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Distinct Herpesvirus Resistances and Immune Responses of Three
Gao et al. BMC Genomics (2017) 18:561 DOI 10.1186/s12864-017-3945-6 RESEARCH ARTICLE Open Access Distinct herpesvirus resistances and immune responses of three gynogenetic clones of gibel carp revealed by comprehensive transcriptomes Fan-Xiang Gao1,2, Yang Wang1, Qi-Ya Zhang1, Cheng-Yan Mou1,2, Zhi Li1, Yuan-Sheng Deng1,2, Li Zhou1* and Jian-Fang Gui1* Abstract Background: Gibel carp is an important aquaculture species in China, and a herpesvirus, called as Carassius auratus herpesvirus (CaHV), has hampered the aquaculture development. Diverse gynogenetic clones of gibel carp have been identified or created, and some of them have been used as aquaculture varieties, but their resistances to herpesvirus and the underlying mechanism remain unknown. Results: To reveal their susceptibility differences, we firstly performed herpesvirus challenge experiments in three gynogenetic clones of gibel carp, including the leading variety clone A+, candidate variety clone F and wild clone H. Three clones showed distinct resistances to CaHV. Moreover, 8772, 8679 and 10,982 differentially expressed unigenes (DEUs) were identified from comparative transcriptomes between diseased individuals and control individuals of clone A+, F and H, respectively. Comprehensive analysis of the shared DEUs in all three clones displayed common defense pathways to the herpesvirus infection, activating IFN system and suppressing complements. KEGG pathway analysis of specifically changed DEUs in respective clones revealed distinct immune responses to the herpesvirus infection. The DEU numbers identified from clone H in KEGG immune-related pathways, such as “chemokine signaling pathway”, “Toll-like receptor signaling pathway” and others, were remarkably much more than those from clone A+ and F. -
Chapter 2 Healthy Interaction Between Human and the Earth
FY2010 Part 1, Chapter 2 -Healthy Interaction between Human and the Earth Chapter 2 Healthy Interaction between Human and the Earth As seen in Chapter 1, we humans depend on under- which remained until today heavily depend on them ground resources such as fossil fuels and minerals, as (Figure 2-1-1). well as renewable resources such as food, forest and In Chapter 2, we will consider about how to achieve water. These natural resources provide energy, food, the wisdom in order to assist local everyday lives timber, medicine and so on, which are vital for human which based on traditional knowledge, to maintain the beings. We also depend on the fundamental roles of relationship in good condition between human beings and ecosystems; healthy forests, for example, regulate the Earth’s environment and to share the benefits of damages from heavy rainfall caused by typhoons. These ecosystem services with the future generation, focusing natural resources and ecosystems support various on status of renewable resources of biodiversity. patterns of human life styles, and indigenous cultures Section 1 Benefits of Ecosystem Services on the Earth for Our Everyday Lives There are 1.75 million identified species. Including Here, we will discuss the relationship between our unknown living organisms, it is said that there are 30 everyday lives and ecosystem services of biodiversity, million species on the Earth. Humans are nothing more mainly from the perspective of how ecosystem services than one of the many species, and it would be impossible provide security in everyday life, timbers for building, for us humans to exist without interrelationship with food, medicine for our health, and traditional cultures in these innumerable living organisms. -
