2024
Course on functional diversity analyses in R.
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Functional diversity (FD) analyses in ecology have grown exponentially over the past two decades, broadening our understanding of biological diversity and its change across space and time. Virtually all ecological sub-disciplines recognize the critical value of looking at species and communities from a functional perspective, and this has led to a proliferation of methods for estimating contrasting dimensions of functional diversity. However, differences between these methods and their development generated terminological inconsistencies and confusion about selecting the most appropriate approach for addressing any particular ecological question. This course will delve into the do’s and don’t’s of FD analyses, focusing on the R package BAT – Biodiversity Assessment Tools.
04/11/2024 to 07/11/2024
9:30h to 16:30h
Edifici Complex I+D, ParcBit
Teaching staff
Stefano Mammola (Italian National Research Council, Institute of Water)
Registrations: You can register following this link
Seminar: Anatomy of an adaptive radiation: the red devil spiders of the Canary Islands
Adaptive radiations are a defining feature of island evolution. Oceanic archipelagos, which have emerged from the ocean floor and were never previously connected with the mainland, provide unparalleled opportunities for accidental colonizers to thrive and diversify. However, it is not always easy to identify the patterns and mechanisms underlying species proliferation and ecological adaptation within the context of an adaptive radiation. To address this, we have utilized a combination of molecular phylogenetic analysis, comparative genomics, geometric morphometrics, and experimental evidence to gain insights into the origins and diversification of the red devil spiders of the genus Dysdera in the Canary Islands. The genus is represented by approximately 60 endemic species in this volcanic archipelago. Our phylogenomic data support a single origin of the endemic species, with a single exception, and suggest that the ancestor colonized the archipelago early in the emergence of the present-day islands. The single origin is further supported by the significant reduction in genome size in island species, primarily due to the elimination of repetitive elements. Trophic specialization has played a key role in the diversification of the endemic species, as evidenced by the multiple independent events of oniscophagy and the acceleration of speciation in specialized lineages. Our data also suggest that speciation and adaptation processes are largely independent. The red devil spiders provide one of the most stringent examples of diversification on islands, and the wealth of genomic, morphological, and ecological data available makes this system a valuable model for studying the processes that generate and maintain biodiversity over time.
19/09/2024
12h
Sala de seminarios del Complex de Recerca del Parc Bit
Dr. Miquel Arnedo (Institut de Recerca de la Biodiversitat, Universitat de Barcelona)
Course of species distribution models in R – Sign up!
This course is intended for students, researchers and people interested in creating maps to understand how climate change could affect the distribution of their study species. In it we will learn to download species occurrence data from online biodiversity repositories (such as GBIF), to download and view maps with climate variables in GIS format, and to program and understand what types of algorithms exist for ecological niche modeling (ENM) in R.
24/09/2024 to 27/09/2024
9h to 15h
Edifici Complex I+D, ParcBit
Teaching staff
Sara Varela González (Universidade de Vigo)
Sofía Galván Arcones (Universidade de Vigo)
Registrations: https://fueib.org/es/uibtalent/238/formacion/curso/1266/models-de-distribucio-despecies-en-r
Course of introduction to population genetics theory and RAD-seq Data Analysis
This course will teach participants the basics of population genetics theory and how it is used to make inferences about population processes and species histories. It looks into how genetic diversity patterns change over time and their underlying processes. In addition, it will spotlight micro-evolutionary processes and how they impact species diversity, and how to gain knowledge of species histories. The focus is on understanding how evolutionary processes cause patterns and changes in biological diversity across time and space. In a second module, the course will explore one of the main methods to investigate genetic diversity in populations with limited or no reference genome availability: RAD-seq (Restriction-site Associated DNA sequencing). Herein, the participants will learn how to generate and analyse RAD-seq data and apply common population genetic methods.
02/09/2024 to 06/09/2024
9h to 16h
Edifici Complex I+D, ParcBit
Teaching staff
Narjes Yousefi (University of Zurich)
Hans Kristen Stenøien (Norwegian University of Science and Technology)
Course of introduction to population genetics theory and RAD-seq Data Analysis flyer
Seminar: Why is taxonomy so important?
Taxonomy underpins all biological sciences, and correct identification is essential. A species name allows you to search various databases, sources of literature to retrieve other published information on that species such as distribution, ecology, genetic data etc. Yet many species especially amongst the invertebrates still remain to be described. Taxonomy is not a static science and increasingly in the marine environment as we re-examine some previously described species, we find that they actually represent suites of species which can be resolved by molecular and additional morphological characters. It is really important that taxonomists work closely with other biologists both within and between institutions at national and international levels. Museum collections are critically important in documenting biodiversity. Well organised and databased collections are nationally important to document changes in distributions with climate change or distinguishing between native and introduced species for example. We are facing a critical time for taxonomy where many museums are experiencing reduced funding and hence loss of positions. This discourages students from undertaking taxonomic research if they can see no career paths.
26/06/2024
11h
Sala de seminarios del Complex de Recerca del Parc Bit
Dra. Pat Hutchings https://www.researchgate.net/profile/Pat-Hutchings
Course of introduction to biodiversity analyses in R
Species richness and diversity exhibit temporal and spatial variability influenced by environmental and historical factors. This course aims to familiarize participants with fundamental methodologies applicable in R programming language for biodiversity research. Following a brief recap of the preceding introductory course on R, the primary objectives are (1) to elucidate common statistical models pertinent to biodiversity investigations, including their underlying assumptions and practical application, and (2) to learn the use of DNA-based data (e.g. phylogenies) to tackle relevant questions within biodiversity research.
