1
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Kawamura K, Fujiwara S. The transcription factor AP2 and downstream genes shared by asexual reproduction and zooidal regeneration in the tunicate, Polyandrocarpa misakiensis. Cells Dev 2024; 177:203885. [PMID: 38007002 DOI: 10.1016/j.cdev.2023.203885] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2023] [Revised: 11/05/2023] [Accepted: 11/12/2023] [Indexed: 11/27/2023]
Abstract
Epithelial outpocketing, tunic softening, mesenchymal cell death, dedifferentiation/transdifferentiation, and resistance to environmental stress are major events that occur during asexual reproduction by budding in the tunicate, Polyandrocarpa misakiensis. To identify the molecules underlying these events and compare them with those operating in regeneration, differential gene expression profiles were developed in buds and zooids. Among approximately 40,000 contigs, 21 genes were identified as potentially being involved in asexual reproduction. Genes related to tunic softening, phagocytosis-stimulating opsonin, and stress resistance were activated in the very early stage of budding. At the later stage of budding when buds separated from the parent and entered the developmental stage, genes for cell adhesion, cell death, and differentiation were activated. The transcription factor AP2 was spatio-temporally expressed in a similar pattern to the tunic-softening gene endoglucanase (EndoG). AP2 mRNA activated EndoG when introduced into zooids by electroporation. Eight out of 21 budding-related genes were significantly activated by AP2 mRNA. Polyandrocarpa zooids possess regenerative potential other than budding. Zooidal regeneration accompanied cell death/phagocytosis, cell-cell adhesion/communication, and dedifferentiation/redifferentiation. Consistent with morphological features, eight related genes including SP8 transcription factor were activated during zooidal regeneration. Most of these genes were identical to those induced by AP2 mRNA, indicating that asexual reproduction in P. misakiensis shares AP2-regulated downstream genes with zooidal regeneration. The present results suggest that SP8 may be indispensable for both budding and regeneration and that the potential dedifferentiation-related gene SOXB1 plays a minor role in zooidal regeneration.
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Affiliation(s)
- Kaz Kawamura
- Laboratory of Cellular and Molecular Biotechnology, Faculty of Science, Kochi University, Kochi 780, Japan.
| | - Shigeki Fujiwara
- Laboratory of Cellular and Molecular Biotechnology, Faculty of Science, Kochi University, Kochi 780, Japan; Department of Chemistry and Biotechnology, Faculty of Science and Technology, Kochi University, Kochi 780, Japan.
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2
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Sumner JT, Andrasz CL, Johnson CA, Wax S, Anderson P, Keeling EL, Davidson JM. De novo genome assembly and comparative genomics for the colonial ascidian Botrylloides violaceus. G3 (BETHESDA, MD.) 2023; 13:jkad181. [PMID: 37555394 PMCID: PMC10542563 DOI: 10.1093/g3journal/jkad181] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/25/2023] [Revised: 01/25/2023] [Accepted: 07/12/2023] [Indexed: 08/10/2023]
Abstract
Ascidians have the potential to reveal fundamental biological insights related to coloniality, regeneration, immune function, and the evolution of these traits. This study implements a hybrid assembly technique to produce a genome assembly and annotation for the botryllid ascidian, Botrylloides violaceus. A hybrid genome assembly was produced using Illumina, Inc. short and Oxford Nanopore Technologies long-read sequencing technologies. The resulting assembly is comprised of 831 contigs, has a total length of 121 Mbp, N50 of 1 Mbp, and a BUSCO score of 96.1%. Genome annotation identified 13 K protein-coding genes. Comparative genomic analysis with other tunicates reveals patterns of conservation and divergence within orthologous gene families even among closely related species. Characterization of the Wnt gene family, encoding signaling ligands involved in development and regeneration, reveals conserved patterns of subfamily presence and gene copy number among botryllids. This supports the use of genomic data from nonmodel organisms in the investigation of biological phenomena.
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Affiliation(s)
- Jack T Sumner
- Department of Biological Sciences, California Polytechnic State University, San Luis Obispo, CA 93407, USA
| | - Cassidy L Andrasz
- Department of Biological Sciences, California Polytechnic State University, San Luis Obispo, CA 93407, USA
| | - Christine A Johnson
- Department of Biological Sciences, California Polytechnic State University, San Luis Obispo, CA 93407, USA
| | - Sarah Wax
- Department of Biological Sciences, California Polytechnic State University, San Luis Obispo, CA 93407, USA
| | - Paul Anderson
- Department of Computer Science and Software Engineering, California Polytechnic State University, San Luis Obispo, CA 93407, USA
| | - Elena L Keeling
- Department of Biological Sciences, California Polytechnic State University, San Luis Obispo, CA 93407, USA
| | - Jean M Davidson
- Department of Biological Sciences, California Polytechnic State University, San Luis Obispo, CA 93407, USA
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3
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Comparing dormancy in two distantly related tunicates reveals morphological, molecular, and ecological convergences and repeated co-option. Sci Rep 2022; 12:12620. [PMID: 35871255 PMCID: PMC9308810 DOI: 10.1038/s41598-022-16656-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2022] [Accepted: 07/13/2022] [Indexed: 11/08/2022] Open
Abstract
AbstractMany asexually-propagating marine invertebrates can survive extreme environmental conditions by developing dormant structures, i.e., morphologically simplified bodies that retain the capacity to completely regenerate a functional adult when conditions return to normal. Here, we examine the environmental, morphological, and molecular characteristics of dormancy in two distantly related clonal tunicate species: Polyandrocarpa zorritensis and Clavelina lepadiformis. In both species, we report that the dormant structures are able to withstand harsher temperature and salinity conditions compared to the adults. The dormant structures are the dominant forms these species employ to survive adverse conditions when the zooids themselves cannot survive. While previous work shows C. lepadiformis dormant stage is present in winters in the Atlantic Ocean and summers in the Mediterranean, this study is the first to show a year-round presence of P. zorritensis dormant forms in NW Italy, even in the late winter when all zooids have disappeared. By finely controlling the entry and exit of dormancy in laboratory-reared individuals, we were able to select and characterize the morphology of dormant structures associated with their transcriptome dynamics. In both species, we identified putative stem and nutritive cells in structures that resemble the earliest stages of asexual propagation. By characterizing gene expression during dormancy and regeneration into the adult body plan (i.e., germination), we observed that genes which control dormancy and environmental sensing in other metazoans, notably HIF-α and insulin signaling genes, are also expressed in tunicate dormancy. Germination-related genes in these two species, such as the retinoic acid pathway, are also found in other unrelated clonal tunicates during asexual development. These results are suggestive of repeated co-option of conserved eco-physiological and regeneration programs for the origin of novel dormancy-germination processes across distantly related animal taxa.
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4
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Daugavet MA, Dobrynina MI, Shaposhnikova TG, Solovyeva AI, Mittenberg AG, Shabelnikov SV, Babkina IY, Grinchenko AV, Ilyaskina DV, Podgornaya OI. New putative phenol oxidase in ascidian blood cells. Sci Rep 2022; 12:14326. [PMID: 35995990 PMCID: PMC9395347 DOI: 10.1038/s41598-022-18283-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2022] [Accepted: 08/09/2022] [Indexed: 11/13/2022] Open
Abstract
The phenol oxidase system is ancient and ubiquitously distributed in all living organisms. In various groups it serves for the biosynthesis of pigments and neurotransmitters (dopamine), defence reactions and tissue hardening. Ascidians belong to subphylum Tunicata, which is considered the closest living relative to Vertebrates. Two phenol oxidases previously described for ascidians are vertebrate-like and arthropod-like phenol oxidases. In our present study, we described a new ascidian protein, Tuphoxin, with putative phenol oxidase function, which bears no sequence similarity with two enzymes described previously. The closest related proteins to Tuphoxin are mollusc haemocyanins. Unlike haemocyanins, which are oxygen transporting plasma proteins, Tuphoxin is synthesised in ascidian blood cells and secreted in the extracellular matrix of the tunic—ascidian outer coverings. Single mature transcript coding for this phenol oxidase can give several protein products of different sizes. Thus limited proteolysis of the initial protein is suggested. A unique feature of Tuphoxins and their homologues among Tunicata is the presence of thrombospondin first type repeats (TSP1) domain in their sequence which is supposed to provide interaction with extracellular matrix. The finding of TSP1 in the structure of phenol oxidases is new and we consider this to be an innovation of Tunicata evolutionary lineage.
