanzara42, Daniel R. Lammel43, Daniel R. Lammel12, Iurii M. Lebedev7, Yiqing Li44, Juan B. Jesús Lidón, Noa Kekuewa Lincoln45, Scott R. Loss46, Raphaël Marichal, Radim Matula, Jan Hendrik Moos47, Gerardo Moreno48, Alejandro Morón-Ríos, Bart Muys49, Johan Neirynck50, Lindsey Norgrove, Marta Novo, Visa Nuutinen51, Victoria Nuzzo, Mujeeb Rahman P, Johan Pansu17, Shishir Paudel46, Guénola Pérès, Lorenzo Pérez-Camacho52, Raúl Piñeiro, Jean-François Ponge, Muhammad Rashid53, Muhammad Rashid54, Salvador Rebollo52, Javier Rodeiro-Iglesias4, Miguel Á. Rodríguez52, Alexander M. Roth55, Guillaume Xavier Rousseau56, Anna Rożen57, Ehsan Sayad29, Loes van Schaik58, Bryant C. Scharenbroch59, Michael Schirrmann60, Olaf Schmidt21, Boris Schröder61, Julia Seeber62, Maxim Shashkov63, Maxim Shashkov64, Jaswinder Singh65, Sandy M. Smith23, Michael Steinwandter, José Antonio Talavera66, Dolores Trigo, Jiro Tsukamoto67, Anne W. de Valença, Steven J. Vanek14, Iñigo Virto68, Adrian A. Wackett55, Matthew W. Warren, Nathaniel H. Wehr, Joann K. Whalen69, Michael B. Wironen70, Volkmar Wolters71, Irina V. Zenkova, Weixin Zhang72, Erin K. Cameron73, Nico Eisenhauer1 
Leipzig University1, Martin Luther University of Halle-Wittenberg2, Universidade Positivo3, University of Vigo4, Empresa Brasileira de Pesquisa Agropecuária5, ETH Zurich6, Moscow State University7, University of Freiburg8, University of Jena9, University of Catania10, Wageningen University and Research Centre11, Free University of Berlin12, Senckenberg Museum13, Colorado State University14, National Agriculture and Food Research Organization15, University of Nairobi16, Commonwealth Scientific and Industrial Research Organisation17, National Scientific and Technical Research Council18, Brandenburg University of Technology19, Cornell University20, University College Dublin21, United States Forest Service22, University of Toronto23, Aberystwyth University24, State University of New York at Cortland25, National University of Luján26, University of Trier27, University of the Philippines Mindanao28, Razi University29, Josip Juraj Strossmayer University of Osijek30, Kyushu University31, Minnesota Pollution Control Agency32, Aarhus University33, Northern Kentucky University34, Lincoln University (Missouri)35, University of Agricultural Sciences, Dharwad36, Fukushima University37, Matej Bel University38, Lancaster University39, Université d'Abobo-Adjamé40, Tarbiat Modares University41, Pachhunga University College42, University of São Paulo43, University of Hawaii at Hilo44, College of Tropical Agriculture and Human Resources45, Oklahoma State University–Stillwater46, Forest Research Institute47, University of Extremadura48, Katholieke Universiteit Leuven49, Research Institute for Nature and Forest50, Natural Resources Institute Finland51, University of Alcalá52, COMSATS Institute of Information Technology53, King Abdulaziz University54, University of Minnesota55, Federal University of Maranhão56, Jagiellonian University57, Technical University of Berlin58, University of Wisconsin-Madison59, Leibniz Association60, Braunschweig University of Technology61, University of Innsbruck62, Russian Academy of Sciences63, Keldysh Institute of Applied Mathematics64, Khalsa College, Amritsar65, University of La Laguna66, Kōchi University67, Universidad Pública de Navarra68, McGill University69, The Nature Conservancy70, University of Giessen71, Henan University72, University of Saint Mary73
25 Oct 2019-Science
TL;DR: It was found that local species richness and abundance typically peaked at higher latitudes, displaying patterns opposite to those observed in aboveground organisms, which suggest that climate change may have serious implications for earthworm communities and for the functions they provide.
Abstract: Soil organisms, including earthworms, are a key component of terrestrial ecosystems. However, little is known about their diversity, their distribution, and the threats affecting them. We compiled a global dataset of sampled earthworm communities from 6928 sites in 57 countries as a basis for predicting patterns in earthworm diversity, abundance, and biomass. We found that local species richness and abundance typically peaked at higher latitudes, displaying patterns opposite to those observed in aboveground organisms. However, high species dissimilarity across tropical locations may cause diversity across the entirety of the tropics to be higher than elsewhere. Climate variables were found to be more important in shaping earthworm communities than soil properties or habitat cover. These findings suggest that climate change may have serious implications for earthworm communities and for the functions they provide.

223 citations

Journal ArticleDOI
TL;DR: The first attempt to investigate animal relationships using genome-scale data from all phyla is presented, and matrix construction with an eye towards testing specific relationships is explored, showing that Lophotrochozoa can be constructed in strongly conflicting ways using different taxon- and/or orthologue sets.
Abstract: Proper biological interpretation of a phylogeny can sometimes hinge on the placement of key taxa—or fail when such key taxa are not sampled. In this light, we here present the first attempt to inve...

