The Swimming Behavior of the Calanoid Copepod Calanus Sinicus
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Evolutionary History of Inversions in the Direction of Architecture-Driven
bioRxiv preprint doi: https://doi.org/10.1101/2020.05.09.085712; this version posted May 10, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity.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 4.0 International license. Evolutionary history of inversions in the direction of architecture- driven mutational pressures in crustacean mitochondrial genomes Dong Zhang1,2, Hong Zou1, Jin Zhang3, Gui-Tang Wang1,2*, Ivan Jakovlić3* 1 Key Laboratory of Aquaculture Disease Control, Ministry of Agriculture, and State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China. 2 University of Chinese Academy of Sciences, Beijing 100049, China 3 Bio-Transduction Lab, Wuhan 430075, China * Corresponding authors Short title: Evolutionary history of ORI events in crustaceans Abbreviations: CR: control region, RO: replication of origin, ROI: inversion of the replication of origin, D-I skew: double-inverted skew, LBA: long-branch attraction bioRxiv preprint doi: https://doi.org/10.1101/2020.05.09.085712; this version posted May 10, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity.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 4.0 International license. Abstract Inversions of the origin of replication (ORI) of mitochondrial genomes produce asymmetrical mutational pressures that can cause artefactual clustering in phylogenetic analyses. It is therefore an absolute prerequisite for all molecular evolution studies that use mitochondrial data to account for ORI events in the evolutionary history of their dataset. -
Possible Aplanochytrid (Labyrinthulea) Prey Detected Using
Plankton Benthos Res 13(2): 75–82, 2018 Plankton & Benthos Research © The Plankton Society of Japan Possible aplanochytrid (Labyrinthulea) prey detected using 18S metagenetic diet analysis in the key copepod species Calanus sinicus in the coastal waters of the subtropical western North Pacific 1,†, 2,3 3,4 1 JUNYA HIRAI *, YOKO HAMAMOTO , DAISKE HONDA & KIYOTAKA HIDAKA 1 National Research Institute of Fisheries Science, Japan Fisheries Research and Education Agency, 2–12–4 Fukuura, Kanazawa, Yokohama, Kanagawa 236–8648, Japan, 2 Graduate School of Natural Science, Konan University, 8–9–1 Okamoto, Higashinada, Kobe, Hyogo 658–8501, Japan 3 Institute for Integrative Neurobiology Konan University, 8–9–1 Okamoto, Higashinada, Kobe, Hyogo 658–8501, Japan 4 Faculty of Science and Engineering, Konan University, 8–9–1 Okamoto, Higashinada, Kobe, Hyogo 658–8501, Japan † Present address: Atmosphere and Ocean Research Institute, The University of Tokyo, 5–1–5 Kashiwanoha, Kashiwa, Chiba, 277–8564, Japan Received 19 September 2017; Accepted 20 February 2018 Responsible Editor: Ryuji Machida Abstract: Metagenetic diet analyses of the 18S V9 region were conducted in 40 adult female Calanus sinicus dur- ing winter in Tosa Bay (Japan). The majority of prey items were small crustaceans (of Copepoda and Cirripedia) and diatoms, taxa that are dominant in the environment and have been previously reported as important prey items of Cala- nus. The abundance of sequences attributable to Dinophyta and Chlorophyta was significantly lower in C. sinicus gut contents than in environmental plankton communities, suggesting that C. sinicus avoids prey from these groups. Hy- drozoans were also observed, and aplanochytrids (Labyrinthulea) were detected for the first time as a major prey of C. -
Molecular Species Delimitation and Biogeography of Canadian Marine Planktonic Crustaceans
