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Coral Reef Monitoring in Kofiau and Boo Islands Marine Protected Area, Raja Ampat, West Papua. 2009—2011
August 2012 Indo-Pacific Division Indonesia Report No 6/12 Coral Reef Monitoring in Kofiau and Boo Islands Marine Protected Area, Raja Ampat, West Papua. 2009—2011 Report Compiled By: Purwanto, Muhajir, Joanne Wilson, Rizya Ardiwijaya, and Sangeeta Mangubhai August 2012 Indo-Pacific Division Indonesia Report No 6/12 Coral Reef Monitoring in Kofiau and Boo Islands Marine Protected Area, Raja Ampat, West Papua. 2009—2011 Report Compiled By: Purwanto, Muhajir, Joanne Wilson, Rizya Ardiwijaya, and Sangeeta Mangubhai Published by: TheNatureConservancy,Indo-PacificDivision Purwanto:TheNatureConservancy,IndonesiaMarineProgram,Jl.Pengembak2,Sanur,Bali, Indonesia.Email: [email protected] Muhajir: TheNatureConservancy,IndonesiaMarineProgram,Jl.Pengembak2,Sanur,Bali, Indonesia.Email: [email protected] JoanneWilson: TheNatureConservancy,IndonesiaMarineProgram,Jl.Pengembak2,Sanur,Bali, Indonesia. RizyaArdiwijaya:TheNatureConservancy,IndonesiaMarineProgram,Jl.Pengembak2,Sanur, Bali,Indonesia.Email: [email protected] SangeetaMangubhai: TheNatureConservancy,IndonesiaMarineProgram,Jl.Pengembak2, Sanur,Bali,Indonesia.Email: [email protected] Suggested Citation: Purwanto,Muhajir,Wilson,J.,Ardiwijaya,R.,Mangubhai,S.2012.CoralReefMonitoringinKofiau andBooIslandsMarineProtectedArea,RajaAmpat,WestPapua.2009-2011.TheNature Conservancy,Indo-PacificDivision,Indonesia.ReportN,6/12.50pp. © 2012012012201 222 The Nature Conservancy AllRightsReserved.Reproductionforanypurposeisprohibitedwithoutpriorpermission. AllmapsdesignedandcreatedbyMuhajir. CoverPhoto: -
Phylogeny of the Damselfishes (Pomacentridae) and Patterns of Asymmetrical Diversification in Body Size and Feeding Ecology
bioRxiv preprint doi: https://doi.org/10.1101/2021.02.07.430149; this version posted February 8, 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 The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity.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. Phylogeny of the damselfishes (Pomacentridae) and patterns of asymmetrical diversification in body size and feeding ecology Charlene L. McCord a, W. James Cooper b, Chloe M. Nash c, d & Mark W. Westneat c, d a California State University Dominguez Hills, College of Natural and Behavioral Sciences, 1000 E. Victoria Street, Carson, CA 90747 b Western Washington University, Department of Biology and Program in Marine and Coastal Science, 516 High Street, Bellingham, WA 98225 c University of Chicago, Department of Organismal Biology and Anatomy, and Committee on Evolutionary Biology, 1027 E. 57th St, Chicago IL, 60637, USA d Field Museum of Natural History, Division of Fishes, 1400 S. Lake Shore Dr., Chicago, IL 60605 Corresponding author: Mark W. Westneat [email protected] Journal: PLoS One Keywords: Pomacentridae, phylogenetics, body size, diversification, evolution, ecotype Abstract The damselfishes (family Pomacentridae) inhabit near-shore communities in tropical and temperature oceans as one of the major lineages with ecological and economic importance for coral reef fish assemblages. Our understanding of their evolutionary ecology, morphology and function has often been advanced by increasingly detailed and accurate molecular phylogenies. Here we present the next stage of multi-locus, molecular phylogenetics for the group based on analysis of 12 nuclear and mitochondrial gene sequences from 330 of the 422 damselfish species. -
Trait Decoupling Promotes Evolutionary Diversification of The
Trait decoupling promotes evolutionary diversification of the trophic and acoustic system of damselfishes rspb.royalsocietypublishing.org Bruno Fre´de´rich1, Damien Olivier1, Glenn Litsios2,3, Michael E. Alfaro4 and Eric Parmentier1 1Laboratoire de Morphologie Fonctionnelle et Evolutive, Applied and Fundamental Fish Research Center, Universite´ de Lie`ge, 4000 Lie`ge, Belgium 2Department of Ecology and Evolution, University of Lausanne, 1015 Lausanne, Switzerland Research 3Swiss Institute of Bioinformatics, Ge´nopode, Quartier Sorge, 1015 Lausanne, Switzerland 4Department of Ecology and Evolutionary Biology, University of California, Los Angeles, CA 90095, USA Cite this article: Fre´de´rich B, Olivier D, Litsios G, Alfaro ME, Parmentier E. 2014 Trait decou- Trait decoupling, wherein evolutionary release of constraints permits special- pling