INTERTIDAL REEF BIOTOPES an Overview of Dynamic and Sensitivity
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Harmful Algae 91 (2020) 101587
Harmful Algae 91 (2020) 101587 Contents lists available at ScienceDirect Harmful Algae journal homepage: www.elsevier.com/locate/hal Review Progress and promise of omics for predicting the impacts of climate change T on harmful algal blooms Gwenn M.M. Hennona,c,*, Sonya T. Dyhrmana,b,* a Lamont-Doherty Earth Observatory, Columbia University, Palisades, NY, United States b Department of Earth and Environmental Sciences, Columbia University, New York, NY, United States c College of Fisheries and Ocean Sciences University of Alaska Fairbanks Fairbanks, AK, United States ARTICLE INFO ABSTRACT Keywords: Climate change is predicted to increase the severity and prevalence of harmful algal blooms (HABs). In the past Genomics twenty years, omics techniques such as genomics, transcriptomics, proteomics and metabolomics have trans- Transcriptomics formed that data landscape of many fields including the study of HABs. Advances in technology have facilitated Proteomics the creation of many publicly available omics datasets that are complementary and shed new light on the Metabolomics mechanisms of HAB formation and toxin production. Genomics have been used to reveal differences in toxicity Climate change and nutritional requirements, while transcriptomics and proteomics have been used to explore HAB species Phytoplankton Harmful algae responses to environmental stressors, and metabolomics can reveal mechanisms of allelopathy and toxicity. In Cyanobacteria this review, we explore how omics data may be leveraged to improve predictions of how climate change will impact HAB dynamics. We also highlight important gaps in our knowledge of HAB prediction, which include swimming behaviors, microbial interactions and evolution that can be addressed by future studies with omics tools. Lastly, we discuss approaches to incorporate current omics datasets into predictive numerical models that may enhance HAB prediction in a changing world. -
A Persistent Giant Algal Virus, with a Unique Morphology, Encodes An
bioRxiv preprint doi: https://doi.org/10.1101/2020.07.30.228163; this version posted January 13, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity.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 A persistent giant algal virus, with a unique morphology, encodes an 2 unprecedented number of genes involved in energy metabolism 3 4 Romain Blanc-Mathieu1,2, Håkon Dahle3, Antje Hofgaard4, David Brandt5, Hiroki 5 Ban1, Jörn Kalinowski5, Hiroyuki Ogata1 and Ruth-Anne Sandaa6* 6 7 1: Institute for Chemical Research, Kyoto University, Gokasho, Uji, 611-0011, Japan 8 2: Laboratoire de Physiologie Cellulaire & Végétale, CEA, Univ. Grenoble Alpes, 9 CNRS, INRA, IRIG, Grenoble, France 10 3: Department of Biological Sciences and K.G. Jebsen Center for Deep Sea Research, 11 University of Bergen, Bergen, Norway 12 4: Department of Biosciences, University of Oslo, Norway 13 5: Center for Biotechnology, Universität Bielefeld, Bielefeld, 33615, Germany 14 6: Department of Biological Sciences, University of Bergen, Bergen, Norway 15 *Corresponding author: Ruth-Anne Sandaa, +47 55584646, [email protected] 1 bioRxiv preprint doi: https://doi.org/10.1101/2020.07.30.228163; this version posted January 13, 2021. 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. 16 Abstract 17 Viruses have long been viewed as entities possessing extremely limited metabolic 18 capacities. -
Marine Information Network Information on the Species and Habitats Around the Coasts and Sea of the British Isles
MarLIN Marine Information Network Information on the species and habitats around the coasts and sea of the British Isles Montagu's stellate barnacle (Chthamalus montagui) MarLIN – Marine Life Information Network Biology and Sensitivity Key Information Review Karen Riley 2002-01-28 A report from: The Marine Life Information Network, Marine Biological Association of the United Kingdom. Please note. This MarESA report is a dated version of the online review. Please refer to the website for the most up-to-date version [https://www.marlin.ac.uk/species/detail/1322]. All terms and the MarESA methodology are outlined on the website (https://www.marlin.ac.uk) This review can be