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Affiliation(s)
- M A Daugavet
- Institute of Cytology of Russian Academy of Sciences, St. Petersburg, Russia.
| | - M I Dobrynina
- Institute of Cytology of Russian Academy of Sciences, St. Petersburg, Russia
| | | | - A I Solovyeva
- Institute of Cytology of Russian Academy of Sciences, St. Petersburg, Russia.,Zoological Institute of Russian Academy of Sciences, St. Petersburg, Russia
| | - A G Mittenberg
- Institute of Cytology of Russian Academy of Sciences, St. Petersburg, Russia
| | - S V Shabelnikov
- Institute of Cytology of Russian Academy of Sciences, St. Petersburg, Russia
| | - I Yu Babkina
- Saint-Petersburg State University, St. Petersburg, Russia
| | - A V Grinchenko
- A.V. Zhirmunsky National Scientific Center of Marine Biology, Vladivostok, Russia
| | - D V Ilyaskina
- A.V. Zhirmunsky National Scientific Center of Marine Biology, Vladivostok, Russia.,Vrije Universiteit Amsterdam, 1081 HV, Amsterdam, The Netherlands
| | - O I Podgornaya
- Institute of Cytology of Russian Academy of Sciences, St. Petersburg, Russia.,Saint-Petersburg State University, St. Petersburg, Russia
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5
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Ricci L, Salmon B, Olivier C, Andreoni-Pham R, Chaurasia A, Alié A, Tiozzo S. The Onset of Whole-Body Regeneration in Botryllus schlosseri: Morphological and Molecular Characterization. Front Cell Dev Biol 2022; 10:843775. [PMID: 35237607 PMCID: PMC8882763 DOI: 10.3389/fcell.2022.843775] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2021] [Accepted: 01/19/2022] [Indexed: 11/24/2022] Open
Abstract
Colonial tunicates are the only chordates that regularly regenerate a fully functional whole body as part of their asexual life cycle, starting from specific epithelia and/or mesenchymal cells. In addition, in some species, whole-body regeneration (WBR) can also be triggered by extensive injuries, which deplete most of their tissues and organs and leave behind only small fragments of their body. In this manuscript, we characterized the onset of WBR in Botryllus schlosseri, one colonial tunicate long used as a laboratory model. We first analyzed the transcriptomic response to a WBR-triggering injury. Then, through morphological characterization, in vivo observations via time-lapse, vital dyes, and cell transplant assays, we started to reconstruct the dynamics of the cells triggering regeneration, highlighting an interplay between mesenchymal and epithelial cells. The dynamics described here suggest that WBR in B. schlosseri is initiated by extravascular tissue fragments derived from the injured individuals rather than particular populations of blood-borne cells, as has been described in closely related species. The morphological and molecular datasets here reported provide the background for future mechanistic studies of the WBR ontogenesis in B. schlosseri and allow to compare it with other regenerative processes occurring in other tunicate species and possibly independently evolved.
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Affiliation(s)
- Lorenzo Ricci
- Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), CNRS, Sorbonne University, Paris, France
- Institute for Research on Cancer and Aging in Nice (IRCAN), CNRS, INSERM, Université Côte d’Azur, Nice, France
| | - Bastien Salmon
- Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), CNRS, Sorbonne University, Paris, France
| | - Caroline Olivier
- Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), CNRS, Sorbonne University, Paris, France
| | - Rita Andreoni-Pham
- Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), CNRS, Sorbonne University, Paris, France
- Institute for Research on Cancer and Aging in Nice (IRCAN), CNRS, INSERM, Université Côte d’Azur, Nice, France
| | - Ankita Chaurasia
- Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), CNRS, Sorbonne University, Paris, France
| | - Alexandre Alié
- Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), CNRS, Sorbonne University, Paris, France
| | - Stefano Tiozzo
- Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), CNRS, Sorbonne University, Paris, France
- *Correspondence: Stefano Tiozzo,
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6
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Abstract
In his prominent book Regeneration (1901), T.H. Morgan's collected and synthesized theoretical and experimental findings from a diverse array of regenerating animals and plants. Through his endeavor, he introduced a new way to study regeneration and its evolution, setting a conceptual framework that still guides today's research and that embraces the contemporary evolutionary and developmental approaches.In the first part of the chapter, we summarize Morgan's major tenets and use it as a narrative thread to advocate interpreting regenerative biology through the theoretical tools provided by evolution and developmental biology, but also to highlight potential caveats resulting from the rapid proliferation of comparative studies and from the expansion of experimental laboratory models. In the second part, we review some experimental evo-devo approaches, highlighting their power and some of their interpretative dangers. Finally, in order to further understand the evolution of regenerative abilities, we portray an adaptive perspective on the evolution of regeneration and suggest a framework for investigating the adaptive nature of regeneration.
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Affiliation(s)
| | - Alexandre Alié
- Sorbonne Université, CNRS, Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), Villefranche-sur-Mer, France
| | - Stefano Tiozzo
- Sorbonne Université, CNRS, Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), Villefranche-sur-Mer, France.
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7
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Rinkevich B, Ballarin L, Martinez P, Somorjai I, Ben-Hamo O, Borisenko I, Berezikov E, Ereskovsky A, Gazave E, Khnykin D, Manni L, Petukhova O, Rosner A, Röttinger E, Spagnuolo A, Sugni M, Tiozzo S, Hobmayer B. A pan-metazoan concept for adult stem cells: the wobbling Penrose landscape. Biol Rev Camb Philos Soc 2021; 97:299-325. [PMID: 34617397 PMCID: PMC9292022 DOI: 10.1111/brv.12801] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2021] [Revised: 09/20/2021] [Accepted: 09/22/2021] [Indexed: 12/17/2022]
Abstract
Adult stem cells (ASCs) in vertebrates and model invertebrates (e.g. Drosophila melanogaster) are typically long‐lived, lineage‐restricted, clonogenic and quiescent cells with somatic descendants and tissue/organ‐restricted activities. Such ASCs are mostly rare, morphologically undifferentiated, and undergo asymmetric cell division. Characterized by ‘stemness’ gene expression, they can regulate tissue/organ homeostasis, repair and regeneration. By contrast, analysis of other animal phyla shows that ASCs emerge at different life stages, present both differentiated and undifferentiated phenotypes, and may possess amoeboid movement. Usually pluri/totipotent, they may express germ‐cell markers, but often lack germ‐line sequestering, and typically do not reside in discrete niches. ASCs may constitute up to 40% of animal cells, and participate in a range of biological phenomena, from whole‐body regeneration, dormancy, and agametic asexual reproduction, to indeterminate growth. They are considered legitimate units of selection. Conceptualizing this divergence, we present an alternative stemness metaphor to the Waddington landscape: the ‘wobbling Penrose’ landscape. Here, totipotent ASCs adopt ascending/descending courses of an ‘Escherian stairwell’, in a lifelong totipotency pathway. ASCs may also travel along lower stemness echelons to reach fully differentiated states. However, from any starting state, cells can change their stemness status, underscoring their dynamic cellular potencies. Thus, vertebrate ASCs may reflect just one metazoan ASC archetype.
