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Maas DL, Prost S, de Leeuw CA, Bi K, Smith LL, Purwanto P, Aji LP, Tapilatu RF, Gillespie RG, Becking LE. Sponge diversification in marine lakes: Implications for phylogeography and population genomic studies on sponges. Ecol Evol 2023; 13:e9945. [PMID: 37066063 PMCID: PMC10099488 DOI: 10.1002/ece3.9945] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2022] [Revised: 03/06/2023] [Accepted: 03/08/2023] [Indexed: 04/18/2023] Open
Abstract
The relative influence of geography, currents, and environment on gene flow within sessile marine species remains an open question. Detecting subtle genetic differentiation at small scales is challenging in benthic populations due to large effective population sizes, general lack of resolution in genetic markers, and because barriers to dispersal often remain elusive. Marine lakes can circumvent confounding factors by providing discrete and replicated ecosystems. Using high-resolution double digest restriction-site-associated DNA sequencing (4826 Single Nucleotide Polymorphisms, SNPs), we genotyped populations of the sponge Suberites diversicolor (n = 125) to test the relative importance of spatial scales (1-1400 km), local environmental conditions, and permeability of seascape barriers in shaping population genomic structure. With the SNP dataset, we show strong intralineage population structure, even at scales <10 km (average F ST = 0.63), which was not detected previously using single markers. Most variation was explained by differentiation between populations (AMOVA: 48.8%) with signatures of population size declines and bottlenecks per lake. Although the populations were strongly structured, we did not detect significant effects of geographic distance, local environments, or degree of connection to the sea on population structure, suggesting mechanisms such as founder events with subsequent priority effects may be at play. We show that the inclusion of morphologically cryptic lineages that can be detected with the COI marker can reduce the obtained SNP set by around 90%. Future work on sponge genomics should confirm that only one lineage is included. Our results call for a reassessment of poorly dispersing benthic organisms that were previously assumed to be highly connected based on low-resolution markers.
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Affiliation(s)
- Diede L. Maas
- Marine Animal EcologyWageningen University & ResearchWageningenThe Netherlands
| | - Stefan Prost
- LOEWE Centre for Translational Biodiversity GenomicsSenckenberg Natural History MuseumFrankfurt am MainGermany
- South African National Biodiversity InstituteNational Zoological Gardens of South AfricaPretoriaSouth Africa
| | | | - Ke Bi
- Museum of Vertebrate ZoologyUniversity of California BerkeleyBerkeleyCaliforniaUSA
- Computational Genomics Resource Laboratory, California Institute for Quantitative BiosciencesUniversity of California BerkeleyBerkeleyCaliforniaUSA
| | - Lydia L. Smith
- Museum of Vertebrate ZoologyUniversity of California BerkeleyBerkeleyCaliforniaUSA
| | | | - Ludi P. Aji
- Marine Animal EcologyWageningen University & ResearchWageningenThe Netherlands
- Research Centre for Oceanography, Indonesian Institute of SciencesLembaga Ilmu Pengetahuan IndonesiaJakartaIndonesia
| | - Ricardo F. Tapilatu
- Marine Science and Fisheries Departments and Research Center of Pacific Marine ResourcesState University of PapuaManokwariIndonesia
| | - Rosemary G. Gillespie
- Department of Environmental Science, Policy and ManagementUniversity of California BerkeleyBerkeleyCaliforniaUSA
| | - Leontine E. Becking
- Department of Environmental Science, Policy and ManagementUniversity of California BerkeleyBerkeleyCaliforniaUSA
- Aquaculture and Fisheries, Naturalis Biodiversity CenterWageningen University & ResearchWageningenThe Netherlands
