Genomic Insights of Body Plan Transitions from Bilateral to Pentameral Symmetry in Echinoderms
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Parameterisation and Application of Dynamic Energy Budget Model to Sea Cucumber Apostichopus Japonicus
Vol. 9: 1–8, 2017 AQUACULTURE ENVIRONMENT INTERACTIONS Published January 10 doi: 10.3354/aei00210 Aquacult Environ Interact OPENPEN ACCESSCCESS Parameterisation and application of dynamic energy budget model to sea cucumber Apostichopus japonicus Jeffrey S. Ren1, Jeanie Stenton-Dozey1, Jihong Zhang2,3,* 1National Institute of Water and Atmospheric Research, 10 Kyle Street, PO Box 8602, Christchurch 8440, New Zealand 2Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, 106 Nanjing Road, Qingdao 266071, PR China 3Function Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, 1 Wenhai Road, Aoshanwei, Jimo, Qingdao 266200, PR China ABSTRACT: The sea cucumber Apostichopus japonicus is an important aquaculture species in China. As global interest in sustainable aquaculture grows, the species has increasingly been used for co-culture in integrated multitrophic aquaculture (IMTA). To provide a basis for opti - mising stocking density in IMTA systems, we parameterised and validated a standard dynamic energy budget (DEB) model for the sea cucumber. The covariation method was used to estimate parameters of the model with the DEBtool package. The method is based on minimisation of the weighted sum of squared deviation for datasets and model predictions in one single-step pro- cedure. Implementation of the package requires meaningful initial values of parameters, which were estimated using non-linear regression. Parameterisation of the model suggested that the accuracy of the lower (TL) and upper (TH) boundaries of tolerance temperatures are particularly important, as these would trigger the unique behaviour of the sea cucumber for hibernation and aestivation. After parameterisation, the model was validated with datasets from a shellfish aqua- culture environment in which sea cucumbers were co-cultured with the scallop Chlamys farreri and Pacific oyster Crassostrea gigas at various combinations of density. -
Echinodermata: Crinoidea: Comatulida: Comasteridae) from the Ryukyu Islands, Japan*
Zootaxa 3367: 252–268 (2012) ISSN 1175-5326 (print edition) www.mapress.com/zootaxa/ Article ZOOTAXA Copyright © 2012 · Magnolia Press ISSN 1175-5334 (online edition) Comanthus kumi, a new shallow-water comatulid (Echinodermata: Crinoidea: Comatulida: Comasteridae) from the Ryukyu Islands, Japan* YOSHIHISA FUJITA1,2,4 & MASAMI OBUCHI3 1University Education Center, University of the Ryukyus, 1 Senbaru, Nishihara-cho, Okinawa 903-0213, Japan. E-mail: [email protected] 2Marine Learning Center, 2-95-101 Miyagi, Chatan-cho, Okinawa 904-0113, Japan. 3Biological Institute on Kuroshio 560 Nishidomari, Otuski-cho, Kochi, 788-0333 Japan. E-mail: [email protected] 4Corresponding author * In: Naruse, T., Chan, T.-Y., Tan, H.H., Ahyong, S.T. & Reimer, J.D. (2012) Scientific Results of the Marine Biodiversity Expedition — KUMEJIMA 2009. Zootaxa, 3367, 1–280. Abstract A new species of the genus Comanthus A.H. Clark, 1908, is described on the basis of specimens collected from Kume Island and Okinawa Island, the Ryukyu Islands, Japan. Comanthus kumi n. sp. is distinguished from all ten congeners by having extremely elongate arms exceeding 300 mm in length and the colouration in life. The new species concealed its whole body in a crevice or small hole on coral reefs during the day and protruded only several elongate arms on the reef surface at night. This habit suggests that the new species is nocturnal. Key words: Crinoidea, Comatulida, Comasteridae, new species, Okinawa Introduction The species of the comatulid genus Comanthus A.H. Clark, 1908 are well known in shallow-water coral reefs (Kogo 1998; Rowe et al. 1986). The genus was established by A.H. -
SPC Beche-De-Mer Information Bulletin #39 – March 2019