Complete Mitochondrial Genome of the Speckled Dace Rhinichthys Osculus, a Widely Distributed Cyprinid Minnow of Western North America
Bock. Published in Mitochondrial DNA Part A> DNA Mapping, Sequencing, and Analysis, 27(6), Oct. 21, 2015: 4416-4418 MITOGENOME ANNOUNCEMENT Complete mitochondrial genome of the speckled dace Rhinichthys osculus, a widely distributed cyprinid minnow of western North America Samantha L. Bock, Morgan M. Malley, and Sean C. Lema Department of Biological Sciences, Center for Coastal Marine Sciences, California Polytechnic State University, San Luis Obispo, CA, USA Abstract Keywords The speckled dace Rhinichthys osculus (order Cypriniformes), also known as the carpita pinta, is Cyprinidae, Cypriniformes, Leuciscinae, a small cyprinid minnow native to western North America. Here, we report the sequencing of mitogenome, mtDNA the full mitochondrial genome (mitogenome) of R. osculus from a male fish collected from the Amargosa River Canyon in eastern California, USA. The assembled mitogenome is 16 658 base pair (bp) nucleotides, and encodes 13 protein-coding genes, and includes both a 12S and a 16S rRNA, 22 tRNAs, and a 985 bp D-loop control region. Mitogenome synteny reflects that of other Ostariophysian fishes with the majority of genes and RNAs encoded on the heavy strand (H-strand) except nd6, tRNA-Gln, tRNA-Ala, tRNA-Asn, tRNA-Cys, tRNA-Tyr, tRNA-Ser, tRNA-Glu, and tRNA - Pro. The availability of this R. osculus mitochondrial genome – the first complete mitogenome within the lineage of Rhinichthys riffle daces – provides a foundation for resolving evolutionary relationships among morphologically differentiated populations of R. osculus. The speckled dace Rhinichthys osculus (Girard, 1856) is a small and Tissue Kit; Qiagen, Valencia, CA) and amplified (GoTaq® fish within the Leuciscinae subfamily of true minnows Long PCR Master Mix, Promega Corp., Madison, WI) using (Cyprinidae, Cypriniformes). -
Ecological Notes of the Fishes and the Interspecific Relations Among Them in Lake Biwa
Ecological Notes of the Fishes and the Interspecific Relations among Them in Lake Biwa Taizo MIURA Introduction Lake Biwa has been much interested by biologists, specially by ichthiologists because of the richness and variety of the lake fish fauna and of their diverse origin. Therefore, a good number of papers on taxonomic researches of the fishes have been published. However ecological studies of the fishes have been poorly made. Freshwater environments as well as terrestrial ones have been practically reformed, accompanied with development of human society and specially of industries and agriculture. Lake Biwa is also not an exception. Recently the ministry of construction is planning to construct a dam between the north basin and the south basin of the lake, and to pump up water from the north basin to the south one for the purpose of holding a continuous water supply to the outlet river. By such programme the two basins will nearly be disconnected and the water level of the north basin is often expected to be lowered. It can be easily expected that production of the organisms in the lake will be affected by the reformation, so that it 'is important to predict how the organic production will be affected, and to propose how the programme should be made in order to benefit the local people, especially the fishermen. Thus, about sixty scientists including biologists, physicists, chemists and agricultural economists had formed a co-operative research team and have investigated the biotic re- sources of the lake from 1962 to 1965. Through this investigation ecological studies of some of the fish species have been intensively made. -