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García-Hernández JE, Tuohy E, Toledo-Rodríguez DA, Sherman C, Schizas NV, Weil E. Detrimental conditions affecting Xestospongia muta across shallow and mesophotic coral reefs off the southwest coast of Puerto Rico. DISEASES OF AQUATIC ORGANISMS 2021; 147:47-61. [PMID: 34789587 DOI: 10.3354/dao03633] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Sponges are fundamental components of coral reef communities and, unfortunately, like other major benthic members, they too have been impacted by epizootic and panzootic events. We report on the prevalence of disease-like conditions affecting populations of the giant barrel sponge Xestospongia muta across shallow and mesophotic coral reefs off La Parguera Natural Reserve (LPNR) and Mona Island Marine Reserve (MIMR) in Puerto Rico. Four different conditions affecting X. muta were observed during our surveys, of which 3 have been previously reported: cyclic spotted bleaching (CSB; apparently non-lethal), Xestospongia-tissue wasting disease (X-TWD; apparently lethal), and sponge orange band disease (SOB; sparsely associated with X-TWD infected individuals). Additionally, we describe a fourth condition, Xestospongia-tissue hardening condition (X-THC), a previously unreported disease recently observed along the insular shelf margin off LPNR and MIMR. Within LPNR, a total of 764 specimens of X. muta were inspected and measured. Of these, 590 sponges (72.2%) had CSB, 25 (3.27%) had signs of X-TWD, 7 (0.92%) had SOB, and the remaining 142 (18.6%) were apparently healthy. Three colonies inhabiting upper mesophotic depths on the LPNR insular shelf showed signs of CSB and X-TWD. At MIMR, video-transect surveys revealed a total of 514 colonies, of which 40 (7.78%) had signs of CSB and/or XTWD, 14 (2.72%) were affected by X-THC, while the remaining 460 (89.5%) showed no external signs of disease and appeared healthy. The presence of 4 concomitant disease-like conditions in barrel sponges of Puerto Rico is alarming, and indicative of the deteriorating status of Caribbean coral reefs.
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Affiliation(s)
- J E García-Hernández
- Department of Marine Sciences, University of Puerto Rico at Mayagüez, PO Box 9000, Mayagüez, PR 00681, USA
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Griffiths SM, Butler MJ, Behringer DC, Pérez T, Preziosi RF. Oceanographic features and limited dispersal shape the population genetic structure of the vase sponge Ircinia campana in the Greater Caribbean. Heredity (Edinb) 2020; 126:63-76. [PMID: 32699391 PMCID: PMC7852562 DOI: 10.1038/s41437-020-0344-6] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2019] [Revised: 07/13/2020] [Accepted: 07/13/2020] [Indexed: 11/10/2022] Open
Abstract
Understanding population genetic structure can help us to infer dispersal patterns, predict population resilience and design effective management strategies. For sessile species with limited dispersal, this is especially pertinent because genetic diversity and connectivity are key aspects of their resilience to environmental stressors. Here, we describe the population structure of Ircinia campana, a common Caribbean sponge subject to mass mortalities and disease. Microsatellites were used to genotype 440 individuals from 19 sites throughout the Greater Caribbean. We found strong genetic structure across the region, and significant isolation by distance across the Lesser Antilles, highlighting the influence of limited larval dispersal. We also observed spatial genetic structure patterns congruent with oceanography. This includes evidence of connectivity between sponges in the Florida Keys and the southeast coast of the United States (>700 km away) where the oceanographic environment is dominated by the strong Florida Current. Conversely, the population in southern Belize was strongly differentiated from all other sites, consistent with the presence of dispersal-limiting oceanographic features, including the Gulf of Honduras gyre. At smaller spatial scales (<100 km), sites showed heterogeneous patterns of low-level but significant genetic differentiation (chaotic genetic patchiness), indicative of temporal variability in recruitment or local selective pressures. Genetic diversity was similar across sites, but there was evidence of a genetic bottleneck at one site in Florida where past mass mortalities have occurred. These findings underscore the relationship between regional oceanography and weak larval dispersal in explaining population genetic patterns, and could inform conservation management of the species.
