Near chromosome-level and highly repetitive genome assembly of the snake pipefish Entelurus aequoreus (Syngnathiformes: Syngnathidae)

Gigabyte, Journal Year: 2024, Volume and Issue: 2024, P. 1 - 13

Published: Jan. 11, 2024

The snake pipefish,

Language: Английский

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The genetic basis of the leafy seadragon’s unique camouflage morphology and avenues for its efficient conservation derived from habitat modeling

Science China Life Sciences, Journal Year: 2023, Volume and Issue: 66(6), P. 1213 - 1230

Published: May 12, 2023

Language: Английский

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Single-cell sequencing provides clues about the developmental genetic basis of evolutionary adaptations in syngnathid fishes

eLife, Journal Year: 2025, Volume and Issue: 13

Published: Feb. 3, 2025

Seahorses, pipefishes, and seadragons are fishes from the family Syngnathidae that have evolved extraordinary traits including male pregnancy, elongated snouts, loss of teeth, dermal bony armor. The developmental genetic cellular changes led to evolution these largely unknown. Recent syngnathid genome assemblies revealed suggestive gene content differences provided opportunity for detailed analyses. We created a single-cell RNA sequencing atlas Gulf pipefish embryos understand basis four traits: derived head shape, toothlessness, armor, pregnancy. completed marker analyses, built networks, examined spatial expression select genes. identified osteochondrogenic mesenchymal cells in elongating face express regulatory genes bmp4, sfrp1a , prdm16 . found no evidence tooth primordia cells, we observed re-deployment osteoblast networks developing Finally, epidermal expressed nutrient processing environmental sensing genes, potentially relevant brooding environment. evolutionary innovations composed recognizable cell types, suggesting features originate within existing networks. Future work addressing across multiple stages species is essential understanding how novelties fish evolved.

Language: Английский

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A comparative analysis of the ontogeny of syngnathids (pipefishes and seahorses) reveals how heterochrony contributed to their diversification

Developmental Dynamics, Journal Year: 2022, Volume and Issue: 252(5), P. 553 - 588

Published: Nov. 10, 2022

Abstract Background Syngnathids are a highly derived and diverse fish clade comprising the pipefishes, pipe‐horses, seahorses. They characterized by plethora of iconic traits that increasingly capture attention biologists, including geneticists, ecologists, developmental biologists. The current understanding origins their body plan is, however, hampered incomplete limited descriptions early syngnathid ontogeny. Results We provide comprehensive description development Nerophis ophidion , Syngnathus typhle Hippocampus erectus from cleavage stages to release male brooding organ beyond, juvenile development. comparatively describe skeletogenesis with particular focus on dermal bony plates, snout‐like jaw morphology, appendages. Conclusions This most detailed account date suggests convergent phenotypes (e.g., reduction loss caudal fins), likely arose distinct ontogenetic means in pipefishes Comparison trajectories S. H. provides indications characteristic features seahorse result truncation. Altogether, this work valuable resource framework for future research understand evolution outlandish morphology perspective.

Language: Английский

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Genome rearrangements, male pregnancy and immunological tolerance – the curious case of the syngnathid immune system

Frontiers in Marine Science, Journal Year: 2023, Volume and Issue: 10

Published: Jan. 26, 2023

The syngnathid fish group (seahorses, pipefishes and seadragons) is a fascinating lineage associated with an array of evolutionary peculiarities that include diverse morphologies their unique male pregnancy. These oddities also extend to immune systems, growing body research highlighting range intriguing immunological characteristics genomic rearrangements, which pose questions regarding history strategies. functional loss the major histocompatibility complex class II pathway (MHC II) in Syngnathus genus related components seahorse ( Hippocampus ) were two discoveries initially piqued interest. This sparked discussions concerning capabilities, possible facilitative roles advanced pregnancy evolution through means evoking tolerance, as well general re-evaluation how we interpret vertebrate plasticity. Experimental approaches have attempted clarify further impact repertoire on efficacy response, specificities pathways play during concept inheritance. first characterization cell typhle using scRNA-seq represents latest step understanding dynamics these enigmatic fish. report serves review for insights into group; encompassing history, populations, links pregnancy, sex specificity, addition future opportunities need investigation.

Language: Английский

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Syngnathoid Evolutionary History and the Conundrum of Fossil Misplacement

Integrative Organismal Biology, Journal Year: 2023, Volume and Issue: 5(1)

Published: Jan. 1, 2023

Synopsis Seahorses, pipefishes, trumpetfishes, shrimpfishes, and allies are a speciose, globally distributed clade of fishes that have evolved large number unusual body plans. The includes all these forms, Syngnathoidei, has become model for the study life history evolution, population biology, biogeography. Yet, timeline syngnathoid evolution remained highly contentious. This debate is largely attributable to nature fossil record, which both poorly described patchy several major lineages. Although syngnathoids been used calibrate molecular phylogenies, interrelationships extinct species their affinities living clades scarcely quantitatively tested. Here, I use an expanded morphological dataset reconstruct evolutionary relationships ages extant syngnathoids. Phylogenies generated using different analytical methodologies congruent with phylogenetic trees Syngnathoidei but consistently find novel placements key taxa as calibrators in phylogenomic studies. Tip-dating phylogeny finds differs slightly from one inferred generally post-Cretaceous diversification event. These results emphasize importance testing species, particularly when they critical assessing divergence times.

