DOCSLIB.ORG

Of Pectinidae（Bivalvia）Based On

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
Of Pectinidae（Bivalvia）Based On Acta Oceanologica Sinica 2007，V01．26，No．6，P．83～90 http：／／www．oceanpress．COB．cn E—mail：hyxbe@263．net on the Phylogenetic analysis of Pectinidae(Bivalvia)based ribosomal DNA internal transcribed spacer region Zhenminl+ HUANG Xiaotin91，BI Kel，HU Jingjiel，HU Xiaolil，BAO of of Marine Life of China， 1．Laboratory of Molecular Genetics and Breeding Mollusk，College Science，Ocean University Qingdao 266003，China Received 14 September 2006；accepted 2 1 March 2007 Abstract and The ribOSOmal DNA internal transcribed spacer(ITS)region is auseful genomic region for understanding evolutionary genetic molecular of using relationships．In the current study，the phylogenetie analysis Pectinidae(Mollusca：Bivalvia)was performed nine of this were obtained from the the nucleotide sequences of the nuclear ITS region in species family．The sequences sca]lop and nobilis，and compared with the species Argopecten irradians，Mizuhopecten yessoensis，Amusium pleuronectes Mimachlamys an species published sequences of Aequipecten opercularis，Chlamys知rreri，C．distorta，肛varia，Pecten maximu$，and outgroup &黝viridis．The molecular phylogenetic tree was constructed by the neighbor-joining and maximum parsimony methods·Phylo。 the nor— their combination trees of similar results suppofl genetic analysis based on ITSl，ITS2，or always yielded topology．The with classification of two and Pectininae) Dhological classificatioas of bivalve and are nearly consistent subfamilies(Chlamydinae made of that fbmulated by Waller．However，A．irrad／ans，together with A．opercularis up genera Amusium，evidences they may of Wailer who them in belong to the subfamily Pectinidae．The data are incompatible with the conclusion placed Chlamydinae by and con。 morDhological characteristics．These results provide new insights into the evolutionary relationships among scallop species of classification tribute to the improvement existing systems． Key words：bivalve，Pectinidae，ribosomal DNA，ITS，phylogeny 1 Introduction veniles．He divided the family Pectinidae into three subfamilies，Camptonectinae，Chlamydinae，and Pectininae．He further divided into the The family Pectinidae(Mollusca：Bivalvia)in— Chlamydinae tribes cludes many well．known marine invertebrates that Chlamydini，Crassadomini，Mimachlamydini， and Aequipectinini．and Pectininae into Palliolini， play important roles in aquaculture．The phylogenet— Pectinini．Molecular phyloge— ic relationships among these species are still an issue Decatopectinini，and netic studies of the Pectinidae have of debate．Among the classification systems devised family developed over the last decades(Barucca et a1．，2004； for the family Pectinidae，Waller(1993，1991) rapidly shell Insua et a1．，2003；Canapa et a1．，2000；Matsumo— proposed a system based on microsculptural to and et a1．，1999；Steiner features and the morphological characteristics of ju一 Hayami，2000；Canapa and Mtiller，1996；Littlewood，1994；Gjetvaj et }Corresponding author．E—mail：zmbao@OUC．edu．cn HUANG Xiaoting et a1．Acta Oceanologica Sinica 2007，V01．26，No．6，P．83—90 a1．，1992)． of the systematic and phylogenetic relationships of Ribosomal DNA is a multiple··copy cluster of re·· several groups of bivalves，especially at the genus peat units；each unit contains the 18S，5．8S and level．We cloned and sequenced the ITS region of 28S rRNA genes，and the internal transcribed spacer four scallops(Mimachlamys nobilis，Mizuhopecten between the 18S and 5．8S rRNA genes(ITSl)as yessoensis，Am潞ium pleuronectes and A．irradians) well as between the 5．8S and 28S rRNA genes to obtain the basic characteristics of these se— (ITS2)．ITS sequences are of an appropriate size to quences．