cited as: Riley, K. 2002. Chthamalus montagui Montagu's stellate barnacle. In Tyler-Walters H. and Hiscock K. (eds) Marine Life Information Network: Biology and Sensitivity Key Information Reviews, [on-line]. Plymouth: Marine Biological Association of the United Kingdom. DOI https://dx.doi.org/10.17031/marlinsp.1322.1 The information (TEXT ONLY) provided by the Marine Life Information Network (MarLIN) is licensed under a Creative Commons Attribution-Non-Commercial-Share Alike 2.0 UK: England & Wales License. Note that images and other media featured on this page are each governed by their own terms and conditions and they may or may not be available for reuse. Permissions beyond the scope of this license are available here. Based on a work at www.marlin.ac.uk (page left blank) Date: 2002-01-28 Montagu's stellate barnacle (Chthamalus montagui) - Marine Life Information Network See online review for distribution map Close up of Chthamalus montagui from High Water of Spring Tide level seen dry. -
Review of the Center for Computational Sciences, University of Tsukuba 2020
Review of the Center for Computational Sciences, University of Tsukuba 2020 筑波大学計算科学研究センター 外部評価報告書 September 2020 2020 年 9月 Center for Computational Sciences University of Tsukuba Review of the Center for Computational Sciences, University of Tsukuba 2014-2019 Foreword This volume contains the Report of the External Review for Center for Computational Scineces (CCS), University of Tsukuba, which was carried out in FY2019. The objective of the External Review was to evaluate the research activities of CCS during the period from FY2014 to FY2019 since the previous external review which was held in FY2013, and the future strategy and plans. Originally formed as the Center for Computational Physics (CCP) in 1992, the CCS was reorganized, expanded and relaunched under its current name in April 2004. The mission of the Center for Computational Sciences (CCS) is the promotion of "Multidisciplinary Computational Sciences" through enhanced cooperation between, and the fusion of, computational and computer sciences. The most important characteristics of the research collaboration in the CCS is “codesigning” where the needs from application fields and seeds from system technologies to make a balanced and optimized system development as well as application program development. As a unique research center where both computational and computer scientists work together, our codesigning for advanced High Performance Computing (HPC) research has been continued from the beginning until today. The CCS has developed several supercomputers, and conducted computational sciences in the areas of particle physics, astrophysics, nuclear physics, materials science, life science, environmental science, high performance computing technology, and information science including database technology and computational media. Also, the CCS plays a significant role as a nation-wide joint-use facility that provides computational resources for external scientific researchers in all of these areas all over the world. -
Diversity and Evolution of Protist Mitochondria: Introns, Gene Content and Genome Architecture
Diversity and Evolution of Protist Mitochondria: Introns, Gene Content and Genome Architecture 著者 西村 祐貴 内容記述 この博士論文は内容の要約のみの公開(または一部 非公開)になっています year 2016 その他のタイトル プロティストミトコンドリアの多様性と進化:イン トロン、遺伝子組成、ゲノム構造 学位授与大学 筑波大学 (University of Tsukuba) 学位授与年度 2015 報告番号 12102甲第7737号 URL http://hdl.handle.net/2241/00144261 Diversity and Evolution of Protist Mitochondria: Introns, Gene Content and Genome Architecture A Dissertation Submitted to the Graduate School of Life and Environmental Sciences, the University of Tsukuba in Partial Fulfillment of the Requirements for the Degree of Doctor of Philosophy in Science (Doctral Program in Biologial Sciences) Yuki NISHIMURA Table of Contents Abstract ........................................................................................................................... 1 Genes encoded in mitochondrial genomes of eukaryotes ..................................................... 3 Terminology .......................................................................................................................... 4 Chapter 1. General introduction ................................................................................ 5 The origin and evolution of mitochondria ............................................................................ 5 Mobile introns in mitochondrial genome .............................................................................. 6 The organisms which are lacking in mitochondrial genome data ........................................ 8 Chapter 2. Lateral transfers of mobile introns -