Molecular Species Delimitation and Biogeography of Canadian Marine Planktonic Crustaceans by Robert George Young A Thesis presented to The University of Guelph In partial fulfilment of requirements for the degree of Doctor of Philosophy in Integrative Biology Guelph, Ontario, Canada © Robert George Young, March, 2016 ABSTRACT MOLECULAR SPECIES DELIMITATION AND BIOGEOGRAPHY OF CANADIAN MARINE PLANKTONIC CRUSTACEANS Robert George Young Advisors: University of Guelph, 2016 Dr. Sarah Adamowicz Dr. Cathryn Abbott Zooplankton are a major component of the marine environment in both diversity and biomass and are a crucial source of nutrients for organisms at higher trophic levels. Unfortunately, marine zooplankton biodiversity is not well known because of difficult morphological identifications and lack of taxonomic experts for many groups. In addition, the large taxonomic diversity present in plankton and low sampling coverage pose challenges in obtaining a better understanding of true zooplankton diversity. Molecular identification tools, like DNA barcoding, have been successfully used to identify marine planktonic specimens to a species. However, the behaviour of methods for specimen identification and species delimitation remain untested for taxonomically diverse and widely-distributed marine zooplanktonic groups. Using Canadian marine planktonic crustacean collections, I generated a multi-gene data set including COI-5P and 18S-V4 molecular markers of morphologically-identified Copepoda and Thecostraca (Multicrustacea: Hexanauplia) species. I used this data set to assess generalities in the genetic divergence patterns and to determine if a barcode gap exists separating interspecific and intraspecific molecular divergences, which can reliably delimit specimens into species. I then used this information to evaluate the North Pacific, Arctic, and North Atlantic biogeography of marine Calanoida (Hexanauplia: Copepoda) plankton. -
Seasonal Variability of Calanus Sinicus Brodsky in the Western South Yellow Sea
Xiao Wang*, Xin-Ming Pu and Ping Liu Seasonal Variability of Calanus Sinicus Brodsky in the Western South Yellow Sea Abstract: Inter-disciplinary investigations were conducted in the WSYS in 2006– 2007 to study the spatial and temporal variations of Calanus sinicus and its influenc- ing factors. The distribution of C. sinicus in summer varied from that in spring in accordance with the change of the temperature. The species aggregated in the YSCWM to elude the high abundance in the surface and coastal waters. In autumn, the bottom-up effect played a crucial role in the population size. The abundance at the stations in and adjacent the oceanic front was also relatively high. In winter, the highest abundance presented in Haizhou Bay which was related to the entrainment of the YSWC. The abundance was low south of 35 °N thanks to the transportation of the YSWC and the YSCC and relatively high abundance north of 35 °N was related to the jacking effect of the YSWC. Keywords: Distribution pattern; Seasonal variability; Calanus sinicus; South Yellow Sea 1 Introduction Calanus sinicus Brodsky is comprehensively studied in the northwest Pacific Ocean thanks to its extensive distribution[1]and common dominance in zooplankton com- munity [2–3]. Meanwhile, it is the main part of diets of predators with different sizes. Since it was chosen as the target species of China GLOBEC, its distribution in sum- mer [4], life history strategy [5], feeding [6] and reproduction [7] were studied in details in the western South Yellow Sea (WSYS). The Yellow Sea (YS) is a main population centre of this copepod. -
Annual Variation in Calanussinicus Abundance and Population