Lake Biwa Experience and Lessons Learned Brief
Lake Biwa Experience and Lessons Learned Brief Tatuo Kira, Retired, Lake Biwa Research Institute, Otsu, Japan Shinji Ide*, University of Shiga Prefecture, Hikone, Japan, [email protected] Fumio Fukada, Retired, Shiga Prefectural Government, Otsu, Japan Masahisa Nakamura, Shiga University, Otsu, Japan * Corresponding author 1. Introduction The history of the lake’s management is also one of confl icts over water utilization and fl ood control between Shiga This brief outlines the major management issues for Lake Biwa, Prefecture and the central government or the downstream the largest freshwater lake in Japan. The lake and its watershed mega-cities, including Kyoto, Osaka and Kobe. The Lake Biwa communities have enjoyed a common history for thousands of Comprehensive Development Project (LBCDP), the largest years, fostering a unique lake culture in the surrounding area. The birth of the lake can 6HDRI-DSDQ 1 be traced back to some four million years ago. As one of few ancient lakes in the world, /<RJR it embraces a rich ecosystem, with fi fty-seven endemic species being recorded. At DNDWRNL5 7 $QH5 the same time, it is a principal /$.(%,:$ ,PD]X <2'25,9(5%$6,1 1DJDKDPD water resource in Japan, $GR5 1RUWK%DVLQ -$3$1 supplying drinking water for 14 'UDLQDJH%DVLQ%RXQGDU\ million people in its watershed 3UHIHFWXUH%RXQGDU\ /DNH 5LYHU %LZD +LNRQH and downstream areas. /DNH Additionally, its catchment 6HOHFWHG&LW\ 6+,*$ area is highly industrialized NP 35() and urbanized, being inhabited .DWDWD 2PL +DFKLPDQ (FKL5 by approximately 1.3 million . .<272 DWVXUD5 +LQR5 people, with the population 35() ,/(& still increasing at one of the .\RWR 6RXWK%DVLQ 2WVX .XVDWVX highest growth rates in Japan. -
Guide to Monogenoidea of Freshwater Fish of Palaeartic and Amur Regions
GUIDE TO MONOGENOIDEA OF FRESHWATER FISH OF PALAEARTIC AND AMUR REGIONS O.N. PUGACHEV, P.I. GERASEV, A.V. GUSSEV, R. ERGENS, I. KHOTENOWSKY Scientific Editors P. GALLI O.N. PUGACHEV D. C. KRITSKY LEDIZIONI-LEDIPUBLISHING © Copyright 2009 Edizioni Ledizioni LediPublishing Via Alamanni 11 Milano http://www.ledipublishing.com e-mail: [email protected] First printed: January 2010 Cover by Ledizioni-Ledipublishing ISBN 978-88-95994-06-2 All rights reserved. No part of this publication may be reproduced, stored in a retrieval system, transmitted or utilized in any form or by any means, electonical, mechanical, photocopying or oth- erwise, without permission in writing from the publisher. Front cover: /Dactylogyrus extensus,/ three dimensional image by G. Strona and P. Galli. 3 Introduction; 6 Class Monogenoidea A.V. Gussev; 8 Subclass Polyonchoinea; 15 Order Dactylogyridea A.V. Gussev, P.I. Gerasev, O.N. Pugachev; 15 Suborder Dactylogyrinea: 13 Family Dactylogyridae; 17 Subfamily Dactylogyrinae; 13 Genus Dactylogyrus; 20 Genus Pellucidhaptor; 265 Genus Dogielius; 269 Genus Bivaginogyrus; 274 Genus Markewitschiana; 275 Genus Acolpenteron; 277 Genus Pseudacolpenteron; 280 Family Ancyrocephalidae; 280 Subfamily Ancyrocephalinae; 282 Genus Ancyrocephalus; 282 Subfamily Ancylodiscoidinae; 306 Genus Ancylodiscoides; 307 Genus Thaparocleidus; 308 Genus Pseudancylodiscoides; 331 Genus Bychowskyella; 332 Order Capsalidea A.V. Gussev; 338 Family Capsalidae; 338 Genus Nitzschia; 338 Order Tetraonchidea O.N. Pugachev; 340 Family Tetraonchidae; 341 Genus Tetraonchus; 341 Genus Salmonchus; 345 Family Bothitrematidae; 359 Genus Bothitrema; 359 Order Gyrodactylidea R. Ergens, O.N. Pugachev, P.I. Gerasev; 359 Family Gyrodactylidae; 361 Subfamily Gyrodactylinae; 361 Genus Gyrodactylus; 362 Genus Paragyrodactylus; 456 Genus Gyrodactyloides; 456 Genus Laminiscus; 457 Subclass Oligonchoinea A.V. -
