61 Works

Data from: New insights into the history of domesticated and wild apricots and its contribution to Plum pox virus resistance

Stéphane Decroocq, Amandine Cornille, David Tricon, Sevda Babayeva, Aurélie Chague, Jean-Philippe Eyquard, Raul Karychev, Svetlana Dolgikh, Tatiana Kostritsyna, Shuo Liu, Weisheng Liu, Wenjuan Geng, Kang Liao, Bayram Asma, Zeynal Akparov, Tatiana Giraud, Veronique Decroocq & Bayram M. Asma
Studying domesticated species and their wild relatives allows understanding of the mechanisms of population divergence and adaptation, and identifying valuable genetic resources. Apricot is an important fruit in the Northern hemisphere, where it is threatened by the Plum pox virus (PPV), causing the sharka disease. The histories of apricot domestication and of its resistance to sharka are however still poorly understood. We used 18 microsatellite markers to genotype a collection of 230 wild trees from...

Data from: High sensitivity isoelectric focusing to establish a signaling biomarker for the diagnosis of human colorectal cancer

Narendra Padhan, Torbjörn E.M. Nordling, Magnus Sundström, Peter Åkerud, Helgi Birgisson, Peter Nygren, Sven Nelander & Lena Claesson-Welsh
Background: The progression of colorectal cancer (CRC) involves recurrent amplifications/mutations in the epidermal growth factor receptor (EGFR) and downstream signal transducers of the Ras pathway, KRAS and BRAF. Whether genetic events predicted to result in increased and constitutive signaling indeed lead to enhanced biological activity is often unclear and, due to technical challenges, unexplored. Here, we investigated proliferative signaling in CRC using a highly sensitive method for protein detection. The aim of the study was...

Data from: The cranial endocast of Dipnorhynchus sussmilchi (Sarcopterygii: Dipnoi) and the interrelationships of stem-group lungfishes

Alice M. Clement, Tom J. Challands, John A. Long & Per E. Ahlberg
The first virtual cranial endocast of a lungfish from the Early Devonian, Dipnorhynchus sussmilchi, is described. Dipnorhynchus, only the fourth Devonian lungfish for which a near complete cranial endocast is known, is a key taxon for clarifying primitive character states within the group. A ventrally-expanded telencephalic cavity is present in the endocast of Dipnorhynchus demonstrating that this is the primitive state for “true” Dipnoi. Dipnorhynchus also possesses a utricular recess differentiated from the sacculolagenar pouch...

Data from: Genetic basis for red coloration in birds

Ricardo J Lopes, James D Johnson, Matthew B Toomey, Mafalda S Ferreira, Pedro M Araújo, José Melo-Ferreira, Leif Andersson, Geoffrey E Hill, Joseph C Corbo & Miguel Carneiro
The yellow and red feather pigmentation of many bird species [1] plays pivotal roles in social signaling and mate choice [2, 3]. To produce red pigments, birds ingest yellow carotenoids and endogenously convert them into red ketocarotenoids via an oxidation reaction catalyzed by a previously unknown ketolase [4–6]. We investigated the genetic basis for red coloration in birds using whole-genome sequencing of red siskins (Spinus cucullata), common canaries (Serinus canaria), and ‘‘red factor’’ canaries, which...

Data from: Association mapping of morphological traits in wild and captive zebra finches: reliable within but not between populations

Ulrich Knief, Holger Schielzeth, Niclas Backstrom, Georg Hemmrich-Stanisak, Michael Wittig, Andre Franke, Simon C. Griffith, Hans Ellegren, Bart Kempenaers & Wolfgang Forstmeier
Identifying causal genetic variants underlying heritable phenotypic variation is a longstanding goal in evolutionary genetics. We previously identified several quantitative trait loci (QTL) for five morphological traits in a captive population of zebra finches (Taeniopygia guttata) by whole-genome linkage mapping. We here follow up on these studies with the aim to narrow down on the quantitative trait variants (QTN) in one wild and three captive populations. First, we performed an association study using 672 single...