Chinese Journal of Oceanology and Limnology Vol. 31 No. 6, P. 1284-1294, 2013 http://dx.doi.org/10.1007/s00343-013-3004-3 Annual variation in Calanus sinicus abundance and population structure in the northern boundary area of the Yellow Sea Cold Water Mass* YIN Jiehui (尹洁慧) 1, 2 , ZHANG Guangtao (张光涛) 1 , * * , ZHAO Zengxia (赵增霞) 1 , WANG Shiwei (王世伟) 1 , WAN Aiyong (万艾勇) 1 1 Jiaozhou Bay Marine Ecosystem Research Station, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China 2 University of Chinese Academy of Sciences, Beijing 100049, China Received Jan. 6, 2013; accepted in principle Mar. 11, 2013; accepted for publication May 9, 2013 © Chinese Society for Oceanology and Limnology, Science Press, and Springer-Verlag Berlin Heidelberg 2013 Abstract The Yellow Sea Cold Water Mass (YSCWM) was suggested as an over-summering site of the dominant copepod species Calanus sinicus in coastal Chinese seas. Population abundance and structure were investigated by monthly sampling along three transects across the northern boundary of the YSCWM during 2009–2010. Results show that thermal stratifi cation existed from June to October and that the vertical thermal difference increased with depth. Generally, total abundance was lowest in October and highest in June, and the female/male sex ratio was highest in February and lowest in August. Evident spatial differences in abundance were observed during the existence of the YSCWM. In June, total abundance averaged 158.8 ind/m3 at well-stratifi ed stations, and 532.1 ind/m3 at other stations. Similarly, high abundances of 322.0 and 324.4 ind/m3 were recorded from July to August inside the YSCWM, while the abundance decreased from 50.4 to 1.9 ind/m3 outside the water mass. -
Phylogenomic Analysis of Copepoda (Arthropoda, Crustacea) Reveals Unexpected Similarities with Earlier Proposed Morphological Ph
University of Nebraska - Lincoln DigitalCommons@University of Nebraska - Lincoln Papers from the Nebraska Center for Biotechnology Biotechnology, Center for 1-2017 Phylogenomic analysis of Copepoda (Arthropoda, Crustacea) reveals unexpected similarities with earlier proposed morphological phylogenies Seong-il Eyun University of Nebraska - Lincoln, [email protected] Follow this and additional works at: http://digitalcommons.unl.edu/biotechpapers Part of the Biotechnology Commons, Molecular, Cellular, and Tissue Engineering Commons, Other Genetics and Genomics Commons, and the Terrestrial and Aquatic Ecology Commons Eyun, Seong-il, "Phylogenomic analysis of Copepoda (Arthropoda, Crustacea) reveals unexpected similarities with earlier proposed morphological phylogenies" (2017). Papers from the Nebraska Center for Biotechnology. 10. http://digitalcommons.unl.edu/biotechpapers/10 This Article is brought to you for free and open access by the Biotechnology, Center for at DigitalCommons@University of Nebraska - Lincoln. It has been accepted for inclusion in Papers from the Nebraska Center for Biotechnology by an authorized administrator of DigitalCommons@University of Nebraska - Lincoln. Eyun BMC Evolutionary Biology (2017) 17:23 DOI 10.1186/s12862-017-0883-5 RESEARCHARTICLE Open Access Phylogenomic analysis of Copepoda (Arthropoda, Crustacea) reveals unexpected similarities with earlier proposed morphological phylogenies Seong-il Eyun Abstract Background: Copepods play a critical role in marine ecosystems but have been poorly investigated in phylogenetic studies. Morphological evidence supports the monophyly of copepods, whereas interordinal relationships continue to be debated. In particular, the phylogenetic position of the order Harpacticoida is still ambiguous and inconsistent among studies. Until now, a small number of molecular studies have been done using only a limited number or even partial genes and thus there is so far no consensus at the order-level. -
Carbon and Nitrogen Dynamics in the Coastal Japan Sea Inferred from 15