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Affiliation(s)
- Baruch Rinkevich
- Israel Oceanographic & Limnological Research, National Institute of Oceanography, POB 9753, Tel Shikmona, Haifa, 3109701, Israel
| | - Loriano Ballarin
- Department of Biology, University of Padova, Via Ugo Bassi 58/B, Padova, 35121, Italy
| | - Pedro Martinez
- Departament de Genètica, Microbiologia i Estadística, Universitat de Barcelona, Av. Diagonal 643, Barcelona, 08028, Spain.,Institut Català de Recerca i Estudis Avançats (ICREA), Passeig Lluís Companys 23, Barcelona, 08010, Spain
| | - Ildiko Somorjai
- School of Biology, University of St Andrews, St Andrews, Fife, KY16 9ST, Scotland, UK
| | - Oshrat Ben-Hamo
- Israel Oceanographic & Limnological Research, National Institute of Oceanography, POB 9753, Tel Shikmona, Haifa, 3109701, Israel
| | - Ilya Borisenko
- Department of Embryology, Faculty of Biology, Saint-Petersburg State University, University Embankment, 7/9, Saint-Petersburg, 199034, Russia
| | - Eugene Berezikov
- European Research Institute for the Biology of Ageing, University of Groningen, University Medical Center Groningen, Antonius Deusinglaan 1, Groningen, 9713 AV, The Netherlands
| | - Alexander Ereskovsky
- Department of Embryology, Faculty of Biology, Saint-Petersburg State University, University Embankment, 7/9, Saint-Petersburg, 199034, Russia.,Institut Méditerranéen de Biodiversité et d'Ecologie marine et continentale (IMBE), Aix Marseille University, CNRS, IRD, Avignon University, Jardin du Pharo, 58 Boulevard Charles Livon, Marseille, 13007, France.,Koltzov Institute of Developmental Biology of Russian Academy of Sciences, Ulitsa Vavilova, 26, Moscow, 119334, Russia
| | - Eve Gazave
- Université de Paris, CNRS, Institut Jacques Monod, Paris, F-75006, France
| | - Denis Khnykin
- Department of Pathology, Oslo University Hospital, Bygg 19, Gaustad Sykehus, Sognsvannsveien 21, Oslo, 0188, Norway
| | - Lucia Manni
- Department of Biology, University of Padova, Via Ugo Bassi 58/B, Padova, 35121, Italy
| | - Olga Petukhova
- Collection of Vertebrate Cell Cultures, Institute of Cytology, Russian Academy of Sciences, Tikhoretsky Ave. 4, St. Petersburg, 194064, Russia
| | - Amalia Rosner
- Israel Oceanographic & Limnological Research, National Institute of Oceanography, POB 9753, Tel Shikmona, Haifa, 3109701, Israel
| | - Eric Röttinger
- Université Côte d'Azur, CNRS, INSERM, Institute for Research on Cancer and Aging, Nice (IRCAN), Nice, 06107, France.,Université Côte d'Azur, Federative Research Institute - Marine Resources (IFR MARRES), 28 Avenue de Valrose, Nice, 06103, France
| | - Antonietta Spagnuolo
- Department of Biology and Evolution of Marine Organisms, Stazione Zoologica Anton Dohrn, Villa Comunale, Naples, 80121, Italy
| | - Michela Sugni
- Department of Environmental Science and Policy (ESP), Università degli Studi di Milano, Via Celoria 26, Milan, 20133, Italy
| | - Stefano Tiozzo
- Sorbonne Université, CNRS, Laboratoire de Biologie du Développement de Villefranche-sur-mer (LBDV), 06234 Villefranche-sur-Mer, Villefranche sur Mer, Cedex, France
| | - Bert Hobmayer
- Institute of Zoology and Center for Molecular Biosciences, University of Innsbruck, Technikerstr, Innsbruck, 256020, Austria
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8
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Gordon T, Upadhyay AK, Manni L, Huchon D, Shenkar N. And Then There Were Three…: Extreme Regeneration Ability of the Solitary Chordate Polycarpa mytiligera. Front Cell Dev Biol 2021; 9:652466. [PMID: 33937252 PMCID: PMC8083962 DOI: 10.3389/fcell.2021.652466] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2021] [Accepted: 03/15/2021] [Indexed: 12/19/2022] Open
Abstract
Extensive regenerative ability is a common trait of animals capable of asexual development. The current study reveals the extraordinary regeneration abilities of the solitary ascidian Polycarpa mytiligera. Dissection of a single individual into separate fragments along two body axes resulted in the complete regeneration of each fragment into an independent, functional individual. The ability of a solitary ascidian, incapable of asexual development, to achieve bidirectional regeneration and fully regenerate all body structures and organs is described here for the first time. Amputation initiated cell proliferation in proximity to the amputation line. Phylogenetic analysis demonstrated the close affinity of P. mytiligera to colonial species. This evolutionary proximity suggests the ability for regeneration as an exaptation feature for colonial lifestyle. P. mytiligera’s exceptional regenerative abilities and phylogenetic position highlight its potential to serve as a new comparative system for studies seeking to uncover the evolution of regeneration and coloniality among the chordates.
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Affiliation(s)
- Tal Gordon
- School of Zoology, George S. Wise Faculty of Life Sciences, Tel-Aviv University, Tel-Aviv, Israel
| | - Arnav Kumar Upadhyay
- School of Zoology, George S. Wise Faculty of Life Sciences, Tel-Aviv University, Tel-Aviv, Israel
| | - Lucia Manni
- Department of Biology, University of Padua, Padua, Italy
| | - Dorothée Huchon
- School of Zoology, George S. Wise Faculty of Life Sciences, Tel-Aviv University, Tel-Aviv, Israel.,The Steinhardt Museum of Natural History, Israel National Center for Biodiversity Studies, Tel-Aviv University, Tel-Aviv, Israel
| | - Noa Shenkar
- School of Zoology, George S. Wise Faculty of Life Sciences, Tel-Aviv University, Tel-Aviv, Israel.,The Steinhardt Museum of Natural History, Israel National Center for Biodiversity Studies, Tel-Aviv University, Tel-Aviv, Israel
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9
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Taverna A, de Aranzamendi MC, Maggioni T, Alurralde G, Turon X, Tatián M. Morphology, genetics, and historical records support the synonymy of two ascidian species and suggest their spread throughout areas of the Southern Hemisphere. INVERTEBR SYST 2021. [DOI: 10.1071/is20060] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
Taxonomic uncertainties and the lack of ecological knowledge can hinder the correct identification and the assignment of biogeographic status of marine species. The ascidian Asterocarpa humilis (Heller, 1878), originally described from New Zealand, has a broad distribution in shallow temperate areas of the Southern Hemisphere, having recently colonised areas of the Northern Hemisphere. A closely related species, Cnemidocarpa robinsoni Hartmeyer, 1916, has been reported in the South-Eastern Pacific and the South-Western Atlantic, and several authors considered it a junior synonym of A. humilis. We gathered for the first time morphological and genetic data from specimens from distant areas. We studied the morphology of specimens collected at seven locations of South America. We also re-examined specimens from museum collections and revised the available literature on these species. Genetic data were obtained from specimens from Argentina and compared with available sequences of A. humilis from Chile, New Zealand, England and France. Morphological and genetic analyses showed that all compared specimens were conspecific. Furthermore, specimens from different continents shared haplotypes and exhibited low genetic distance among them. These results, the biological characteristics of this ascidian, and its longstanding presence in different habitats from disjoint areas, allow us to question its native range. We support the idea that A. humilis is a cryptogenic and neocosmopolitan species that has been transported by maritime traffic through the Southern Hemisphere, revealing frequent processes of exchange through this wide area for more than a century, with presumably associated alterations in the marine biota.