17/06/2024 to 19/06/2024
10h to 17h
Edifici Antoni Maria Alcover UIB
Teaching staff
Diego Fontaneto (CNR)
Registrations: https://fueib.org/es/uibtalent/238/formacion/curso/1211/introduccio-a-lanalisi-de-la-biodiversitat-a-r
Course of assembly and curation of reference genomes for the Earth Biogenome Project
The Earth Biogenome Project (EBP) aims to sequence, assemble, catalog and characterize the genome of every eukaryotic species on Earth. This is now possible thanks to the substantial advances that have taken place in the last years both in the field of sequencing technologies and bioinformatic resources and tools. Genome assemblies generated as part of the EBP should meet certain standards of quality to ensure their contiguity, accuracy, completeness and chromosomal representation. In this 4-day long course we will focus on how to obtain high-quality chromosome level assemblies by showing how to produce genome assemblies with long-reads and Hi-C data. We will cover all the steps needed to produce and evaluate a genome assembly, paying special attention to the manual curation step.
06/05/2024 to 09/05/2024
10h to 17h
Edifici complex M2 (Carrer Blaise Pascal, 7, Parc Bit)
Teaching staff
Tyler Alioto (CNAG)
Jèssica Gómez-Garrido (CNAG)
Asistencia de Karen Schöninger (CBB-UIB)
Registrations: https://fueib.org/es/uibtalent/238/formacion/curso/1202/muntatge-i-curacio-de-genomes-de-referencia-per-a-learth-biogenome-project
Course of assembly and curation of reference genomes for the Earth Biogenome Project flyer
Course of introduction to sequencing with Nanopore: fundamentals and analysis
In this course we will offer an overview of sequencing with Nanopore, with emphasis on the application of this technology in the study of genome assembly, sequencing of specific areas with laboratory and computer enrichment, amplicon studies and opening other possibilities such as direct sequencing of RNA or detection of epigenetic changes. The course includes theoretical talks, laboratory demonstrations of library preparation and loading of the flowcell for sequencing, as well as the different bioinformatics tools for using the data generated by Nanopore.
15/04/2024 to 17/04/2024
9:30h to 13:30h
Edifici Antoni Maria Alcover UIB
Teaching staff
Dr. Ramón Gallego Simón (UAM)
Ana Isabel Ramón-Laca (MNCN – CSIC)
Asistencia de Lluís Moragues y Laura Triginer (CBB-UIB)
Registrations: https://fueib.org/es/uibtalent/238/formacion/curso/1199/introduccio-a-la-sequenciacio-amb-nanopore-fonaments-i-analisis
Course of introduction to sequencing with Nanopore: fundamentals and analysis flyer
Course of introduction to phylogeny
This introductory course to phylogeny is designed to provide attendees with a solid foundation in the essential concepts of phylogenetics, and provide them with the necessary tools to autonomously analyze the evolutionary relationships between organisms. Throughout the course, participants will learn about the types of data used in phylogenetic studies, the structure and management of the different file formats, as well as the main sequence alignment methods. Various evolutionary models that underpin phylogenetic tree inference methods will be explored, including Maximum Parsimony, Maximum Likelihood, and Bayesian methods.
08/04/2024 to 11/04/2024
9h to 17h
Edifici Antoni Maria Alcover UIB
Teaching staff
Dr. José Antonio Jurado Rivera (UIB)
Dr. Joan Pons Pons (IMEDEA, CSIC-UIB)
Registration: https://fueib.org/es/uibtalent/238/formacion/curso/1192/introduccion-a-la-filogenia
Course of introduction to sample and data management from natural history collection
Introduction course to basic procedures for collecting data and samples. Emphasis will be placed on sample preparation and conservation methods, data management and biodiversity portals (GBIF, Biodibal and CBBapp) will be presented. This course is designed to provide a solid foundation in these fundamental areas of scientific research and biodiversity conservation. During the three days, the basic techniques for the conservation of terrestrial and aquatic samples will be introduced, as well as the proper management of the data associated with these samples. The course will provide the protocols and tools necessary to obtain samples accurately and systematically in different environments.
12/03/2024 to 14/03/2024
9h to 14h
Edifici Antoni Maria Alcover UIB
Teaching staff
Anna Díaz Lorca (CBB-UIB)
María del Puerto Barroso (CBB-UIB)
Tommaso Cancellario (CBB-UIB)
Samuel Piña (UIB)
Course of introduction to sample and data management from natural history collections flyer
Course of introduction to R and Bash
The objective of this course is to provide participants with basic tools for data exploration and the development of their own sequences and commands. During the course, some of the most used commands and objects in data analysis will be explored in two programming languages: R and Bash. After a brief introduction to the two languages and an explanation of their differences, the focus will be on practical resolution of real examples of data description and manipulation.
20/02/2024 to 23/02/2024
9h to 13h
Edifici Antoni Maria Alcover UIB (Aula 5A)
Teaching staff
Tommaso Cancellario (CBB-UIB)
Laura Triniger (CBB-UIB)
Karen Schöninger (CBB-UIB)
Inscription: https://fueib.org/es/uibtalent/238/formacion/curso/1151/introduccio-a-r-i-bash
2023
Workshop “Fundamentos de programación y Bioinformática”
From July 3 to 4, 2023, the CBB organized the “Fundamentos de programación y Bioinformática” workshop with the aim of providing basic tools for data exploration and the development of personal sequences and commands. During the workshop, some of the more important commands in data analysis were explored in three different programming languages: R, Python and Bash. The workshop was led by Tommaso Cancellario, Data Scientist, and Laura Triginer, Bioinformatician, from the Balearic Biodiversity Center, UIB.