Audouinella Violacea (Kutz.) Hamel (Acrochaetiaceae, Rhodophyta)
Proceedings of the Iowa Academy of Science Volume 84 Number Article 5 1977 A Floridean Red Alga New to Iowa: Audouinella violacea (Kutz.) Hamel (Acrochaetiaceae, Rhodophyta) Donald R. Roeder Iowa State University Let us know how access to this document benefits ouy Copyright ©1977 Iowa Academy of Science, Inc. Follow this and additional works at: https://scholarworks.uni.edu/pias Recommended Citation Roeder, Donald R. (1977) "A Floridean Red Alga New to Iowa: Audouinella violacea (Kutz.) Hamel (Acrochaetiaceae, Rhodophyta)," Proceedings of the Iowa Academy of Science, 84(4), 139-143. Available at: https://scholarworks.uni.edu/pias/vol84/iss4/5 This Research is brought to you for free and open access by the Iowa Academy of Science at UNI ScholarWorks. It has been accepted for inclusion in Proceedings of the Iowa Academy of Science by an authorized editor of UNI ScholarWorks. For more information, please contact [email protected]. Roeder: A Floridean Red Alga New to Iowa: Audouinella violacea (Kutz.) Ha A Floridean Red Alga New to Iowa: Audouinella violacea (Kutz.) Hamel (Acrochaetiaceae, Rhodophyta) DONALD R. ROEDER 1 D ONALD R. R OEDER (Department of Botany and Plant Pathology, Iowa dominant wi th Cladophora glomerata (L.) Kutz. The alga was morphologicall y State University, Ames, Iowa 50011 ). A floridean red alga new to Iowa: similar to the Chantransia -stage of Batrachospermum fo und elsewhere in Iowa. Audouinella violacea (Kutz.) Hamel (Acrochaetiaceae, Rhodophyta), Proc. However, because mature Batrachospermum pl ants were never encountered in IowaAcad. Sci. 84(4): 139- 143, 1977. the Skunk River over a five year period, the aJga was assumed to be an Audouinella violacea (Kutz.) Hamel, previously unreported from Iowa, was an independent entity. -
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Cryptogamie, Algol., 2003, 24 (2): 117-131 © 2003 Adac. Tous droits réservés Blue-greenish acrochaetioid algae in freshwater habitats are “Chantransia” stages of Batrachospermales sensu lato (Rhodophyta) Marcelo Ribeiro ZUCCHI and Orlando NECCHI Jr* Departamento de Zoologia e Botânica, Universidade Estadual Paulista, Rua Cristóvão Colombo, 2265 - 15054-000 - São José do Rio Preto, SP, Brazil. Fax: 55 (17) 224-8692 (Received 25 February 2002, accepted 15 September 2002) Abstract — Fourteen culture isolates of freshwater acrochaetioid algae from distinct regions around the world were analysed, including the reddish species Audouinella hermannii, the dubious blue-greenish species A. pygmaea, and “Chantransia” stages from distinct taxonomic origins in the Batrachospermales sensu lato (Batrachospermaceae, Lemaneaceae and Thoreaceae). Four isolates (two ‘Chantransia’ stages and two species of Audouinella, A. hermannii and A. pygmaea) were tested under experimental conditions of temperature (10-25 oC), irradiance (65 and 300 µmol photons m–2 s–1) and photoperiod (16:8 h and 8:16 h light/dark cycles). Plant colour is proposed as the only vegetative char- acter that can be unequivocally applied to distinguish Audouinella from ‘Chantransia’, blue- greenish representing “Chantransia” stages and reddish applying to true Audouinella species (also forming reproductive structures other than monosporangia, e.g. tetrasporan- gia). Some isolates of A. pygmaea were proven to be unequivocally ‘Chantransia” stages owing either to production of juvenile gametophytes or to derivation from carpospores. No association of the morphology of A. pygmaea was found with any particular species, thus it should be regarded as a complex involving many species of the Batrachospermales sensu lato, as is also the case with A. -
Insights Into Alexandrium Minutum Nutrient Acquisition, Metabolism and Saxitoxin Biosynthesis Through Comprehensive Transcriptome Survey