Moreover，the ITS sequences，both indi— be amplified easily with a pair of primers designed vidually 7 ITSl or ITS2) and collectively according to the 3 7end of 18S rDNA and the 5 7end of (ITSt+ITS2)were used to determine the phyloge— 28 S rDNA．Furthermore，ITS sequences are more netic relationships among ten Pectinidae species． diverse than ribosomal RNA genes f Hillis and Dix— on，1991)，and they have been employed to resolve 2 Materials and methods phylogenetic classification problems in the lower tax— onomical levels such as genera and species(Morgen 2．1 Sample collection and DNA extraction and Blair，1998；Navajas et a1．，1998；Perera et M．nobilis and were collected a1．．1998)．In bivalve，ITS has been studied in A．pleuronectes from the wild of the East China Sea and several species．The size and restriction pattern of population the South China A．irradin瑚 the ITS region have been employed to distinguish Sea．respectively．The collected in this was introduced from Mytilus mussels(Toro，1998；Heath et a1．， study originally 1996)，Veneridae clams(Ferntindez et a1．，2001)， the USA and reared in the Huanghai Sea，and was from and reared in the Bo— certain pectinid scallops(Wang et a1．，2006； M．yessoensis Japan hai Sea．Only adult specimens were used for DNA L6pez—Pifi6n et a1．，2002)，and populations of the was extracted from the adductor giant clam Tridacna crocea(Yu et a1．，2000)．The preparation．DNA muscle a traditional method complete sequence of ITS l or ITS2 has been used in using phenol／chloroform as described Sambrook and the phylogenetic analysis of freshwater bivalves Las— by Russell(2001)． migona(King et a1．，1999)，Brazilian Biomphalar— 2．2 PCR amplification，cloning and sequencing ia species(Vidigal et a1．，2000)，Mytilus species The ITS was (Riginos et a1．，2002)，and certain Pectinidae region prepared by polymerase chain reaction(PCR)．The forward primer(5’一 scallops(Insua et a1．，2003)． reverse Pectinidae scallops have a wide distribution in GT／TCTGTAGGTGAACCTGC-3’)and primer the world．Waller(1993，1991)produced a de— (5'-CTCGTCTGATCTGAGGTCG一3 7)were designed based on the nucleotide retrieved from tailed morphological taxonomy of Pectinidae．Barue— sequences GenBank(AF245687 and AF245688；Yu et al，， ca(2004)constructed phylogenetic trees of Pectini- was set in a volume dae using 16S and 12S ribosomal rRNA 2001)．PCR up 50／xL containing 10 of of each genes．However，there is a disagreement between ng templates DNA．0．1扯mol／dm3 of each morphological and molecular classifications about the primer，0．2 mmol／dm3 dNTP，with 1．0 U phylogeny of bay scallop，Argopecten irradians(La— 如DNA polymerase(Promega)and 1×buffer． o marck，1819)．In the present study，we focused on The amplification conditions were as follows：94 C， the ribosomal DNA internal transcribed spacer region 60 s(denaturation)；56。c，60 s(anneal)；72。C， because it has proved to be very useful for the study 90 s(elongation)for 30 cycles．Amplified fragments HUANG Xiaoting et a1．Acta Oeeanologica Sinica 2007，V01．26，No．6，P．83～90 85 were checked by electrophoresis with l％agarose gel 2．3 Sequence alignment and phylogenetie analysis and visualized by ethidium bromide． The PCR．．amplified fragments of three individu．． The identity of the sequences obtained was deter- als from each species were ligated into a pMDl8一T mined using the BLAST program(Altschul et a1．， Vector(TaKaRa)and transferred into the competent 1 997)，Beside the sequences of OUF clones from坛 E．col；DI-IS∞The recombinants were identified nobilis，M yessoensis，A．irradians and A．pleuronect— retrieved also those of through blue or white selection(Sambrook and Rus— es，we Chlamys扣rreri，C．dis— sell．2001)．Sequence reactions were carried out with torta，胍varia，Aequipecten opercularis，Pecten maxi— mlA$and Perna viridis from GenBank．