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10
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Leclère L, Nir TS, Bazarsky M, Braitbard M, Schneidman-Duhovny D, Gat U. Dynamic Evolution of the Cthrc1 Genes, a Newly Defined Collagen-Like Family. Genome Biol Evol 2020; 12:3957-3970. [PMID: 32022859 PMCID: PMC7058181 DOI: 10.1093/gbe/evaa020] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/28/2020] [Indexed: 12/11/2022] Open
Abstract
Collagen triple helix repeat containing protein 1 (Cthrc1) is a secreted glycoprotein reported to regulate collagen deposition and to be linked to the Transforming growth factor β/Bone morphogenetic protein and the Wnt/planar cell polarity pathways. It was first identified as being induced upon injury to rat arteries and was found to be highly expressed in multiple human cancer types. Here, we explore the phylogenetic and evolutionary trends of this metazoan gene family, previously studied only in vertebrates. We identify Cthrc1 orthologs in two distant cnidarian species, the sea anemone Nematostella vectensis and the hydrozoan Clytia hemisphaerica, both of which harbor multiple copies of this gene. We find that Cthrc1 clade-specific diversification occurred multiple times in cnidarians as well as in most metazoan clades where we detected this gene. Many other groups, such as arthropods and nematodes, have entirely lost this gene family. Most vertebrates display a single highly conserved gene, and we show that the sequence evolutionary rate of Cthrc1 drastically decreased within the gnathostome lineage. Interestingly, this reduction coincided with the origin of its conserved upstream neighboring gene, Frizzled 6 (FZD6), which in mice has been shown to functionally interact with Cthrc1. Structural modeling methods further reveal that the yet uncharacterized C-terminal domain of Cthrc1 is similar in structure to the globular C1q superfamily domain, also found in the C-termini of collagens VIII and X. Thus, our studies show that the Cthrc1 genes are a collagen-like family with a variable short collagen triple helix domain and a highly conserved C-terminal domain structure resembling the C1q family.
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Affiliation(s)
- Lucas Leclère
- Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), Sorbonne Université, CNRS, Villefranche-sur-Mer, France
| | - Tal S Nir
- Department of Cell and Developmental Biology, Silberman Life Sciences Institute, The Hebrew University of Jerusalem, Israel
| | - Michael Bazarsky
- Department of Cell and Developmental Biology, Silberman Life Sciences Institute, The Hebrew University of Jerusalem, Israel
| | - Merav Braitbard
- Department of Biochemistry, Silberman Life Sciences Institute, The Hebrew University of Jerusalem, Israel
| | - Dina Schneidman-Duhovny
- Department of Biochemistry, Silberman Life Sciences Institute, The Hebrew University of Jerusalem, Israel.,School of Computer Science and Engineering, The Hebrew University of Jerusalem, Israel
| | - Uri Gat
- Department of Cell and Developmental Biology, Silberman Life Sciences Institute, The Hebrew University of Jerusalem, Israel
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11
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Coulcher JF, Roure A, Chowdhury R, Robert M, Lescat L, Bouin A, Carvajal Cadavid J, Nishida H, Darras S. Conservation of peripheral nervous system formation mechanisms in divergent ascidian embryos. eLife 2020; 9:e59157. [PMID: 33191918 PMCID: PMC7710358 DOI: 10.7554/elife.59157] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2020] [Accepted: 11/13/2020] [Indexed: 01/23/2023] Open
Abstract
Ascidians with very similar embryos but highly divergent genomes are thought to have undergone extensive developmental system drift. We compared, in four species (Ciona and Phallusia for Phlebobranchia, Molgula and Halocynthia for Stolidobranchia), gene expression and gene regulation for a network of six transcription factors regulating peripheral nervous system (PNS) formation in Ciona. All genes, but one in Molgula, were expressed in the PNS with some differences correlating with phylogenetic distance. Cross-species transgenesis indicated strong levels of conservation, except in Molgula, in gene regulation despite lack of sequence conservation of the enhancers. Developmental system drift in ascidians is thus higher for gene regulation than for gene expression and is impacted not only by phylogenetic distance, but also in a clade-specific manner and unevenly within a network. Finally, considering that Molgula is divergent in our analyses, this suggests deep conservation of developmental mechanisms in ascidians after 390 My of separate evolution.
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Affiliation(s)
- Joshua F Coulcher
- Sorbonne Université, CNRS, Biologie Intégrative des Organismes Marins (BIOM)Banyuls-sur-MerFrance
| | - Agnès Roure
- Sorbonne Université, CNRS, Biologie Intégrative des Organismes Marins (BIOM)Banyuls-sur-MerFrance
| | - Rafath Chowdhury
- Sorbonne Université, CNRS, Biologie Intégrative des Organismes Marins (BIOM)Banyuls-sur-MerFrance
| | - Méryl Robert
- Sorbonne Université, CNRS, Biologie Intégrative des Organismes Marins (BIOM)Banyuls-sur-MerFrance
| | - Laury Lescat
- Sorbonne Université, CNRS, Biologie Intégrative des Organismes Marins (BIOM)Banyuls-sur-MerFrance
| | - Aurélie Bouin
- Sorbonne Université, CNRS, Biologie Intégrative des Organismes Marins (BIOM)Banyuls-sur-MerFrance
| | - Juliana Carvajal Cadavid
- Sorbonne Université, CNRS, Biologie Intégrative des Organismes Marins (BIOM)Banyuls-sur-MerFrance
| | - Hiroki Nishida
- Department of Biological Sciences, Graduate School of Science, Osaka UniversityToyonakaJapan
| | - Sébastien Darras
- Sorbonne Université, CNRS, Biologie Intégrative des Organismes Marins (BIOM)Banyuls-sur-MerFrance
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12
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Kassmer SH, Langenbacher AD, De Tomaso AW. Integrin-alpha-6+ Candidate stem cells are responsible for whole body regeneration in the invertebrate chordate Botrylloides diegensis. Nat Commun 2020; 11:4435. [PMID: 32895385 PMCID: PMC7477574 DOI: 10.1038/s41467-020-18288-w] [Citation(s) in RCA: 24] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2020] [Accepted: 07/31/2020] [Indexed: 12/11/2022] Open
Abstract
Colonial ascidians are the only chordates able to undergo whole body regeneration (WBR), during which entire new bodies can be regenerated from small fragments of blood vessels. Here, we show that during the early stages of WBR in Botrylloides diegensis, proliferation occurs only in small, blood-borne cells that express integrin-alpha-6 (IA6), pou3 and vasa. WBR cannot proceed when proliferating IA6+ cells are ablated with Mitomycin C, and injection of a single IA6+ Candidate stem cell can rescue WBR after ablation. Lineage tracing using EdU-labeling demonstrates that donor-derived IA6+ Candidate stem cells directly give rise to regenerating tissues. Inhibitors of either Notch or canonical Wnt signaling block WBR and reduce proliferation of IA6+ Candidate stem cells, indicating that these two pathways regulate their activation. In conclusion, we show that IA6+ Candidate stem cells are responsible for whole body regeneration and give rise to regenerating tissues. Clonal ascidians are able to undergo whole body regeneration (WBR), where entire new bodies can be regenerated from blood vessel fragments. Here, the authors provide evidence in Botrylloides diegensis supporting pou3 and vasa expressing blood-borne cells isolated with anti-IA6 antibody as candidate stem cells responsible for WBR.
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Affiliation(s)
- Susannah H Kassmer
- Molecular, Cellular and Developmental Biology, University of California, UCEN Rd, 93106, Santa Barbara, CA, USA.
| | - Adam D Langenbacher
- Molecular, Cell, and Developmental Biology, University of California, 610 Charles E Young Dr S, Los Angeles, CA, 90095, Los Angeles, CA, USA
| | - Anthony W De Tomaso
- Molecular, Cellular and Developmental Biology, University of California, UCEN Rd, 93106, Santa Barbara, CA, USA
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13
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Daugavet MA, Shabelnikov SV, Podgornaya OI. Amino acid sequence associated with bacteriophage recombination site helps to reveal genes potentially acquired through horizontal gene transfer. BMC Bioinformatics 2020; 21:305. [PMID: 32703190 PMCID: PMC7379824 DOI: 10.1186/s12859-020-03599-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2020] [Accepted: 06/10/2020] [Indexed: 12/04/2022] Open
Abstract
Background Horizontal gene transfer, i.e. the acquisition of genetic material from nonparent organism, is considered an important force driving species evolution. Many cases of horizontal gene transfer from prokaryotes to eukaryotes have been registered, but no transfer mechanism has been deciphered so far, although viruses were proposed as possible vectors in several studies. In agreement with this idea, in our previous study we discovered that in two eukaryotic proteins bacteriophage recombination site (AttP) was adjacent to the regions originating via horizontal gene transfer. In one of those cases AttP site was present inside the introns of cysteine-rich repeats. In the present study we aimed to apply computational tools for finding multiple horizontal gene transfer events in large genome databases. For that purpose we used a sequence of cysteine-rich repeats to identify genes potentially acquired through horizontal transfer. Results HMMER remote similarity search significantly detected 382 proteins containing cysteine-rich repeats. All of them, except 8 sequences, belong to eukaryotes. In 124 proteins the presence of conserved structural domains was predicted. In spite of the fact that cysteine-rich repeats are found almost exclusively in eukaryotic proteins, many predicted domains are most common for prokaryotes or bacteriophages. Ninety-eight proteins out of 124 contain typical prokaryotic domains. In those cases proteins were considered as potentially originating via horizontal transfer. In addition, HHblits search revealed that two domains of the same fungal protein, Glycoside hydrolase and Peptidase M15, have high similarity with proteins of two different prokaryotic species, hinting at independent horizontal gene transfer events. Conclusions Cysteine-rich repeats in eukaryotic proteins are usually accompanied by conserved domains typical for prokaryotes or bacteriophages. These proteins, containing both cysteine-rich repeats, and characteristic prokaryotic domains, might represent multiple independent horizontal gene transfer events from prokaryotes to eukaryotes. We believe that the presence of bacteriophage recombination site inside cysteine-rich repeat coding sequence may facilitate horizontal genes transfer. Thus computational approach, described in the present study, can help finding multiple sequences originated from horizontal transfer in eukaryotic genomes.
