Patrick Tschopp
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View article: Developmental genetic basis of dorsal spine reduction in acidic-adapted threespine stickleback fish
Developmental genetic basis of dorsal spine reduction in acidic-adapted threespine stickleback fish Open
The repeated evolution of reduced skeletal armour in threespine stickleback provides an excellent model for understanding the genetic basis of morphological change. Here, we investigated the genetic and developmental mechanisms underlying …
View article: Transcriptional and cellular maturation of the chick spinal cord in the context of distinct neuromuscular circuits
Transcriptional and cellular maturation of the chick spinal cord in the context of distinct neuromuscular circuits Open
SUMMARY The chicken spinal cord is a classic model system to study the early specification of neuronal cell types along its anterior-posterior axis. Here, we follow the ensuing maturation dynamics at limb levels with single cell resolution…
View article: Metagenomic Insights Into the Dietary Diversity of the Adaptive Radiation of Cichlid Fishes in Lake Tanganyika
Metagenomic Insights Into the Dietary Diversity of the Adaptive Radiation of Cichlid Fishes in Lake Tanganyika Open
Diet specialisation is a main driver of diversification in many adaptive radiations. Therefore, identifying diet items is essential to characterise trophic specialisations and to understand the dynamics of dietary adaptations. In this stud…
View article: Distinct gene regulatory dynamics drive skeletogenic cell fate convergence during vertebrate embryogenesis
Distinct gene regulatory dynamics drive skeletogenic cell fate convergence during vertebrate embryogenesis Open
View article: Adaptive cellular evolution in the intestinal tracts of hyperdiverse African cichlid fishes
Adaptive cellular evolution in the intestinal tracts of hyperdiverse African cichlid fishes Open
Adaptations related to how nutrients are acquired and processed play a central role in the colonization of novel ecological niches and, therefore, in organismal diversification. While the evolution of feeding structures has been studied ex…
View article: Distinct Gene Regulatory Dynamics Drive Skeletogenic Cell Fate Convergence During Vertebrate Embryogenesis
Distinct Gene Regulatory Dynamics Drive Skeletogenic Cell Fate Convergence During Vertebrate Embryogenesis Open
Cell type repertoires have expanded extensively in metazoan animals, with some clade-specific cells being paramount to their evolutionary success. A prime example are the skeletogenic cells of vertebrates that form the basis of their devel…
View article: Direct reprogramming of non-limb fibroblasts to cells with properties of limb progenitors
Direct reprogramming of non-limb fibroblasts to cells with properties of limb progenitors Open
View article: Self-organized BMP signaling dynamics underlie the development and evolution of digit segmentation patterns in birds and mammals
Self-organized BMP signaling dynamics underlie the development and evolution of digit segmentation patterns in birds and mammals Open
Repeating patterns of synovial joints are a highly conserved feature of articulated digits, with variations in joint number and location resulting in diverse digit morphologies and limb functions across the tetrapod clade. During the devel…
View article: Distinct patterning responses of wing and leg neuromuscular systems to different preaxial polydactylies
Distinct patterning responses of wing and leg neuromuscular systems to different preaxial polydactylies Open
The tetrapod limb has long served as a paradigm to study vertebrate pattern formation and evolutionary diversification. The distal part of the limb, the so-called autopod, is of particular interest in this regard, given the numerous modifi…
View article: Self-organized BMP signaling dynamics underlie the development and evolution of tetrapod digit patterns
Self-organized BMP signaling dynamics underlie the development and evolution of tetrapod digit patterns Open
Repeating patterns of synovial joints are a highly conserved feature of articulated digits, with variations in joint number and location giving rise to a diverse range of digit morphologies and limb functions across the tetrapod clade. Dur…
View article: A method to investigate muscle target‐specific transcriptional signatures of single motor neurons
A method to investigate muscle target‐specific transcriptional signatures of single motor neurons Open
Background Motor neurons in the vertebrate spinal cord have long served as a paradigm to study the transcriptional logic of cell type specification and differentiation. At limb levels, pool‐specific transcriptional signatures first restric…
View article: Direct Reprogramming of Non-limb Fibroblasts to Cells with Properties of Limb Progenitors
