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Supplement 2 to Gallo et al. (2020) – Mar Ecol Prog Ser 437:159-180 – https://doi.org/10.3354/meps13240 Supplement 2 CONTENTS Figure S1 – Select images of collected fish specimens Text S1 – Primer information for species barcoding Figure S2 – Environmental conditions for each transect Table S1 – Expanded table showing demersal fish species capable of living in oxygen minimum zones (OMZs) with species from the Gulf of California added Fig. S1. Collected specimens from the Gulf of California deep-sea demersal fish community, showing examples of several different species and orders. Photographs were taken of fresh, non- preserved specimens immediately after recovery from the ROV. Species are: A) Coelorinchus scaphopsis, a common macrourid in the northern Gulf, B) Pontinus furcirhinus, a scorpaenid common in the northern and central Gulf, C) two species of ogcocephalid, Dibranchus spinosus (left) and Dibranchus hystrix (right) that were both common in the southern Gulf, D) Symphurus oligomerus, a cynoglossid, common in the northern and central Gulf, E) Porichthys mimeticus, a batrachoidid common in shallower waters in the Southern Gulf, and F) the anterior-dorsal view of Cephalurus cephalus, a scyliorhinid common in the central and southern Gulf under low oxygen conditions. Note the very large gill chambers on the C. cephalus specimen. 1 Supplement 2 to Gallo et al. (2020) – Mar Ecol Prog Ser 437:159-180 – https://doi.org/10.3354/meps13240 Text S1. For the majority of the specimens, COI VF1 forward primer (5′-TTCTCAACCAACCACAAAGACATTGG-3’) and COI VR1 reverse primer (5′-TAGACTTCTGGGTGGCCAAAGAATCA-3′) (deWaard et al. 2007) were used for the CO1 gene, and 16Sar forward primer (5’-CGCCTGTTATCAAAAACAT-3’) and 16Sbr reverse primer (5’-CCGGTCTGAACTCAGATCACGT-3’) (Palumbi 1996) were used for the 16S gene. For the rockfish, Sebastes-specific CO1 primers, modified from Ward et al. (2005) by J. Hyde (NOAA SWFSC) were used (F: 5'-TCWACCAACCACAAAGAYAT YGGCAC-3’, R: 5'-TARACTTCWGGGTGRCCRAAGAATCA-3’). Literature Cited deWaard JR, Ivanova NV, Hajibabei M, Hebert PDN (2007) Assembling DNA Barcodes. Methods in Molecular Biology. Environmental Genomic 410:275–294 Palumbi SR (1996) Nucleic acids II: the polymerase chain reaction. In: Hillis DM, Moritz C, Mable BK, (eds) Molecular systematics. Sinauer & Associates Inc, Sunderland, MA,USA Ward RD, Zemlak TS, Innes BH, Last PR, Hebert PDN (2005) Barcoding Australia’s fish species. Philos Trans R Soc Lon B, 360:1847–1857 2 Supplement 2 to Gallo et al. (2020) – Mar Ecol Prog Ser 437:159-180 – https://doi.org/10.3354/meps13240 Fig. S2. Environmental conditions for each transect are visualized here. Points represent transects (n=88) and are color coded by location in the Gulf of California (red = northern Gulf, turquoise = central Gulf, grey = southern Gulf). 3 Supplement 2 to Gallo et al. (2020) – Mar Ecol Prog Ser 437:159-180 – https://doi.org/10.3354/meps13240 Table S1. Prior to this study, 77 demersal fish species globally were described from OMZ habitats (Gallo and Levin 2016). This study expands this list to 95 species. Newly added species, or species for which new details were added, are indicated in gray. Common Name Location Depth Temp Oxygen Range Citations Range (m) Range (°C) (µmol kg-1) Myxiniformes Myxinidae US Pacific margin N.D. Gallo unpublished, Eptatretus deani Black hagfish 366-2743 3.6-6.4 13.1-58.2 (northeastern Pacific) Day and Pearcy (1968) Canada Pacific margin Eptratretus sp. Hagfish 890 3.6-4.0 10.5-15.3 Juniper et al. (2013) (northeastern Pacific) Eptatretus sinus Cortez hagfish Gulf of California 263-1080 5.0-12.1 2.7-35.0 This study Squaliformes Etmopteridae Indian margin (Arabian Etmopterus sp. Lantern shark - - - Hunter et