Amur Fish: Wealth and Crisis
Amur Fish: Wealth and Crisis ББК 28.693.32 Н 74 Amur Fish: Wealth and Crisis ISBN 5-98137-006-8 Authors: German Novomodny, Petr Sharov, Sergei Zolotukhin Translators: Sibyl Diver, Petr Sharov Editors: Xanthippe Augerot, Dave Martin, Petr Sharov Maps: Petr Sharov Photographs: German Novomodny, Sergei Zolotukhin Cover photographs: Petr Sharov, Igor Uchuev Design: Aleksey Ognev, Vladislav Sereda Reviewed by: Nikolai Romanov, Anatoly Semenchenko Published in 2004 by WWF RFE, Vladivostok, Russia Printed by: Publishing house Apelsin Co. Ltd. Any full or partial reproduction of this publication must include the title and give credit to the above-mentioned publisher as the copyright holder. No photographs from this publication may be reproduced without prior authorization from WWF Russia or authors of the photographs. © WWF, 2004 All rights reserved Distributed for free, no selling allowed Contents Introduction....................................................................................................................................... 5 Amur Fish Diversity and Research History ............................................................................. 6 Species Listed In Red Data Book of Russia ......................................................................... 13 Yellowcheek ................................................................................................................................... 13 Black Carp (Amur) ...................................................................................................................... -
Difference in the Hypoxia Tolerance of the Round Crucian Carp and Largemouth Bass: Implications for Physiological Refugia in the Macrophyte Zone
Short Report Difference in the hypoxia tolerance of the round crucian carp and largemouth bass: implications for physiological refugia in the macrophyte zone Hiroki Yamanaka1**, Yukihiro Kohmatsu2, and Masahide Yuma3 1 Center for Ecological Research, Kyoto University, 2-509-3 Hirano, Otsu, Shiga 520-2113, Japan 2 Research Institute for Humanity and Nature, 457-4 Motoyama, Kamigamo, Kita-ku, Kyoto 603-8047, Japan 3 Department of Environmental Solution Technology, Faculty of Science & Technology, Ryukoku University, 1-5 Seta-Oe, Otsu, Shiga 520-2194, Japan * Present address: Research Institute for Humanity and Nature (RIHN), 457-4 Motoyama, Kamigamo, Kita-ku, Kyoto 603-8047, Japan (e-mail: [email protected]) Received: August 28, 2006 / Revised: November 28, 2006 / Accepted: December 1, 2006 Abstract The hypoxia tolerance of larval and juvenile round crucian carp, Carassius auratus gran- Ichthyological doculis, and largemouth bass, Micropterus salmoides, was determined using respirometry to examine the potential of hypoxic areas in the macrophyte zone as physiological refugia for round crucian carp. Research The tolerance, which was measured as the critical oxygen concentration (Pc), was 1.32 mg O /l in the ©The Ichthyological Society of Japan 2007 2 round crucian carp and 1.93 mg O2/l in the largemouth bass. As the round crucian carp tolerated Ichthyol Res (2007) 54: 308–312 hypoxia better than the largemouth bass, hypoxic areas in the macrophyte zone might function as physiological refugia for round crucian carp. DOI 10.1007/s10228-006-0400-0 Key words Hypoxia tolerance · Critical oxygen concentration (Pc) · Physiological refugia · Carassius auratus grandoculis · Micropterus salmoides or many larval and juvenile fi shes, the macrophyte early life history (Miura, 1966; Yuma et al., 1998). -