https://doi.org/10.5194/os-2021-74 Preprint. Discussion started: 19 August 2021 c Author(s) 2021. CC BY 4.0 License. Carbon and nitrogen dynamics in the coastal Japan Sea inferred from 15 years of measurements of stable isotope ratios of Calanus sinicus Ken-ichi Nakamura1,2, Atsushi Nishimoto3, Saori Yasui-Tamura1,4, Yoichi Kogure1, Misato Nakae1, Naoki Iguchi1, Haruyuki Morimoto1, Taketoshi Kodama5 5 1Fisheries Resources Institute, Japan Fisheries Research and Education Agency, Niigata, 951-8121, Japan 2Present address: Kokusai Kogyo Co. Ltd., Tokyo, 102-0085, Japan 3Fisheries Technology Institute, Japan Fisheries Research and Education Agency, Yokohama, 236-8648, Japan 4Present address: Department of Ocean Sciences, Tokyo University of Marine Science and Technology, Tokyo, 108-8477, Japan 10 5Fisheries Resources Institute, Japan Fisheries Research and Education Agency, Yokohama, 236-8648, Japan Correspondence to: Taketoshi Kodama ([email protected]) Abstract. Human activities have caused sometimes dramatic changes to the marine environment globally and locally during the last half century. We hypothesized that the carbon and nitrogen stable isotope ratios (δ13C and δ15N) of the copepod Calanus sinicus, one of the dominant secondary producers of North Pacific coastal waters, would record anthropogenic impacts on the 15 coastal environment of the Japan Sea. We monitored these isotope ratios during the spring at four stations in the Japan Sea from 2006 to 2020. The δ13C values ranged from −24.7‰ to −15.0‰ and decreased from the spring bloom (February/March) to the post-bloom (June/July). This monthly variation was attributed to changes in both the physiology of C. sinicus and phytoplankton δ13C. -
Copepoda, Calanoida, Calanidae) in Northern Coastal Waters of Taiwan During the Northeast Monsoon Period
DIET OF THE COPEPOD CALANUS SINICUS BRODSKY, 1962 (COPEPODA, CALANOIDA, CALANIDAE) IN NORTHERN COASTAL WATERS OF TAIWAN DURING THE NORTHEAST MONSOON PERIOD BY MING-REN CHEN, SAMBA KÂ and JIANG-SHIOU HWANG1) Institute of Marine Biology, National Taiwan Ocean University, Keelung 202, Taiwan ABSTRACT The calanoid copepod, Calanus sinicus is transported into Taiwanese waters during the northeast (NE) monsoon season, during which time cold waters make incursions into Taiwanese coastal areas. Little is known about the feeding ecology of this copepod. We investigated the gut contents of C. sinicus using scanning electron microscopy (SEM). Samples were collected in northern coastal waters of Taiwan in January 2005. Gut content analysis of copepodites stage V (CVs), females, and males showed a large part of their gut contents as unidentifiable chyme, marine snow, or fragments of phytoplankton. However, C. sinicus fed mainly on diatoms and also a little on protozoans, dinoflagellates, bacteria, and coccoliths. Male dietary gut contents differed in composition from that of CVs and females. Additionally, gut fullness shows a significant difference between CVs, females, and males, with the highest ratio observed in females and the lowest in males. There was an offset in time between gut fullness of male and female copepodites. Thus, we suggest C. sinicus is omnivorous, but this species feeds primarily on phytoplankton with some variations in the course of its ontogeny. In conclusion, C. sinicus adapted rapidly and fed on endemic plankton as its main food source in the waters of Taiwan during the NE monsoon. RÉSUMÉ Le copépode calanoide Calanus sinicus est transporté dans les eaux taïwanaises pendant la mousson du nord-est (NE), saison durant laquelle des eaux froides font des incursions dans les zones côtières taïwanaises. -
Marjorie F. Oleksiak Om P. Rajora Editors Population Genomics: Marine Organisms