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Affiliation(s)
| | | | - Olga I Podgornaya
- Institute of Cytology, St. Petersburg, Russia, 194064.,School of Biomedicine, Far Eastern Federal University, Vladivostok, Russia, 690090.,Department of Cytology and Histology, St. Pb State University, St. Petersburg, Russia, 199034
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14
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Santagata S. Genes with evidence of positive selection as potentially related to coloniality and the evolution of morphological features among the lophophorates and entoprocts. JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION 2020; 336:267-280. [PMID: 32638536 DOI: 10.1002/jez.b.22975] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/10/2019] [Revised: 05/14/2020] [Accepted: 06/03/2020] [Indexed: 02/06/2023]
Abstract
Evolutionary mechanisms that underlie the origins of coloniality among organisms are diverse. Some animal colonies may be comprised strictly of clonal individuals formed from asexual budding or comprised of a chimera of clonal and sexually produced individuals that fuse secondarily. This investigation focuses on select members of the lophophorates and entoprocts whose evolutionary relationships remain enigmatic even in the age of genomics. Using transcriptomic data sets, two coloniality-based hypotheses are tested in a phylogenetic context to find candidate genes showing evidence of positive selection and potentially convergent molecular signatures among solitary species and taxa-forming colonies from aggregate groups or clonal budding. Approximately 22% of the 387 orthogroups tested showed evidence of positive selection in at least one of the three branch-site tests (CODEML, BUSTED, and aBSREL). Only 12 genes could be reliably associated with a developmental function related to traits linked with coloniality, neuroanatomy, or ciliary fields. Genes testing for both positive selection and convergent molecular characters include orthologues of Radial spoke head, Elongation translation initiation factors, SEC13, and Immediate early response gene5. Maximum likelihood analyses included here resulted in tree topologies typical of other phylogenetic investigations based on wider genomic information. Further genomic and experimental evidence will be needed to resolve whether a solitary ancestor with multiciliated cells that formed aggregate groups gave rise to colonial forms in bryozoans (and perhaps the entoprocts) or that the morphological differences exhibited by phoronids and brachiopods represent trait modifications from a colonial ancestor.
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Affiliation(s)
- Scott Santagata
- Department of Biological and Environmental Sciences, Long Island University, Greenvale, New York
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15
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Nydam ML. Evolution of Allorecognition in the Tunicata. BIOLOGY 2020; 9:E129. [PMID: 32560112 PMCID: PMC7344649 DOI: 10.3390/biology9060129] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/09/2020] [Revised: 06/08/2020] [Accepted: 06/12/2020] [Indexed: 11/17/2022]
Abstract
Allorecognition, the ability to distinguish self or kin from unrelated conspecifics, plays several important biological roles in invertebrate animals. Two of these roles include negotiating limited benthic space for colonial invertebrates, and inbreeding avoidance through self-incompatibility systems. Subphylum Tunicata (Phylum Chordata), the sister group to the vertebrates, is a promising group in which to study allorecognition. Coloniality has evolved many times independently in the tunicates, and the best known invertebrate self-incompatibility systems are in tunicates. Recent phylogenomic studies have coalesced around a phylogeny of the Tunicata as well as the Order Stolidobranchia within the Tunicata, providing a path forward for the study of allorecognition in this group.
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Affiliation(s)
- Marie L Nydam
- Math and Science Program, Soka University of America, 1 University Drive, Aliso Viejo, CA 92656, USA
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16
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DeBiasse MB, Colgan WN, Harris L, Davidson B, Ryan JF. Inferring Tunicate Relationships and the Evolution of the Tunicate Hox Cluster with the Genome of Corella inflata. Genome Biol Evol 2020; 12:948-964. [PMID: 32211845 PMCID: PMC7337526 DOI: 10.1093/gbe/evaa060] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 03/20/2020] [Indexed: 12/21/2022] Open
Abstract
Tunicates, the closest living relatives of vertebrates, have served as a foundational model of early embryonic development for decades. Comparative studies of tunicate phylogeny and genome evolution provide a critical framework for analyzing chordate diversification and the emergence of vertebrates. Toward this goal, we sequenced the genome of Corella inflata (Ascidiacea, Phlebobranchia), so named for the capacity to brood self-fertilized embryos in a modified, "inflated" atrial chamber. Combining the new genome sequence for Co. inflata with publicly available tunicate data, we estimated a tunicate species phylogeny, reconstructed the ancestral Hox gene cluster at important nodes in the tunicate tree, and compared patterns of gene loss between Co. inflata and Ciona robusta, the prevailing tunicate model species. Our maximum-likelihood and Bayesian trees estimated from a concatenated 210-gene matrix were largely concordant and showed that Aplousobranchia was nested within a paraphyletic Phlebobranchia. We demonstrated that this relationship is not an artifact due to compositional heterogeneity, as had been suggested by previous studies. In addition, within Thaliacea, we recovered Doliolida as sister to the clade containing Salpida and Pyrosomatida. The Co. inflata genome provides increased resolution of the ancestral Hox clusters of key tunicate nodes, therefore expanding our understanding of the evolution of this cluster and its potential impact on tunicate morphological diversity. Our analyses of other gene families revealed that several cardiovascular associated genes (e.g., BMP10, SCL2A12, and PDE2a) absent from Ci. robusta, are present in Co. inflata. Taken together, our results help clarify tunicate relationships and the genomic content of key ancestral nodes within this phylogeny, providing critical insights into tunicate evolution.
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Affiliation(s)
- Melissa B DeBiasse
- Whitney Laboratory for Marine Bioscience, University of Florida
- Department of Biology, University of Florida, Gainesville
| | - William N Colgan
- Department of Biology, Swarthmore College, Swarthmore, Pennsylvania
| | - Lincoln Harris
- Department of Biology, Swarthmore College, Swarthmore, Pennsylvania
| | - Bradley Davidson
- Department of Biology, Swarthmore College, Swarthmore, Pennsylvania
| | - Joseph F Ryan
- Whitney Laboratory for Marine Bioscience, University of Florida
- Department of Biology, University of Florida, Gainesville
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17
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Hiebert LS, Simpson C, Tiozzo S. Coloniality, clonality, and modularity in animals: The elephant in the room. JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION 2020; 336:198-211. [PMID: 32306502 DOI: 10.1002/jez.b.22944] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/22/2019] [Revised: 03/18/2020] [Accepted: 03/19/2020] [Indexed: 12/12/2022]
Abstract
Nearly half of the animal phyla contain species that propagate asexually via agametic reproduction, often forming colonies of genetically identical modules, that is, ramets, zooids, or polyps. Clonal reproduction, colony formation, and modular organization have important consequences for many aspects of organismal biology. Theories in ecology, evolution, and development are often based on unitary and, mainly, strictly sexually reproducing organisms, and though colonial animals dominate many marine ecosystems and habitats, recognized concepts for the study of clonal species are often lacking. In this review, we present an overview of the study of colonial and clonal animals, from the historic interests in this subject to modern research in a range of topics, including immunology, stem cell biology, aging, biogeography, and ecology. We attempt to portray the fundamental questions lying behind the biology of colonial animals, focusing on how colonial animals challenge several dogmas in biology as well as the remaining puzzles still to be answered, of which there are many.