ISSN 1025-4943 Issue 39 – March 2019 BECHE-DE-MER information bulletin v Inside this issue Editorial Towards producing a standard grade identification guide for bêche-de-mer in This issue of the Beche-de-mer Information Bulletin is well supplied with Solomon Islands 15 articles that address various aspects of the biology, fisheries and S. Lee et al. p. 3 aquaculture of sea cucumbers from three major oceans. An assessment of commercial sea cu- cumber populations in French Polynesia Lee and colleagues propose a procedure for writing guidelines for just after the 2012 moratorium the standard identification of beche-de-mer in Solomon Islands. S. Andréfouët et al. p. 8 Andréfouët and colleagues assess commercial sea cucumber Size at sexual maturity of the flower populations in French Polynesia and discuss several recommendations teatfish Holothuria (Microthele) sp. in the specific to the different archipelagos and islands, in the view of new Seychelles management decisions. Cahuzac and others studied the reproductive S. Cahuzac et al. p. 19 biology of Holothuria species on the Mahé and Amirantes plateaux Contribution to the knowledge of holo- in the Seychelles during the 2018 northwest monsoon season. thurian biodiversity at Reunion Island: Two previously unrecorded dendrochi- Bourjon and Quod provide a new contribution to the knowledge of rotid sea cucumbers species (Echinoder- holothurian biodiversity on La Réunion, with observations on two mata: Holothuroidea). species that are previously undescribed. Eeckhaut and colleagues P. Bourjon and J.-P. Quod p. 27 show that skin ulcerations of sea cucumbers in Madagascar are one Skin ulcerations in Holothuria scabra can symptom of different diseases induced by various abiotic or biotic be induced by various types of food agents. -
Apostichopus Japonicus
Acta Oceanol. Sin., 2018, Vol. 37, No. 5, P. 54–66 DOI: 10.1007/s13131-017-1101-4 http://www.hyxb.org.cn E-mail: [email protected] Differential gene expression in the body wall of the sea cucumber (Apostichopus japonicus) under strong lighting and dark conditions ZHANG Libin1, 2, FENG Qiming1, 3, SUN Lina1, 2, FANG Yan4, XU Dongxue5, ZHANG Tao1, 2, YANG Hongsheng1, 2* 1 CAS Key laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China 2 Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, China 3 University of Chinese Academy of Sciences, Beijing 100049, China 4 School of Agriculture, Ludong University, Yantai 264025, China 5 College of Marine Science and Engineering, Qingdao Agricultural University, Qingdao 266109, China Received 25 January 2017; accepted 9 March 2017 © Chinese Society for Oceanography and Springer-Verlag GmbH Germany, part of Springer Nature 2018 Abstract Sea cucumber, Apostichopus japonicus is very sensitive to light changes. It is important to study the influence of light on the molecular response of A. japonicus. In this study, RNA-seq provided a general overview of the gene expression profiles of the body walls of A. japonicus exposed to strong light (“light”), normal light (“control”) and fully dark (“dark”) environment. In the comparisons of “control” vs. “dark”, ”control” vs. “light” and “dark” vs. “light”, 1 161, 113 and 1 705 differentially expressed genes (DEGs) were identified following the criteria of |log2ratio|≥1 and FDR≤0.001, respectively. Gene ontology analysis showed that “cellular process” and “binding” enriched the most DEGs in the category of “biological process” and “molecular function”, while “cell” and “cell part” enriched the most DEGs in the category of “cellular component”. -
A Review of Sea Cucumber Aquaculture, Ranching, and Stock Enhancement in China
Reviews in Fisheries Science & Aquaculture ISSN: 2330-8249 (Print) 2330-8257 (Online) Journal homepage: http://www.tandfonline.com/loi/brfs21 A Review of Sea Cucumber Aquaculture, Ranching, and Stock Enhancement in China Qingxi Han, John K. Keesing & Dongyan Liu To cite this article: Qingxi Han, John K. Keesing & Dongyan Liu (2016) A Review of Sea Cucumber Aquaculture, Ranching, and Stock Enhancement in China, Reviews in Fisheries Science & Aquaculture, 24:4, 326-341, DOI: 10.1080/23308249.2016.1193472 To link to this article: http://dx.doi.org/10.1080/23308249.2016.1193472 Published online: 21 Jun 2016. Submit your article to this journal Article views: 115 View related articles View Crossmark data Citing articles: 2 View citing articles Full Terms & Conditions of access and use can be found at http://www.tandfonline.com/action/journalInformation?journalCode=brfs21 Download by: [National Science Library] Date: 19 December 2016, At: 03:07 REVIEWS IN FISHERIES SCIENCE & AQUACULTURE 2016, VOL. 24, NO. 4, 326–341 http://dx.doi.org/10.1080/23308249.2016.1193472 A Review of Sea Cucumber Aquaculture, Ranching, and Stock Enhancement in China Qingxi Hana,b, John K. Keesingc, and Dongyan Liub aSchool of Marine Sciences, Ningbo University, Ningbo, Zhejiang Province, P. R. China; bYantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, Shandong, P. R. China; cCSIRO Oceans and Atmosphere Research, Wembley, Australia ABSTRACT KEYWORDS Sea cucumber aquaculture has flourished as a result of increasing demand coupled with declining Sea cucumber; Apostichopus wild fisheries and has been facilitated by technical progress in the production and grow-out phase japonicas; stock of larvae and small juvenile sea cucumbers. -
