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58 results for “Haliclona”
Fig. 18 in Flagellia, a new subgenus of Haliclona (Porifera, Haplosclerida)
Fig. 18. Haliclona (Flagellia) edaphus (De Laubenfels, 1930) from California, SEM images of the spicules made from a fragment of the holotype (USNM 21444). A. Oxea. A 1. Detail of one of the apices. B–C. Flagellosigmas. B 1. Detail of long ending of flagellosigma. B 2. Detail of short ending of flagellosigma. D. Sigma.
Fig. 2 in Flagellia, a new subgenus of Haliclona (Porifera, Haplosclerida)
Fig. 2. 'Flagellated' sigma of Mycale (Naviculina) diversisigmata Van Soest, 1984, a sigma type superficially similar to a flagellosigma, but the morphology is considered non-homologous due to the lack of a strong asymmetry in the longer and shorter endings.
Fig. 3 in Flagellia, a new subgenus of Haliclona (Porifera, Haplosclerida)
Fig. 3. Distribution of Haliclona (Flagellia) subgen. nov. in the marine ecoregions of the world (MEOWs, cf. Spalding et al. 2007), marked in red, depicting where one or more records assignable to Haliclona (Flagellia) subgen. nov. are known to date. Map courtesy of World Wildlife Fund (2012).
Fig. 6 in Flagellia, a new subgenus of Haliclona (Porifera, Haplosclerida)
Fig. 6. Haliclona (Flagellia) hamata (Thiele, 1903) subgen. et comb. nov., SEM images from a fragment of the holotype (SMF 1640) from Ternate, Indonesia. A. Oxea. A 1. Detail of one of the apices. B–C. Flagellosigmas. B 1. Detail of long ending of flagellosigma. B 2. Detail of short ending of flagellosigma. D. Sigmas.
Fig. 7 in Flagellia, a new subgenus of Haliclona (Porifera, Haplosclerida)
Fig. 7. Haliclona (Flagellia) hamata (Thiele, 1903) subgen. et comb. nov., habitus of ZMA Por. 09285 from Sumba, Indonesia (scale bar = 1 cm).
Fig. 16 in Flagellia, a new subgenus of Haliclona (Porifera, Haplosclerida)
Fig. 16. Haliclona (Flagellia) hajdui subgen. et sp. nov., from the Guyana Shelf, off Suriname, holotype, SEM images of spicules (RMNH Por. 9921). A. Oxea. A 1. Detail of one of the apices. B–D. Flagellosigmas. C . Detail of long ending of flagellosigma. C . Detail of short ending of flagellosigma. E. Sigmas.
Fig. 1 in Flagellia, a new subgenus of Haliclona (Porifera, Haplosclerida)
Fig. 1. Flagellosigma, the characteristic feature of Haliclona (Flagellia) subgen. nov., showing meristic and descriptive features used in this study.
Fig. 14 in Flagellia, a new subgenus of Haliclona (Porifera, Haplosclerida)
Fig. 14. Haliclona (Flagellia) hiberniae subgen. et sp. nov., from the deep water of the Rockall Bank, W of Ireland. A. Habitus (arrow) of holotype (ZMA Por. 19596a), encrusting a dead coral. A 1. Habitus (paratype ZMA Por. 19619), encrusting a hydrocoral. B–I. SEM images of the spicules. B. Oxeas. B 1. Detail of one of the apices. C–E. Large category of flagellosigmas (I). C 1. Detail of long ending of large flagellosigma. C 2. Detail of short ending of large flagellosigma. F–G. Small category of flagellosigmas (II). H. Large category of sigmas (I). I. Small category of sigmas (II).