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Affiliation(s)
- Sarah M Griffiths
- Ecology and Environment Research Centre, Manchester Metropolitan University, Manchester, UK.
| | - Mark J Butler
- Department of Biological Sciences, Institute of Environment, Florida International University, North Miami, FL, USA
| | - Donald C Behringer
- Fisheries and Aquatic Sciences, University of Florida, Gainesville, FL, USA.,Emerging Pathogens Institute, University of Florida, Gainesville, FL, USA
| | - Thierry Pérez
- Institut Méditerranéen de Biodiversité et d'Ecologie Marine et Continentale, Aix Marseille Université, Marseille, France
| | - Richard F Preziosi
- Ecology and Environment Research Centre, Manchester Metropolitan University, Manchester, UK
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Guzmán‐Méndez IA, Rivera‐Madrid R, Planes S, Boissin E, Cróquer A, Agudo-Adriani E, González‐Gándara C, Perez‐España H, Giro‐Petersen A, Luque J, García‐Rivas MDC, Aguilar‐Espinosa M, Arguelles Jiménez J, Arias‐González JE. Genetic connectivity of lionfish ( Pterois volitans) in marine protected areas of the Gulf of Mexico and Caribbean Sea. Ecol Evol 2020; 10:3844-3855. [PMID: 32489615 PMCID: PMC7244795 DOI: 10.1002/ece3.5829] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2019] [Revised: 10/01/2019] [Accepted: 10/03/2019] [Indexed: 11/12/2022] Open
Abstract
Lionfish (Pterois volitans) have rapidly invaded the tropical Atlantic and spread across the wider Caribbean in a relatively short period of time. Because of its high invasion capacity, we used it as a model to identify the connectivity among nine marine protected areas (MPAs) situated in four countries in the Gulf of Mexico and the Caribbean Sea. This study provides evidence of local genetic differentiation of P. volitans in the Gulf of Mexico and the Caribbean Sea. A total of 475 lionfish samples were characterized with 12 microsatellites, with 6-20 alleles per locus. Departures from Hardy-Weinberg equilibrium (HWE) were found in 10 of the 12 loci, all caused by heterozygous excess. Moderate genetic differentiation was observed between Chiriviche, Venezuela and Xcalak, México localities (F ST = 0.012), and between the Los Roques and the Veracruz (F ST = 0.074) sites. STRUCTURE analysis found that four genetic entities best fit our data. A unique genetic group in the Gulf of Mexico may imply that the lionfish invasion unfolded both in a counterclockwise manner in the Gulf of Mexico. In spite of the notable dispersion of P. volitans, our results show some genetic structure, as do other noninvasive Caribbean fish species, suggesting that the connectivity in some MPAs analyzed in the Caribbean is limited and caused by only a few source individuals with subsequent genetic drift leading to local genetic differentiation. This indicates that P. volitans dispersion could be caused by mesoscale phenomena, which produce stochastic connectivity pulses. Due to the isolation of some MPAs from others, these findings may hold a promise for local short-term control of by means of intensive fishing, even in MPAs, and may have regional long-term effects.