The species uti— an ABI PRISM 3730xL DNA sequencer． A1l se— lized in this comparative study are listed in Table 1． quenees were deposited into GenBank with the acces． All were sion number listed in Table 1． sequences aligned using CLUSTALX(Thomp- son et a1．，1997)．The base composition，the ratio of Table used for the 1．Species phylogenetic analysis and transition to transversion and Kimura 2-parameter dis- Genebank accession number tance were calculated using the MEGA version 3，l Accession No． Species (Kumar et a1．，2004)． Chlamys fa册一 AF245687 Phylogenetic trees were produced using the neigh— (Jones et Preston，1904) A蹦5688 bor-joining(NJ)(Saitou and Net，1 987)and maxi— Chlamys distorta A『428409 mum parasimony(MP)methods with MEGA 3．1 pro— (da Costa，t778) gram．Neighbor—joining trees were constructed emplo— Mizuhopecten yessoemis AY690600 ying the Kimura 2-parameter distance．Maximum-par- (Jay，1856) DQnl7585 simony trees were produced using branch·-and--bound DQ417586 search by attributing equal mass to transitions and Mimachlamys nobilis AY690599 transversions．In all analyses，the deletion (Reeve，1852) DQ417587 complete was selected for values DQ444298 option handling gaps．Bootstrap (Felsenstein，1 985)，indicating robustness of nodes in Mimachlamys vart。a AJ428408 (Linnaeus，1758) neighbor．joining and maximum—parsimony trees， refer to 1 000 Argopecten irradianz AY695802 replications， (Lamarek，1819) DQ417588 DQ417589 3 Results Amt“dum plelrronectes DQ417590 (Linnaeus，1758) DQ4t7591 3．1 PCR amplification and data analysis DQ417592 The entire ITS region was amplified from at least Aequipecten opercularis AJ428407 30 individuals of each scallop species．In all cases． (Lamarck，1758) the PCR yielded a single band of approximately 750 bp Pecten maximus Aj428410 in length．Tahle 2 lists the ITS lengths and the nueleo— (Linnaeus，1758) tide composition percentage of three individuals from Perna viridis AF353098 each species．The total length of the ITS region ranged (Linnaeus，1758) from 520 bp(旭nobilis)to 558 bp(A．irradians) and the GC content from 44．4％(舱yessoensis)to 50．1％(A．pleuronectes)． 86 HUANG Xiaoting et a1．Acta Oceanologica Sinica 2007，V01．26，No．6，P．83～90 Table 2．Nucleotide composition(GC)and
Load more

Recommended publications
  • Analysis of Synonymous Codon Usage Patterns in Sixty-Four Different Bivalve Species
    Analysis of synonymous codon usage patterns in sixty-four diVerent bivalve species Marco Gerdol1, Gianluca De Moro1, Paola Venier2 and Alberto Pallavicini1 1 Department of Life Sciences, University of Trieste, Trieste, Italy 2 Department of Biology, University of Padova, Padova, Italy ABSTRACT Synonymous codon usage bias (CUB) is a defined as the non-random usage of codons encoding the same amino acid across diVerent genomes. This phenomenon is common to all organisms and the real weight of the many factors involved in its shaping still remains to be fully determined. So far, relatively little attention has been put in the analysis of CUB in bivalve mollusks due to the limited genomic data available. Taking advantage of the massive sequence data generated from next generation sequencing projects, we explored codon preferences in 64 diVerent species pertaining to the six major evolutionary lineages in Bivalvia. We detected remarkable diVerences across species, which are only partially dependent on phylogeny. While the intensity of CUB is mild in most organisms, a heterogeneous group of species (including Arcida and Mytilida, among the others) display higher bias and a strong preference for AT-ending codons. We show that the relative strength and direction of mutational bias, selection for translational eYciency and for translational accuracy contribute to the establishment of synonymous codon usage in bivalves. Although many aspects underlying bivalve CUB still remain obscure, we provide for the first time an overview of this phenomenon