Development of Sense Organs and Mouth and Feeding of Reared Marble Goby Oxyeleotris Marmoratus Larvae*
Fisheries Science 60(4), 361-368 (1994) Development of Sense Organs and Mouth and Feeding of Reared Marble Goby Oxyeleotris marmoratus Larvae* Shigeharu Senoo,*1 Kok Jee Ang,*1 and Gunzo Kawamura*2 *1 Faculty of Fisheries and Marine Science , Universiti Pertanian Malaysia, 43400 UPM, Serdang, Selangor, Malaysia *2Faculty of Fisheries , Kagashima University, Shimoarata, Kagoshima 890, Japan (Received August 23, 1993) To obtain the fundamental information required toooestablish an artificial seed production technique for the marble goby Oxyeleotris marmoratus, the development of sense organs and mouth and the feeding of the larvae were observed. The larvae exhibited a S-posture and horizontal swimming at 2 days after fertilization (d AF) and commenced feeding on phytoplankton (species unknown) at 3 d AF when the eyes, the otic vesicle with ciliated epithelium, the free neuromasts on the head and the trunk, and the ciliated olfactory epithelium were functional. The first taste buds appeared in the oral cavity at 6 d AF after the onset of feeding on Brachinous spp. The larvae commenced feeding on Cyclops sp. at 7 d AF, Moina sp. at 10 d AF, and Anemia salina nauplii at 15 d AF. This change of feeding might be due to the development of the mouth and mobility of larvae rather than the development of sense organs. At 20 d AF, the larvae developed free neuromasts on the caudal fin. Twin cones and rods appeared in the ratinae at 30 d AF when the larvae changed in phototaxis from positive to negative. The larvae became benthic in habit at 35 d AF. -
Fishes of Mongolia a Check-List of the fi Shes Known to Occur in Mongolia with Comments on Systematics and Nomenclature
37797 Public Disclosure AuthorizedPublic Disclosure Authorized Environment and Social Development East Asia and Pacific Region THE WORLD BANK 1818 H Street, N.W. Washington, D.C. 20433, USA Telephone: 202 473 1000 Facsimile: 202 522 1666 E-mail: worldbank.org/eapenvironment worldbank.org/eapsocial Public Disclosure AuthorizedPublic Disclosure Authorized Public Disclosure AuthorizedPublic Disclosure Authorized Fishes of Mongolia A check-list of the fi shes known to occur in Mongolia with comments on systematics and nomenclature Public Disclosure AuthorizedPublic Disclosure Authorized MAURICE KOTTELAT Fishes of Mongolia A check-list of the fi shes known to occur in Mongolia with comments on systematics and nomenclature Maurice Kottelat September 2006 ©2006 Th e International Bank for Reconstruction and Development/THE WORLD BANK 1818 H Street, NW Washington, DC 20433 USA September 2006 All rights reserved. Th is report has been funded by Th e World Bank’s Netherlands-Mongolia Trust Fund for Environmental Reform (NEMO). Some photographs were obtained during diff erent activities and the author retains all rights over all photographs included in this report. Environment and Social Development Unit East Asia and Pacifi c Region World Bank Washington D.C. Contact details for author: Maurice Kottelat Route de la Baroche 12, Case Postale 57, CH-2952 Cornol, Switzerland. Email: [email protected] Th is volume is a product of the staff of the International Bank for Reconstruction and Development/Th e World Bank. Th e fi ndings, interpretations, and conclusions expressed in this paper do not necessarily refl ect the views of the Executive Directors of Th e World Bank or the governments they represent. -
