| 1. |
- Adl, Sina M., et al.
(författare)
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Revisions to the Classification, Nomenclature, and Diversity of Eukaryotes
- 2019
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Ingår i: Journal of Eukaryotic Microbiology. - : WILEY. - 1066-5234 .- 1550-7408. ; 66:1, s. 4-119
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Tidskriftsartikel (refereegranskat)abstract
- This revision of the classification of eukaryotes follows that of Adl et al., 2012 [J. Euk. Microbiol. 59(5)] and retains an emphasis on protists. Changes since have improved the resolution of many nodes in phylogenetic analyses. For some clades even families are being clearly resolved. As we had predicted, environmental sampling in the intervening years has massively increased the genetic information at hand. Consequently, we have discovered novel clades, exciting new genera and uncovered a massive species level diversity beyond the morphological species descriptions. Several clades known from environmental samples only have now found their home. Sampling soils, deeper marine waters and the deep sea will continue to fill us with surprises. The main changes in this revision are the confirmation that eukaryotes form at least two domains, the loss of monophyly in the Excavata, robust support for the Haptista and Cryptista. We provide suggested primer sets for DNA sequences from environmental samples that are effective for each clade. We have provided a guide to trophic functional guilds in an appendix, to facilitate the interpretation of environmental samples, and a standardized taxonomic guide for East Asian users.
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| 2. |
- Bohlin, Lars, 1948-, et al.
(författare)
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35 Years of Marine Natural Product Research in Sweden : Cool Molecules and Models from Cold Waters.
- 2017
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Ingår i: Progress in molecular and subcellular biology. - Cham : Springer International Publishing. - 0079-6484. ; 55, s. 1-34
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Tidskriftsartikel (refereegranskat)abstract
- Currents efforts in marine biodiscovery have essentially focused on temperate to tropical shallow water organisms. With more than 6000 species of marine plants and animals, the Kosterfjord area has the richest marine biodiversity in Swedish waters, but it remains understudied. The overall objective of our marine pharmacognosy research is to explore and reveal the pharmacological potential of organisms from this poorly explored region. More generally, we wish to understand aspects of structure-activity relationships of chemical interactions in cold-water marine environment (shallow and deep). Our strategy is based on ecologically guided search for compounds through studies of physiology and organism interactions coupled to identification of bioactive molecules guided by especially in vivo assays. The research programme originated in the beginning of the 1980s with a broad screening of Swedish marine organisms using both in vitro and in vivo assays, resulting in isolation and identification of several different bioactive molecules. Two congenerous cyclopeptides, i.e. barettin and 8,9-dihydrobarettin, were isolated from the deep-sea sponge Geodia barretti, and structurally elucidated, guided by their antifouling activity and their affinity to a selection of human serotonin receptors. To optimize the activity a number of analogues of barettin were synthezised and tested for antifouling activity. Within the EU project BlueGenics, two larger homologous peptides, barrettides A and B, were isolated from G. baretti. Also, metabolic fingerprinting combined with sponge systematics was used to further study deep-sea natural product diversity in the genus Geodia. Finally, the chemical property space model 'ChemGPS-NP' has been developed and used in our research group, enabling a more efficient use of obtained compounds and exploration of possible biological activities and targets. Another approach is the broad application of phylogenetic frameworks, which can be used in prediction of where-in which organisms-to search for novel molecules or better sources of known molecules in marine organisms. In a further perspective, the deeper understanding of evolution and development of life on Earth can also provide answers to why marine organisms produce specific molecules.
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| 3. |
- Botting, Joseph P., et al.
(författare)
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A Crown-Group Demosponge from the Early Cambrian Sirius Passet Biota, North Greenland
- 2015
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Ingår i: Palaeontology. - : John Wiley & Sons. - 0031-0239 .- 1475-4983. ; 58:1, s. 35-43
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Tidskriftsartikel (refereegranskat)abstract
- Calibration of the divergence times of sponge lineages and understanding of their phylogenetic history are hampered by the difficulty in recognizing crown versus stem groups in the fossil record. A new specimen from the lower Cambrian (Series 2, Stage 3; approximately 515 Ma) Sirius Passet Biota of North Greenland has yielded a diagnostic spicule assemblage of the extant demosponge lineages Haploscleromorpha and/or Heteroscleromorpha. The specimen has disarticulated approximately in situ, but represents an individual sponge that possessed monaxon spicules combined with a range of slightly smaller sigma, toxa and unique spiral morphologies. The combination of spicule forms, together with their relatively large size, suggests that the sponge represents the stem lineage of Haploscleromorpha + Heteroscleromorpha. This is the first crown-group demosponge described from the early Cambrian and provides the most reliable calibration point currently available for phylogenetic studies.
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| 4. |
- Cárdenas, Paco, et al.
