SABIIA - Sistema Aberto e Integrado de Informação em Agricultura (Sabiia)

Malay, Maria Celia (machel) D.; Paulay, Gustav.

The diversity on coral reefs has long captivated observers. We examine the mechanisms of speciation, role of ecology in speciation, and patterns of species distribution in a typical reef-associated clade-the diverse and colorful Calcinus hermit crabs-to address the origin of tropical marine diversity. We sequenced COI, 16S, and H3 gene regions for similar to 90% of 56 putative species, including nine undescribed, "cryptic" taxa, and mapped their distributions. Speciation in Calcinus is largely peripatric at remote locations. Allopatric species pairs are younger than sympatric ones, and molecular clock analyses suggest that > 2 million years are needed for secondary sympatry. Substantial niche conservatism is evident within clades, as well as a few major...

Tipo: Text

Palavras-chave: Allopatric speciation; Biodiversity; Biogeography; Color pattern evolution; Circumtropical speciation; Coral reef; Coral triangle; Cryptic species; Crustacea; ESU; Indo-Malayan hot spot; Molecular phylogenetics; Sympatric speciation.

Ano: 2010

URL: https://archimer.ifremer.fr/doc/00495/60623/64108.pdf

Larval size-distributions of Ariosoma balearicum cryptic species during the March–April season in the Sargasso Sea Subtropical Convergence Zone

Cryptic species of Archinome (Annelida: Amphinomida) from vents and seeps

Miller, Michael J.; Marohn, Lasse; Wysujack, Klaus; Bonhommeau, Sylvain; Kuroki, Mari; Freese, Marko; Pohlmann, Jan-dag; Watanabe, Shun; Blancke, Tina; Weist, Peggy; Castonguay, Martin; Westerberg, Håkan; Tsukamoto, Katsumi; Hanel, Reinhold.

Leptocephali of the shallow-water congrid eel Ariosoma balearicum are abundant during February–April in the Sargasso Sea, and larval and adult meristic data indicates this species includes several regional subpopulations/cryptic species. Four multiple-transect larval surveys (2011, 2014, 2015, 2017) were used to examine the geographic size distribution of two myomere-count types of A. balearicum leptocephali. High-count (HC) larvae were consistently mostly between 80 and 100 mm in size (60–132 mm; 87.9 ± 6.8 mm) as observed previously, and frequently had narrow size ranges. The usually larger LC larvae (78–176 mm; 111.4 ± 26.7 mm) were more abundant in western or central areas. HC larvae tended to decrease in size from west to east and increase from south...

Tipo: Text

Palavras-chave: Ariosoma balearicum; Leptocephali; Larval dispersal; Sargasso Sea; Subtropical gyre; Cryptic species.

Ano: 2019

URL: https://archimer.ifremer.fr/doc/00509/62028/66491.pdf

Genetic data, reproduction season and reproductive strategy data support the existence of biological species in Ophioderma longicauda

Borda, Elizabeth; Kudenov, Jerry D.; Chevaldonne, Pierre; Blake, James A.; Desbruyeres, Damien; Fabri, Marie-claire; Hourdez, Stephane; Pleijel, Fredrik; Shank, Timothy M.; Wilson, Nerida G.; Schulze, Anja; Rouse, Greg W..

Since its description from the Galapagos Rift in the mid-1980s, Archinome rosacea has been recorded at hydrothermal vents in the Pacific, Atlantic and Indian Oceans. Only recently was a second species described from the Pacific Antarctic Ridge. We inferred the identities and evolutionary relationships of Archinome representatives sampled from across the hydrothermal vent range of the genus, which is now extended to cold methane seeps. Species delimitation using mitochondrial cytochrome c oxidase subunit I (COI) recovered up to six lineages, whereas concatenated datasets (COI, 16S, 28S and ITS1) supported only four or five of these as clades. Morphological approaches alone were inconclusive to verify the identities of species owing to the lack of discrete...

Tipo: Text

Palavras-chave: Deep sea; Hydrothermal vents; Cold methane seeps; Cryptic species; Polychaete.

Ano: 2013

URL: http://archimer.ifremer.fr/doc/00157/26814/24961.pdf

Weber, Alexandra Anh-thu; Stohr, Sabine; Chenuil, Anne.

