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Wei Z, Yang Y, Meng L, Zhang N, Liu S, Meng L, Li Y, Shao C. The Mitogenomic Landscape of Hexacorallia Corals: Insight into Their Slow Evolution. Int J Mol Sci 2024; 25:8218. [PMID: 39125787 PMCID: PMC11311739 DOI: 10.3390/ijms25158218] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2024] [Revised: 07/10/2024] [Accepted: 07/17/2024] [Indexed: 08/12/2024] Open
Abstract
The utility of the mitochondrial genomes (mitogenomes) in analyzing the evolutionary history of animals has been proven. Five deep-sea corals (Bathypathes sp.1, Bathypathes sp.2, Schizopathidae 1, Trissopathes sp., and Leiopathes sp.) were collected in the South China Sea (SCS). Initially, the structures and collinearity of the five deep-sea coral mitogenomes were analyzed. The gene arrangements in the five deep-sea coral mitogenomes were similar to those in the order Antipatharia, which evidenced their conservation throughout evolutionary history. Additionally, to elucidate the slow evolutionary rates in Hexacorallia mitogenomes, we conducted comprehensive analyses, including examining phylogenetic relationships, performing average nucleotide identity (ANI) analysis, and assessing GC-skew dissimilarity combining five deep-sea coral mitogenomes and 522 reference Hexacorallia mitogenomes. Phylogenetic analysis using 13 conserved proteins revealed that species clustered together at the order level, and they exhibited interspersed distributions at the family level. The ANI results revealed that species had significant similarities (identity > 85%) within the same order, while species from different orders showed notable differences (identity < 80%). The investigation of the Hexacorallia mitogenomes also highlighted that the GC-skew dissimilarity was highly significant at the order level, but not as pronounced at the family level. These results might be attributed to the slow evolution rate of Hexacorallia mitogenomes and provide evidence of mitogenomic diversity. Furthermore, divergence time analysis revealed older divergence times assessed via mitogenomes compared with nuclear data, shedding light on significant evolutionary events shaping distinct orders within Hexacorallia corals. Those findings provide new insights into understanding the slow evolutionary rates of deep-sea corals in all lineages of Hexacorallia using their mitogenomes.
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Affiliation(s)
- Zhanfei Wei
- State Key Laboratory of Mariculture Biobreeding and Sustainable Goods, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao 266071, China;
- BGI-Qingdao, BGI-Shenzhen, Qingdao 266555, China; (Y.Y.); (N.Z.); (S.L.)
| | - Yang Yang
- BGI-Qingdao, BGI-Shenzhen, Qingdao 266555, China; (Y.Y.); (N.Z.); (S.L.)
- College of Marine Life Sciences, Ocean University of China, Qingdao 266100, China
| | - Lihui Meng
- School of Marine Science and Engineering, Qingdao Agricultural University, Qingdao 266109, China;
| | - Nannan Zhang
- BGI-Qingdao, BGI-Shenzhen, Qingdao 266555, China; (Y.Y.); (N.Z.); (S.L.)
| | - Shanshan Liu
- BGI-Qingdao, BGI-Shenzhen, Qingdao 266555, China; (Y.Y.); (N.Z.); (S.L.)
| | - Liang Meng
- BGI-Qingdao, BGI-Shenzhen, Qingdao 266555, China; (Y.Y.); (N.Z.); (S.L.)
| | - Yang Li
- Laboratory of Marine Organism Taxonomy and Phylogeny, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China;
| | - Changwei Shao
- State Key Laboratory of Mariculture Biobreeding and Sustainable Goods, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao 266071, China;
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Molodtsova TN, Moskalenko VN, Lipukhin EV, Antokhina TI, Ananeva MS, Simakova UV. Cerianthus lloydii (Ceriantharia: Anthozoa: Cnidaria): New Status and New Perspectives. BIOLOGY 2023; 12:1167. [PMID: 37759567 PMCID: PMC10525267 DOI: 10.3390/biology12091167] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2023] [Revised: 08/02/2023] [Accepted: 08/09/2023] [Indexed: 09/29/2023]
Abstract
Subclass Ceriantharia is a well-defined and probably ancient group of marine benthic organisms renowned for their bilateral symmetry, which is reflected in the arrangement of tentacles and mesenteries. Four species of Ceriantharia have been reported in the Arctic, including Cerianthus lloydii Gosse, 1859, also known from the Northern Atlantic and Northern Pacific. The integrity of this species was questioned in the literature, so we performed a molecular study of C. lloydii from several geographically distant locations using 18S and COI genes. The phylogenetic reconstructions show that specimens of C. lloydii form a single group with high support (>0.98), subdivided into distinctive clades: (1) specimens from Northern Europe, the Black and Barents seas, and (2) specimens from the White, Kara, Laptev, and Bering seas and also the Canadian Arctic and the Labrador Sea available via the BOLD database. There are several BOLD COI sequences of Pachycerianthus borealis (Verrill, 1873), which form a third clade of the C. lloydii group, sister to the European and Arctic clades. Based on low similarity (COI 86-87%) between C. lloydii and the type species of the genus Cerianthus Delle Chiaje, 1841-C. membranaceus (Gmelin, 1791), we propose a new status for the genus Synarachnactis Carlgren, 1924, and a new family Synarachnactidae to accommodate C. lloydii.