al. (2011) Sea) Pakistan margin Centroscyllium ornatum Ornate dogfish 1000-1200 7.4-8.7 6.7-17.0 Murty et al. (2009) (Arabian Sea) Centrophoridae Yemen margin (Arabian Centrophorus granulosus Gulper shark 50-1440 5.2-12.9 13.3-212.7 Kukharev (2015) Sea) Carcharhiniformes Scyliorhinidae California margin Apristurus brunneus Brown catshark 79-1448 2.9-5.4 13.1-70.9 N.D. Gallo unpublished (northeastern Pacific) California margin to N.D. Gallo unpublished, Parmaturus xaniurus Filetail catshark Gulf of California 88-1250 3.3-11.59 1.43-143.5 This study (northeastern Pacific) Aguirre-Villaseñor and Cephalurus cephalus Lollipop shark Gulf of California 275-927 5.3-9.4 0.8-6.1 Salas-Singh (2012), Gallo et al. (2018), This study Yemen margin (Arabian Halaelurus spp. Tiger catshark - - 13.3 Kukharev (2015) Sea) Chilean margin J. Sellanes (UCN) Cephalurus sp. cf. Catshark 313-327 10.9-11.5 3.0-3.84 (southeastern Pacific) unpublished Proscylliidae Pygmy ribbontail Yemen margin (Arabian Eridacnis radcliffei 71-766 - 13.3-174.9 Kukharev (2015) catshark Sea) Rajiformes Arhynchobatidae Oregon margin Bathyraja interrupta Sandpaper skate 64-1500 3.1-8.3 13.1-273.4 Day and Pearcy (1968) (northeastern Pacific) Oregon margin Bathyraja trachura Roughtail skate 213-2550 1.6-7.0 18.4-156.2 Day and Pearcy (1968) (northeastern Pacific) Indian margin (Arabian Bathyraja sp. Skate - - - Hunter et al. (2011) Sea) Pleuronectiformes Pleuronectidae US Pacific margin Friedman et al. (2012), Microstomus pacificus Dover sole 10-1370 2.9-11.5 13.1-318.9 (northeastern Pacific) Day and Pearcy (1968) US and Canada Pacific N.D. Gallo unpublished, Embassichthys bathybius Deep-sea sole margin (northeastern 125-1800 2.4-6.4 13.1-54.3 Day and Pearcy (1968), Pacific) Juniper et al. (2013) Matabos et al. (2012), US and Saanich Inlet Lyopsetta exilis Slender sole 25-800 4.2-8.7 14.0-244.6 Chu and Tunnicliffe (northeastern Pacific) (2015) 4 Supplement 2 to Gallo et al. (2020) – Mar Ecol Prog Ser 437:159-180 – https://doi.org/10.3354/meps13240 Paralichthyidae Chilean margin J. Sellanes (UCN) Hippoglossina macrops Bigeye flounder 34-580 10.6-16.5 22-83.5 (southeastern Pacific) unpublished Bothidae Pacific deepwater Costa Rica to Peru Monolene maculipinna 205-384 13.0-27.5 16.2-175.4 Bianchi et al. (1991) flounder (eastern tropical Pacific) Soleidae Namibia to South Africa Austroglossus microlepis West coast sole 100-400 7.8-14.5 16.0-218.9 Hamukuaya et al. (2001) (southeastern Atlantic) Symphurus spp. Tonguefish Gulf of California 224-1010 7.9-13.0 2.69-55.28 This study Anguilliformes Nettastomatidae California margin Facciolella equatorialis Dogface witch-eel 500-1000 6.2-8.2 9.2-47.7 N.D. Gallo unpublished (northeastern Pacific) Yemen margin (Arabian Nettastoma sp. Duckbill eel - - 13.3 Kukharev (2015) Sea) Congridae Indian margin (Arabian Congridae sp. Conger eel - - - Hunter et al. (2011) Sea) Pakistan margin Congridae sp. Conger eel 1200 7.4 13.4-17.0 Murty et al. (2009) (Arabian Sea) Bathycongrus macrurus Shorthead conger Gulf of California 298-544 7.32-11.61 0.65-12.19 This study Synaphobranchidae Indian margin (Arabian Synaphobranchus sp. Cutthroat eel - - - Hunter et al. (2011) Sea) Serrivomeridae Pakistan margin Serrivomer sp. Sawtooth eel 1100 8 9.4-11.2 Murty et al. (2009) (Arabian Sea) Notacanthiformes Halosauridae Pakistan margin Halosaurus sp. Halosaur 1200 7.4 13.4-17.0 Murty et al. (2009) (Arabian Sea) Notocanthidae Pakistan margin Notocanthus sp. Deep-sea spiny eel 1100 8 9.4-11.2 Murty et al. (2009) (Arabian Sea) Aulopiformes Synodontidae Pakistan margin Saurida tumbil Greater lizardfish 4-700 11.0-26.6 4.9-206.5 Murty et al. (2009) (Arabian Sea) Brushtooth Yemen margin (Arabian Saurida undosquamis 1-350 11.3-28.3 13.3-210.9 Kukharev (2015) lizardfish Sea) Yemen margin (Arabian Harpadon squamosus Lizardfish - - 13.3 Kukharev (2015) Sea) Ipnopidae Bathypterois sp. Tripodfish Gulf of California 863-1356 3.3-5.1 4.1-21.7 This study Beryciformes Trachichthyidae Yemen margin (Arabian Hoplostethus spp. Roughy - - 13.3 Kukharev (2015) Sea) Perciformes Stichaeidae Chu and Tunnicliffe Bluebarred Saanich Inlet Plectobranchus evides 84-368 7.6-8.6 7.9-205.6 (2015), Matabos et al. prickleback (northeastern Pacific) (2012) Agonidae US Pacific margin, Chu and Tunnicliffe Xeneretmus latifrons Blacktip poacher Saanich Inlet 18-486 4.6-8.7 7.4-244.6 (2015), Matabos et al. (northeastern Pacific) (2012) Blackfin starsnout Canada Pacific margin Bathyagonus nigripinnis 18-1290 3.0-8.3 10.5-201.7 Juniper et al. (2013) poacher (northeastern Pacific) Zoarcidae Canada Pacific margin Zoarcid sp. Eelpout 890 3.6-4 10.5-15.3 Juniper et al. (2013) (northeastern Pacific) 5 Supplement 2 to Gallo et al. (2020) – Mar Ecol Prog Ser 437:159-180 – https://doi.org/10.3354/meps13240 Lycenchelys spp. Eelpout Gulf of California 894-1355 3.3-5.0 4.0-21.9 This study Derepodichthys Cuskpout Gulf of California 1182 3.98 16.57 This study alepidotus Serranidae Mexican sand Mexico to Peru (eastern Diplectrum macropoma 1-220 16.6-16.8 17.5-120.3 Bianchi et al. (1991) perch tropical Pacific) Serranidae sp. Serranid Gulf of California 223-227 11.8 3.2-3.5 This study Trichiuridae Mexico to Peru (eastern Trichiurus nitens Pacific cutlassfish 160-250 13 17.5 Bianchi et al. (1991) tropical Pacific) Yemen margin (Arabian Lepturacanthus spp. Hairtail - - 13.3 Kukharev (2015) Sea) Gobiidae Hamukuaya et al. (2001), Namibia and South Mas-Reira et al. (1990), Sufflogobius bibarbatus Bearded goby Africa (southeastern 10-340 7.8-14.5 10.0-218.8 Utne-Palm et al. (2010), Atlantic) Salvanes et al. (2011) Carangidae Gulf of Guinea to South Trachurus trachurus Horse mackerel Africa (southeastern 0-500 5.4-22.0 16-252.0 Hamukuaya et al. (2001) capensis Atlantic) Pakistan margin (Indian Carangidae sp. Carangid 300 14.8 4.9-5.4 Murty et al.
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    European Journal of Taxonomy 73: 1-73 ISSN 2118-9773 http://dx.doi.org/10.5852/ejt.2014.73 www.europeanjournaloftaxonomy.eu 2014 · Carneiro M. et al. This work is licensed under a Creative Commons Attribution 3.0 License. Monograph urn:lsid:zoobank.org:pub:9A5F217D-8E7B-448A-9CAB-2CCC9CC6F857 Updated checklist of marine fishes (Chordata: Craniata) from Portugal and the proposed extension of the Portuguese continental shelf Miguel CARNEIRO1,5, Rogélia MARTINS2,6, Monica LANDI*,3,7 & Filipe O. COSTA4,8 1,2 DIV-RP (Modelling and Management Fishery Resources Division), Instituto Português do Mar e da Atmosfera, Av. Brasilia 1449-006 Lisboa, Portugal. E-mail: [email protected], [email protected] 3,4 CBMA (Centre of Molecular and Environmental Biology), Department of Biology, University of Minho, Campus de Gualtar, 4710-057 Braga, Portugal. E-mail: [email protected], [email protected] * corresponding author: [email protected] 5 urn:lsid:zoobank.org:author:90A98A50-327E-4648-9DCE-75709C7A2472 6 urn:lsid:zoobank.org:author:1EB6DE00-9E91-407C-B7C4-34F31F29FD88 7 urn:lsid:zoobank.org:author:6D3AC760-77F2-4CFA-B5C7-665CB07F4CEB 8 urn:lsid:zoobank.org:author:48E53CF3-71C8-403C-BECD-10B20B3C15B4 Abstract. The study of the Portuguese marine ichthyofauna has a long historical tradition, rooted back in the 18th Century. Here we present an annotated checklist of the marine fishes from Portuguese waters, including the area encompassed by the proposed extension of the Portuguese continental shelf and the Economic Exclusive Zone (EEZ). The list is based on historical literature records and taxon occurrence data obtained from natural history collections, together with new revisions and occurrences.