    [Show full text]
  • Pectenovarin, a New Ovarian Carotenoprotein from Japanese Scallop Mizuhopecten Yessoensis
    molecules Article Pectenovarin, A New Ovarian Carotenoprotein from Japanese Scallop Mizuhopecten yessoensis Satoko Matsunaga 1,* , Hiroki Ikeda 2 and Ryuichi Sakai 2 1 Department of Material and Environmental Engineering, National Institute of Technology HAKODATE College, 14-1 Tokura-cho, Hakodate, Hokkaido 042-8501, Japan 2 Faculty and Graduate School of Fisheries Sciences, Hokkaido University, 3-1-1 Minato-cho, Hakodate 041-8611, Japan; [email protected] (H.I.); ryu.sakai@fish.hokudai.ac.jp (R.S.) * Correspondence: [email protected]; Tel.: +81-138-59-6463 Academic Editor: Valeria Costantino Received: 9 June 2020; Accepted: 30 June 2020; Published: 3 July 2020 Abstract: The scallop Mizuhopecten yessoensis accumulates carotenoids in the ovary during the maturation stage. Its conspicuous pink color implies the presence of carotenoprotein. However, the carotenoprotein from the scallop ovary has never been isolated and characterized, probably due to its instability and complexity. Here, we developed an extraction and isolation procedure for the carotenoprotein by employing a basic buffer containing potassium bromide to facilitate its efficient extraction from the ovary, and we succeeded in obtaining the carotenoprotein, termed pectenovarin. The carotenoid composition of the pectenovarin was similar to that of the ovary. The N-terminal and internal amino acid sequences of pectenovarin showed a high similarity to those of vitellogenin, the precursor of egg yolk protein under analysis. Keywords: carotenoproteins; carotenoids; scallop ovary; Japanese scallop 1. Introduction Carotenoids are one of the essential classes of metabolites in a wide variety of living organisms. More than 750 different carotenoids have been reported to date [1]. It is known that carotenoids bind to proteins, termed carotenoproteins, to stabilize themselves against light or heat or to manipulate their physical properties, including solubility and color.
    [Show full text]
  • The Shell Matrix of the European Thorny Oyster, Spondylus Gaederopus: Microstructural and Molecular Characterization
    The shell matrix of the european thorny oyster, Spondylus gaederopus: microstructural and molecular characterization. Jorune Sakalauskaite, Laurent Plasseraud, Jérôme Thomas, Marie Alberic, Mathieu Thoury, Jonathan Perrin, Frédéric Jamme, Cédric Broussard, Beatrice Demarchi, Frédéric Marin To cite this version: Jorune Sakalauskaite, Laurent Plasseraud, Jérôme Thomas, Marie Alberic, Mathieu Thoury, et al.. The shell matrix of the european thorny oyster, Spondylus gaederopus: microstructural and molecular characterization.. Journal of Structural Biology, Elsevier, 2020, 211 (1), pp.107497. 10.1016/j.jsb.2020.107497. hal-02906399 HAL Id: hal-02906399 https://hal.archives-ouvertes.fr/hal-02906399 Submitted on 17 Nov 2020 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. The shell matrix of the European thorny oyster, Spondylus gaederopus: microstructural and molecular characterization List of authors: Jorune Sakalauskaite1,2, Laurent Plasseraud3, Jérôme Thomas2, Marie Albéric4, Mathieu Thoury5, Jonathan Perrin6, Frédéric Jamme6, Cédric Broussard7, Beatrice Demarchi1, Frédéric Marin2 Affiliations 1. Department of Life Sciences and Systems Biology, University of Turin, Via Accademia Albertina 13, 10123 Turin, Italy; 2. Biogeosciences, UMR CNRS 6282, University of Burgundy-Franche-Comté, 6 Boulevard Gabriel, 21000 Dijon, France. 3. Institute of Molecular Chemistry, ICMUB UMR CNRS 6302, University of Burgundy- Franche-Comté, 9 Avenue Alain Savary, 21000 Dijon, France.