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Affiliation(s)
- Laurel S Hiebert
- Departamento de Zoologia, Instituto de Biociências, Universidade de São Paulo, São Paulo, Brazil.,Laboratoire de Biologie du Développement de Villefranche-sur-mer (LBDV), Sorbonne Université, CNRS, Paris, France
| | - Carl Simpson
- Department of Geological Sciences and Museum of Natural History, University of Colorado, Boulder, Colorado
| | - Stefano Tiozzo
- Laboratoire de Biologie du Développement de Villefranche-sur-mer (LBDV), Sorbonne Université, CNRS, Paris, France
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18
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Toward a resolution of the cosmopolitan Botryllus schlosseri species complex (Ascidiacea, Styelidae): mitogenomics and morphology of clade E (Botryllus gaiae). Zool J Linn Soc 2020. [DOI: 10.1093/zoolinnean/zlaa023] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
Abstract
Abstract
Botryllus schlosseri is a model colonial ascidian and a marine invader. It is currently recognized as a species complex comprising five genetically divergent clades, with clade A globally distributed and clade E found only in Europe. This taxon has also been recently redescribed by designation of a clade A specimen as the neotype. To clarify the taxonomic status of clade E and its relationship to clade A, we examine the entire mitochondrial genome and study the morphology of clade E. The mitogenome of clade E has an identical gene order to clade A, but substantially differs in the size of several non-coding regions. Remarkably, the nucleotide divergence of clade A-clade E is incompatible with the intraspecies ascidian divergence, but similar to the congeneric one and almost identical to the divergence between species once considered morphologically indistinguishable (e.g. the pair Ciona intestinalis (Linnaeus, 1767)-Ciona robusta Hoshino & Tokioka, 1967, and the pair Botrylloides niger Herdman, 1886-Botrylloides leachii (Savigny, 1816)). Clade E differs morphologically from the Botryllusschlosseri neotype mainly in the number and appearance of the stomach folds, and the shape of the anal opening, the first intestinal loop and the typhlosole. Our integrative taxonomical approach clearly distinguishes clade E as a species separate from Botryllusschlosseri, with unique morphological and molecular characters. Therefore, we here describe clade E as the new species Botryllus gaiae sp. nov.
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19
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Alié A, Hiebert LS, Scelzo M, Tiozzo S. The eventful history of nonembryonic development in tunicates. JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION 2020; 336:250-266. [PMID: 32190983 DOI: 10.1002/jez.b.22940] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2019] [Revised: 02/21/2020] [Accepted: 02/25/2020] [Indexed: 11/06/2022]
Abstract
Tunicates encompass a large group of marine filter-feeding animals and more than half of them are able to reproduce asexually by a particular form of nonembryonic development (NED) generally called budding. The phylogeny of tunicates suggests that asexual reproduction is an evolutionarily plastic trait, a view that is further reinforced by the fact that budding mechanisms differ from one species to another, involving nonhomologous tissues and cells. In this review, we explore more than 150 years of literature to provide an overview of NED diversity and we present a comparative picture of budding tissues across tunicates. Based on the phylogenetic relationships between budding and nonbudding species, we hypothesize that NED diversity is the result of seven independent acquisitions and subsequent diversifications in the course of tunicate evolution. While this scenario represents the state-of-the-art of our current knowledge, we point out gray areas that need to be further explored to refine our understanding of tunicate phylogeny and NED. Tunicates, with their plastic evolution and diversity of budding, represent an ideal playground for evolutionary developmental biologists to unravel the genetic and molecular mechanisms regulating nonembryonic development, as well as to better understand how such a profound innovation in life-history has evolved in numerous metazoans.
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Affiliation(s)
- Alexandre Alié
- Laboratoire de Biologie du Développement de Villefranche-sur-Mer, CNRS, Institut de la Mer de Villefranche, Sorbonne Université, Villefranche-sur-Mer, France
| | - Laurel S Hiebert
- Laboratoire de Biologie du Développement de Villefranche-sur-Mer, CNRS, Institut de la Mer de Villefranche, Sorbonne Université, Villefranche-sur-Mer, France.,Departamento de Zoologia, Instituto de Biociências, Universidade de São Paulo, São Paulo, Brazil
| | - Marta Scelzo
- Laboratoire de Biologie du Développement de Villefranche-sur-Mer, CNRS, Institut de la Mer de Villefranche, Sorbonne Université, Villefranche-sur-Mer, France
| | - Stefano Tiozzo
- Laboratoire de Biologie du Développement de Villefranche-sur-Mer, CNRS, Institut de la Mer de Villefranche, Sorbonne Université, Villefranche-sur-Mer, France
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20
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Strathmann RR. The association of coloniality with parental care of embryos. JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION 2020; 336:221-230. [PMID: 32003133 DOI: 10.1002/jez.b.22929] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/03/2019] [Revised: 12/30/2019] [Accepted: 01/03/2020] [Indexed: 11/05/2022]
Abstract
Many colonial marine animals care for embryos by brooding them on or in their bodies. For brooding to occur, features of the animals must allow it, and brooding must be at least as advantageous as releasing gametes or zygotes. Shared features of diverse colonial brooders are suspension feeding and a body composed of small modules that are indefinitely repeated and can function semi-autonomously, such as polyps or zooids. Suspension feeding permits capture of sperm for fertilization of ova that are retained by the parent. Distribution of broods among numerous small polyps, zooids, or other small modules facilitates supply of oxygen to embryos that are retained and protected by the parent. Brooding increases survival of offspring, controls dispersal, and can provide other developmental advantages. Colonial ascidians, pterobranch hemichordates, and entoprocts brood; most bryozoans and many colonial cnidarians brood. An unanswered question is why so many colonial anthozoans do not brood. Sponges share with colonies capacities for capturing sperm and separating numerous retained embryos yet many do not brood. Hypotheses for nonbrooding by colonies and sponges necessarily must apply to particular taxa. Few have been tested.
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Affiliation(s)
- Richard R Strathmann
- Department of Biology, Friday Harbor Laboratories, University of Washington, Friday Harbor, Washington
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21
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Jiménez-Merino J, Santos de Abreu I, Hiebert LS, Allodi S, Tiozzo S, De Barros CM, Brown FD. Putative stem cells in the hemolymph and in the intestinal submucosa of the solitary ascidian Styela plicata. EvoDevo 2019; 10:31. [PMID: 31788180 PMCID: PMC6876114 DOI: 10.1186/s13227-019-0144-3] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2019] [Accepted: 11/02/2019] [Indexed: 12/28/2022] Open
Abstract
Background In various ascidian species, circulating stem cells have been documented to be involved in asexual reproduction and whole-body regeneration. Studies of these cell population(s) are mainly restricted to colonial species. Here, we investigate the occurrence of circulating stem cells in the solitary Styela plicata, a member of the Styelidae, a family with at least two independent origins of coloniality. Results Using flow cytometry, we characterized a population of circulating putative stem cells (CPSCs) in S. plicata and determined two gates likely enriched with CPSCs based on morphology and aldehyde dehydrogenase (ALDH) activity. We found an ALDH + cell population with low granularity, suggesting a stem-like state. In an attempt to uncover putative CPSCs niches in S. plicata, we performed a histological survey for hemoblast-like cells, followed by immunohistochemistry with stem cell and proliferation markers. The intestinal submucosa (IS) showed high cellular proliferation levels and high frequency of undifferentiated cells and histological and ultrastructural analyses revealed the presence of hemoblast aggregations in the IS suggesting a possible niche. Finally, we document the first ontogenetic appearance of distinct metamorphic circulatory mesenchyme cells, which precedes the emergence of juvenile hemocytes. Conclusions We find CPSCs in the hemolymph of the solitary ascidian Styela plicata, presumably involved in the regenerative capacity of this species. The presence of proliferating and undifferentiated mesenchymal cells suggests IS as a possible niche.