biology Article Insights into Alexandrium minutum Nutrient Acquisition, Metabolism and Saxitoxin Biosynthesis through Comprehensive Transcriptome Survey Muhamad Afiq Akbar 1, Nurul Yuziana Mohd Yusof 2 , Fathul Karim Sahrani 2, Gires Usup 2, Asmat Ahmad 1, Syarul Nataqain Baharum 3 , Nor Azlan Nor Muhammad 3 and Hamidun Bunawan 3,* 1 Department of Biological Sciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, Bangi 43600, Malaysia; muhdafi[email protected] (M.A.A.); [email protected] (A.A.) 2 Department of Earth Science and Environment, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, Bangi 43600, Malaysia; [email protected] (N.Y.M.Y.); [email protected] (F.K.S.); [email protected] (G.U.) 3 Institute of System Biology, Universiti Kebangsaan Malaysia, Bangi 43600, Malaysia; [email protected] (S.N.B.); [email protected] (N.A.N.M.) * Correspondence: [email protected]; Tel.: +60-389-214-570 Simple Summary: Alexandrium minutum is one of the causing organisms for the occurrence of harmful algae bloom (HABs) in marine ecosystems. This species produces saxitoxin, one of the deadliest neurotoxins which can cause human mortality. However, molecular information such as genes and proteins catalog on this species is still lacking. Therefore, this study has successfully Citation: Akbar, M.A.; Yusof, N.Y.M.; characterized several new molecular mechanisms regarding A. minutum environmental adaptation Sahrani, F.K.; Usup, G.; Ahmad, A.; and saxitoxin biosynthesis. Ultimately, this study provides a valuable resource for facilitating future Baharum, S.N.; Muhammad, N.A.N.; dinoflagellates’ molecular response to environmental changes. -
Introns, Gene Content and Genome Architecture
Diversity and Evolution of Protist Mitochondria: Introns, Gene Content and Genome Architecture A Dissertation Submitted to the Graduate School of Life and Environmental Sciences, the University of Tsukuba in Partial Fulfillment of the Requirements for the Degree of Doctor of Philosophy in Science (Doctral Program in Biologial Sciences) Yuki NISHIMURA Table of Contents Abstract ........................................................................................................................... 1 Genes encoded in mitochondrial genomes of eukaryotes ..................................................... 3 Terminology .......................................................................................................................... 4 Chapter 1. General introduction ................................................................................ 5 The origin and evolution of mitochondria ............................................................................ 5 Mobile introns in mitochondrial genome .............................................................................. 6 The organisms which are lacking in mitochondrial genome data ........................................ 8 Chapter 2. Lateral transfers of mobile introns among distantly related mitochondrial genomes ................................................................................................ 11 Summary ................................................................................................................................ 11 2-1. Leucocryptos -
Models of Open Populations with Space-Limited Recruitment In
MARINE ECOLOGY PROGRESS SERIES Vol. 275: 185–197, 2004 Published July 14 Mar Ecol Prog Ser Models of open populations with space-limited recruitment in stochastic environments: relative importance of recruitment and survival in populations of Semibalanus balanoides Carl J. Svensson1,*, Stuart R. Jenkins2, Stephen J. Hawkins2, Alan A. Myers5, Pedro Range3, José Paula3, Ruth M. O’Riordan4, 5, Per Åberg1 1Department of Marine Ecology, Göteborg University, Box 461, 405 30 Göteborg, Sweden 2Marine Biological Association, Citadel Hill, Plymouth PL1 2PB, UK 3Institudo do Mar (IMAR), Laboratório Marítimo da Guia, Faculdade de Ciências da Universidade de Lisboa, Estrada do Guincho, 2750-642 Cascais, Portugal 4Department of Biological Sciences, National University of Singapore, 14 Science Drive 4, Singapore 117543 5Department of Zoology and Animal Ecology, National University of Ireland, Lee Maltings, Prospect Row, Cork, Ireland ABSTRACT: The relative importance of recruitment and post-recruitment processes in determining adult density among marine species varies considerably