    [Show full text]
  • Computational Modelling of Wet Adhesive Mussel Foot Proteins (Bivalvia): Insights Into the Evolutionary Convolution in Diverse Perspectives P
    www.nature.com/scientificreports OPEN Computational modelling of wet adhesive mussel foot proteins (Bivalvia): Insights into the evolutionary convolution in diverse perspectives P. P. Anand & Y. Shibu Vardhanan Underwater adhesion in mussels (Bivalvia) is an extreme adaptation to achieve robust and frm wet adhesion in the freshwater/brackish/ocean, which biochemically shaped through millions of years. The protein-based adhesion has huge prospective in various felds like industry, medical, etc. Currently, no comprehensive records related to the systematic documentation of structural and functional properties of Mussel foot proteins (Mfps). In this study, we identifed the nine species of bivalves in which the complete sequence of at least one adhesive protein is known. The insilico characterization revealed the specifc physio-chemical structural and functional characters of each Mfps. The evolutionary analyses of selected bivalves are mainly based on Mfps, Mitogenome, and TimeTree. The outcome of the works has great applications for designing biomimetic materials in future. Some groups of mussels are capable to produce proteinaceous glue- like sticky material known as byssus thread made by an array of foot proteins (fps). Tis byssus contains mainly four parts i.e. Plaque, thread, stem, and root. Individual threads proximally merged together to form stem and base of the stem (root) deeply anchored at the base of animal foot. Each byssus threads terminating distally with a fattened plaque which mediates adhesion to the substratum1–4. Each part of the byssus thread complex formed by the auto-assembly of secretory products originating from four distinct glands enclosed in the mussel foot4,5. Tese mussel foot protein (Mfps), mastered the ability to binding the diverse substratum by using adhesive plaques.
    [Show full text]
  • Comparative Large-Scale Mitogenomics Evidences Clade-Specific Evolutionary Trends in Mitochondrial Dnas of Bivalvia
    GBE Comparative Large-Scale Mitogenomics Evidences Clade-Specific Evolutionary Trends in Mitochondrial DNAs of Bivalvia Federico Plazzi*, Guglielmo Puccio, and Marco Passamonti Department of Biological, Geological and Environmental Sciences, University of Bologna, via Selmi, 3 – 40126 Bologna, Italy *Corresponding author: E-mail: [email protected]. Accepted: July 31, 2016 Abstract Despite the figure of complete bivalve mitochondrial genomes keeps growing, an assessment of the general features of these genomes in a phylogenetic framework is still lacking, despite the fact that bivalve mitochondrial genomes are unusual under different aspects. In this work, we constructed a dataset of one hundred mitochondrial genomes of bivalves to perform the first systematic comparative mitogenomic analysis, developing a phylogenetic background to scaffold the evolutionary history of the class’ mito- chondrial genomes. Highly conserved domains were identified in all protein coding genes; however, four genes (namely, atp6, nad2, nad4L,andnad6) were found to be very divergent for many respects, notwithstanding the overall purifying selection working on those genomes. Moreover, the atp8 gene was newly annotated in 20 mitochondrial genomes, where it was previously declared as lacking or only signaled. Supernumerary mitochondrial proteins were compared, but it was possible to find homologies only among strictly related species. The rearrangement rate on the molecule is too high to be used as a phylogenetic marker, but here we demonstrate for the first time in mollusks that there is correlation between rearrangement rates and evolutionary rates. We also developed a new index (HERMES) to estimate the amount of mitochondrial evolution. Many genomic features are phylogenetically congruent and this allowed us to highlight three main phases in bivalve history: the origin, the branching of palaeoheterodonts, and the second radiation leading to the present-day biodiversity.
