118 research outputs found
Phylogeny and biogeography of the plant family Calceolariaceae
No full textCalceolaria L., Jovellana Ruiz & Pav., and Porodittia G. Don (=Stemotria Wettst. &
Harms) toghether constitute the family Calceolariaceae consisting of approximately
300 species distributed manily in South America. The present thesis shows that using
morphology as basis for sectional delimitations in the genus Calceolaria is not
sufficient to define monophyletic groups. Comparing information from nuclear versus
chloroplast sequence data reveal extensive topological discordance, neither of which
can easily be related to morphological features. The putative sister relationship
between Calceolaria and Jovellana is confirmed, while the phylogenetic position of
Porodittia is revealed to be nested deep inside Calceolaria.
For Jovellana, a small genus present disjunctly across the Pacific Ocean in South
America and New Zealand, a taxonomic revision suggest synonymisation of two
previousy recognised species in New Zealand with a larger circumscribed J. sinclairii
while the distributional disjunction is revealed as a result of long distance dispersal of
recent date.
This thesis also explores the presumed close relationship between the origin of the
Andes and the evlutionary distriution history of Calceolaria. Biogeographic models
for reconstruction of ancestral areas are used to estimate the orgin of the family. By
extending the model to simultaneous estiamation of ancestral area in three dimensions
based in specimen data a correlation between the uplift history of the Andes and the
radiation events of Calceolaria can be established. By optimising morphological traits
relating to growth habit and pollination of the genus in a phylogenetic framework, and
relating these to the ancestral area reconstruction and the uplift history of the Andes, a
suggested radiation pattern for Calceolaria can be established. This pattern follow a
south to north trend with an origin in lowland Chile or low Andean slopes, with
subsequent radiations to the north correlated with the Altiplano region and the
Huancabamba deflection. The pattern also show a correlation between the uplift
history of the Andes and the radiation of Calceolaria. This further suggests that the
divergence patterns of a group of species cannot be understood without extensive
information on not only the phylogeny, but also the prefferred ecological niches and
other mechanisms important for radiation success
Estimating the Phanerozoic history of the Ascomycota lineages: Combining fossil and molecular data
No full textThe phylum Ascomycota is by far the largest group in the fungal kingdom. Ecologically important mutualisticassociations such as mycorrhizae and lichens have evolved in this group, which are regarded as keyinnovations that supported the evolution of land plants. Only a few attempts have been made to date theorigin of Ascomycota lineages by using molecular clock methods, which is primarily due to the lack ofsatisfactory fossil calibration data. For this reason we have evaluated all of the oldest available ascomycetefossils from amber (Albian to Miocene) and chert (Devonian and Maastrichtian). The fossils representfive major ascomycete classes (Coniocybomycetes, Dothideomycetes, Eurotiomycetes, Laboulbeniomycetes,and Lecanoromycetes). We have assembled a multi-gene data set (18SrDNA, 28SrDNA, RPB1 andRPB2) from a total of 145 taxa representing most groups of the Ascomycota and utilized fossil calibrationpoints solely from within the ascomycetes to estimate divergence times of Ascomycota lineages with aBayesian approach. Our results suggest an initial diversification of the Pezizomycotina in the Ordovician,followed by repeated splits of lineages throughout the Phanerozoic, and indicate that this continuousdiversification was unaffected by mass extinctions. We suggest that the ecological diversity within eachlineage ensured that at least some taxa of each group were able to survive global crises and rapidlyrecovered
A modular and community-driven FAIR teaching and training handbook for higher education institutions
No full textThe FAIR principles have had a transformative effect on research data management. Based on this, there is a growing need to increase awareness, understanding and adoption of this topic in higher education at all levels and to provide guidance on how to teach it in bachelor’s, master’s and doctoral degree programmes. This article discusses a collaborative, co-creative approach to construct a body of knowledge and a set of tools addressing this gap, that have been summarised in a teaching and training handbook. We outline how the handbook was written using a large community of volunteers working together remotely. We then discuss the overall content of the handbook, including lesson plans, guidance on how to develop appropriate lessons, a detailed overview of FAIR-related competencies and learning outcomes, and guidelines on how to implement FAIR within an institution. Finally, we discuss the uptake of the handbook, and examples of how the handbook has or could be used in a variety of different training settings
On the phylogeny of the genus Calceolaria (Calceolariaceae) as inferred from ITS and plastid matK sequences
No full textThe chloroplast gene matK and the nuclear internal transcribed spacer region (ITS) were used to explore taxonomic placement of and phylogeny within Calceolaria and related genera of Calceolarieae (= Calceolariaceae), a group traditionally referred to the polyphyletic Scrophulariaceae. Calceolarieae appear as a strongly supported monophyletic group and receive moderate support as the sister group of the family Gesneriaceae. The monotypic genus Porodittia is deeply nested inside Calceolaria and is reduced to synonymy under the latter genus. The phylogenetic trees retrieved for Calceolaria reveal that many presently recognised sections are polyphyletic. They also suggest that temperate species have retained the most ancestral character states in the genus. The phylogeny of Calceolaria features a number of well supported clades, which are difficult to characterize morphologically. A renewed interpretation of morphological characters diagnosing natural groups within Calceolaria is called for. The role of the Huancabamba Deflection as an important factor in the biogeography of Calceolaria is strongly alluded by the inferred phylogeny
On the phylogeny of the genus Calceolaria (Calceolariaceae) as inferred from ITS and plastid matK sequences
No full text
"Ready for BioData Management?" Training Data Stewards for Life Sciences: Consolidation Course, hosted by BioData.pt | ELIXIR PT
No full textThis training session is part of "Ready for BioData Management?" Training Data Stewards for Life Sciences, hosted by BioData.pt | ELIXIR PT.
