Temporal Stability in the Otolith Sr:Ca Ratio of the Yellow Croaker
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Article Evolutionary Dynamics of the OR Gene Repertoire in Teleost Fishes
bioRxiv preprint doi: https://doi.org/10.1101/2021.03.09.434524; this version posted March 10, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Article Evolutionary dynamics of the OR gene repertoire in teleost fishes: evidence of an association with changes in olfactory epithelium shape Maxime Policarpo1, Katherine E Bemis2, James C Tyler3, Cushla J Metcalfe4, Patrick Laurenti5, Jean-Christophe Sandoz1, Sylvie Rétaux6 and Didier Casane*,1,7 1 Université Paris-Saclay, CNRS, IRD, UMR Évolution, Génomes, Comportement et Écologie, 91198, Gif-sur-Yvette, France. 2 NOAA National Systematics Laboratory, National Museum of Natural History, Smithsonian Institution, Washington, D.C. 20560, U.S.A. 3Department of Paleobiology, National Museum of Natural History, Smithsonian Institution, Washington, D.C., 20560, U.S.A. 4 Independent Researcher, PO Box 21, Nambour QLD 4560, Australia. 5 Université de Paris, Laboratoire Interdisciplinaire des Energies de Demain, Paris, France 6 Université Paris-Saclay, CNRS, Institut des Neurosciences Paris-Saclay, 91190, Gif-sur- Yvette, France. 7 Université de Paris, UFR Sciences du Vivant, F-75013 Paris, France. * Corresponding author: e-mail: [email protected]. !1 bioRxiv preprint doi: https://doi.org/10.1101/2021.03.09.434524; this version posted March 10, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Abstract Teleost fishes perceive their environment through a range of sensory modalities, among which olfaction often plays an important role. -
A New Species of Larimichthys from Terengganu, East Coast of Peninsular Malaysia (Perciformes: Sciaenidae)
Zootaxa 3956 (2): 271–280 ISSN 1175-5326 (print edition) www.mapress.com/zootaxa/ Article ZOOTAXA Copyright © 2015 Magnolia Press ISSN 1175-5334 (online edition) http://dx.doi.org/10.11646/zootaxa.3956.2.7 http://zoobank.org/urn:lsid:zoobank.org:pub:28EA3933-85D8-401B-831E-F5165B4172E4 A new species of Larimichthys from Terengganu, east coast of Peninsular Malaysia (Perciformes: Sciaenidae) YING GIAT SEAH1,2,4,6, NORHAFIZ HANAFI1, ABD GHAFFAR MAZLAN3,4 & NING LABBISH CHAO5 1School of Fisheries and Aquaculture Sciences, Universiti Malaysia Terengganu, 21030 Kuala Terengganu, Terengganu, Malaysia. E-mail: [email protected] 2Fish Division, South China Sea Repository and Reference Center, Institute of Oceanography and Environment, Universiti Malaysia Terengganu, 21030 Kuala Terengganu, Terengganu, Malaysia 3Institute of Tropical Aquaculture, Universiti Malaysia Terengganu, 21030 Kuala Terengganu, Terengganu, Malaysia 4Marine Ecosystem Research Center, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 Bangi, Selangor, Malaysia. 5National Museum of Marine Biology and Aquarium, 2 Houwan Road, Checheng, Pingtung, 944, Taiwan, Republic of China 6Corresponding author Abstract A new species of Larimichthys from Terengganu, east coast of Peninsular Malaysia is described from specimens collected from the fish landing port at Pulau Kambing, Kuala Terengganu. Larimichthys terengganui can be readily distinguished from other species of the genus by having an equally short pair of ventral limbs at the end of the gas bladder appendages, which do not extend lateral-ventrally to the lower half of the body wall, and fewer dorsal soft rays (29–32 vs. 31–36) and vertebrae (24 vs. 25–28). Larimichthys terengganui can be distinguished from L. -
Teleostei, Clupeiformes)
Old Dominion University ODU Digital Commons Biological Sciences Theses & Dissertations Biological Sciences Fall 2019 Global Conservation Status and Threat Patterns of the World’s Most Prominent Forage Fishes (Teleostei, Clupeiformes) Tiffany L. Birge Old Dominion University, [email protected] Follow this and additional works at: https://digitalcommons.odu.edu/biology_etds Part of the Biodiversity Commons, Biology Commons, Ecology and Evolutionary Biology Commons, and the Natural Resources and Conservation Commons Recommended Citation Birge, Tiffany L.. "Global Conservation Status and Threat Patterns of the World’s Most Prominent Forage Fishes (Teleostei, Clupeiformes)" (2019). Master of Science (MS), Thesis, Biological Sciences, Old Dominion University, DOI: 10.25777/8m64-bg07 https://digitalcommons.odu.edu/biology_etds/109 This Thesis is brought to you for free and open access by the Biological Sciences at ODU Digital Commons. It has been accepted for inclusion in Biological Sciences Theses & Dissertations by an authorized administrator of ODU Digital Commons. For more information, please contact [email protected]. GLOBAL CONSERVATION STATUS AND THREAT PATTERNS OF THE WORLD’S MOST PROMINENT FORAGE FISHES (TELEOSTEI, CLUPEIFORMES) by Tiffany L. Birge A.S. May 2014, Tidewater Community College B.S. May 2016, Old Dominion University A Thesis Submitted to the Faculty of Old Dominion University in Partial Fulfillment of the Requirements for the Degree of MASTER OF SCIENCE BIOLOGY OLD DOMINION UNIVERSITY December 2019 Approved by: Kent E. Carpenter (Advisor) Sara Maxwell (Member) Thomas Munroe (Member) ABSTRACT GLOBAL CONSERVATION STATUS AND THREAT PATTERNS OF THE WORLD’S MOST PROMINENT FORAGE FISHES (TELEOSTEI, CLUPEIFORMES) Tiffany L. Birge Old Dominion University, 2019 Advisor: Dr. Kent E. -
Transcriptome and Metabolome Analyses of Coilia Nasus in Response to Anisakidae Parasite Infection T
Fish and Shellfish Immunology 87 (2019) 235–242 Contents lists available at ScienceDirect Fish and Shellfish Immunology journal homepage: www.elsevier.com/locate/fsi Full length article Transcriptome and metabolome analyses of Coilia nasus in response to Anisakidae parasite infection T ∗ Kai Liua,b, Denghua Yinb, Yilin Shua, Pei Daib, Yanping Yangb, Hailong Wua, a Key Laboratory of Biotic Environment and Ecological Safety in Anhui Province, College of Life Sciences, Anhui Normal University, Wuhu, Anhui, 241000, China b Scientific Observing and Experimental Station of Fishery Resources and Environment in the Lower Reaches of the Changjiang River, Ministry of Agriculture and Rural Affaris, Freshwater Fisheries Research Center, CAFS, WuXi, 214081, China ARTICLE INFO ABSTRACT Keywords: Parasites from the family Anisakidae are capable of infecting a range of marine fish species worldwide. Coilia Coilia nasus nasus, which usually feeds and overwinters in coastal waters and spawns in freshwater, is highly susceptible to Anisakidae infection by Anisakidae. In this study, we used scanning electron microscopes to show that C. nasus infected by Transcriptome Anisakidae exhibited damage and fibrosis of the liver tissue. To better understand host immune reaction and Metabolome metabolic changes to Anisakidae infection, we used a combination of transcriptomic and metabolomic method to Immune responses characterize the key genes and metabolites, and the signaling pathway regulation of C. nasus infected by Metabolic changes Anisakidae. We generated 62,604 unigenes from liver tissue and identified 391 compounds from serum. Of these, Anisakidae infection resulted in significant up-regulation of 545 genes and 28 metabolites, and significant down- regulation of 416 genes and 37 metabolites. -
Direct Identification of Fish Species by Surface Molecular Transferring
Electronic Supplementary Material (ESI) for Analyst. This journal is © The Royal Society of Chemistry 2020 Supplementary materials for Direct Identification of Fish Species by Surface Molecular Transferring Mingke Shao, Hongyan Bi* College of Food Science and Engineering, Shanghai Ocean University, Hucheng Ring Road 999, Pudong New District, 201306 Shanghai, China * To whom correspondence should be addressed. E-mail address: [email protected] E-mail address for the other authors: [email protected] S1 S1. Photos and information on the analyzed fish samples Fig. S1. Photos of fishes analyzed in the present study: (A) Oreochromis mossambicus (B) Epinephelus rivulatus (C) Mugil cephalus; (D) Zeus faber (E) Trachinotus ovatus (F) Brama japonica (G) Larimichthys crocea (H) Larimichthys polyactis (I) Pampus argenteus. Scale bar in each photo represents 1 cm. Table S1. List of the scientific classification of fishes analyzed in the study. The classification of fishes refers to https://www.fishbase.de/. Binomial Abbreviatio English Chinese name n common Scientific classification name (Scientific name name) Actinopterygii (class) > Perciformes (order) > Japanese Brama Brama BJ Bramidae (family) > Wufang japonica japonica Brama (genus) > B. brama (species) Actinopterygii (class) > Silver Scombriformes(order) > Baichang pomfret; Pampus PA ( Fish White argenteus Stromateidae family) > pomfret Pampus (genus) > P. argenteus (species) Haifang Zeus faber Actinopterygii (class) > (commonly Linnaeu; Zeus faber ZF Zeiformes (order) > called: John Dory; Zeidae (family) > S2 Yueliang target perch Zeus (genus) > Fish) Z. faber (species) Actinopteri (class) > OM Cichliformes (order) > Mozambique Oreochromis Cichlidae (family) > Luofei Fish tilapia mossambicus Oreochromis (genus) > O.mossambicus (species) Actinopterygii (class) > MC Mugiliformes (order) Xiaozhai Flathead Mugil Mugilidae (family) > Fish grey mullet cephalus Mugil (genus) > M. -
Life History Variations Among Different Populations of Coilia Nasus Along the Chinese Coast Inferred from Otolith Microchemistry
九州大学学術情報リポジトリ Kyushu University Institutional Repository Life History Variations Among Different Populations of Coilia nasus Along the Chinese Coast Inferred from Otolith Microchemistry Jiang, Tao Wuxi Fisheries College, Nanjing Agriculture University Liu, Hongbo Key Laboratory of Ecological Environment and Resources of Inland Fisheries, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences Shen, Xinqiang East China Sea Fishery Research Institute, Chinese Academy of Fishery Sciences Shimasaki, Yohei Department of Bioresource Sciences, Faculty of Agriculture, Kyushu University 他 https://doi.org/10.5109/1467650 出版情報:九州大学大学院農学研究院紀要. 59 (2), pp.383-389, 2014-08-29. 九州大学大学院農学研究 院 バージョン: 権利関係: J. Fac. Agr., Kyushu Univ., 59 (2), 383–389 (2014) Life History Variations Among Different Populations of Coilia nasus Along the Chinese Coast Inferred from Otolith Microchemistry Tao JIANG1, Hongbo LIU2, Xinqiang SHEN3, Yohei SHIMASAKI, Yuji OSHIMA and Jian YANG1, 2* Laboratory of Marine Environmental Science, Division of Animal & Marine Bioresource Science, Department of Bioresource Sciences, Faculty of Agriculture, Kyushu University, Fukuoka 812–8581, Japan (Received April 25, 2014 and accepted May 12, 2014) The habitat use and the migratory patterns of different estuarine tapertail anchovy Coilia nasus popu- lations along the Chinese coast were studied by examining the environmental signatures of strontium and calcium in their otoliths using electron probe microanalysis (EPMA). The results showed that the life pat- terns were quite similar between the individuals from the Huanghe (Yellow) River and Changjiang (Yangtze) River and considerably different from those of the Qiantang River and Oujiang River. Most of the anchovies were typical anadromous fish, but several individuals were brackish–water residents. Our results also sug- gest that C. -
The Genome of Mekong Tiger Perch (Datnioides Undecimradiatus) Provides 3 Insights Into the Phylogenic Position of Lobotiformes and Biological Conservation
bioRxiv preprint doi: https://doi.org/10.1101/787077; this version posted September 30, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 1 Article 2 The genome of Mekong tiger perch (Datnioides undecimradiatus) provides 3 insights into the phylogenic position of Lobotiformes and biological conservation 4 5 Shuai Sun1,2,3†, Yue Wang1,2,3,†, Xiao Du1,2,3,†, Lei Li1,2,3,4,†, Xiaoning Hong1,2,3,4, Xiaoyun Huang1,2,3, He Zhang1,2,3, 6 Mengqi Zhang1,2,3, Guangyi Fan1,2,3, Xin Liu1,2,3,*, Shanshan Liu1,2,3* 7 8 1 BGI-Qingdao, BGI-Shenzhen, Qingdao, 266555, China 9 2 BGI-Shenzhen, Shenzhen, 518083, China 10 3 China National GeneBank, BGI-Shenzhen, Shenzhen, 518120, China 11 4 School of Future Technology, University of Chinese Academy of Sciences, Beijing 101408, China 12 13 14 † These authors contributed equally to this work. 15 * Correspondence authors: [email protected] (S. L.), [email protected] (X. L.) 16 17 Abstract 18 Mekong tiger perch (Datnioides undecimradiatus) is one ornamental fish and a 19 vulnerable species, which belongs to order Lobotiformes. Here, we report a ~595 Mb 20 D. undecimradiatus genome, which is the first whole genome sequence in the order 21 Lobotiformes. Based on this genome, the phylogenetic tree analysis suggested that 22 Lobotiformes and Sciaenidae are closer than Tetraodontiformes, resolving a long-time 23 dispute. -