195 citations

Journal ArticleDOI
TL;DR: This study, one of the largest invertebrate phylogenomic analyses to date, highlights the usefulness of transcriptomic data not only to build a robust backbone for the Spider Tree of Life, but also to address the genetic basis of diversification in the spider evolutionary chronicle.

189 citations

Journal ArticleDOI
TL;DR: A next-generation sequencing approach is applied to resolve spider phylogeny, examining the relationships among its major lineages and exploring possible pitfalls in phylogenomic reconstruction, including missing data, unequal rates of evolution, and others.

128 citations

Journal ArticleDOI
TL;DR: A phylogenomic assessment to resolve scorpion phylogeny, for the first time, is applied, sampling extensive molecular sequence data from all superfamilies and examining basal relationships with up to 5025 genes, finding a robust basal topology of scorpions that is entirely at odds with traditional systematics and controverts previous understanding of scorpion evolutionary history.
Abstract: Scorpions represent an iconic lineage of arthropods, historically renowned for their unique bauplan, ancient fossil record and venom potency. Yet, higher level relationships of scorpions, based exclusively on morphology, remain virtually untested, and no multilocus molecular phylogeny has been deployed heretofore towards assessing the basal tree topology. We applied a phylogenomic assessment to resolve scorpion phylogeny, for the first time, to our knowledge, sampling extensive molecular sequence data from all superfamilies and examining basal relationships with up to 5025 genes. Analyses of supermatrices as well as species tree approaches converged upon a robust basal topology of scorpions that is entirely at odds with traditional systematics and controverts previous understanding of scorpion evolutionary history. All analyses unanimously support a single origin of katoikogenic development, a form of parental investment wherein embryos are nurtured by direct connections to the parent9s digestive system. Based on the phylogeny obtained herein, we propose the following systematic emendations: Caraboctonidae is transferred to Chactoidea new superfamilial assignment ; superfamily Bothriuroidea revalidated is resurrected and Bothriuridae transferred therein; and Chaerilida and Pseudochactida are synonymized with Buthida new parvordinal synonymies .

114 citations


Cited by
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Journal Article
Fumio Tajima1
30 Oct 1989-Genomics
TL;DR: It is suggested that the natural selection against large insertion/deletion is so weak that a large amount of variation is maintained in a population.

11,521 citations

Journal ArticleDOI
TL;DR: This work presents BUSCO v3 with example analyses that highlight the wide‐ranging utility of BUSCO assessments, which extend beyond quality control of genomics data sets to applications in comparative genomics analyses, gene predictor training, metagenomics, and phylogenomics.
Abstract: Genomics promises comprehensive surveying of genomes and metagenomes, but rapidly changing technologies and expanding data volumes make evaluation of completeness a challenging task. Technical sequencing quality metrics can be complemented by quantifying completeness of genomic data sets in terms of the expected gene content of Benchmarking Universal Single-Copy Orthologs (BUSCO, http://busco.ezlab.org). The latest software release implements a complete refactoring of the code to make it more flexible and extendable to facilitate high-throughput assessments. The original six lineage assessment data sets have been updated with improved species sampling, 34 new subsets have been built for vertebrates, arthropods, fungi, and prokaryotes that greatly enhance resolution, and data sets are now also available for nematodes, protists, and plants. Here, we present BUSCO v3 with example analyses that highlight the wide-ranging utility of BUSCO assessments, which extend beyond quality control of genomics data sets to applications in comparative genomics analyses, gene predictor training, metagenomics, and phylogenomics.

1,575 citations

01 Jan 2011
TL;DR: The GMTED2010 layer extents (minimum and maximum latitude and longitude) are a result of the coordinate system inherited from the 1-arcsecond SRTM.
Abstract: For more information on the USGS—the Federal source for science about the Earth, its natural and living resources, natural hazards, and the environment, visit http://www.usgs.gov or call 1–888–ASK–USGS. For an overview of USGS information products, including maps, imagery, and publications, Any use of trade, product, or firm names is for descriptive purposes only and does not imply endorsement by the U.S. Government. Although this report is in the public domain, permission must be secured from the individual copyright owners to reproduce any copyrighted materials contained within this report. 10. Diagram showing the GMTED2010 layer extents (minimum and maximum latitude and longitude) are a result of the coordinate system inherited from the 1-arc-second SRTM

802 citations

Journal ArticleDOI
01 Jan 2020-Database
TL;DR: The National Center for Biotechnology Information (NCBI) Taxonomy includes organism names and classifications for every sequence in the nucleotide and protein sequence databases of the International Nucleotide Sequence Database Collaboration.
Abstract: The National Center for Biotechnology Information (NCBI) Taxonomy includes organism names and classifications for every sequence in the nucleotide and protein sequence databases of the International Nucleotide Sequence Database Collaboration. Since the last review of this resource in 2012, it has undergone several improvements. Most notable is the shift from a single SQL database to a series of linked databases tied to a framework of data called NameBank. This means that relations among data elements can be adjusted in more detail, resulting in expanded annotation of synonyms, the ability to flag names with specific nomenclatural properties, enhanced tracking of publications tied to names and improved annotation of scientific authorities and types. Additionally, practices utilized by NCBI Taxonomy curators specific to major taxonomic groups are described, terms peculiar to NCBI Taxonomy are explained, external resources are acknowledged and updates to tools and other resources are documented. Database URL: https://www.ncbi.nlm.nih.gov/taxonomy.

685 citations