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Affiliation(s)
- Juan Jiménez-Merino
- 1Departamento de Zoologia, Instituto de Biociências, Universidade de São Paulo, Rua do Matão, Trav. 14, São Paulo, SP 101 05508-090 Brazil.,2Centro de Biologia Marinha (CEBIMar), Universidade de São Paulo, São Paulo, Brazil
| | - Isadora Santos de Abreu
- 3Laboratório de Neurobiologia Comparativa e do Desenvolvimento, Pós-Graduação em Ciências Biológicas-Fisiologia, Instituto de Biofísica Carlos Chagas Filho, Universidade Federal do Rio de Janeiro, UFRJ, Rio de Janeiro, RJ Brazil.,4Pós-Graduação em Ciências Morfológicas, Instituto de Ciências Biomédicas, Universidade Federal do Rio de Janeiro, UFRJ, Rio de Janeiro, RJ Brazil
| | - Laurel S Hiebert
- 1Departamento de Zoologia, Instituto de Biociências, Universidade de São Paulo, Rua do Matão, Trav. 14, São Paulo, SP 101 05508-090 Brazil.,2Centro de Biologia Marinha (CEBIMar), Universidade de São Paulo, São Paulo, Brazil
| | - Silvana Allodi
- 3Laboratório de Neurobiologia Comparativa e do Desenvolvimento, Pós-Graduação em Ciências Biológicas-Fisiologia, Instituto de Biofísica Carlos Chagas Filho, Universidade Federal do Rio de Janeiro, UFRJ, Rio de Janeiro, RJ Brazil.,4Pós-Graduação em Ciências Morfológicas, Instituto de Ciências Biomédicas, Universidade Federal do Rio de Janeiro, UFRJ, Rio de Janeiro, RJ Brazil
| | - Stefano Tiozzo
- 5CNRS, Laboratoire de Biologie du Développement de Villefranche-sur-mer (LBDV), Sorbonne Universités, 06230 Paris, France
| | - Cintia M De Barros
- 6Laboratório Integrado de Morfologia, Núcleo em Ecologia e Desenvolvimento Sócio Ambiental de Macaé, NUPEM, Universidade Federal do Rio de Janeiro, UFRJ, Macae, RJ Brazil
| | - Federico D Brown
- 1Departamento de Zoologia, Instituto de Biociências, Universidade de São Paulo, Rua do Matão, Trav. 14, São Paulo, SP 101 05508-090 Brazil.,2Centro de Biologia Marinha (CEBIMar), Universidade de São Paulo, São Paulo, Brazil.,Instituto Nacional de Ciência e Tecnologia em Estudos Interdisciplinares e Transdisciplinares em Ecologia e Evolução (IN-TREE), Salvador, BA Brazil
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22
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Hasegawa N, Kajihara H. A redescription of Syncarpacomposita (Ascidiacea, Stolidobranchia) with an inference of its phylogenetic position within Styelidae. Zookeys 2019; 857:1-15. [PMID: 31293349 PMCID: PMC6603006 DOI: 10.3897/zookeys.857.32654] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/25/2018] [Accepted: 05/06/2019] [Indexed: 01/02/2023] Open
Abstract
Two species of styelid colonial ascidians in the genus Syncarpa Redikorzev, 1913 are known from the northwest Pacific. The valid status of the lesser known species, Syncarpacomposita (Tokioka, 1951) (type locality: Akkeshi, Japan), is assessed here. To assess the taxonomic identity of S.composita, we compared one of the syntypes and freshly collected topotypes of S.composita with a syntype of S.oviformis Redikorzev, 1913 (type locality: Ul’banskij Bay, Russia). Specimens of S.composita consistently differed from the syntype of S.oviformis in the number of oral tentacles, the number of size-classes of transverse vessels, and the number of anal lobes. In this paper, S.composita is redescribed as distinct from S.oviformis, and its phylogenetic position inferred within Styelidae based on the 18S rRNA and cytochrome c oxidase subunit I gene sequences. In our phylogenetic tree, Syncarpa formed a well-supported clade together with Dendrodoa MacLeay, 1824. In Syncarpa and Dendrodoa, a single gonad is situated on the right side of the body, which is unique among Styelidae, and thus can be a synapomorphy for this clade.
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Affiliation(s)
- Naohiro Hasegawa
- Department of Natural History Sciences, Graduate School of Science, Hokkaido University, Kita 10 Nishi 8 Kitaku, Sapporo, Hokkaido 060-0810, Japan Hokkaido University Sapporo Japan
| | - Hiroshi Kajihara
- Faculty of Science, Hokkaido University, Kita 10 Nishi 8 Kitaku, Sapporo, Hokkaido 060-0810, Japan Hokkaido University Sapporo Japan
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23
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Rodriguez D, Nourizadeh S, De Tomaso AW. The biology of the extracorporeal vasculature of Botryllus schlosseri. Dev Biol 2019; 448:309-319. [PMID: 30760410 DOI: 10.1016/j.ydbio.2018.10.013] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2018] [Revised: 09/29/2018] [Accepted: 10/17/2018] [Indexed: 02/08/2023]
Abstract
The extracorporeal vasculature of the colonial ascidian Botryllus schlosseri plays a key role in several biological processes: transporting blood, angiogenesis, regeneration, self-nonself recognition, and parabiosis. The vasculature also interconnects all individuals in a colony and is composed of a single layer of ectodermally-derived cells. These cells form a tube with the basal lamina facing the lumen, and the apical side facing an extracellular matrix that consists of cellulose and other proteins, known as the tunic. Vascular tissue is transparent and can cover several square centimeters, which is much larger than any single individual within the colony. It forms a network that ramifies and expands to the perimeter of each colony and terminates into oval-shaped protrusions known as ampullae. Botryllus individuals replace themselves through a weekly budding cycle, and vasculature is added to ensure the interconnection of each new individual, thus there is continuous angiogenesis occurring naturally. The vascular tissue itself is highly regenerative; surgical removal of the ampullae and peripheral vasculature triggers regrowth within 24-48 h, which includes forming new ampullae. When two individuals, whether in the wild or in the lab, come into close contact and their ampullae touch, they can either undergo parabiosis through anastomosing vessels, or reject vascular fusion. The vasculature is easily manipulated by direct means such as microinjections, microsurgeries, and pharmacological reagents. Its transparent nature allows for in vivo analysis by bright field and fluorescence microscopy. Here we review the techniques and approaches developed to study the different biological processes that involve the extracorporeal vasculature.
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Affiliation(s)
- Delany Rodriguez
- Department of Molecular, Cellular, and Developmental Biology, University of California Santa Barbara, Santa Barbara, CA 93106, USA.