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Affiliation(s)
- Tina N. Molodtsova
- Shirshov Institute of Oceanology RAS, 36 Nakhimovsky Prospect, Moscow 117218, Russia
| | | | - Elizabeth V. Lipukhin
- Shirshov Institute of Oceanology RAS, 36 Nakhimovsky Prospect, Moscow 117218, Russia
| | - Tatiana I. Antokhina
- Severtsov Institute of Ecology and Evolution RAS, 33 Leninski Prospect, Moscow 119071, Russia
| | - Marina S. Ananeva
- Shirshov Institute of Oceanology RAS, 36 Nakhimovsky Prospect, Moscow 117218, Russia
| | - Ulyana V. Simakova
- Shirshov Institute of Oceanology RAS, 36 Nakhimovsky Prospect, Moscow 117218, Russia
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Bribiesca-Contreras G, Dahlgren TG, Amon DJ, Cairns S, Drennan R, Durden JM, Eléaume MP, Hosie AM, Kremenetskaia A, McQuaid K, O’Hara TD, Rabone M, Simon-Lledó E, Smith CR, Watling L, Wiklund H, Glover AG. Benthic megafauna of the western Clarion-Clipperton Zone, Pacific Ocean. Zookeys 2022; 1113:1-110. [PMID: 36762231 PMCID: PMC9848802 DOI: 10.3897/zookeys.1113.82172] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2022] [Accepted: 05/05/2022] [Indexed: 11/12/2022] Open
Abstract
There is a growing interest in the exploitation of deep-sea mineral deposits, particularly on the abyssal seafloor of the central Pacific Clarion-Clipperton Zone (CCZ), which is rich in polymetallic nodules. In order to effectively manage potential exploitation activities, a thorough understanding of the biodiversity, community structure, species ranges, connectivity, and ecosystem functions across a range of scales is needed. The benthic megafauna plays an important role in the functioning of deep-sea ecosystems and represents an important component of the biodiversity. While megafaunal surveys using video and still images have provided insight into CCZ biodiversity, the collection of faunal samples is needed to confirm species identifications to accurately estimate species richness and species ranges, but faunal collections are very rarely carried out. Using a Remotely Operated Vehicle, 55 specimens of benthic megafauna were collected from seamounts and abyssal plains in three Areas of Particular Environmental Interest (APEI 1, APEI 4, and APEI 7) at 3100-5100 m depth in the western CCZ. Using both morphological and molecular evidence, 48 different morphotypes belonging to five phyla were found, only nine referrable to known species, and 39 species potentially new to science. This work highlights the need for detailed taxonomic studies incorporating genetic data, not only within the CCZ, but in other bathyal, abyssal, and hadal regions, as representative genetic reference libraries that could facilitate the generation of species inventories.
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Affiliation(s)
- Guadalupe Bribiesca-Contreras
- Life Sciences Department, Natural History Museum, London, UK Life Sciences Department, Natural History MuseumLondonUnited Kingdom
| | - Thomas G. Dahlgren
- Department of Marine Sciences, University of Gothenburg, Gothenburg, SwedenUniversity of GothenburgGothenburgSweden,Norwegian Research Centre, NORCE, Bergen, NorwayNorwegian Research Centre, NORCEBergenNorway
| | - Diva J. Amon
- SpeSeas, D’Abadie, Trinidad and TobagoSpeSeasD’AbadieTrinidad and Tobago
| | - Stephen Cairns
- Department of Invertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, D.C., USANational Museum of Natural History, Smithsonian InstitutionWashingtonUnited States of America
| | - Regan Drennan
- National Oceanography Centre, Southampton, UKLife Sciences Department, Natural History MuseumLondonUnited Kingdom
| | - Jennifer M. Durden
- UMR ISYEB, Départment Origines et Évolution, Muséum national d’Histoire Naturelle, Paris, FranceNational Oceanography CentreSouthamptonUnited Kingdom
| | - Marc P. Eléaume
- Collections & Research, Western Australia Museum, Perth, AustraliaDépartment Origines et Évolution, Muséum national d’Histoire NaturelleParisFrance
| | - Andrew M. Hosie
- Shirshov Institute of Oceanology, Russian Academy of Sciences, Moscow, RussiaCollections & Research, Western Australia MuseumPerthAustralia
| | - Antonina Kremenetskaia
- School of Biological and Marine Sciences, University of Plymouth, Plymouth, UKShirshov Institute of Oceanology, Russian Academy of SciencesMoscowRussia
| | - Kirsty McQuaid
- Museums Victoria, Melbourne, AustraliaUniversity of PlymouthPlymouthUnited Kingdom
| | - Timothy D. O’Hara