Direct Reprogramming of Non-limb Fibroblasts to Cells with Properties of Limb Progenitors Open
SUMMARY The early limb bud consists of mesenchymal progenitors (limb progenitors) derived from the lateral plate mesoderm (LPM) that produce most of the tissues of the mature limb bud. The LPM also gives rise to the mesodermal components o…
View article: Assessing evolutionary and developmental transcriptome dynamics in homologous cell types
Assessing evolutionary and developmental transcriptome dynamics in homologous cell types Open
Background During development, complex organ patterns emerge through the precise temporal and spatial specification of different cell types. On an evolutionary timescale, these patterns can change, resulting in morphological diversificatio…
View article: Extracellular matrix gene expression signatures as cell type and cell state identifiers
Extracellular matrix gene expression signatures as cell type and cell state identifiers Open
View article: Extracellular matrix gene expression signatures as cell type and cell state identifiers
Extracellular matrix gene expression signatures as cell type and cell state identifiers Open
Transcriptomic signatures based on cellular mRNA expression profiles can be used to categorize cell types and states. Yet whether different functional groups of genes perform better or worse in this process remains largely unexplored. Here…
View article: Assessing evolutionary and developmental transcriptome dynamics in homologous cell types
Assessing evolutionary and developmental transcriptome dynamics in homologous cell types Open
Background During development, complex organ patterns emerge through the precise temporal and spatial specification of different cell types. On an evolutionary timescale, these patterns can change, resulting in morphological diversificatio…
View article: A sense of place, many times over ‐ pattern formation and evolution of repetitive morphological structures
A sense of place, many times over ‐ pattern formation and evolution of repetitive morphological structures Open
Fifty years ago, Lewis Wolpert introduced the concept of “positional information” to explain how patterns form in a multicellular embryonic field. Using morphogen gradients, whose continuous distributions of positional values are discretiz…
View article: The constrained architecture of mammalian <i>Hox</i> gene clusters
The constrained architecture of mammalian <i>Hox</i> gene clusters Open
In many animal species with a bilateral symmetry, Hox genes are clustered either at one or at several genomic loci. This organization has a functional relevance, as the transcriptional control applied to each gene depends upon its relative…
View article: A single-cell transcriptomic atlas of the developing chicken limb
A single-cell transcriptomic atlas of the developing chicken limb Open
View article: A Single-cell Transcriptomic Atlas of the Developing Chicken Limb
A Single-cell Transcriptomic Atlas of the Developing Chicken Limb Open
Background Through precise implementation of distinct cell type specification programs, differentially regulated in both space and time, complex patterns emerge during organogenesis. Thanks to its easy experimental accessibility, the devel…
View article: Constrained Transcriptional Polarity in the Organization of Mammalian<i>Hox</i>Gene Clusters
Constrained Transcriptional Polarity in the Organization of Mammalian<i>Hox</i>Gene Clusters Open
In many animal species with a bilateral symmetry, Hox genes are clustered either at one or at several genomic loci. This organization has a functional relevance, as the transcriptional control applied to each gene depends upon its relative…
View article: Convergent origination of a<i>Drosophila</i>-like dosage compensation mechanism in a reptile lineage
Convergent origination of a<i>Drosophila</i>-like dosage compensation mechanism in a reptile lineage Open
Sex chromosomes differentiated from different ancestral autosomes in various vertebrate lineages. Here, we trace the functional evolution of the XY Chromosomes of the green anole lizard ( Anolis carolinensis ), on the basis of extensive hi…
View article: On the Formation of Digits and Joints during Limb Development
On the Formation of Digits and Joints during Limb Development Open
View article: Deep homology in the age of next-generation sequencing
Deep homology in the age of next-generation sequencing Open
The principle of homology is central to conceptualizing the comparative aspects of morphological evolution. The distinctions between homologous or non-homologous structures have become blurred, however, as modern evolutionary developmental…
View article: TRIM24 Is an Oncogenic Transcriptional Activator in Prostate Cancer
TRIM24 Is an Oncogenic Transcriptional Activator in Prostate Cancer Open