    [Show full text]
  • The Evolution of Extreme Longevity in Modern and Fossil Bivalves
    Syracuse University SURFACE Dissertations - ALL SURFACE August 2016 The evolution of extreme longevity in modern and fossil bivalves David Kelton Moss Syracuse University Follow this and additional works at: https://surface.syr.edu/etd Part of the Physical Sciences and Mathematics Commons Recommended Citation Moss, David Kelton, "The evolution of extreme longevity in modern and fossil bivalves" (2016). Dissertations - ALL. 662. https://surface.syr.edu/etd/662 This Dissertation is brought to you for free and open access by the SURFACE at SURFACE. It has been accepted for inclusion in Dissertations - ALL by an authorized administrator of SURFACE. For more information, please contact [email protected]. Abstract: The factors involved in promoting long life are extremely intriguing from a human perspective. In part by confronting our own mortality, we have a desire to understand why some organisms live for centuries and others only a matter of days or weeks. What are the factors involved in promoting long life? Not only are questions of lifespan significant from a human perspective, but they are also important from a paleontological one. Most studies of evolution in the fossil record examine changes in the size and the shape of organisms through time. Size and shape are in part a function of life history parameters like lifespan and growth rate, but so far little work has been done on either in the fossil record. The shells of bivavled mollusks may provide an avenue to do just that. Bivalves, much like trees, record their size at each year of life in their shells. In other words, bivalve shells record not only lifespan, but also growth rate.
    [Show full text]
  • Directional Sensitivity of the Japanese Scallop Mizuhopecten Yessoensis and Swift Scallop Chlamys Swifti to Water-Borne Vibrations
    See discussions, stats, and author profiles for this publication at: https://www.researchgate.net/publication/226111056 Directional sensitivity of the Japanese scallop Mizuhopecten yessoensis and Swift scallop Chlamys swifti to water-borne vibrations Article in Russian Journal of Marine Biology · January 2005 DOI: 10.1007/s11179-005-0040-7 CITATIONS READS 11 88 1 author: Petr Zhadan Pacific Oceanological Institute 56 PUBLICATIONS 345 CITATIONS SEE PROFILE All content following this page was uploaded by Petr Zhadan on 17 June 2015. The user has requested enhancement of the downloaded file. Russian Journal of Marine Biology, Vol. 31, No. 1, 2005, pp. 28–35. Original Russian Text Copyright © 2005 by Biologiya Morya, Zhadan. PHYSIOLOGICAL ECOLOGY Directional Sensitivity of the Japanese Scallop Mizuhopecten yessoensis and Swift Scallop Chlamys Swifti to Water-Borne Vibrations P. M. Zhadan Pacific Oceanological Institute, Far East Division, Russian Academy of Sciences, Vladivostok, 690041 Russia e-mail: [email protected] Received January 29, 2004 Abstract—Behavioral experiments were conducted on two bivalve species—the Japanese scallop Mizu- hopecten yessoensis and the Swift scallop Chlamys swifti—to elucidate the role of their abdominal sense organ (ASO) in directional sensitivity to water-borne vibrations. The thresholds were determined at 140 Hz. Both spe- cies displayed the highest sensitivity to vibrations, the source of which was placed above the animal (opposite to the left valve), rostro-dorsally to its vertical axis. Removal of the ASO led to loss of directional sensitivity and a considerable increase in the sound reaction threshold. Both species were sensitive to modulated ultrasonic vibrations in the range of 30–1000 Hz.