Feeding Sea Cucumbers in Integrated Multitrophic Aquaculture
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Electronic Publication Information Center Reviews in Aquaculture (2016) 0, 1–18 doi: 10.1111/raq.12147 Role of deposit-feeding sea cucumbers in integrated multitrophic aquaculture: progress, problems, potential and future challenges Leonardo Nicolas Zamora1, Xiutang Yuan2, Alexander Guy Carton3 and Matthew James Slater4 1 Leigh Marine Laboratory, Institute of Marine Science, University of Auckland, Warkworth, New Zealand 2 State Oceanic Administration, National Marine Environmental Monitoring Center, Dalian, China 3 Division of Tropical Environments and Societies, College of Marine and Environmental Sciences, Centre for Sustainable Tropical Fisheries and Aquaculture, James Cook University, Townsville, Australia 4 Alfred-Wegener-Institute, Helmholtz Center for Polar and Marine Research, Bremerhaven, Germany Correspondence Abstract Leonardo Nicolas Zamora, Leigh Marine Laboratory, Institute of Marine Science, There is significant commercial and research interest in the application of sea University of Auckland, PO Box 349, cucumbers as nutrient recyclers and processors of particulate waste in polyculture Warkworth, New Zealand. E-mail: or integrated multitrophic aquaculture (IMTA) systems. The following article [email protected] reviews examples of existing IMTA systems operating with sea cucumbers, and details the role and effect of several sea cucumber species in experimental and Received 12 August 2015; accepted 1 February pilot IMTA systems worldwide. Historical observations and quantification of 2016. impacts of sea cucumber deposit-feeding and locomotion are examined, as is the development and testing of concepts for the application of sea cucumbers in sedi- ment remediation and site recovery. The extension of applied IMTA systems is reported, from basic piloting through to economically viable farming systems operating at commercial scales. -
An Annotated Checklist of the Marine Macroinvertebrates of Alaska David T
NOAA Professional Paper NMFS 19 An annotated checklist of the marine macroinvertebrates of Alaska David T. Drumm • Katherine P. Maslenikov Robert Van Syoc • James W. Orr • Robert R. Lauth Duane E. Stevenson • Theodore W. Pietsch November 2016 U.S. Department of Commerce NOAA Professional Penny Pritzker Secretary of Commerce National Oceanic Papers NMFS and Atmospheric Administration Kathryn D. Sullivan Scientific Editor* Administrator Richard Langton National Marine National Marine Fisheries Service Fisheries Service Northeast Fisheries Science Center Maine Field Station Eileen Sobeck 17 Godfrey Drive, Suite 1 Assistant Administrator Orono, Maine 04473 for Fisheries Associate Editor Kathryn Dennis National Marine Fisheries Service Office of Science and Technology Economics and Social Analysis Division 1845 Wasp Blvd., Bldg. 178 Honolulu, Hawaii 96818 Managing Editor Shelley Arenas National Marine Fisheries Service Scientific Publications Office 7600 Sand Point Way NE Seattle, Washington 98115 Editorial Committee Ann C. Matarese National Marine Fisheries Service James W. Orr National Marine Fisheries Service The NOAA Professional Paper NMFS (ISSN 1931-4590) series is pub- lished by the Scientific Publications Of- *Bruce Mundy (PIFSC) was Scientific Editor during the fice, National Marine Fisheries Service, scientific editing and preparation of this report. NOAA, 7600 Sand Point Way NE, Seattle, WA 98115. The Secretary of Commerce has The NOAA Professional Paper NMFS series carries peer-reviewed, lengthy original determined that the publication of research reports, taxonomic keys, species synopses, flora and fauna studies, and data- this series is necessary in the transac- intensive reports on investigations in fishery science, engineering, and economics. tion of the public business required by law of this Department. -
Understanding the Heat Shock Response in the Sea Cucumber Apostichopus Japonicus, Using Itraq-Based Proteomics