Fig. 10 in Flagellia, a new subgenus of Haliclona (Porifera, Haplosclerida)
Fig. 10. Haliclona (Flagellia) amirantensis subgen. et sp. nov., holotype (ZMA Por. 12409), from Desnoeufs Island, Amirantes, Seychelles. A. Habitus (encircled) encrusting a large Topsentia specimen (scale bar = 1 cm). B–F. SEM images of the spicules. B. Oxeas. B1. Detail of one of the apices. C–D. Flagellosigmas. D 1. Detail of long ending of flagellosigma. D 2. Detail of short ending of flagellosigma. E. Large sigma category (I). F. Small sigma category (I).
Fig. 13 in Flagellia, a new subgenus of Haliclona (Porifera, Haplosclerida)
Fig. 13. Haliclona (Flagellia) porosa (Fristedt, 1887) subgen. et comb. nov., from Mauritania (ZMA Por. 06624). A. Habitus (arrow) on dead coral (scale bar = 1 cm). B–E. SEM images of the spicules. B. Oxeas. B 1. Detail of one of the apices. C–D. Flagellosigmas. C 1. Detail of long ending of flagellosigma. C . Detail of short ending of flagellosigma. E. Sigma.
Fig. 5 in Flagellia, a new subgenus of Haliclona (Porifera, Haplosclerida)
Fig. 5. Haliclona (Flagellia) indonesiae subgen. et sp. nov., holotype (RMNH Por. 2326). A. SEM image of cross section. B. SEM image of surface. C–F. SEM images of spicules. C. Oxeas. C 1. Detail of one of the apices. D–E. Flagellosigmas. D 1. Detail of long ending of flagellosigma. D 2. Detail of short ending of flagellosigma. F. Sigma.
Fig. 17 in Flagellia, a new subgenus of Haliclona (Porifera, Haplosclerida)
Fig. 17. Haliclona (Flagellia) sp., from Santa Marta, Colombia, SEM images of the spicules (ZMA Por. 21962). A. Oxea. A 1. Detail of one of the apices. B–C. Flagellosigmas. B 1. Detail of long ending of flagellosigma. B . Detail of short ending of flagellosigma. D. Sigmas.
Fig. 12 in Flagellia, a new subgenus of Haliclona (Porifera, Haplosclerida)
Fig. 12. Haliclona (Flagellia) porosa (Fristedt, 1887) subgen. et comb. nov., from Vosmaer's (1885) Barents Sea collection, light microscopic images made from slide of ZMA Por. 20742 A. Skeleton of the surface with flagellosigma (arrow). B–F. Flagellosigmas (all photographed at same scale).
Fig. 4 in Flagellia, a new subgenus of Haliclona (Porifera, Haplosclerida)
Fig. 4. Haliclona (Flagellia) indonesiae subgen. et sp. nov. A. Holotype (RMNH Por. 2326) in situ at Manado, North Sulawesi, Indonesia. A 1. Detail of surface of in situ holotype. A 2. Preserved holotype specimen (scale bar = 1 cm). B. Fragmented paratype (ZMA Por. 08160) from Ambon, Indonesia (scale bar = 1 cm).
FIGURE 5 in Sponge epizoism in the Caribbean and the discovery of new Plakortis and Haliclona species, and polymorphism of Xestospongia deweerdtae (Porifera)
FIGURE 5 Haliclona plakophila sp. nov. (A-B) holotype (USNM 1254650) growing on Plakortis symbiotica sp. nov. (brown), encrusting (A) and papillated (B); (C) tangential section of the ectosome (LM); (D) perpendicular section through the ectosome and choanosome (LM); (E) close-up of a perpendicular section of the choanosome (LM); (F) oxeas (SEM).
FIGURE 4 in Sponge epizoism in the Caribbean and the discovery of new Plakortis and Haliclona species, and polymorphism of Xestospongia deweerdtae (Porifera)
FIGURE 4 Maximum likelihood topology generated from partial sequences of cytochrome b oxidase (cob) (A) and cytochrome c oxidase subunit I (cox 1) (B) of the Homoscleromorpha of this study and from sequences downloaded from GenBank. Topology for both trees is rooted on the sponge Ectyoplasia ferox (Duchassaing & Michelloti, 1864) EU 23748.1 (Class Demospongiae, Order Axinellida). Bootstrap values less than 50 % were omitted from the trees. Coding following the species names refers to the museum catalogue number or collection location (PA-Panama, PR- Puerto Rico, BH-Bahamas) followed by lifestyle (AS-associated, FL-free-living). Species highlighted in bold represented sequences provided by this study.