promotes evolutionary diversification of ization of formerly integrated structures, represents a major conceptual the trophic and acoustic system of damsel- framework for interpreting patterns of organismal diversity. However, few fishes. Proc. R. Soc. B 281: 20141047. empirical tests of this hypothesis exist. A central prediction, that the tempo of morphological evolution and ecological diversification should increase http://dx.doi.org/10.1098/rspb.2014.1047 following decoupling events, remains inadequately tested. In damselfishes (Pomacentridae), a ceratomandibular ligament links the hyoid bar and lower jaws, coupling two main morphofunctional units directly involved in both feeding and sound production. Here, we test the decoupling hypothesis Received: 2 May 2014 by examining the evolutionary consequences of the loss of the ceratomandib- Accepted: 9 June 2014 ular ligament in multiple damselfish lineages. As predicted, we find that rates of morphological evolution of trophic structures increased following the loss of the ligament. -
Reef Fishes of the Bird's Head Peninsula, West
Check List 5(3): 587–628, 2009. ISSN: 1809-127X LISTS OF SPECIES Reef fishes of the Bird’s Head Peninsula, West Papua, Indonesia Gerald R. Allen 1 Mark V. Erdmann 2 1 Department of Aquatic Zoology, Western Australian Museum. Locked Bag 49, Welshpool DC, Perth, Western Australia 6986. E-mail: [email protected] 2 Conservation International Indonesia Marine Program. Jl. Dr. Muwardi No. 17, Renon, Denpasar 80235 Indonesia. Abstract A checklist of shallow (to 60 m depth) reef fishes is provided for the Bird’s Head Peninsula region of West Papua, Indonesia. The area, which occupies the extreme western end of New Guinea, contains the world’s most diverse assemblage of coral reef fishes. The current checklist, which includes both historical records and recent survey results, includes 1,511 species in 451 genera and 111 families. Respective species totals for the three main coral reef areas – Raja Ampat Islands, Fakfak-Kaimana coast, and Cenderawasih Bay – are 1320, 995, and 877. In addition to its extraordinary species diversity, the region exhibits a remarkable level of endemism considering its relatively small area. A total of 26 species in 14 families are currently considered to be confined to the region. Introduction and finally a complex geologic past highlighted The region consisting of eastern Indonesia, East by shifting island arcs, oceanic plate collisions, Timor, Sabah, Philippines, Papua New Guinea, and widely fluctuating sea levels (Polhemus and the Solomon Islands is the global centre of 2007). reef fish diversity (Allen 2008). Approximately 2,460 species or 60 percent of the entire reef fish The Bird’s Head Peninsula and surrounding fauna of the Indo-West Pacific inhabits this waters has attracted the attention of naturalists and region, which is commonly referred to as the scientists ever since it was first visited by Coral Triangle (CT). -
Spatial Structure of Coral Reef Fish Communities in the Ryukyu Islands
Oceanologica Acta 26 (2003) 537–547 www.elsevier.com/locate/oceact Spatial structure of coral reef fish communities in the Ryukyu Islands, southern Japan Répartition spatiale des communautés de poissons dans différentes îles coralliennes des Ryukyus (sud du Japon) David Lecchini a,*, Mehdi Adjeroud a,b, Morgan S. Pratchett a,c, Laurence Cadoret a,b, René Galzin a a École pratique des Hautes-Études, UMR CNRS 8046, Université de Perpignan, 66860 Perpignan, France b Department of Chemistry, Biology, and Marine Science, University of the Ryukyus Nishihava, Okinawa 903-01, Japan c Centre for Coral Reef Biodiversity, James Cook University, Townsville, Qld 4811, Australia Abstract Coral reef fishes often exhibit a high degree of structure in their distribution and abundance, but the factors that influence their spatial arrangement are poorly understood. This study sought to explain the spatial structure of coral reef fish communities in the Ryukyu Archipelago, southern Japan.Visual surveys of coral reef fishes were conducted at multiple stations across the fringing reef (from the inner reef flat to the outer slope) at each of three different islands; Aka, Ishigaki and Sesoko. Spatial variation in fish communities (within and among reefs) was then compared to changes in environmental variables (water depth, distance from the shoreline, reef zone, coral abundance and coral richness). Despite being small islands, the total species richness of coral reef fishes in the Ryukyu Islands was very high (>87 species per reef). Mean abundance of reef fishes was also very high (x = 2.26 ± 0.20 S.E. fishes per m2), but more than 80% of all fishes were from the family Pomacentridae. -