Cryptic species are numerous in the marine environment. The brittle star Ophioderma longicauda is composed of six mitochondrial lineages, encompassing brooders, which form a monophyletic group, and broadcasters, from which the brooders are derived. To clarify the species limits within O. longicauda, we compared the reproductive status of the sympatric lineages L1 and L3 (defined after sequencing a portion of the mitochondrial gene COI) during the month of May in Greece. In addition, we genotyped a nuclear marker, intron i51. Each L3 female was brooding, whereas all L1 specimens displayed full gonads, suggesting temporal pre-zygotic isolation between brooders and broadcasters. Statistical differences were found among lineages in morphology and bathymetric...

Tipo: Text

Palavras-chave: Ophiuroidea; Espèces cryptiques; Espèce incubante; Sous-unité I de la cytochrome oxydase; EPIC; Ophiuroidea; Cryptic species; Brooding species; Cytochrome oxidase subunit I; EPIC.

Ano: 2014

URL: https://archimer.ifremer.fr/doc/00372/48271/48576.pdf

From seascape ecology to population genomics and back. Spatial and ecological differentiation among cryptic species of the red algae Lithophyllum stictiforme/L. cabiochiae, main bioconstructors of coralligenous habitats

Diversity, Distribution and Phylogeny of Hesionidae (Annelida) Colonizing Whale Falls: New Species of Sirsoe and Connections Between Ocean Basins

De Jode, Aurélien; David, Romain; Haguenauer, Anne; Cahill, Abigail E.; Erga, Zinovia; Guillemain, Dorian; Sartoretto, Stephane; Rocher, Caroline; Selva, Marjorie; Le Gall, Line; Féral, Jean-pierre; Chenuil, Anne.

Ecosystem engineering species alter the physical structure of their environment and can create or modify habitats, having a massive impact on local biodiversity. Coralligenous reefs are highly diverse habitats endemic to the Mediterranean Sea built by calcareous benthic organisms among which Crustose Coralline Algae are the main engineering species. We analyzed the diversity of Lithophyllum stictiforme or L. cabiochiae in coralligenous habitats combining a multiple barcode and a population genomics approach with seascape features. Population genomics allowed disentangling pure spatial effects from environmental effects. We found that these taxa form a complex of eight highly divergent cryptic species that are easily identifiable using classic barcode...

Tipo: Text

Palavras-chave: Engineering species; Cryptic species; Ecological niche; Coralligenous habitats; Ecological differentiation; Crustose Coralline Algae.

Ano: 2019

URL: https://archimer.ifremer.fr/doc/00487/59859/63014.pdf

Shimabukuro, Mauricio; Carrerette, Orlemir; Alfaro-lucas, Joan Manel; Rizzo, Alexandra Elaine; Halanych, Kenneth M.; Sumida, Paulo Yukio Gomes.

Whale falls are important environments contributing to biodiversity, connectivity and evolutionary novelty in deep-sea ecosystem. Notwithstanding, most of this knowledge is based in studies from NE Pacific basin. Interestingly, the only known natural whale fall on the SW Atlantic has faunal composition affinities with carcasses from other deep-ocean basins. In this carcass, annelid worms belonging to Hesionidae are abundant and species-rich, and include some shared species with NE Pacific Ocean. Here we evaluate the diversity of Hesionidae on the SW Atlantic using new information of implanted whale bones and explore whether some species have interbasin distribution or if they represent cryptic species in different basins. We described, using morphological...

Tipo: Text

Palavras-chave: Deep sea; Biodiversity; Cryptic species; Biogeography; Connectivity.

Ano: 2019

URL: https://archimer.ifremer.fr/doc/00509/62081/66263.pdf

Easier detection of invertebrate "identification-key characters" with light of different wavelengths

Koken, Marcel; Grall, Jacques.

The marine alpha-taxonomist often encounters two problems. Firstly, the "environmental dirt" that is frequently present on the specimens and secondly the difficulty in distinguishing key-features due to the uniform colours which fixed animals often adopt. Here we show that illuminating animals with deep-blue or ultraviolet light instead of the normal white-light abrogates both difficulties; dirt disappears and important details become clearly visible. This light regime has also two other advantages. It allows easy detection of very small, normally invisible, animals (0.1 mu m range). And as these light wavelengths can induce fluorescence, new identification markers may be discovered by this approach.