(författare)
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A new Hymedesmia (Demospongiae, Poecilosclerida) with large sigmas off western Sweden
- 2016
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Ingår i: Journal of the Marine Biological Association of the United Kingdom. - 0025-3154 .- 1469-7769. ; 96:6, s. 1305-1312
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Tidskriftsartikel (refereegranskat)abstract
- Hymedesmia (Hymedesmia) lindstroemae sp. nov. collected at 178–210 m depth off the western Swedish coast is described. This encrusting sponge is notably characterized by its unusually large sigmas. This new species brings the number of Hymedesmia (Hymedesmia) species in Swedish waters to 30. A key for all the North Atlantic Hymedesmia (Hymedesmia) species with sigmas (32 species) is included.
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| 5. |
- Cárdenas, Paco, 1976-, et al.
(författare)
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A review of Norwegian streptaster-bearing Astrophorida (Porifera: Demospongiae: Tetractinellida), new records and a new species
- 2012
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Ingår i: Zootaxa. - 1175-5326 .- 1175-5334. ; :3253, s. 1-53
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Tidskriftsartikel (refereegranskat)abstract
- We report and describe new material of streptaster-bearing Astrophorida sponges collected in Norway: Characella pachastrelloides, Pachastrella nodulosa sp. nov., Poecillastra compressa, Vulcanella cf. aberrans, Thenea abyssorum,Thenea levis, Thenea muricata and Thenea valdiviae. Because many of these species were described in the end of the 19th century their original descriptions are often incomplete. The Norwegian specimens are the basis for a revision of the morphology, taxonomy and distribution of these species. These are the first records of C. pachastrelloides and V. cf. aberrans from the Norwegian coast. Pachastrella nodulosa sp. nov. differs from Pachastrella monilifera by (i) its knobby surface and (ii) the absence of large oxeas, (iii) its amphiasters have on average less actines and are less spiny, finally (iv) microxeas are rare and with a distinct morphology (although there is some doubt concerning their origin). In the present study, Characella tuberosa (from South Africa), Pachastrella abyssi (from the North-West Atlantic) and Thenea schmidti (from the North-East Atlantic) are resurrected. To help their future identifications, all the Norwegian species described were associated with DNA barcodes: a cytochrome c oxidase subunit I (COI) gene partial fragment and/or a 28S ribosomal gene partial fragment (C1–D2 domains). Furthermore, a key to the streptaster-bearing Astrophorida of the North-East Atlantic and the Mediterranean Sea is also given (lithistids not included).
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| 6. |
- Cárdenas, Paco, et al.
(författare)
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Demosponges from the Northern Mid-Atlantic Ridge shed more light on the diversity and biogeography of North Atlantic deep-sea sponges
- 2015
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Ingår i: Journal of the Marine Biological Association of the United Kingdom. - 0025-3154 .- 1469-7769. ; 95:7, s. 1475-1516
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Tidskriftsartikel (refereegranskat)abstract
- In July-August 2004, the Mid-Atlantic Ridge Ecosystems (MAR-Eco) expedition collected Demospongiae (Porifera) from the Northern Mid-Atlantic Ridge (MAR) north of the Azores, between 41 degrees N and 61 degrees N. Demosponges were found at 10 stations, at depths ranging from 753 to 3046 m. Twenty-two species were identified: 17 Tetractinellida, one Polymastiida, one Suberitida, two Poecilosclerida and one Dendroceratida. The study of this material is an opportunity to revise the taxonomy and the North Atlantic distribution of each of these deep-sea species. Some species are particularly rare and poorly known (Tetilla longipilis, Tetilla sandalina, Craniella azorica, Polymastia corticata) and two are new to science: Forcepia (Forcepia) toxafera sp. nov. and Iotroata paravaridens sp. nov. This study suggests that the MAR is not a longitudinal barrier for the dispersal of deep-sea demosponges while on the contrary, the Charlie-Gibbs Fracture Zone (CGFZ) may be a latitudinal border for the dispersal of deep-sea demosponges, due to great depths and currents.
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| 7. |
- Cardenas, Paco, et al.
(författare)
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Disrupted spiculogenesis in deep-water Geodiidae (Porifera, Demospongiae) growing in shallow waters
- 2013
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Ingår i: Invertebrate biology.. - : Wiley. - 1077-8306 .- 1744-7410. ; 132:3, s. 173-194
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Tidskriftsartikel (refereegranskat)abstract
- Environmental conditions can affect the morphology and distribution of sponges. In particular, depth is known to influence the morphology of shallow-water sponges; however, the influence of depth on deep-water sponges has never been investigated. Although boreal Geodiidae (Demospongiae, Astrophorida) are deep-water species, in fjords and along the Norwegian coast Geodia barretti, G. simplicissima, and Pachymatisma normani can occasionally be found at shallow depths (20-40m). In this study, we examine new shallow specimens from the Norwegian coast to compare their morphological and molecular characteristics with those of their deep-water counterparts. Morphology was studied at the level of the organism, skeletal organization, and the spicules, and a fragment of the cytochrome oxidase 1 gene was sequenced for shallow and deep specimens. Twelve specimens of Geodia spp. and five specimens of P. normani were collected in shallow waters. The majority of the Geodia spp. were identified as G. simplicissima, a species that has not been reported since its original description in 1931. However, we propose that G. simplicissima, only found in shallow waters, is a junior synonym of G. barretti. When comparing shallow and deep-water specimens of G. barretti and P. normani, we found phenotypic differences with respect to color, external morphology, cortex organization, and, above all, spicule morphology. In shallow specimens, microrhabds, sterrasters, and triaenes were smaller and irregular or underdeveloped. Oxyasters and strongylasters were normal in form, but smaller. We hypothesize that the lower silica concentration in shallow waters is primarily responsible for the disruption of spiculogenesis in shallow-water specimens of G. barretti and P. normani. The underdeveloped sterrasters observed in shallow-water specimens provide new insights into the formation of these particular microscleres. Finally, we discuss how the colonization of shallow waters by deep-water sponges may have strongly influenced spicule evolution and speciation.