Adult and Larval Traits As Determinants of Geographic Range Size Among Tropical Reef fishes
Adult and larval traits as determinants of geographic range size among tropical reef fishes Osmar J. Luiza,1, Andrew P. Allena, D. Ross Robertsonb, Sergio R. Floeterc, Michel Kulbickid, Laurent Vigliolae, Ronan Bechelerf, and Joshua S. Madina aDepartment of Biological Sciences, Macquarie University, Sydney, NSW 2109, Australia; bSmithsonian Tropical Research Institute, Balboa, Republic of Panama APO AA 34002; cDepartamento de Ecologia e Zoologia, Universidade Federal de Santa Catarina, Florianópolis, Santa Catarina 88040-900, Brazil; dLABEX Laboratoire Excellence Arago, Institut de Recherche pour le Dévelopment UR227 CoReUs, 66651 Banyuls, France; eLABEX Laboratoire Excellence Récifs Coralliens, Institut de Recherche pour le Dévelopment UR227 CoReUs, 98848 Noumea, New Caledonia; and fLaboratoire Environnement Profond, Ifremer, 29280 Plouzané, France Edited by Mark A. Hixon, Oregon State University, Corvallis, OR, and accepted by the Editorial Board August 27, 2013 (received for review March 5, 2013) Most marine organisms disperse via ocean currents as larvae, so it potential, but may influence the propensity for range expansion is often assumed that larval-stage duration is the primary de- by affecting the establishment and persistence of new pop- terminant of geographic range size. However, empirical tests of ulations, as suggested by a recent study on Atlantic reef fishes this relationship have yielded mixed results, and alternative (9). For example, schooling (18, 19) and nocturnal activity (20) hypotheses have rarely been considered. Here we assess the reduce predation risk and thereby increase the chance of post- relative influence of adult and larval-traits on geographic range settlement survival. Broad habitat use and depth range indicate size using a global dataset encompassing 590 species of tropical ecological generality, which is thought to influence establishment reef fishes in 47 families, the largest compilation of such data to success in new environments (21). -
Pomacentridae): Structural and Expression Variation in Opsin Genes
Molecular Ecology (2017) 26, 1323–1342 doi: 10.1111/mec.13968 Why UV vision and red vision are important for damselfish (Pomacentridae): structural and expression variation in opsin genes SARA M. STIEB,*† FABIO CORTESI,*† LORENZ SUEESS,* KAREN L. CARLETON,‡ WALTER SALZBURGER† and N. J. MARSHALL* *Sensory Neurobiology Group, Queensland Brain Institute, The University of Queensland, Brisbane, QLD 4072, Australia, †Zoological Institute, University of Basel, Basel 4051, Switzerland, ‡Department of Biology, The University of Maryland, College Park, MD 20742, USA Abstract Coral reefs belong to the most diverse ecosystems on our planet. The diversity in col- oration and lifestyles of coral reef fishes makes them a particularly promising system to study the role of visual communication and adaptation. Here, we investigated the evolution of visual pigment genes (opsins) in damselfish (Pomacentridae) and exam- ined whether structural and expression variation of opsins can be linked to ecology. Using DNA sequence data of a phylogenetically representative set of 31 damselfish species, we show that all but one visual opsin are evolving under positive selection. In addition, selection on opsin tuning sites, including cases of divergent, parallel, conver- gent and reversed evolution, has been strong throughout the radiation of damselfish, emphasizing the importance of visual tuning for this group. The highest functional variation in opsin protein sequences was observed in the short- followed by the long- wavelength end of the visual spectrum. Comparative gene expression analyses of a subset of the same species revealed that with SWS1, RH2B and RH2A always being expressed, damselfish use an overall short-wavelength shifted expression profile. Inter- estingly, not only did all species express SWS1 – a UV-sensitive opsin – and possess UV-transmitting lenses, most species also feature UV-reflective body parts. -
02-Wantiez 119.Indd