Tipo: Text

Palavras-chave: Fluorescent colours; Light emission; Determination; Cryptic species; Dimorphism; Pattern UV light; Deep-blue light; Autofluorescence.

Ano: 2011

URL: http://archimer.ifremer.fr/doc/00185/29660/28026.pdf

Sharp genetic break between Atlantic and English Channel populations of the polychaete Pectinaria koreni, along the North coast of France

Nomenclature for the Nameless: A Proposal for an Integrative Molecular Taxonomy of Cryptic Diversity Exemplified by Planktonic Foraminifera

Jolly, Mt; Jollivet, D; Gentil, F; Thiebaut, E; Viard, F.

This study uses enzymatic and mitochondrial genes to infer the relative importance of historical processes and contemporary hydrodynamic features on the observed patterns of genetic structure in subdivided populations of Pectinaria koreni (Polychaeta: Pectinariidae) along the coasts of Brittany and the English Channel. Nucleotide sequence variation of a 603-bp fragment of the mtDNA cytochrome oxidase subunit I gene revealed a surprisingly deep phylogeographic break of about 16% divergence separating the Brittany and Channel populations, which coincides with a biogeographic boundary along the western coast of Brittany. Deep sequence divergence with fixed haplotype differences and the inversion of allele frequencies at two enzyme loci suggests the occurrence...

Tipo: Text

Palavras-chave: Phylogeography; Allozymes; MtDNA; Parapatric boundary; Cryptic species.

Ano: 2005

URL: https://archimer.ifremer.fr/doc/00301/41250/40433.pdf

Morard, Raphael; Escarguel, Gilles; Weiner, Agnes K. M.; Andre, Aurore; Douady, Christophe J.; Wade, Christopher M.; Darling, Kate F.; Ujiie, Yurika; Seears, Heidi A.; Quillevere, Frederic; De Garidel-thoron, Thibault; De Vargas, Colomban; Kucera, Michal.

Investigations of biodiversity, biogeography, and ecological processes rely on the identification of "species" as biologically significant, natural units of evolution. In this context, morphotaxonomy only provides an adequate level of resolution if reproductive isolation matches morphological divergence. In many groups of organisms, morphologically defined species often disguise considerable genetic diversity, which may be indicative of the existence of cryptic species. The diversity hidden by morphological species can be disentangled through genetic surveys, which also provide access to data on the ecological distribution of genetically circumscribed units. These units can be identified by unique DNA sequence motifs and allow studies of evolutionary and...

Tipo: Text

Palavras-chave: Cryptic species; Genetic diversity; Planktonic foraminifera; Molecular nomenclature; MOTUs.

Ano: 2016

URL: https://archimer.ifremer.fr/doc/00383/49408/49900.pdf

Cryptic diversity within the harmful dinoflagellate Akashiwo sanguinea in coastal Chinese waters is related to differentiated ecological niches

Metazoan meiofaunal communities at cold seeps along the Norwegian margin: Influence of habitat heterogeneity and evidence for connection with shallow-water habitats

Luo, Zhaohe; Yang, Weidong; Leaw, Chui Pin; Pospelova, Vera; Bilien, Gwenael; Liow, Guat Ru; Lim, Po Teen; Gu, Haifeng.

Blooms of the harmful dinoflagellate Akashiwo sanguinea are responsible for the mass mortality of fish and invertebrates in coastal waters. This cosmopolitan species includes several genetically differentiated clades. Four clonal cultures were established by isolating single cells from Xiamen Harbour (the East China Sea) for morphological and genetic analyses. The cultures displayed identical morphology but were genetically different, thus revealing presence of cryptic diversity in the study area. New details of the apical structure complex of Akashiwo sanguinea were also found. To investigate whether the observed cryptic diversity was related to environmental differentiation, 634 cells were obtained from seasonal water samples collected from 2008 to 2012....