International Journal of Molecular Sciences Article Understanding the Heat Shock Response in the Sea Cucumber Apostichopus japonicus, Using iTRAQ-Based Proteomics Dongxue Xu 1,2, Lina Sun 1,*, Shilin Liu 1, Libin Zhang 1 and Hongsheng Yang 1,* 1 Key Laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China; [email protected] (D.X.); [email protected] (S.L.); [email protected] (L.Z.) 2 University of Chinese Academy of Sciences, Beijing 100049, China * Correspondence: [email protected] (L.S.); [email protected] (H.Y.); Tel.: +86-532-8289-8645 (L.S.); +86-532-8289-8610 (H.Y.) Academic Editor: David Sheehan Received: 26 November 2015; Accepted: 20 January 2016; Published: 4 February 2016 Abstract: The sea cucumber Apostichopus japonicus is exploited as a commercial species owing to their high nutritive and medicinal value. Recent high summer temperatures have caused high mortality rates in A. japonicus. In this study, we applied the isobaric tag for relative and absolute quantitation (iTRAQ) technique to investigate the global protein expression profile under an acute short-term (48 h) heat stress. In total, 3432 proteins were identified, and 127 proteins showed significant heat stress responses, with 61 upregulated proteins and 66 downregulated proteins. Our results suggest that heat stress influenced the expression of proteins involved in various biological processes, such as tissue protection and detoxification, lipid and amino acid metabolism, energy production and usage, transcription and translation, cell apoptosis, and cell proliferation. These findings provide a better understanding about the response and thermo-tolerance mechanisms of A. -
Bacterial Diversity in the Intestine of Sea Cucumber Stichopus Japonicus
Bacterial diversity in the intestine of sea cucumber Stichopus japonicus Item Type article Authors Gao, M.L.; Hou, H.M.; Zhang, G.L.; Liu, Y.; Sun, L.M. Download date 29/09/2021 15:37:50 Link to Item http://hdl.handle.net/1834/37808 Iranian Journal of Fisheries Sciences 16(1)318-325 2017 Bacterial diversity in the intestine of sea cucumber Stichopus japonicus * Gao M.L.; Hou H.M. ; Zhang G.L.; Liu Y.; Sun L.M. Received: May 2015 Accepted: August 2016 Abstract The intestinal bacterial diversity of Stichopus japonicus was investigated using 16S ribosomal RNA gene (rDNA) clone library and Polymerase Chain Reaction/Denaturing Gradient Gel Electrophoresis (PCR-DGGE). The clone library yielded a total of 188 clones, and these were sequenced and classified into 106 operational taxonomic units (OTUs) with sequence similarity ranging from 88 to 100%. The coverage of the library was 77.4%, with approximately 88.7% of the sequences affiliated to Proteobacteria. Gammaproteobacteria and Vibrio sp. were the predominant groups in the intestine of S. japonicus. Some bacteria such as Legionella sp., Brachybacterium sp., Streptomyces sp., Propionigenium sp. and Psychrobacter sp were first identified in the intestine of sea cucumber. Keywords: Intestinal bacterial diversity, 16S rDNA, PCR-DGGE, Sequencing, Stichopus japonicus School of Food Science and Technology- Dalian Polytechnic University, Dalian 116034, P. R. China * Corresponding author's Email:[email protected] 319 Gao et al., Bacterial diversity in the intestine of sea cucumber Stichopus japonicas Introduction In this paper, 16S rDNA clone Sea cucumber Stichopus japonicus is library analysis approaches and one of the most important holothurian PCR-DGGE fingerprinting of the 16S species in coastal fisheries. -
Ophiuroidea: Amphilepidida: Amphiuridae), from Geoje Island, Korea
-페이지 연속.(가능한한 짝수되게). -표 선: 맨위,맨아래 1pt / 중간 0.3pt -표 내부여백 : 선 있는 곳 2, 선 없는 곳 0.7 -et al. Journal of Species Research 9(3):273-279, 2020 A newly recorded brittle star, Amphiura (Amphiura) digitula (H.L. Clark, 1911) (Ophiuroidea: Amphilepidida: Amphiuridae), from Geoje Island, Korea Taekjun Lee1 and Sook Shin1,2 1Marine Biological Resource Institute, Sahmyook University, Seoul 01795, Republic of Korea 2Department of Animal Biotechnology and Resource, Sahmyook University, Seoul 01795, Republic of Korea *Correspondent: [email protected] We describe a newly recorded brittle star to South Korea, Amphiura (Amphiura) digitula (H.L. Clark, 1911), that was collected from Geoje Island, at a depth of 47 m. The species is characterized by a small disk, covered by numerous fine scales, small radial shields that are wider than long, a small stumpy hook at the distal end of the radial shield, two tooth papilla, two adoral shield spines, 2nd adoral shield spine longer than other, tapered dramatically toward dull tip, five arms with four proximal arm spines, and