Glyoxalase 1 Gene Improves the Antistress
Du et al. BMC Genetics (2019) 20:95 https://doi.org/10.1186/s12863-019-0795-z RESEARCH ARTICLE Open Access Glyoxalase 1 gene improves the antistress capacity and reduces the immune inflammatory response Fukuan Du1,2*† , Yan Li1†, Jing Shen1,2, Yueshui Zhao1,2, Parham Jabbarzadeh Kaboli1,2, Shixin Xiang1,XuWu1,2, Mingxing Li1,2, Jiangyao Zhou3, Yuan Zheng4, Tao Yi5, Xiang Li1, Jing Li6, Zhangang Xiao1,2* and Qinglian Wen7* Abstract Background: Fish immunity is not only affected by the innate immune pathways but is also triggered by stress. Transport and loading stress can induce oxidative stress and further activate the immune inflammatory response, which cause tissue damage and sudden death. Multiple genes take part in this process and some of these genes play a vital role in regulation of the immune inflammatory response and sudden death. Currently, the key genes regulating the immune inflammatory response and the sudden death caused by stress in Coilia nasus are unknown. Results: In this study, we studied the effects of the Glo1 gene on stress, antioxidant expression, and immune- mediated apoptosis in C. nasus. The full-length gene is 4356 bp, containing six exons and five introns. Southern blotting indicated that Glo1 is a single-copy gene in the C. nasus genome. We found two single-nucleotide polymorphisms (SNPs) in the Glo1 coding region, which affect the three-dimensional structure of Glo1 protein. An association analysis results revealed that the two SNPs are associated with stress tolerance. Moreover, Glo1 mRNA and protein expression of the heterozygous genotype was significantly higher than that of the homozygous genotype. -
The Possible Physical Barrier and Coastal Dispersal Strategy For
Int. J. Mol. Sci. 2015, 16, 3283-3297; doi:10.3390/ijms16023283 OPEN ACCESS International Journal of Molecular Sciences ISSN 1422-0067 www.mdpi.com/journal/ijms Article The Possible Physical Barrier and Coastal Dispersal Strategy for Japanese Grenadier Anchovy, Coilia nasus in the East China Sea and Yellow Sea: Evidence from AFLP Markers Zhi-Qiang Han 1, Gang Han 2, Zhi-Yong Wang 3 and Tian-Xiang Gao 1,* 1 Fishery College, Zhejiang Ocean University, Zhoushan 316022, China; E-Mail: [email protected] 2 Institute of Evolution & Marine Biodiversity, Ocean University of China, Qingdao 266003, China; E-Mail: [email protected] 3 Fishery College, Jimei Universtiy, Xiamen 361021, China; E-Mail: [email protected] * Author to whom correspondence should be addressed; E-Mail: [email protected]; Tel./Fax: +86-580-2556-416. Academic Editor: Bing Yan Received: 10 October 2014 / Accepted: 27 January 2015 / Published: 3 February 2015 Abstract: In order to ascertain the taxonomic status of the Ariake Sea population of Japanese grenadier anchovy, Coilia nasus, and assess the contemporary possible genetic barrier between the west and east coastal waters of the East China Sea, we used amplified fragment length polymorphism (AFLP) markers to detect the genetic structure of C. nasus, in the East China Sea and Yellow Sea. Eighty-one individuals of C. nasus were collected from five locations and 12 individuals of Coilia mystus were sampled from the Yangtze River Estuary. A total of 371 loci were detected by five primer combinations, 310 of which were polymorphic (83.56%). Analysis of molecular variation (AMOVA) and pairwise fixation index (FST) revealed significant genetic differentiation among five samples, indicating limited gene flow among populations. -
History, Profiles and Implications of Feed Fish and Fishmeal Supply from Domestic Trawlers in the East and South China Seas