between species and populations. This study aimed to investigate the relative effects of variation in recruitment and survival rates on the density dynamics of 3 spatially separated natural populations of the barnacle Semibalanus balanoides (Isle of Man, SW Ireland and west Sweden). We analysed 2 different data-based stochastic matrix models of open populations with space-limited recruitment. Assumption testing supported the application of matrix-model theory for studying and comparing population variables of open populations. Recruit- ment was found to be partly dependent on free space, and mortality was size-specific and indepen- dent of other vital rates. Model simulations showed that the relative importance of recruitment and survival in shaping adult density depends on the existing variation of these vital rates at each loca- tion. -
Barnacle Paper.PUB
Proc. Isle Wight nat. Hist. archaeol. Soc . 24 : 42-56. BARNACLES (CRUSTACEA: CIRRIPEDIA) OF THE SOLENT & ISLE OF WIGHT Dr Roger J.H. Herbert & Erik Muxagata To coincide with the bicentenary of the birth of the naturalist Charles Darwin (1809-1889) a list of barnacles (Crustacea:Cirripedia) recorded from around the Solent and Isle of Wight coast is pre- sented, including notes on their distribution. Following the Beagle expedition, and prior to the publication of his seminal work Origin of Species in 1859, Darwin spent eight years studying bar- nacles. During this time he tested his developing ideas of natural selection and evolution through precise observation and systematic recording of anatomical variation. To this day, his monographs of living and fossil cirripedia (Darwin 1851a, 1851b, 1854a, 1854b) are still valuable reference works. Darwin visited the Isle of Wight on three occasions (P. Bingham, pers.com) however it is unlikely he carried out any field work on the shore. He does however describe fossil cirripedia from Eocene strata on the Isle of Wight (Darwin 1851b, 1854b) and presented specimens, that were supplied to him by other collectors, to the Natural History Museum (Appendix). Barnacles can be the most numerous of macrobenthic species on hard substrata. The acorn and stalked (pedunculate) barnacles have a familiar sessile adult stage that is preceded by a planktonic larval phase comprising of six naupliar stages, prior to the metamorphosis of a non-feeding cypris that eventually settles on suitable substrate (for reviews on barnacle biology see Rainbow 1984; Anderson, 1994). Additionally, the Rhizocephalans, an ectoparasitic group, are mainly recognis- able as barnacles by the external characteristics of their planktonic nauplii. -
Hawkins, S. J., Evans, A. J., Firth, L. B., Genner, M. J., Herbert, R. J. H., Adams, L. C., Moore, P. J., Mieszkowska, N., Thompson, R
Hawkins, S. J., Evans, A. J., Firth, L. B., Genner, M. J., Herbert, R. J. H., Adams, L. C., Moore, P. J., Mieszkowska, N., Thompson, R. C., Burrows, M. T., & Fenberg, P. B. (2016). Impacts and effects of ocean warming on intertidal rocky habitats. In Explaining ocean warming: causes, scale, effects and consequences (pp. 147-176). https://doi.org/10.2305/IUCN.CH.2016.08.en Publisher's PDF, also known as Version of record License (if available): CC BY-NC Link to published version (if available): 10.2305/IUCN.CH.2016.08.en Link to publication record in Explore Bristol Research PDF-document This is the final published version of the article (version of record). It first appeared online via IUCN at https://portals.iucn.org/library/node/46254. University of Bristol - Explore Bristol Research General rights This document is made available in accordance with publisher policies. Please cite only the published version using the reference above. Full terms of use are available: http://www.bristol.ac.uk/red/research-policy/pure/user-guides/ebr-terms/ 3.7 Impacts and effects of ocean warming on intertidal rocky habitats Authors: S. J. Hawkins1,2, A. J. Evans1, L. B. Firth3, M. J. Genner4, R. J. H. Herbert5, L. C. Adams2, P. J. Moore6, N. Mieszkowska2, R. C. Thompson7, M. T. Burrows8, P. B. Fenberg1 1Ocean and Earth Science, National Oceanography Centre Southampton, University of Southampton Waterfront Campus, Southampton 2The Marine Biological Association of the UK, Plymouth 3School of Geography, Earth and Environmental Sciences, Plymouth University,