Population Genomics Editor-in-Chief: Om P. Rajora Marjorie F. Oleksiak Om P. Rajora Editors Population Genomics: Marine Organisms Population Genomics Editor-in-Chief Om P. Rajora Faculty of Forestry and Environmental Management University of New Brunswick Fredericton, NB, Canada This pioneering Population Genomics Series deals with the concepts and approaches of population genomics and their applications in addressing fundamental and applied topics in a wide variety of organisms. Population genomics is a fast emerging discipline, which has created a paradigm shift in many fields of life and medical sciences, including population biology, ecology, evolution, conservation, agricul- ture, horticulture, forestry, fisheries, human health and medicine. Population genomics has revolutionized various disciplines of biology including population, evolutionary, ecological and conservation genetics, plant and animal breeding, human health, genetic medicine, and pharmacology by allowing to address novel and long-standing intractable questions with unprecedented power and accu- racy. It employs large-scale or genome-wide genetic information across individuals and populations and bioinformatics, and provides a comprehensive genome-wide perspective and new insights that were not possible before. Population genomics has provided novel conceptual approaches, and is tremen- dously advancing our understanding the roles of evolutionary processes, such as mutation, genetic drift, gene flow, and natural selection, in shaping up genetic variation at individual loci and across the genome and populations, disentangling the locus-specific effects from the genome-wide effects, detecting and localizing the functional genomic elements, improving the assessment of population genetic parameters or processes such as adaptive evolution, effective population size, gene flow, admixture, inbreeding and outbreeding depression, demography, and bioge- ography, and resolving evolutionary histories and phylogenetic relationships of extant and extinct species. -
Instituto Politécnico Nacional Composición De La
INSTITUTO POLITÉCNICO NACIONAL CENTRO INTERDISCIPLINARIO DE CIENCIAS MARINAS COMPOSICIÓN DE LA COMUNIDAD DE COPÉPODOS PELÁGICOS EN EL PARQUE NACIONAL CABO PULMO: ESTUDIO MORFOLÓGICO Y GENÉTICO TESIS QUE PARA OBTENER EL GRADO DE DOCTORADO EN CIENCIAS MARINAS PRESENTA JUAN RAMÓN BELTRÁN CASTRO LA PAZ, B.C.S, JULIO DE 2020 SIP-14 REP 2017 INSTITUTO POLITÉCNICO NACIONAL SECRETARÍA DE INVESTIGACIÓN Y POSGRADO ACTA DE REVISIÓN DE TESIS Julio En la Ciudad de La Paz, B.C.S., siendo las 1 1 :00 horas del día 09 del mes de 0 del 2020 se reunieron los miembros de la Comisión Revisora de la Tesis, designada por el Colegio de Profesores de Posgrado de: CENTRO INTERDISCIPLINARIO DE CIENICAS MARINAS para examinar la tesis titulada: " Composición de la comunidad de copépodos p elágicos en el Parque Nacional Cabo Pulmo: estudio del (la) alumno (a): morfológico y genético” Apellido Apellido BELTRÁN CASTRO Nombre (s): JUAN RAMÓN Paterno: Materno: Número de registro: B 1 6 0 9 9 6 DOCTORADO EN CIENCIAS MARINAS Aspirante del Programa Académico de Posgrado: Una vez que se realizó un análisis de similitud de texto, utilizando el software antiplagio, se encontró que el trabajo de tesis tiene __5___ % de similitud. Se adjunta reporte de software utilizado. Después que esta Comisión revisó exhaustivamente el contenido, estructura, intención y ubicación de los textos de la tesis identificados como coincidentes con otros documentos, concluyó que en el presente trabajo SI NO SE CONSTITUYE UN POSIBLE PLAGIO. JUSTIFICACIÓN DE LA CONCLUSIÓN: (Por ejemplo, el % de similitud se localiza en metodologías adecuadamente referidas a fuente original) El porcentaje de similitud de la tesis es muy bajo, lo que representa que la originalidad del trabajo es muy alta y que las referencias y citas del doctorante en su trabajo recepcional están adecuadamente manejadas. -