FIRST DATA ON COMMUNITY STRUCTURE AND TROPHIC NETWORKS OF UVEA CORAL REEF FISH ASSEMBLAGES (WALLIS AND FUTUNA, SOUTH PACIFIC OCEAN) by Laurent WANTIEZ & Claude CHAUVET (1) ABSTRACT. - Coral reef fish communities of Uvea (Wallis and Futuna) fringing reefs, mid-lagoon reefs, inner barrier reefs and outer barrier reef slopes were studied along four transects using visual censuses during September 1999. A total of 194 fish species in 33 families were recorded. Labridae (34 species), Pomacentridae (33 species) and Chaetodontidae (23 species) were the main families. The composition of the species suggests that Uvea is located at a faunal junction between Pacific biogeographic regions. Mean density (2.5 fish/m2) was similar to other Pacific reef fish communities whereas mean biomass (43 g/m2) was within the lowest known values. Four fish assemblages were identified along an inshore-offshore gradient and related to substrate characteristics (live corals, dead corals, seagrass, algae and sand): One seagrass bed assemblage, two lagoon assemblages and one outer barrier reef slope assemblage. The major energy intake comes from lower levels of the trophic network, grazers (45.1% biomass) being the main trophic group. Other important trophic categories came from upper trophic levels: macro-carnivores (24.4%) and piscivores (14.5%). Micro-algae → grazers → piscivores was the most important energy path, before macro-invertebrates → macro-carnivores → piscivores. Plankton represented a minor resource (only 5% planktivores) during the study, which is unusual. Spatial variations in trophic networks occurred among the four fish assemblages with significant variations for grazers and macro-carnivores, and high variations for piscivores, planktivores and corallivores. -
227 2008 1083 Article-Web 1..11
Mar Biol (2009) 156:289–299 DOI 10.1007/s00227-008-1083-z ORIGINAL PAPER Feeding macroecology of territorial damselWshes (Perciformes: Pomacentridae) Diego R. Barneche · S. R. Floeter · D. M. Ceccarelli · D. M. B. Frensel · D. F. Dinslaken · H. F. S. Mário · C. E. L. Ferreira Received: 10 March 2008 / Accepted: 28 October 2008 / Published online: 18 November 2008 © Springer-Verlag 2008 Abstract The present study provides the Wrst analysis of Stegastes and Pomacentrus, but this relationship was not the feeding macroecology of territorial damselWshes (Perci- signiWcant when all territorial pomacentrids were analyzed formes: Pomacentridae), a circumtropical family whose together. A negative correlation between body size and feeding and behavioral activities are important in structur- SST was observed for the whole group and for the genera ing tropical and subtropical reef benthic communities. The Stegastes, and Pomacentrus. No relationship was found analyses were conducted from data collected by the authors between territory size and feeding rates. Principal Compo- and from the literature. A strong positive correlation was nents Analysis showed that diVerences in feeding rates observed between bite rates and sea surface temperature accounted for most of the variability in the data. It also sug- (SST) for the genus Stegastes. A negative correlation was gested that body size may be important in characterizing found between bite rates and mean body size for the genera the diVerent genera. In general, tropical species are smaller and have higher bite rates than subtropical ones. This study extended the validity of Bergmann’s rule, which states that Communicated by S.D. Connell. larger species or larger individuals within species occur D. -
Trophic Structure of Reef Fishes and Relationship of Corallivore Fishes with Hard Coral in Kepulauan Seribu, Jakarta
IOP Conference Series: Earth and Environmental Science PAPER • OPEN ACCESS Trophic structure of reef fishes and relationship of corallivore fishes with hard coral in Kepulauan Seribu, Jakarta To cite this article: B Prabowo et al 2019 IOP Conf. Ser.: Earth Environ. Sci. 278 012059 View the article online for updates and enhancements. This content was downloaded from IP address 170.106.35.76 on 24/09/2021 at 21:15 The 3rd EIW IOP Publishing IOP Conf. Series: Earth and Environmental Science 278 (2019) 012059 doi:10.1088/1755-1315/278/1/012059 Trophic structure of reef fishes and relationship of corallivore fishes with hard coral in Kepulauan Seribu, Jakarta B Prabowo1,2*, K Fahlevy1,2,3, N F D Putra1,2, M Rizqydiani1,2, B M K Rahman1,2, A Habibie1,2, B Subhan1,3 and H Madduppa1,3 1Department of Marine Science and Technology, Bogor Agricultural University, Bogor, Indonesia 