The first part, "Ready for BioData Management?" Training Data Stewards for Life Sciences: Intro Course, is available here.
The second part, "Ready for BioData Management?" Training Data Stewards for Life Sciences: DS Lab 1, is available here.
The third part, "Ready for BioData Management?" Training Data Stewards for Life Sciences: DS Lab 2, is available here.
Lecture
Authors
Affiliation
Day 1
Assignment 3 Discussion: Plan
Daniel Faria
INESC-ID/IST
Planning at the National Bioinformatics Infrastructure Sweden + Exercise
Stephan Nylinder
NBIS
Assignment 3 Discussion: Collect
Daniel Faria
INESC-ID/IST
Collection at NBIS + Exercise
Wolmar Nyberg Åkerström
NBIS
Day 2
Assignment 3 Discussion: Process
Daniel Faria
INESC-ID/IST
Processing at NBIS + Exercise
Wolmar Nyberg Åkerström
NBIS
Assignment 3 Discussion: Analyze
Daniel Faria
INESC-ID/IST
Analysis at NBIS
Stephan Nylinder
NBIS
Day 3
Assignment 3 Discussion: Preserve
Daniel Faria
INESC-ID/IST
Preserving at IGC’s Genomics Unit
Ricardo Leite
IGC-FCG
Preserving Costs Exercise
Daniel Faria
INESC-ID/IST
Assignment 3 Discussion: Share
Daniel Faria
INESC-ID/IST
To Share or Not to Share + Exercise
Daniel Faria
INESC-ID/IS
New insights into the phylogenetic relationships, character evolution, and phytogeographic patterns of Calceolaria (Calceolariaceae)
No full textBiogeographical patterns and diversification processes in Andean and Patagonian flora are not yet well understood. Calceolaria is a highly diversified genus of these areas, representing one of the most specialized plant - pollinator systems because flowers produce nonvolatile oils, a very unusual floral reward. Phylogenetic analyses with molecular (ITS and matK) and morphological characters from 103 Calceolaria species were conducted to examine relationships, to understand biogeographic patterns, and to detect evolutionary patterns of floral and ecological characters. Total evidence analysis retrieved three major clades, which strongly correspond to the three previously recognized subgenera, although only subgenus Rosula was retrieved as a monophyletic group. A single historical event explains the expansion from the southern to central Andes, while different parallel evolutionary lines show a northward expansion from the central to northern Andes across the Huancabamba Deflection, an important geographical barrier in northern Peru. Polyploidy, acquisition of elaiophores, and a nototribic pollination mechanism are key aspects of the evolutionary history of Calceolaria. Pollination interactions were more frequently established with Centris than with Chalepogenus oil-collecting bee species. The repeated loss of the oil gland and shifts to pollen as the only reward suggest an evolutionary tendency from highly to moderately specialized pollination systems.Fil: Cosacov Martinez, Andrea. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Córdoba. Instituto Multidisciplinario de Biología Vegetal. Universidad Nacional de Córdoba. Facultad de Ciencias Exactas Físicas y Naturales. Instituto Multidisciplinario de Biología Vegetal; ArgentinaFil: Sersic, Alicia Noemi. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Córdoba. Instituto Multidisciplinario de Biología Vegetal. Universidad Nacional de Córdoba. Facultad de Ciencias Exactas Físicas y Naturales. Instituto Multidisciplinario de Biología Vegetal; ArgentinaFil: Sosa, Victoria. Instituto de Ecología; MéxicoFil: De-Nova, J. Arturo. Universidad Nacional Autónoma de México. Departamento de Botánica. Instituto de Biología; MéxicoFil: Nylinder, Stephan. University Goteborg; SueciaFil: Cocucci, Andrea Aristides. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Córdoba. Instituto Multidisciplinario de Biología Vegetal. Universidad Nacional de Córdoba. Facultad de Ciencias Exactas Físicas y Naturales. Instituto Multidisciplinario de Biología Vegetal; Argentin
- …