News Release(研究成果情報) 氷
News Release(研究成果情報) H29.8.18 氷 見 市 学芸員の研究論文が農学で権威のある国際誌に掲載! ~水田のプランクトンがイタセンパラを救う~ 概要 国の天然記念物で絶滅の危機に瀕している淡水魚イタセンパラは、水田から排水されるプラン クトンによって保護されていることが、氷見市教育委員会学芸員らの研究により解明されました。 氷見市教育委員会の西尾正輝主任学芸員の研究グループは、2010 年から 2012 年にかけて伝統 的な用排兼用(※1)河川である万尾川のイタセンパラの生息状況を調べたところ、イタセンパ ラの個体数は河川周辺の水田面積や草刈りによって決まることを見出しました。その理由として、 豊富な動物プランクトンを含む水が、水田から万尾川へ排水されること。地域住民による米害虫 対策の河岸の草刈りが、日当たりを作り出すこと。これらの 2 点によりイタセンパラの餌や生息 地が提供されていることが明らかになりました。 これらの成果をまとめた論文は、世界的に評価の高い国際誌「Agriculture, Ecosystems & Environment」(※2)の電子版に 8 月 7 日(現地時間)に掲載されました。 図1.水田からの河川への動物プランクトン 図2.イタセンパラの生息に必要な環境条件 の供給がイタセンパラの生息に有効 今後への期待 今回の成果は、生物多様性が一体となった伝統的な農業システムの好事例として、 氷見市が目指す「世界農業遺産」への登録に大きく寄与するものと思われます。これ からの稲作は、生産者の高齢化や高収益作物への転作に伴い、厳しさを増していくと 思われます。人と自然に優しい伝統的な循環 型農業を維持するために、 スマートフォ ンで水田水管理コストを削減する最新の管理手法を用いるなど、伝統的農業システム と革新的管理手法を融合させることで、 今後もイタセンパラ生息河川周辺(万尾川) の「米作り」の継続を期待したい。 お問合せ先:ひみラボ水族館(電話)91-2249 (メール)[email protected] 担当:氷見市教育委員会 教育総務課 西尾 正輝 補足説明 論文執筆者(筆頭著者): 氷見市教育委員会 西 尾 正 輝 主任学芸員(37歳) 論文名:Paddy management for potential conservation of endangered Itasenpara bitterling via zooplankton abundance (動物プランクトンを介した絶滅危惧種イタセンパラの潜在的な保全のための水田管理) 著 者:西尾正輝(氷見市教育委員会)・江戸謙顕(文化庁)・山崎裕治(富山大学) 雑誌名:Agriculture, Ecosystems & Environment( ア グ リ カ ル チ ャ ー エ コ シ ス テ ム ズ エ ン バ イ ロ ン メ ン ト ) 本研究は、文化庁、富山県および河川財団の助成を受けて実施されました。 ※ 1 用 排 兼 用 ・ ・ ・ 用水路と排水路の機能をもつ 。ほ場整備の影響により、伝統的な「用 排 兼 用 」 は 減 少 し 、 大部分が用水路と排水路を分離させた「用排分離」となっている。 ※ 2 Agriculture, Ecosystems & Environment・・・科学雑誌の重要度を示す指標インパクトファクターにおいて、農業学際分 野を扱う英雑誌56誌の中で1位(IF値 4.099)のトップジャーナルです。 図3.Agriculture, Ecosystems & Environment の電子版(8 月 7 日に電子版に公開されました) -
Limits and Phylogenetic Relationships of East Asian Fishes in the Subfamily Oxygastrinae (Teleostei: Cypriniformes: Cyprinidae)
Zootaxa 3681 (2): 101–135 ISSN 1175-5326 (print edition) www.mapress.com/zootaxa/ Article ZOOTAXA Copyright © 2013 Magnolia Press ISSN 1175-5334 (online edition) http://dx.doi.org/10.11646/zootaxa.3681.2.1 http://zoobank.org/urn:lsid:zoobank.org:pub:64984E2C-1A9E-4086-9D47-74C5D31A4087 Limits and phylogenetic relationships of East Asian fishes in the subfamily Oxygastrinae (Teleostei: Cypriniformes: Cyprinidae) KEVIN L. TANG1,14, MARY K. AGNEW2, M. VINCENT HIRT3,4, DANIEL N. LUMBANTOBING5,6, MORGAN E. RALEY7, TETSUYA SADO8, VIEW-HUNE TEOH9, LEI YANG2, HENRY L. BART10, PHILLIP M. HARRIS9, SHUNPING HE11, MASAKI MIYA8, KENJI SAITOH12, ANDREW M. SIMONS3,13, ROBERT M. WOOD2 & RICHARD L. MAYDEN2 1Department of Biology, University of Michigan-Flint, Flint, MI 48502, USA. E-mail: [email protected] 2Department of Biology, Saint Louis University, St. Louis, MO 63103, USA. E-mails: [email protected] (MKA), [email protected] (LY), [email protected] (RMW), [email protected] (RLM) 3Bell Museum of Natural History, University of Minnesota, Minneapolis, MN 55455, USA. E-mails: [email protected] (MVH), [email protected] (AMS) 4Graduate Program in Ecology, Evolution, and Behavior, University of Minnesota, St. Paul, MN 55108, USA. 5Department of Biological Sciences, The George Washington University, Washington, D.C. 20052, USA. E-mail: [email protected] 6Division of Fishes, Smithsonian Institution, National Museum of Natural History, Washington, D.C., 20013, USA. 7Nature Research Center, North Carolina Museum of Natural Sciences, Raleigh, NC 27603, USA. E-mail: [email protected] 8Department of Zoology, Natural History Museum and Institute, Chiba, Chiba 260-8682, Japan. E-mails: [email protected] (TS), [email protected] (MM) 9Department of Biological Sciences, The University of Alabama, Tuscaloosa, AL 35487, USA.