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| 8. |
- Cárdenas, Paco, 1976-, et al.
(författare)
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First records of Geodia demosponges from the New England seamounts, an opportunity to test the use of DNA mini-barcodes on museum specimens
- 2019
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Ingår i: Marine Biodiversity. - : Springer Science and Business Media LLC. - 1867-1616 .- 1867-1624. ; 49:1, s. 163-174
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Tidskriftsartikel (refereegranskat)abstract
- We report the first records of the sponge genus Geodia (Demospongiae, Tetractinellida, Geodiidae) from the New England Seamounts and Muir Seamount, at lower bathyal depths. Nine specimens collected between 2000 and 2005 belong to two boreal species (Geodia macandrewii and Geodia barretti) and a temperate species (Geodia megastrella). These records extend the distributions of these deep-sea amphi-Atlantic species to the west. Most of these specimens were originally fixed in formalin, which substantially degraded the DNA. We nonetheless managed to sequence two cytochrome c oxidase subunit I (COI) mini-barcodes: the universal mini-barcode at the 5′ end of the Folmer barcode (130 bp) and a newly proposed mini-barcode at the 3′ end of the Folmer barcode (296 bp). These mini-barcodes unambiguously confirmed our identifications. As an additional test, we also successfully sequenced these two mini-barcodes from the holotype of G. barretti, collected in 1855. We conclude by advocating the use of mini-barcodes on formalin-fixed or old specimens with degraded DNA.
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| 9. |
- Cárdenas, Paco, 1976-, et al.
(författare)
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From marine caves to the deep sea, a new look at Caminella (Demospongiae, Geodiidae) in the Atlanto-Mediterranean region
- 2018
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Ingår i: Zootaxa. - : Magnolia Press. - 1175-5326 .- 1175-5334. ; 4466:1, s. 174-196
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Tidskriftsartikel (refereegranskat)abstract
- Caminella Lendenfeld, 1894 is a poorly known Geodiidae genus with unclear phylogenetic relationships. In order to find new lines of evidence that could shed light on the evolutionary history of Caminella, we decided to revise type material and museum material, as well as examine new material from underwater caves and deep-sea ecosystems. In doing so, we formally show that Isops maculosus Vosmaer, 1894 and Caminella loricata Lendenfeld, 1894 are junior synonyms of Caminella intuta (Topsent, 1892). We discuss different spicule morphological phenotypes in C. intuta, which may be linked to silica availability. We also discovered two new species of deep-sea Caminella: 1) from Cape Verde (Caminella caboverdensis sp. nov.) and 2) from seamounts located south of the Azores archipelago and the North of Spain (Caminella pustula sp. nov.). We reveal that Caminella sterrasters have complex surface microstructures, unique amongst the Geodiidae, where actin tips are linked to each other. Molecular markers (COI, 28S (C1-D2) and 18S) sequenced for some specimens led to new phylogenetic analyses, which continue to suggest a close relationship of Caminella with the Erylinae and Calthropella; these affinities are discussed in light of morphological characters.
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| 10. |
- Cárdenas, Paco, 1976-, et al.
(författare)
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Good Practices in Sponge Natural Product Studies : Revising Vouchers with Isomalabaricane Triterpenes
- 2022
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Ingår i: Marine Drugs. - : MDPI. - 1660-3397. ; 20:3
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Tidskriftsartikel (refereegranskat)abstract
- Species misidentification in the field of natural products is an acknowledged problem. These errors are especially widespread in sponge studies, albeit rarely assessed and documented. As a case study, we aim to revisit reports of isomalabaricane triterpenes, isolated from four demosponge genera: Jaspis, Geodia, Stelletta and Rhabdastrella. From a total of 44 articles (1981-2022), 27 unique vouchers were listed, 21 of which were accessed and re-examined here: 11 (52.4%) of these were misidentified. Overall, 65.9% of the studies published an incorrect species name: previously identified Jaspis and Stelletta species were all in fact Rhabdastrella globostellata. We conclude that isomalabaricane triterpenes were isolated from only two Rhabdastrella species and possibly one Geodia species. In addition to shedding a new light on the distribution of isomalabaricane triterpenes, this study is an opportunity to highlight the crucial importance of vouchers in natural product studies. Doing so, we discuss the impact of species misidentification and poor accessibility of vouchers in the field of sponge natural products. We advocate for stricter voucher guidelines in natural product journals and propose a common protocol of good practice, in the hope of reducing misidentifications in sponge studies, ensure reproducibility of studies, and facilitate follow-up work on the original material.
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