| | - Shane Nourizadeh
- Department of Molecular, Cellular, and Developmental Biology, University of California Santa Barbara, Santa Barbara, CA 93106, USA
| | - Anthony W De Tomaso
- Department of Molecular, Cellular, and Developmental Biology, University of California Santa Barbara, Santa Barbara, CA 93106, USA
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Scelzo M, Alié A, Pagnotta S, Lejeune C, Henry P, Gilletta L, Hiebert LS, Mastrototaro F, Tiozzo S. Novel budding mode in Polyandrocarpa zorritensis: a model for comparative studies on asexual development and whole body regeneration. EvoDevo 2019; 10:7. [PMID: 30984365 PMCID: PMC6446293 DOI: 10.1186/s13227-019-0121-x] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2019] [Accepted: 03/21/2019] [Indexed: 12/26/2022] Open
Abstract
Background In tunicates, the capacity to build an adult body via non-embryonic development (NED), i.e., asexual budding and whole body regeneration, has been gained or lost several times across the whole subphylum. A recent phylogeny of the family Styelidae revealed an independent acquisition of NED in the colonial species Polyandrocarpa zorritensis and highlighted a novel budding mode. In this paper, we provide the first detailed characterization of the asexual life cycle of P. zorritensis. Results Bud formation occurs along a tubular protrusion of the adult epidermis, the stolon, in a vascularized area defined as budding nest. The bud arises through a folding of the epithelia of the stolon with the contribution of undifferentiated mesenchymal cells. This previously unreported mode of bud onset leads to the formation of a double vesicle, which starts to develop into a zooid through morphogenetic mechanisms common to other Styelidae. The budding nest can also continue to accumulate nutrients and develop into a round-shaped structure, designated as spherule, which represents a dormant form able to survive low temperatures. Conclusions To understand the mechanisms of NED and their evolution, it is fundamental to start from a robust phylogenetic framework in order to select relevant species to compare. The anatomical description of P. zorritensis NED provides the foundation for future comparative studies on plasticity of budding and regeneration in tunicates. Electronic supplementary material The online version of this article (10.1186/s13227-019-0121-x) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Marta Scelzo
- 1CNRS, Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), Sorbonne Université, 06230 Villefranche-sur-Mer, France
| | - Alexandre Alié
- 1CNRS, Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), Sorbonne Université, 06230 Villefranche-sur-Mer, France
| | - Sophie Pagnotta
- 2Centre Commun de Microscopie Appliquée, UFR Sciences, Faculté des Sciences del'Université de Nice - Sophia Antipolis, 06108 Nice, France
| | - Camille Lejeune
- 1CNRS, Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), Sorbonne Université, 06230 Villefranche-sur-Mer, France
| | - Pauline Henry
- 1CNRS, Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), Sorbonne Université, 06230 Villefranche-sur-Mer, France
| | - Laurent Gilletta
- 1CNRS, Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), Sorbonne Université, 06230 Villefranche-sur-Mer, France
| | - Laurel S Hiebert
- 1CNRS, Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), Sorbonne Université, 06230 Villefranche-sur-Mer, France.,3Departamento de Zoologia, Instituto Biociências, Universidade de São Paulo, São Paulo, 05508-090 Brazil
| | | | - Stefano Tiozzo
- 1CNRS, Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV), Sorbonne Université, 06230 Villefranche-sur-Mer, France
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Hiebert LS, Vieira EA, Dias GM, Tiozzo S, Brown FD. Colonial ascidians strongly preyed upon, yet dominate the substrate in a subtropical fouling community. Proc Biol Sci 2019; 286:20190396. [PMID: 30914011 DOI: 10.1098/rspb.2019.0396] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
Higher diversity and dominance at lower latitudes has been suggested for colonial species. We verified this pattern in species richness of ascidians, finding that higher colonial-to-solitary species ratios occur in the tropics and subtropics. At the latitudinal region with the highest ratio, in southeastern Brazil, we confirmed that colonial species dominate space on artificial plates in two independent studies of five fouling communities. We manipulated settlement plates to measure effects of predation and competition on growth and survivorship of colonial versus solitary ascidians. Eight species were subjected to a predation treatment, i.e. caged versus exposed to predators, and a competition treatment, i.e. leaving versus removing competitors, to assess main and interactive effects. Predation had a greater effect on growth and survivorship of colonial compared to solitary species, whereas competition did not show consistent patterns. We hypothesize that colonial ascidians dominate at this subtropical site despite being highly preyed upon because they regrow when partially consumed and can adjust in shape and space to grow into refuges. We contend that these means of avoiding mortality from predation can have large influences on diversification patterns of colonial species at low latitudes, where predation intensity is greater.
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Affiliation(s)
- Laurel Sky Hiebert
- 1 Departamento de Zoologia, Instituto de Biociências, Universidade de São Paulo , 05508-090 São Paulo , Brazil.,2 Centro de Biologia Marinha (CEBIMar), Universidade de São Paulo , 11612-109 São Sebastião , Brazil
| | - Edson A Vieira
- 2 Centro de Biologia Marinha (CEBIMar), Universidade de São Paulo , 11612-109 São Sebastião , Brazil.,3 Centro de Ciências Naturais e Humanas, Universidade Federal do ABC , Rua Arcturus 03 Jd Antares, São Bernardo do Campo, 09606-070 São Paulo , Brazil
| | - Gustavo M Dias
- 2 Centro de Biologia Marinha (CEBIMar), Universidade de São Paulo , 11612-109 São Sebastião , Brazil.,3 Centro de Ciências Naturais e Humanas, Universidade Federal do ABC , Rua Arcturus 03 Jd Antares, São Bernardo do Campo, 09606-070 São Paulo , Brazil
| | - Stefano Tiozzo
- 4 Sorbonne Université, CNRS, Laboratoire de Biologie du Développement de Villefranche-sur-Mer (LBDV) , 06230 Villefranche-sur-Mer , France
| | - Federico D Brown
- 1 Departamento de Zoologia, Instituto de Biociências, Universidade de São Paulo , 05508-090 São Paulo , Brazil.,2 Centro de Biologia Marinha (CEBIMar), Universidade de São Paulo , 11612-109 São Sebastião , Brazil.,5 Instituto Nacional de Ciência e Tecnologia em Estudos Interdisciplinares e Transdisciplinares em Ecologia e Evolução (IN-TREE) , Salvador, BA , Brazil
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Prünster MM, Ricci L, Brown FD, Tiozzo S. Modular co-option of cardiopharyngeal genes during non-embryonic myogenesis. EvoDevo 2019; 10:3. [PMID: 30867897 PMCID: PMC6399929 DOI: 10.1186/s13227-019-0116-7] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2018] [Accepted: 02/15/2019] [Indexed: 01/03/2023] Open
Abstract
Background In chordates, cardiac and body muscles arise from different embryonic origins. In addition, myogenesis can be triggered in adult organisms, during asexual development or regeneration. In non-vertebrate chordates like ascidians, muscles originate from embryonic precursors regulated by a conserved set of genes that orchestrate cell behavior and dynamics during development. In colonial ascidians, besides embryogenesis and metamorphosis, an adult can propagate asexually via blastogenesis, skipping embryo and larval stages, and form anew the adult body, including the complete body musculature. Results To investigate the cellular origin and mechanisms that trigger non-embryonic myogenesis, we followed the expression of ascidian myogenic genes during Botryllus schlosseri blastogenesis and reconstructed the dynamics of muscle precursors. Based on the expression dynamics of Tbx1/10, Ebf, Mrf, Myh3 for body wall and of FoxF, Tbx1/10, Nk4, Myh2 for heart development, we show that the embryonic factors regulating myogenesis are only partially co-opted in blastogenesis, and that markers for muscle precursors are expressed in two separate domains: the dorsal tube and the ventral mesenchyma. Conclusions Regardless of the developmental pathway, non-embryonic myogenesis shares a similar molecular and anatomical setup as embryonic myogenesis, but implements a co-option and loss of molecular modules. We then propose that the cellular precursors contributing to heart and body muscles may have different origins and may be coordinated by different developmental pathways. Electronic supplementary material The online version of this article (10.1186/s13227-019-0116-7) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Maria Mandela Prünster
- 1Laboratoire de Biologie du Développement de Villefranche-sur-mer (LBDV), CNRS, Sorbonne Université, 06230 Villefranche sur Mer, France
| | - Lorenzo Ricci
- 1Laboratoire de Biologie du Développement de Villefranche-sur-mer (LBDV), CNRS, Sorbonne Université, 06230 Villefranche sur Mer, France.,2Department of Organismic and Evolutionary Biology, Harvard University, 52 Oxford Street, Cambridge, MA 02138 USA
| | - Federico D Brown
- 3Departamento de Zoologia, Instituto Biociências, Universidade de São Paulo, São Paulo, SP CEP 05508-090 Brazil.,4Centro de Biologia Marinha (CEBIMar), Universidade de São Paulo, São Sebastião, SP CEP 11612-109 Brazil
| | - Stefano Tiozzo
- 1Laboratoire de Biologie du Développement de Villefranche-sur-mer (LBDV), CNRS, Sorbonne Université, 06230 Villefranche sur Mer, France
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