Tipo: Text

Palavras-chave: Biogeography; Cryptic species; Gymnodinium sanguineum; Seasonal occurrence; Speciation.

Ano: 2017

URL: http://archimer.ifremer.fr/doc/00386/49771/50355.pdf

Epitypification of Fusarium oxysporum – clearing the taxonomic chaos

Van Gaever, Saskia; Olu, Karine; Derycke, Sofie; Vanreusel, Ann.

Cold-seep environments and their associated symbiont-bearing megafaunal communities create islands of primary production for macro- and meiofauna in the otherwise monotonous and nutrient-poor deep-sea environment. To examine the spatial variation and distribution patterns of metazoan meiobenthos in different seepage-related habitats, samples were collected in two regions off Norway: several pockmarks associated with the Storegga Slide including the Nyegga pockmark area (730 m: 64 degrees N), and the active, methane-venting Hakon Mosby Mud Volcano (HMMV) west of the Barents Sea (1280 m: 72 degrees N). Based on sediment geochemistry and associated epifauna, three different habitat types were distinguished across the two regions: (1) reduced sediment with...

Tipo: Text

Palavras-chave: Terschellingia longicaudata; Halomonhystera disjuncta; Cryptic species; Nematodes; Meiobenthos; Cold seeps.

Ano: 2009

URL: http://archimer.ifremer.fr/doc/2009/publication-7484.pdf

Lombard, L.; Sandoval-Denis, M.; Lamprecht, S.C.; Crous, P.W..

Fusarium oxysporum is the most economically important and commonly encountered species of Fusarium. This soil-borne fungus is known to harbour both pathogenic (plant, animal and human) and non-pathogenic strains. However, in its current concept F. oxysporum is a species complex consisting of numerous cryptic species. Identification and naming these cryptic species is complicated by multiple subspecific classification systems and the lack of living ex-type material to serve as basic reference point for phylogenetic inference. Therefore, to advance and stabilise the taxonomic position of F. oxysporum as a species and allow naming of the multiple cryptic species recognised in this species complex, an epitype is designated for F. oxysporum. Using multi-locus...

Alpheus rudolphi spec. nov., a new snapping shrimp from northeastern Brazil (Crustacea: Decapoda: Alpheidae)

Palavras-chave: Cryptic species; Diversity; Human and plant pathogens; Species complex; Subspecific classification.

Ano: 2019

URL: http://www.repository.naturalis.nl/record/673170

Almeida, A.O.; Anker, A..

A new snapping shrimp of the Alpheus armatus Rathbun, 1901 species complex, Alpheus rudolphi spec. nov., is described based on a single female holotype collected off Alagoas, northeastern Brazil (09°55.11’S 35°32.73’W). The new species differs from all other species of the A. armatus complex by the unique configuration of the orbito-rostral region of the carapace.

Searching for cryptic species in Erpobdella octoculata (L.) (Hirudinea: Clitellata): discordance between the results of genetic analysis and cross-breeding experiments

Palavras-chave: Caridea; Alpheidae; Alpheus; Cryptic species; Snapping shrimp; West Atlantic; Alagoas; Brazil; 42.74.

Ano: 2011

URL: http://www.repository.naturalis.nl/record/376598

Koperski, P.; Milanowski, R.; Krzyk, A..

The main aim of this study was to reveal reproduction barriers and potentially cryptic radiation within the very common and morphologically variable leech species - Erpobdella octoculata (L., 1758). The differences in reproductive success of the morphological forms were compared experimentally. The data based on the results of field sampling and analysis of ITS and COI sequences is also presented. The results of the analysis of DNA sequences clearly show lack of reproduction barriers between the analysed morphological forms. Subtle differences in DNA sequences between individuals, found with the use of the arbitrary primers method, seem to be related mainly to geographical distance between sub-populations. On the basis of these results, E. octoculata...

Host relations and DNA reveal a cryptic gall crab species (Crustacea: Decapoda: Cryptochiridae) associated with mushroom corals (Scleractinia: Fungiidae)

Palavras-chave: COI; Cryptic species; Discordance; Hirudinea; ITS; Molecular taxonomy; 42.76.

Ano: 2011

URL: http://www.repository.naturalis.nl/record/369712

Meij, S.E.T. van der.