  • Wk Shark Advice Adhshark

    Wk Shark Advice Adhshark

    ICES Special Request Advice Ecoregions in the Northeast Atlantic and adjacent seas Published 25 September 2020 NEAFC and OSPAR joint request on the status and distribution of deep-water elasmobranchs Advice summary In response to a joint request from NEAFC and OSPAR, ICES reviewed existing information on deep-water sharks, skates and rays from surveys and the literature. Distribution maps were generated for 21 species, showing the location of catches from available survey data on deep-water sharks and elasmobranchs in the NEAFC and OSPAR areas of the Northeast Atlantic. Shapefiles of the species distribution areas are available as supporting documentation to this work. This advice sheet presents a summary of ICES advice on the stock status of species for which an assessment is available, as well as current knowledge on the stock status of species for which ICES does not provide advice. An overview of approaches which may be applied to mitigate bycatch and to improve stock status is also presented. ICES recognizes that, despite their limitations, prohibition, gear and depth limitations, and TAC are mechanisms currently available to managers to regulate outtake; therefore, ICES advises that these mechanisms should be maintained. Furthermore, ICES advises that additional measures, such as electromagnetic exclusion devices, acoustic or light-based deterrents, and spatio-temporal management could be explored. Request NEAFC and OSPAR requested ICES to produce: a. Maps and shapefiles of the distribution of the species, identifying, if possible, key areas used during particular periods/stages of the species’ lifecycle in terms of distribution and relative abundance of the species, and expert interpretation of the data products; b.
  • Venom Evolution Widespread in Fishes: a Phylogenetic Road Map for the Bioprospecting of Piscine Venoms

    Venom Evolution Widespread in Fishes: a Phylogenetic Road Map for the Bioprospecting of Piscine Venoms

    Journal of Heredity 2006:97(3):206–217 ª The American Genetic Association. 2006. All rights reserved. doi:10.1093/jhered/esj034 For permissions, please email: [email protected]. Advance Access publication June 1, 2006 Venom Evolution Widespread in Fishes: A Phylogenetic Road Map for the Bioprospecting of Piscine Venoms WILLIAM LEO SMITH AND WARD C. WHEELER From the Department of Ecology, Evolution, and Environmental Biology, Columbia University, 1200 Amsterdam Avenue, New York, NY 10027 (Leo Smith); Division of Vertebrate Zoology (Ichthyology), American Museum of Natural History, Central Park West at 79th Street, New York, NY 10024-5192 (Leo Smith); and Division of Invertebrate Zoology, American Museum of Natural History, Central Park West at 79th Street, New York, NY 10024-5192 (Wheeler). Address correspondence to W. L. Smith at the address above, or e-mail: [email protected]. Abstract Knowledge of evolutionary relationships or phylogeny allows for effective predictions about the unstudied characteristics of species. These include the presence and biological activity of an organism’s venoms. To date, most venom bioprospecting has focused on snakes, resulting in six stroke and cancer treatment drugs that are nearing U.S. Food and Drug Administration review. Fishes, however, with thousands of venoms, represent an untapped resource of natural products. The first step in- volved in the efficient bioprospecting of these compounds is a phylogeny of venomous fishes. Here, we show the results of such an analysis and provide the first explicit suborder-level phylogeny for spiny-rayed fishes. The results, based on ;1.1 million aligned base pairs, suggest that, in contrast to previous estimates of 200 venomous fishes, .1,200 fishes in 12 clades should be presumed venomous.