Sadovy de Mitcheson, Leadbitter and Law, May 2018, Final Report to ADMCF pp. 131 History, profiles and implications of feed fish and fishmeal supply from domestic trawlers in the East and South China Seas 1Yvonne Sadovy de Mitcheson, 2Duncan Leadbitter, 1Calton Law 1 University of Hong Kong, Swire Institute of Marine Science, School of Biological 2 Sciences, Hong Kong; FISHMATTER, Australia Contact: [email protected] Report (+ Appendix I and II) to ADMCF: June 2018 Sadovy de Mitcheson, Leadbitter and Law, May 2018, Final Report to ADMCF pp. 131 Table of Contents Contents 1 SECTION 1 ........................................................................................................................ 10 1.1 General background ...................................................................................................... 10 1.2. Fisheries of the East and South China Seas; from past to present .......................... 12 1.3. Objectives of this Study ........................................................................................... 17 1.4. Methods .................................................................................................................. 17 2 SECTION 2 ........................................................................................................................ 19 2.1 General Introduction on Marine Fisheries in East and South China Seas and Growth in Demand for Aquaculture Feed ........................................................................................ 19 2.2 The role of bottom -
Ovary Transcriptome Profiling of Coilia Nasus During Spawning Migration
Marine Genomics 21 (2015) 17–19 Contents lists available at ScienceDirect Marine Genomics journal homepage: www.elsevier.com/locate/margen Genomics/technical resources Ovary transcriptome profiling of Coilia nasus during spawning migration stages by Illumina sequencing☆ Jin-Rong Duan b,Yan-FengZhoub,Dong-PoXub, Min-Ying Zhang b, Kai Liu b,YingShia, Qi-wei Wei a,⁎, Di-An Fang b,c,⁎⁎ a Key Lab of Freshwater Biodiversity Conservation Ministry of Agriculture, Yangtze River Fisheries Research Institute, CAFS, Wuhan 4302231, China b Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi, Shanshui Road 9, 214128, China c Wuxi Fisheries College, Nanjing Agricultural University, Wuxi, Xuejiali 69, 214128, China article info abstract Article history: Coilia nasus is an anadromous kind of small to moderate size fish species, and limited transcriptomics research Received 22 January 2015 has been performed. In the present study, we performed Illumina sequencing to produce a 22,996,612 clean Received in revised form 9 February 2015 reads representing with a total of 4,599,079,601 (4.5 Gb) nucleotides comprehensive transcript dataset for Accepted 9 February 2015 ovary of C. nasus. Over 20 million total reads were assembled into 63,141 unigenes, and 27,027 annotated Available online 27 February 2015 genes were predicted by Blastx and ESTScan, respectively. Applying Blast analysis and functional annotation (e.g., GO, COG, Swissprot and KEGG), we have sampled an extensive and diverse expressed gene catalog for Keywords: Coilia nasus C. nasus representing a large proportion of the genes expressed in the ovary development process. This approach Spawning migration will assist in the discovery and annotation of novel genes that play key roles in anadromous fish spawning migration Ovary transcriptome process. -
Book of Abstracts
PICES-2009 Understanding ecosystem dynamics and pursuing ecosystem approaches to management North Pacific Marine Science Organization October 23 – November 1, 2009 Jeju, Republic of Korea Table of Contents Notes for Guidance � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � v Meeting Timetable � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � �vi Keynote Lecture � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � 1 Schedules and Abstracts S1: Science Board Symposium Understanding ecosystem dynamics and pursuing ecosystem approaches to management � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � 5 S2: FIS Topic Session Ecosystem-based approaches for the assessment of fisheries under data-limited situations � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � 23 S3: FIS/BIO Topic Session Early life stages of marine resources as indicators of climate variability and ecosystem resilience � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � 35 S4: MEQ Topic Session Mitigation of harmful algal blooms � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � � 51 S5: MEQ Topic Session The role of submerged aquatic vegetation in the context of climate change