two tentacle scales. We also obtained a 657 bp sequence from COI gene and the amplified sequence matched the general DNA barcoding region. The NJ and ML phylogenetic analyses revealed A. (A.) digitula as monophyletic in the Amphiura clade. This species is clearly distinguished from other Amphiura species by morphological characteristics and the mitochondrial COI sequence, and thus represents the sixth Amphiura species reported to occur in Korea. Keywords: Echinodermata, mitochondrial COI, morphology, ophiuroid, taxonomy Ⓒ 2020 National Institute of Biological Resources DOI:10.12651/JSR.2020.9.3.273 INTRODUCTION al., 2016; Boissin et al., 2017; Knott et al., 2018; Paw- son, 2018). -
Morphological Description and Molecular Analysis of Newly Recorded Anneissia Pinguis(Crinoidea: Comatulida: Comatulidae) from Ko
Journal of Species Research 9(4):467-472, 2020 Morphological description and molecular analysis of newly recorded Anneissia pinguis (Crinoidea: Comatulida: Comatulidae) from Korea Philjae Kim1,2 and Sook Shin1,3,* 1Marine Biological Resource Institute, Sahmyook University, Seoul 01795, Republic of Korea 2Division of Ecological Conservation, Bureau of Ecological Research, National Institute of Ecology, Seocheon-gun, Chungnam 33657, Republic of Korea 3Department of Animal Biotechnology & Resource, Sahmyook University, Seoul 01795, Republic of Korea *Correspondent: [email protected] The crinoid specimens of the genus Anneissia were collected from Nokdong, Korea Strait, and Moseulpo, Jeju Island. The specimens were identified as Anneissia pinguis (A.H. Clark, 1909), which belongs to the family Comatulidae of the order Comatulida. Anneissia pinguis was first described by A.H. Clark in 1909 around southern Japan. This species can be distinguished from other Anneissia species by a longish and stout cirrus, much fewer arms, and short distal cirrus segments. The morphological features of Korean specimens are as follows: large disk (20-35 mm), 28-36 segments and 32-43 mm length cirrus, division series in all 4 (3+4), very stout and strong distal pinnule with 18-19 comb and 40 arms. In Korea fauna, only three species of genus Anneissia were recorded: A. intermedia, A. japonica, and A. solaster. In this study, we provide the morphological description and phylogenetic analysis based on cytochrome c oxidase subunit I. Keywords: Anneissia pinguis, crinoid, cytochrome c oxidase subunit I, morphological feature, phylogeny Ⓒ 2020 National Institute of Biological Resources DOI:10.12651/JSR.2020.9.4.467 INTRODUCTION al cytochrome c oxidase subunit I (COI) is usually used in DNA barcoding studies of echinoderms (Ward et al., The family Comatulidae Fleming 1828 comprises 105 2008; Hoareau and Boissin, 2010). -
Taxonomic Study on the Feather Stars (Crinoidea: Echinodermata) from Egyptian Red Sea Coasts and Suez Canal, Egypt
Open Journal of Marine Science, 2012, 2, 51-57 http://dx.doi.org/10.4236/ojms.2012.22007 Published Online April 2012 (http://www.SciRP.org/journal/ojms) Taxonomic Study on the Feather Stars (Crinoidea: Echinodermata) from Egyptian Red Sea Coasts and Suez Canal, Egypt Ahmed M. Hellal Marine Biology and Fish Science Section, Zoology Department, Faculty of Science, Al-Azhar University, Cairo, Egypt Email: [email protected] Received November 27, 2011; revised January 16, 2012; accepted January 25, 2012 ABSTRACT A taxonomic study on the crinoids (feather stars) collected from 34 sites from the Red Sea coasts and islands as well as the Suez Canal was done during the period from 1992 to 2003. A total of 15 species are now known from the Red Sea belonging to eleven genera under six families. Among them four species are endemic to the Red Sea and the two spe- cies, Decametra chadwicki and Lamprometra klunzingeri, are recorded from the Suez Canal for the first time. Also, the two species, Oligometra serripinna and Dorometra aegyptica, are new record from Gulf of Suez, and Decametra mollis from Gulf of Aqaba and Northern Red Sea. This study represents the first proper documentation of crinoid species in the study area. Summaries are provided of the specific habitats and geographical distribution. Keywords: Crinoidea; Red Sea; Suez Canal; Taxonomy; Habitats; Geographical Distribution 1. Introduction 2. Material and Methods Feather-stars constitute group of echinoderms belonging 2.1. Field Observation, Collection and to class Crinoidea and order Comatulida, having five to Preservation hundreds of arms surrounding their cup-like bodies [1,2].