- Department of Oceanography, University of Hawai’i at Mānoa, Honolulu, USAMuseums VictoriaMelbourneAustralia
| | - Muriel Rabone
- National Oceanography Centre, Southampton, UKLife Sciences Department, Natural History MuseumLondonUnited Kingdom
| | - Erik Simon-Lledó
- UMR ISYEB, Départment Origines et Évolution, Muséum national d’Histoire Naturelle, Paris, FranceNational Oceanography CentreSouthamptonUnited Kingdom
| | - Craig R. Smith
- School of Life Sciences, University of Hawai’i at Mānoa, Honolulu, USAUniversity of Hawai’i at MānoaHonoluluUnited States of America
| | - Les Watling
- School of Life Sciences, University of Hawai’i at Mānoa, Honolulu, USAUniversity of Hawai’i at MānoaHonoluluUnited States of America
| | - Helena Wiklund
- Department of Marine Sciences, University of Gothenburg, Gothenburg, SwedenUniversity of GothenburgGothenburgSweden
| | - Adrian G. Glover
- National Oceanography Centre, Southampton, UKLife Sciences Department, Natural History MuseumLondonUnited Kingdom
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Stampar SN, Reimer JD, Maronna MM, Lopes CSS, Ceriello H, Santos TB, Acuña FH, Morandini AC. Ceriantharia (Cnidaria) of the World: an annotated catalogue and key to species. Zookeys 2020; 952:1-63. [PMID: 32774111 PMCID: PMC7394777 DOI: 10.3897/zookeys.952.50617] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2020] [Accepted: 05/12/2020] [Indexed: 12/01/2022] Open
Abstract
The diversity of Ceriantharia is known from studies formally describing species from the late 18th Century onwards. However, no nomenclators including a list and discussion of all valid species have been produced since a list discussed by Carlgren in 1912. The present nomenclator presents a complete list of adult species of Ceriantharia of the World, including a discussion on each species. It includes the three families (Arachnactidae, Botrucnidiferidae, Cerianthidae) and the currently accepted 54 species based on their adult form. This study serves as a presentation of the “state-of-the-art” list of species of Ceriantharia, and includes a species identification key to support taxonomic identification. Additional in-depth species-by-species investigations for almost all cerianthid species is still needed, as the information available for most of these species is quite superficial.
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Affiliation(s)
- Sérgio N Stampar
- Universidade Estadual Paulista (UNESP), FCL/Assis, Laboratório de Evolução e Diversidade Aquática; LEDA, Departamento de Ciências Biológicas, Assis, Brazil.,Universidade Estadual Paulista (UNESP), Departamento de Zoologia, Instituto de Biociências, Botucatu, SP, Brazil
| | - James D Reimer
- University of The Ryukyus, Faculty of Science, Department of Biology, Chemistry, and Marine Science, MISE (Molecular Invertebrate Systematics and Ecology) Laboratory, Okinawa, Japan.,University of The Ryukyus, Tropical Biosphere Research Center, Okinawa, Japan
| | | | - Celine S S Lopes
- Universidade Estadual Paulista (UNESP), FCL/Assis, Laboratório de Evolução e Diversidade Aquática; LEDA, Departamento de Ciências Biológicas, Assis, Brazil.,Universidade Estadual Paulista (UNESP), Departamento de Zoologia, Instituto de Biociências, Botucatu, SP, Brazil
| | - Hellen Ceriello
- Universidade Estadual Paulista (UNESP), FCL/Assis, Laboratório de Evolução e Diversidade Aquática; LEDA, Departamento de Ciências Biológicas, Assis, Brazil.,Universidade Estadual Paulista (UNESP), Departamento de Zoologia, Instituto de Biociências, Botucatu, SP, Brazil
| | - Thais B Santos
- Universidade Estadual Paulista (UNESP), FCL/Assis, Laboratório de Evolução e Diversidade Aquática; LEDA, Departamento de Ciências Biológicas, Assis, Brazil.,University of The Ryukyus, Faculty of Science, Department of Biology, Chemistry, and Marine Science, MISE (Molecular Invertebrate Systematics and Ecology) Laboratory, Okinawa, Japan
| | - Fabián H Acuña
- Instituto de Investigaciones Marinas y Costeras (Iimyc) CONICET; Facultad De Ciencias Exactas y Naturales Universidad Nacional de Mar Del Plata Funes 3250. 7600 Mar Del Plata, Argentina.,Estación Científica Coiba (Coiba-Aip), Clayton, Panamá, República de Panamá
| | - André C Morandini
- Universidade de São Paulo (USP), Instituto de Biociências, São Paulo, SP, Brazil.,Universidade de São Paulo (USP), Centro de Biologia Marinha, São Sebastião, SP, Brazil
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