Ecology of Calamus Sinicus
ECOLOGY OF CALAMUS SINICUS (COPEPODA,CALANOIDA) IN OCEANS OF SOUTHERN CHINA by LEE KA LUN Thesis Submitted as Partial Fulfillment of the Requirements for the Degree of Master of Philosophy in Biology © The Chinese University of Hong Kong APRIL, 2003 系硬复® !^ 0 6 丽 ” li Pv--— - ; UNIVERSITY /_舅 Contents Pages Abstract (in English) i Abstract (in Chinese) iv . Acknowledgements vi List of Figures vu List of Tables xv Chapter 1 General Introduction 1 Chapter 2 Seasonal population structure, life cycle and body allometry of the planktonic copepod Calanus sinicus 2.1 Literature Review ^ 2.1.1 Taxonomy of Calanidae 2.1.2 Geographical and seasonal distribution of Calanus sinicus 7 2.1.3 Body length and body weight of Calanus sinicus U 14 2.2 Introduction 2.3 Materials and Methods 17 17 2.3.1 Field sampling 2 3 2 Identification and enumeration of zooplankton 19 1 Q 2.3.3 Body length and weight of Calanus sinicus 上? 2.4 Results 20 2.4.1 Temperature 2.4.2 Salinity 2.4.3 Ambient Chlorophyll a concentration 22 244 Seasonal occurrence and distribution of Calanus sinicus • • 〜 23 in northern Taiwan 2 4 5 Seasonal occurrence and distribution of Calanus sinicus •‘ 26 in Hong Kong 2.4.6 Life cycle of Calanus sinicus in northern Taiwan 27 2.4.7 Life cycle of Calanus sinicus in Hong Kong 28 2.4.8 Stage ratio index 2.4.9 Seasonal changes in biomass of Calarms sinicus 29 2.4.10 Seasonal changes in the abundances of other copepods in northern Taiwan 29 2.4.11 Seasonal changes in the abundances of other copepods in Hong Kong 30 2.4.12 Seasonal changes in biomass -
G:\JRA 14-3 Edit FINAL\Pm\183-1
Jurnal Riset Akuakultur, 14 (3), 2019, 183-191 Tersedia online di: http://ejournal-balitbang.kkp.go.id/index.php/jra ANALISIS MAKANAN ALAMI DALAM LAMBUNG DAN MIKROHABITAT LOBSTER PASIR (Panulirus homarus) FASE PUERULUS DI TELUK AWANG Muhsinul Ihsan*)#, Suhirman*), Edi M. Jayadi*), Reza Sagista*), Yuli Eka Hardianti*), Wahyu Bintang Ilahi*), Handa Muliasari**), dan Lalu Achmad Tantilar Wangsajati Sukmaring Kalih***) *) Program Studi Tadris IPA Biologi, Fakultas Tarbiyah dan Keguruan, Universitas Islam Negeri Mataram Jl. Gajah Mada No. 100, Jempong, Mataram **) Program Studi Farmasi, Universitas Mataram Jl. Majapahit No.62, Gomong, Kec. Selaparang, Kota Mataram, Nusa Tenggara Bar. 83126 ***) Program Studi Pemanfaatan Sumberdaya Perikanan, Universitas 45 Mataram Jl. Imam Bonjol Cakranegara Utara – Mataram (Naskah diterima: 24 Juni 2019; Revisi final: 13 September 2019; Disetujui publikasi: 13 September 2019) ABSTRAK Pulau Lombok memiliki potensi dalam industrialisasi lobster. Aspek makanan alami larva perlu dipahami untuk mendukung pembenihan lobster. Tujuan penelitian ini untuk menganalisis makanan alami dalam lambung dan mikrohabitat lobster pasir (Panulirus homarus) fase Puerulus. Cairan lambung dari sepuluh ekor Puerulus dianalisis dengan metode analisis plankton. Makanan alami di mikrohabitat dikoleksi dengan menyaring seratus liter air laut dari alat tangkap dengan jaring plankton. Makanan alami dalam lambung meliputi fitoplankton dan zooplankton. Fitoplankton terdiri atas satu kelas yaitu bacillariophyceae, tiga ordo yaitu rhabdonematales; naviculales; fragilariales; dan tiga spesies yaitu: Grammatophora marina, Navicula cancellata, dan Synedra radians. Zooplankton terdiri atas kelas oligothriceae ordo choreotrichi spesies Tintinnopsis lobiancoi. Makanan alami di mikrohabitat juga terdiri atas fitoplankton dan zooplankton. Struktur komunitas fitoplankton terdiri atas enam kelas; 26 ordo; dan 39 spesies, sedangkan komunitas zooplankton terdiri atas 10 kelas; 10 ordo; dan 20 spesies.