FIGURE 2 in Sponge epizoism in the Caribbean and the discovery of new Plakortis and Haliclona species, and polymorphism of Xestospongia deweerdtae (Porifera)
FIGURE 2. Plakortis deweerdtaephila sp. nov. (A) holotype (USNM 1254645) (basibiont-brown) fully overgrown by Xestospongia deweerdtae (epibiont-pink) in Panama; the specimen has been uplifted from the bottom to show the basibiont; oscules directed downwards are visible; (B) Bahamas USNM 1254647 (brown) partially overgrown by X. deweerdtae (pink); (C) tangential section of the ectosome (LM); (D) perpendicular section through the ectosome and choanosome (LM); (E) closeup of a perpendicular section through the choanosome (LM); (F) diods from specimens from Panama (SEM); (G-H) diods from specimens collected in the Bahamas (SEM); (I) triods from specimens from Panama (SEM).
FIGURE 1 in Sponge epizoism in the Caribbean and the discovery of new Plakortis and Haliclona species, and polymorphism of Xestospongia deweerdtae (Porifera)
FIGURE 1. Collection sites of Plakortis deweerdtaephila sp. nov., Plakortis symbiotica sp. nov., Haliclona plakophila and Xestospongia deweerdtae in the Caribbean. (A) Detailed map of sponge species and sponge pair locations for the Bahamas (Little San Salvador, San Salvador, Hogsty Reef, Acklins, Mayaguana, Mira Por Voz, Plana Cays, Little Inagua, Great Inagua) (B), Mexico (Cozumel, Banco Chinchorro) (C), Puerto Rico (Mona, Desecheo, La Parguera) (D), and Panama (Bocas del Toro Province) (E). A list of sponge species and their lifestyle are indicated in the legend on panel B. The Plakortis symbiotica and Haliclona plakophila pair has been found only on the south coast of Puerto Rico.
FIGURE 3 in Sponge epizoism in the Caribbean and the discovery of new Plakortis and Haliclona species, and polymorphism of Xestospongia deweerdtae (Porifera)
FIGURE 3 Plakortis symbiotica sp. nov. (A) holotype (USNM 1254650) (brown) being overgrown by Xestospongia deweerdtae (pink) with zoanthids (red) in situ; (B) tangential section of the ectosome (LM); (C) perpendicular section through the ectosome and choanosome (LM); (D) close-up of a perpendicular section through the choanosome (LM); (E-F) diods (SEM); (G) triods (SEM).