Mushroom corals of the Indo-West Pacific Fungiidae (Scleractinia) provide habitats for a rich associated fauna, including three species of gall crabs (Cryptochiridae). During the course of the present study gall crabs were sampled from many different fungiid hosts. Based on this ‘reversed’ approach - by studying coral symbionts from a host perspective - a previously unnoticed host specificity pattern was detected. The sampling of gall crab fauna per host coral combined with molecular analyses of H3 nDNA, 16S and COI mtDNA revealed a cryptic gall crab species closely related to Fungicola fagei. This new species, described hereafter as Fungicola syzygia sp. nov., is predominantly associated with the mushroom coral genera Cycloseris and Pleuractis, whereas...

DNA barcoding, phylogeny and systematics of Golden-backed frogs (Hylarana, Ranidae) of the Western Ghats-Sri Lanka biodiversity hotspot, with the description of seven new species

Palavras-chave: Cryptic species; Fungicola; Host specificity; Indo-West Pacific region; Tropical Eastern Pacific region; Scleractinia; 42.74.

Ano: 2015

URL: http://www.repository.naturalis.nl/record/519714

Biju, S.D.; Garg, S.; Mahony, S.; Wijayathilaka, N.; Senevirathne, G.; Meegaskumbura, M..

A systematic revision of the genus Hylarana in the Western Ghats-Sri Lanka biodiversity hotspot is presented. Species delineation in Hylarana is complicated due to a lack of distinct colour differences or striking morphological characters, leading to potential misidentification. We conducted extensive surveys throughout the Western Ghats-Sri Lanka biodiversity hotspot and performed multiple gene (16S, COI and Cytb) barcoding using 103 samples collected from cultivated land and natural habitats. Genetic distance comparisons and Neighbor Joining trees indicated the presence of at least 14 candidate species in the region, supported by taxa groupings for all three genetic markers. Utilising a combination of molecular and morphological data, we describe seven...

Macrozooplankton diversity: how much do we really know?

Palavras-chave: Amphibia; Cryptic species; Endemism; Integrative taxonomy; Lectotypification; Multiple gene barcoding; Neotypification; Taxonomic revision; 42.82; 42.64.

Ano: 2014

URL: http://www.repository.naturalis.nl/record/506456

Pierrot-Bults, A.C.; Spoel, S. van der.

Pelagic species are widely distributed in a horizontal plane and have three-dimensional distributions, since the sea covers about 70% of the surface of the earth, and on average 4 km deep. For most macrozooplankton and micronekton groups there seems to be no great expectations of finding new taxa with the exception of gelatinous groups and of the deep sea, which is a relatively unknown especially in the benthopelagic zone close to the sea-bed. However, we do not know very much about variation, either morphological or genetical, within socalled species in different parts of their range. We think we are dealing with single very broadly distributed species, which, in reality, are species complexes consisting of several more or less cryptic species or...

Evolutionary history of the sequestrate genus Rossbeevera (Boletaceae) reveals a new genus Turmalinea and highlights the utility of ITS minisatellite-like insertions for molecular identification

Palavras-chave: Pelagic macrozooplankton/micronekton diversity; Biogeographic patterns; Genetic variation; Morphological variation; Cryptic species; 42.79.

Ano: 2003

URL: http://www.repository.naturalis.nl/record/220316

Orihara, T.; Lebel, T.; Ge, Z.-W.; Smith, M.E.; Maekawa, N..

The sequestrate (truffle-like) basidiomycete genera Rossbeevera, Chamonixia, and Octaviania are closely related to the epigeous mushroom genera Leccinum and Leccinellum. In order to elucidate the properties and placement of several undescribed sequestrate taxa in the group and to reveal the evolutionary history of Rossbeevera and its allies, we conducted phylogenetic analyses based on three nuclear (ITS, nLSU, EF-1α) and two mitochondrial DNA loci (ATP6 and mtSSU) as well as precise morphological observations. Phylogenetic analyses of three nuclear loci suggest a complex evolutionary history with sequestrate fruiting bodies present in several clades, including a previously unrecognized sister clade to Rossbeevera. Here we propose a new sequestrate genus,...