Language: Английский

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A comparative analysis of the ontogeny of syngnathids (pipefishes & seahorses) reveals how heterochrony contributed to their diversification

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2022, Volume and Issue: unknown

Published: Aug. 11, 2022

Abstract Background Syngnathids are a highly derived and diverse fish clade comprising the pipefishes, pipe-horses seahorses. They characterized by plethora of iconic traits that increasingly capture attention biologists, including geneticists, ecologists developmental biologists. The current understanding origins their body plan is, however, hampered incomplete limited descriptions early syngnathid ontogeny. Results We provide comprehensive description development Nerophis ophidion , Syngnathus typhle Hippocampus erectus from cleavage stages to release male brooding organ beyond, juvenile development. comparatively describe skeletogenesis with particular focus on dermal bony plates, snout-like jaw morphology, appendages. Conclusions This most detailed account date suggests convergent phenotypes (e.g. reduction loss caudal fins), likely arose distinct ontogenetic means in pipefish Comparison trajectories S. H. provides indications characteristic features seahorse result truncation. Altogether this work valuable resource framework for future research understand evolution outlandish morphology perspective. Bullet points (pipefish, seahorses) taxon many – these traits’ variation across species - develop during study staging table entire pre-release (and beyond) three syngnathids (two phylogenetically pipefishes seahorse) skeletal elements forming cranium, axial skeleton, appendages plate armor. data provided heterochrony, i.e. alterations rate timing processes between lineages, might be central evolutionary process shaping morphological diversity found today.

Language: Английский

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Single Cell RNA Sequencing Provides Clues for the Developmental Genetic Basis of Syngnathidae’s Evolutionary Adaptations

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: April 9, 2024

Seahorses, pipefishes, and seadragons are fishes from the family Syngnathidae that have evolved extraordinary traits including male pregnancy, elongated snouts, loss of teeth, dermal bony armor. The developmental genetic cellular changes led to evolution these largely unknown. Recent syngnathid genome assemblies revealed suggestive gene content differences provide opportunity for detailed analyses. We created a single cell RNA sequencing atlas Gulf pipefish embryos understand basis four traits: derived head shape, toothlessness, armor, pregnancy. completed marker analyses, built networks, examined spatial expression select genes. identified osteochondrogenic mesenchymal cells in elongating face express regulatory genes

Language: Английский

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WGCCRR: a web-based tool for genome-wide screening of convergent indels and substitutions of amino-acids

Bioinformatics Advances, Journal Year: 2024, Volume and Issue: 4(1)

Published: Jan. 1, 2024

Genome-wide analyses of proteincoding gene sequences are being employed to examine the genetic basis adaptive evolution in many organismal groups. Previous studies have revealed that convergent/parallel may be caused by amino acid changes. Similarly, detailed analysis lineage-specific changes has shown correlations with certain traits. However, experimental validation remains ultimate measure causality. With increasing availability genomic data, a streamlined tool for such would facilitate and expedite screening loci hold potential evolution, while alleviating bioinformatic burden biologists. In this study, we present user-friendly web-based called WGCCRR (Whole Genome Comparative Coding Region Read) designed screen both on genome-wide scale. Our allows users replicate previous just few clicks, exported results straightforward interpret. addition, also included indels usually neglected work. website provides an efficient platform candidate downstream tests.

Language: Английский

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Single Cell RNA Sequencing Provides Clues for the Developmental Genetic Basis of Syngnathidae’s Evolutionary Adaptations

eLife, Journal Year: 2024, Volume and Issue: unknown

Published: June 5, 2024

Seahorses, pipefishes, and seadragons are fishes from the family Syngnathidae that have evolved extraordinary traits including male pregnancy, elongated snouts, loss of teeth, dermal bony armor. The developmental genetic cellular changes led to evolution these largely unknown. Recent syngnathid genome assemblies revealed suggestive gene content differences provide opportunity for detailed analyses. We created a single cell RNA sequencing atlas Gulf pipefish embryos understand basis four traits: derived head shape, toothlessness, armor, pregnancy. completed marker analyses, built networks, examined spatial expression select genes. identified osteochondrogenic mesenchymal cells in elongating face express regulatory genes bmp4, sfrp1a , prdm16 . found no evidence tooth primordia cells, we observed re-deployment osteoblast networks developing Finally, epidermal expressed nutrient processing environmental sensing genes, potentially relevant brooding environment. evolutionary innovations composed recognizable types, suggesting features originate within existing networks. Future work addressing across multiple stages species is essential understanding how their novelties evolved.

Language: Английский

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