Marine sponge Haliclona fulva hologenome sequences - total contigs assembled
<p>Dataset (multifasta) of DNA contig sequences assembled from Illumina metagenomic reads of Haliclona fulva hologenome. The sequences analyses are described in the peer-reviewed article at https://doi.org/10.3389/fmars.2021.736817 entitled: "The Hologenome of Haliclona fulva (Porifera, Demospongiae) Reveals an Abundant and Diverse Viral Community" by<br> Erika García-Bonilla1,2†, Diego Chaves-Moreno3†, Diego Riaño-Pachón4, Wilson Terán5, Alberto Acosta1 and Howard Junca2*<br> 1Laboratorio Ecosistemas Marinos Estratégicos, Unidad de Ecología y Sistemática - UNESIS, Facultad de Ciencias - Departamento de Biología, Pontificia Universidad Javeriana, Bogotá, Colombia<br> 2RG Microbial Ecology: Metabolism, Genomics & Evolution, Division of Ecogenomics & Holobionts, Microbiomas Foundation, Chía, Colombia<br> 3Microbial Interactions and Processes Research Group, Helmholtz Centre for Infection Research, Braunschweig, Germany<br> 4Laboratório de Biologia Computacional, Evolutiva e de Sistemas, Centro de Energía Nuclear na Agricultura, Universidade de São Paulo, Piracicaba, Brazil<br> 5Biología de Plantas y Sistemas Productivos, Departamento de Biología, Facultad de Ciencias, Pontificia Universidad Javeriana, Bogotá, Colombia</p> <p>"Sample Collection</p> <p>Three specimens of <em>H. fulva</em> (HF1, HF2, and HF3) were collected by SCUBA diving in the Mediterranean Sea at the Grotte du Lido, in the bay of Villefranche-sur-Mer, France (latitude: 43° 41′ 31.49″ N; longitude: 7° 19′ 12.19″ E) at 35 m depth. After collection, all individual samples were placed in independent plastic bags. They were preserved in ethanol 70% (v/v) and stored at −20°C until further analysis. The samples were selected based on the findings of our previous study (<a href="https://www.frontiersin.org/articles/10.3389/fmars.2021.736817/full#B11">García-Bonilla et al., 2019</a>) and are coming from exactly the same spots and colonies/specimens analyzed regarding microbiome content by 16S amplicons, showing a stable and consistent microbial composition of low microbial abundance and diversity.</p> <p>DNA Extraction and Sequencing</p> <p>Metagenomic DNA was extracted from 15 g sponge wet weight using a MagAttract<sup>®</sup> HMW DNA kit (Qiagen, Germany) following the manufacturer’s instructions. Tissue lysis was made for 16 h according to protocol. Extracted DNA was eluted with 50 μl water, and its concentration determined by fluorescence using the Qubit<sup>®</sup> dsDNA BR assay kit (Thermo Fisher Scientific). Nucleic acid integrity was verified by 0.8% agarose gel electrophoresis. Sponge DNA extracts were used as template to perform isothermal multiple displacement hologenome amplification with a phi29 polymerase of high processivity and fidelity in order to increase total DNA concentrations (<a href="https://www.frontiersin.org/articles/10.3389/fmars.2021.736817/full#B36">Lasken, 2007</a>) and to avoid the effect of coextracted enzymatic inhibitors detected in <em>H. fulva</em>, improving further downstream processes (library construction and sequencing). The amplification process was made using REPLI-g Mini kit (Qiagen, Germany), according to manufacturer’s recommendations. Briefly, samples were incubated at 30°C for 11 h followed by 3 min at 65°C for polymerase inactivation. For all assays, a negative control was run to evaluate the presence of contaminants during amplification. Quantity and quality of DNA was measured as described previously.</p> <p>Genomic libraries were constructed using TruSeq DNA PCR free kit (Illumina, United States). Shotgun hologenome sequencing was performed using paired-end Illumina technology (Macrogen, South Korea). The complete raw sequencing data obtained is publicly accessible at NCBI GenBank SRA under Bioproject PRJNA741981.</p> <p>Raw Data Processing and Assembly</p> <p>An initial filtering of the sequencing reads was done after visual evaluation using FastQC (v.0.11.8) consisting of a quality and length-based filtering performed with Trimmomatic (v.0.31). Filtered and processed reads were assembled using Megahit (v.1.0) (<a href="https://www.frontiersin.org/articles/10.3389/fmars.2021.736817/full#B37">Li et al., 2014</a>) and IDBA-UD (<a href="https://www.frontiersin.org/articles/10.3389/fmars.2021.736817/full#B46">Peng et al., 2012</a>) with default parameters. To compare, identify and join overlaps between reads from each assembly, we used minimus2 from the AMOS suite with default parameters (<a href="https://www.frontiersin.org/articles/10.3389/fmars.2021.736817/full#B65">Treangen et al., 2011</a>). Obtained contigs were filtered and those <500 bp were removed."</p> <p> </p>
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