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Affiliation(s)
- Irán A. Guzmán‐Méndez
- Laboratorio de Ecología de Ecosistemas de Arrecifes CoralinosDepartamento de Recursos del MarCentro de Investigación y de Estudios Avanzados del I.P.N.‐ Unidad MéridaMéridaMéxico
- Department of Biological SciencesMarquette UniversityMilwaukeeWIUSA
| | - Renata Rivera‐Madrid
- Unidad de Bioquímica Molecular de PlantasCentro de Investigación Científica de YucatánMéridaMéxico
| | - Serge Planes
- PSL Research University: EPHE‐UPVD‐CNRSUSR 3278 CRIOBEUniversité de PerpignanPerpignan CedexFrance
- Laboratoire d'Excellence « CORAIL »Perpignan CedexFrance
| | - Emilie Boissin
- PSL Research University: EPHE‐UPVD‐CNRSUSR 3278 CRIOBEUniversité de PerpignanPerpignan CedexFrance
- Laboratoire d'Excellence « CORAIL »Perpignan CedexFrance
| | - Aldo Cróquer
- Departamento de Estudios AmbientalesUniversidad Simón BolívarCaracasVenezuela
| | | | | | - Horacio Perez‐España
- Instituto de Ciencias Marinas y PesqueríasUniversidad VeracruzanaBoca del RíoMéxico
| | - Ana Giro‐Petersen
- Healthy Reefs for Healthy People InitiativeCiudad de GuatemalaGuatemala
| | - Jenny Luque
- Bay Islands Association Utila HondurasUtilaHonduras
| | - María del C. García‐Rivas
- Comisión Nacional de Áreas Naturales ProtegidasParque Nacional Arrecifes de Puerto MorelosPuerto MorelosMéxico
| | | | | | - Jesus E. Arias‐González
- Laboratorio de Ecología de Ecosistemas de Arrecifes CoralinosDepartamento de Recursos del MarCentro de Investigación y de Estudios Avanzados del I.P.N.‐ Unidad MéridaMéridaMéxico
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Pomponi SA, Diaz MC, Van Soest RWM, Bell LJ, Busutil L, Gochfeld DJ, Kelly M, Slattery M. Sponges. CORAL REEFS OF THE WORLD 2019. [DOI: 10.1007/978-3-319-92735-0_32] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
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Hoeksema BW, Hassell D, Meesters EHWG, van Duyl FC. Wave-swept coralliths of Saba Bank, Dutch Caribbean. MARINE BIODIVERSITY : A JOURNAL OF THE SENCKENBERG RESEARCH INSTITUTE 2017; 48:2003-2016. [PMID: 30931012 PMCID: PMC6404733 DOI: 10.1007/s12526-017-0712-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/26/2016] [Revised: 04/08/2017] [Accepted: 04/10/2017] [Indexed: 06/09/2023]
Abstract
During a recent reef coral survey at the submarine Saba Bank (Eastern Caribbean), an uncommon and diverse assemblage of unattached scleractinian corals (coralliths) was encountered, which has not been reported from the Atlantic before. Four different types of these free-living (unattached) corals were distinguished. They were observed on a relatively flat seafloor (15-20 m deep) with poor coral cover and full exposure to oceanic swell. Much of the substratum was not consolidated and consisted mainly of sand and fragments of branching coralline algae. One of the four types is the (1) anthocyathus stage in the life history of the free-living species Manicina areolata and Meandrina danae. The other three are coralliths formed as ecophenotypic varieties: (2) spheroidal-amoeboidal (= globular and (sub)massive) in Porites astreoides, Siderastrea radians, S. siderea, and Stephanocoenia intersepta; (3) tumbleweed-like (= globular and ramose) in Porites divaricata and P. furcata; and (4) discoidal (flat and circular with short branches) in Madracis decactis and possibly in M. cf. auretenra. This assemblage of free-living corals is likely related to a combination of abiotic factors consisting of wave exposure (swell), depths that waves can reach, a horizontal sea floor with little relief, an unconsolidated substratum, and low coral cover.
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Affiliation(s)
- Bert W. Hoeksema
- Naturalis Biodiversity Center, P.O. Box 9517, 2300 RA Leiden, The Netherlands
- Institute of Biology Leiden, Leiden University, PO Box 9505, 2300 RA Leiden, The Netherlands
| | - Dahlia Hassell
- Saba Conservation Foundation, Fort Bay, Saba, Dutch Caribbean The Netherlands
| | - Erik H. W. G. Meesters
- Wageningen University and Marine Research, P.O. Box 57, 1780 AB Den Helder, The Netherlands
| | - Fleur C. van Duyl
- NIOZ Royal Netherlands Institute for Sea Research and Utrecht University, P.O. Box 59, 1790 AB Den Burg, Texel The Netherlands
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