Data from: Lymph node transplantation decreases swelling and restores immune responses in a transgenic model of lymphedema

Jung-Ju Huang, Jason C. Gardenier, Geoffrey E. Hespe, Gabriela D. García Nores, Raghu P. Kataru, Catherine L. Ly, Inés Martínez-Corral, Sagrario Ortega & Babak J. Mehrara
Introduction: Secondary lymphedema is a common complication of cancer treatment and recent studies have demonstrated that lymph node transplantation (LNT) can decrease swelling, as well as the incidence of infections. However, although these results are exciting, the mechanisms by which LNT improves these pathologic findings of lymphedema remain unknown. Using a transgenic mouse model of lymphedema, this study sought to analyze the effect of LNT on lymphatic regeneration and T cell-mediated immune responses. Methods: We...

Data from: Phylogeny of Selaginellaceae: there is value in morphology after all!

Stina Weststrand & Petra Korall
PREMISE OF THE STUDY: The cosmopolitan lycophyte family Selaginellaceae, dating back to the Late Devonian–Early Carboniferous, is notorious for its many species with a seemingly undifferentiated gross morphology. This morphological stasis has for a long time hampered our understanding of the evolutionary history of the single genus Selaginella. Here we present a large-scale phylogenetic analysis of Selaginella, and based on the resulting phylogeny, we discuss morphological evolution in the group. METHODS: We sampled about one-third...

Data from: DNA barcoding of tuberous Orchidoideae: a resource for identification of orchids used in Salep

Abdolbaset Ghorbani, Barbara Gravendeel, Sugirthini Selliah, Shahin Zarré & Hugo De Boer
Tubers of terrestrial orchids are harvested and traded from the eastern Mediterranean to the Caspian Sea for the traditional product Salep. Overexploitation of wild populations and increased middle-class prosperity have escalated prices for Salep, causing overharvesting, depletion of native populations and providing an incentive to expand harvesting to untapped areas in Iran. Limited morphological distinctiveness among traded Salep tubers renders species identification impossible, making it difficult to establish which species are targeted and affected the...

Data from: Bioinformatic processing of RAD-seq data dramatically impacts downstream population genetic inference

Aaron B. A. Shafer, Claire R. Peart, Sergio Tusso, Inbar Maayan, Alan Brelsford, Christopher W. Wheat & Jochen B. W. Wolf
Restriction site-associated DNA sequencing (RAD-seq) provides high-resolution population genomic data at low cost, and has become an important component in ecological and evolutionary studies. As with all high-throughput technologies, analytic strategies require critical validation to ensure accurate and unbiased interpretation. To test for the impact of bioinformatic data processing on downstream population genetic inferences, we analysed mammalian RAD-seq data (>100 individuals) with 312 combinations of methodology (de novo vs. mapping to references of increasing divergence)...

Data from: Sex-specific selection under environmental stress in seed beetles

Ivain Martinossi-Allibert, Göran Arnqvist & David Berger
Sexual selection can increase rates of adaptation by imposing stronger selection in males, thereby allowing efficient purging of the mutation load on population fitness at a low demographic cost. Indeed, sexual selection tends to be male-biased throughout the animal kingdom, but little empirical work has explored the ecological sensitivity of this sex difference. In this study, we generated theoretical predictions of sex-specific strengths of selection, environmental sensitivities and genotype-by-environment interactions, and tested them in seed...

Data from: Actuarial senescence in a long-lived orchid challenges our current understanding of ageing

Johan Petter Dahlgren, Fernando Colchero, Owen R. Jones, Dag-Inge Øien, Asbjørn Moen & Nina Sletvold
The dominant evolutionary theory of actuarial senescence—an increase in death rate with advancing age—is based on the concept of a germ cell line that is separated from the somatic cells early in life. However, such a separation is not clear in all organisms. This has been suggested to explain the paucity of evidence for actuarial senescence in plants. We used a 32 year study of Dactylorhiza lapponica that replaces its organs each growing season, to...

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  • Uppsala University
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