    [Show full text]
  • PHYSELLA ACUTA, COMPARATIVE IMMUNOLOGY and EVOLUTIONARY ASPECTS of GASTROPOD IMMUNE FUNCTION Jonathan H
    University of New Mexico UNM Digital Repository Biology ETDs Electronic Theses and Dissertations Fall 12-12-2018 PHYSELLA ACUTA, COMPARATIVE IMMUNOLOGY AND EVOLUTIONARY ASPECTS OF GASTROPOD IMMUNE FUNCTION Jonathan H. Schultz University of New Mexico - Main Campus Follow this and additional works at: https://digitalrepository.unm.edu/biol_etds Part of the Bioinformatics Commons, Biology Commons, Computational Biology Commons, Genomics Commons, Immunity Commons, and the Parasitology Commons Recommended Citation Schultz, Jonathan H.. "PHYSELLA ACUTA, COMPARATIVE IMMUNOLOGY AND EVOLUTIONARY ASPECTS OF GASTROPOD IMMUNE FUNCTION." (2018). https://digitalrepository.unm.edu/biol_etds/311 This Dissertation is brought to you for free and open access by the Electronic Theses and Dissertations at UNM Digital Repository. It has been accepted for inclusion in Biology ETDs by an authorized administrator of UNM Digital Repository. For more information, please contact [email protected]. Jonathan H. Schultz_______________________ candidate Biology_________________________________ Department This dissertation is approved, and is acceptable in quality and form for publication: Approved by the Dissertation Committee: Dr. Coenraad M. Adema, Chairperson_____________________________________________ Dr. Eric S. Loker_____________________________________________________ Dr. Irene Salinas_____________________________________________________ Dr. Patrick Hanington_________________________________________________ i PHYSELLA ACUTA, COMPARATIVE IMMUNOLOGY AND EVOLUTIONARY
    [Show full text]
  • 1 the Gene-Rich Genome of the Scallop Pecten Maximus Nathan J Kenny1,2, Shane a Mccarthy3, Olga Dudchenko4,5, Katherine James1,6
    bioRxiv preprint doi: https://doi.org/10.1101/2020.01.08.887828; this version posted January 9, 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-ND 4.0 International license. The Gene-Rich Genome of the Scallop Pecten maximus Nathan J Kenny1,2, Shane A McCarthy3, Olga Dudchenko4,5, Katherine James1,6, Emma Betteridge7, Craig Corton7, Jale Dolucan7,8, Dan Mead7, Karen Oliver7, Arina D Omer4, Sarah Pelan7, Yan Ryan9,10, Ying Sims7, Jason Skelton7, Michelle Smith7, James Torrance7, David Weisz4, Anil Wipat9, Erez L Aiden4,5,11,12, Kerstin Howe7, Suzanne T Williams1* 1 Natural History Museum, Department of Life Sciences, Cromwell Road, London SW7 5BD, UK 2 Present address: Oxford Brookes University, Headington Rd, Oxford OX3 0BP, UK 3 Department of Genetics, University of Cambridge, Cambridge, CB2 3EH, UK 4 The Center for Genome Architecture, Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA 5 The Center for Theoretical Biological Physics, Rice University, Houston, TX, USA 6 Present address: Department of Applied Sciences, Faculty of Health and Life Sciences, Northumbria University, Newcastle upon Tyne NE1 8ST UK 7 Wellcome Sanger Institute, Cambridge CB10 1SA, UK 8 Present address: Freeline Therapeutics Limited, Stevenage Bioscience Catalyst, Gunnels Wood Road, Stevenage, Hertfordshire, SG1 2FX, UK 9 School of Computing, Newcastle University, Newcastle upon Tyne NE1 7RU, UK 10 Institute of Infection and Global Health, Liverpool University, iC2, 146 Brownlow Hill, L3 5RF 11 Shanghai Institute for Advanced Immunochemical Studies, ShanghaiTech University, Shanghai, China 12 School of Agriculture and Environment, University of Western Australia, Perth, Australia *Corresponding Author: [email protected] 1 bioRxiv preprint doi: https://doi.org/10.1101/2020.01.08.887828; this version posted January 9, 2020.