2Marine Science and Technology Student Organization (HIMITEKA-IPB), Bogor Agricultural University, Bogor, Indonesia 3Fisheries Diving Club, Bogor Agricultural University, Bogor, Indonesia *E-mail: [email protected] Abstract. Corallivore became one of the biotic components that relate with coral coverage. The objective of this study was to determine the trophic structure of reef fishes, as well as the relationship between corallivores and hard corals in the northern part of Kepulauan Seribu. Reef fish species and benthic coverage were assessed using underwater visual census (UVCs) and Line Intercept Transect (LIT). The results showed that there were 120 reef fish species belonging to 7 trophic groups and 19 families. Pomacentridae and Labridae are the most abundant fish families. -
Prioritized Species for Mariculture in India
Prioritized Species for Mariculture in India Compiled & Edited by Ritesh Ranjan Muktha M Shubhadeep Ghosh A Gopalakrishnan G Gopakumar Imelda Joseph ICAR - Central Marine Fisheries Research Institute Post Box No. 1603, Ernakulam North P.O. Kochi – 682 018, Kerala, India www.cmfri.org.in 2017 Prioritized Species for Mariculture in India Published by: Dr. A Gopalakrishnan Director ICAR - Central Marine Fisheries Research Institute Post Box No. 1603, Ernakulam North P.O. Kochi – 682 018, Kerala, India www.cmfri.org.in Email: [email protected] Tel. No.: +91-0484-2394867 Fax No.: +91-0484-2394909 Designed at G.K. Print House Pvt. Ltd. Rednam Gardens Visakhapatnam- 530002, Andhra Pradesh Cell: +91 9848196095, www.gkprinthouse.com Cover page design: Abhilash P. R., CMFRI, Kochi Illustrations: David K. M., CMFRI, Kochi Publication, Production & Co-ordination: Library & Documentation Centre, CMFRI Printed on: November 2017 ISBN 978-93-82263-14-2 © 2017 ICAR - Central Marine Fisheries Research Institute, Kochi All rights reserved. Material contained in this publication may not be reproduced in any form without the permission of the publisher. Citation : Ranjan, R., Muktha, M., Ghosh, S., Gopalakrishnan, A., Gopakumar, G. and Joseph, I. (Eds.). 2017. Prioritized Species for Mariculture in India. ICAR-CMFRI, Kochi. 450 pp. CONTENTS Foreword ................................................................................................................. i Preface ................................................................................................................. -
The Functioning of Coral Reef Communities Along Environmental Gradients
The Functioning of Coral Reef Communities Along Environmental Gradients Ph.D. Thesis Jeremiah Grahm Plass-Johnson Dissertation zur Erlangung des Doktorgrades der Natuwissenschaften der Universität Bremen, Fachbereich Biologie/Chemie. Die vorliegende Arbeit wurde in der Zeit von Juni 2012 bis Mai 2015 am Leibniz-Zentrum für marine Tropenökologie in Bremen angefertigt. Finanziert wurde die Arbeit über das Bundesministerium für Bildung und Forschung (Grant no. 03F0643A) im Rahmen des bilateralen Deutsch-Indonesischen Projekts, Science for the Protection of Indonesian Coastal Ecosystems (SPICE III). Gutachter: Prof. Dr. Kai Bischof (Erstgutachter) Prof. Dr. Matthias Wolf (Zweitgutachter) Prüfer: Prof. Dr. Claudio Richter Dr. Mirta Teichberg Weitere Mitglieder des Prüfungsausschusses Jasmin Heiden (Doktorand) Tom Vierus (Student) Datum des Promotionskolloquiums: 21. Juli 2015 Summary One of the primary challenges in ecology is to understand how environmental disturbance affects diversity and community structure, and what are the subsequent consequences on ecosystem functioning. Coral reefs are some of the most diverse ecosystems on the planet resulting in complex sets of interactions between benthic, habitat-forming constituents and mobile fish consumers. However, scleractinian corals, the primary habitat engineers, are dependent on high-light, low- nutrient water conditions and thus are highly responsive when the environment varies from this status. In Southeast Asia, an increase in human coastal populations centred around urban areas has resulted in extensive changes to the coastal environment such as degraded water quality and removal of fish consumers. This has resulted in highly varied abiotic and biotic conditions in relation with distance from the shore. Often, coral reefs closer to shore are much lower in benthic and fish diversity than those further from anthropogenic influences, with direct impacts on ecosystem functioning.