    [Show full text]
  • Design Strategies for the Northern Shelf Bioregional Marine Protected Area Network
    Canadian Science Advisory Secretariat (CSAS) Research Document 2021/024 Pacific Region Design Strategies for the Northern Shelf Bioregional Marine Protected Area Network Rebecca G Martone1, Carolyn K Robb1, Katie SP Gale2, Alejandro Frid3, Chris McDougall4, and Emily Rubidge2 1Pacific Biological Station Fisheries and Oceans Canada 3190 Hammond Bay Road Nanaimo, BC V9T 6N7 2Institute of Ocean Sciences Fisheries and Oceans Canada PO Box 6000 Sidney, BC V8L 4B2 3Central Coast Indigenous Resource Alliance 2790 Vargo Rd Campbell River, BC V9W 4X1 4Haida Fisheries Program Council of the Haida Nation PO Box 87 Massett, Haida Gwaii V0T 1M0 March 2021 Foreword This series documents the scientific basis for the evaluation of aquatic resources and ecosystems in Canada. As such, it addresses the issues of the day in the time frames required and the documents it contains are not intended as definitive statements on the subjects addressed but rather as progress reports on ongoing investigations. Published by: Fisheries and Oceans Canada Canadian Science Advisory Secretariat 200 Kent Street Ottawa ON K1A 0E6 http://www.dfo-mpo.gc.ca/csas-sccs/ [email protected] © Her Majesty the Queen in Right of Canada, 2021 ISSN 1919-5044 Correct citation for this publication: Martone, R.G., Robb, C.K., Gale, K.S.P., Frid, A., McDougall, C., and Rubidge, E. 2021. Design Strategies for the Northern Shelf Bioregional Marine Protected Area Network. DFO Can. Sci. Advis. Sec. Res. Doc. 2021/024. xi + 156 p. Aussi disponible en français : Martone, R.G., Robb, C.K., Gale, K.S.P., Frid, A., McDougall, C.
    [Show full text]
  • REPORT North-East Asian Marine Protected Areas
    Management Plans, Monitoring and Assessment of Marine Protected Areas Assessment of Marine Protected Monitoring and Management Plans, Network Areas Asian Marine Protected North-East North-East Asian Marine Protected Areas Network Management Plans, Monitoring and Assessment of Marine Protected Areas North-East Asian Marine Protected Areas Network Management Plans, Monitoring and Assessment of Marine Protected Areas Management Plans, Monitoring and Assessment of Marine Protected Areas Copyright © NEASPEC 2021 Disclaimer: The views expressed in this report are those of the contributors and do not necessarily reflect the views of NEASPEC. The report is published without formal editing. This publication may be reproduced in whole or in part for educational or non-profit purposes without special permission from the copyright holder, provided that the source is acknowledged. The NEASPEC Secretariat would appreciate receiving a copy of any publication that uses this publication as a source. Layout and Design: DocuFriends Contents Contents Abbreviations ...............................................................................................................................................................................................xii Acknowledgements ...............................................................................................................................................................................xiv Overview ............................................................................................................................................................................................................xv
    [Show full text]
  • Convergent Evolution of Life Habit and Shell Shape in Scallops (Bivalvia: Pectinidae) with a Description of a New Genus Alvin Alejandrino Iowa State University
    Iowa State University Capstones, Theses and Graduate Theses and Dissertations Dissertations 2014 Convergent evolution of life habit and shell shape in scallops (Bivalvia: Pectinidae) with a description of a new genus Alvin Alejandrino Iowa State University Follow this and additional works at: https://lib.dr.iastate.edu/etd Part of the Biology Commons, and the Evolution Commons Recommended Citation Alejandrino, Alvin, "Convergent evolution of life habit and shell shape in scallops (Bivalvia: Pectinidae) with a description of a new genus" (2014). Graduate Theses and Dissertations. 14056. https://lib.dr.iastate.edu/etd/14056 This Dissertation is brought to you for free and open access by the Iowa State University Capstones, Theses and Dissertations at Iowa State University Digital Repository. It has been accepted for inclusion in Graduate Theses and Dissertations by an authorized administrator of Iowa State University Digital Repository. For more information, please contact [email protected]. Convergent evolution of life habit and shell shape in scallops (Bivalvia: Pectinidae) with a description of a new genus by Alvin Alejandrino A dissertation submitted to the graduate faculty in partial fulfillment of the requirements for the degree of DOCTOR OF PHILOSOPHY Major: Ecology and Evolutionary Biology i Program of Study Committee: Jeanne M. Serb, Major Professor Dean C. Adams Dennis Lavrov Nicole Valenzuela Kevin J. Roe Iowa State University Ames, Iowa 2014 Copyright © Alvin Alejandrino, 2014. All rights reserved. ii DEDICATION To my brother, Edward Andrew Haffner (May 19, 1986 – December 26, 2011). You showed me that family and happiness are the most important things in life. I miss and love you.
    [Show full text]