title: Variation in the composition of corals, fishes, sponges, echinoderms, ascidians, molluscs, foraminifera and macroalgae across a pronounced in-to-offshore environmental gradient in the Jakarta Bay-Thousand Islands coral reef complex.
abstract: Substrate cover, water quality parameters and assemblages of corals, fishes, sponges, echinoderms, ascidians, molluscs, benthic foraminifera and macroalgae were sampled across a pronounced environmental gradient in the Jakarta Bay-Thousand Islands reef complex. Inshore sites mainly consisted of sand, rubble and turf algae with elevated temperature, dissolved oxygen, pH and chlorophyll concentrations and depauperate assemblages of all taxa. Live coral cover was very low inshore and mainly consisted of sparse massive coral heads and a few encrusting species. Faunal assemblages were more speciose and compositionally distinct mid- and offshore compared to inshore. There were, however, small-scale differences among taxa. Certain midshore sites, for example, housed assemblages resembling those typical of the inshore environment but this differed depending on the taxon. Substrate, water quality and spatial variables together explained from 31% (molluscs) to 72% (foraminifera) of the variation in composition. In general, satellite-derived parameters outperformed locally measured parameters.
authors.affiliation: Department of Biology, CESAM, Universidade de Aveiro, Campus Universitário de Santiago, 3810-193 Aveiro, Portugal.
authors.forename: D F R
authors.initials: DF
authors.lastname: Cleary
authors.affiliation: Department of Biology, CESAM, Universidade de Aveiro, Campus Universitário de Santiago, 3810-193 Aveiro, Portugal.
authors.forename: A R M
authors.initials: AR
authors.lastname: Polónia
authors.affiliation: Naturalis Biodiversity Center, Darwinweg 2, 2333 CR Leiden, The Netherlands.
authors.forename: W
authors.initials: W
authors.lastname: Renema
authors.affiliation: Naturalis Biodiversity Center, Darwinweg 2, 2333 CR Leiden, The Netherlands; Institute of Biology (IBL), Leiden University, P.O. Box 9516, 2300 RA Leiden, The Netherlands.
authors.forename: B W
authors.initials: BW
authors.lastname: Hoeksema
authors.affiliation: Smithsonian Tropical Research Institute, Naos Island Marine Laboratory, Panama City 20521-9100, Panama; Dept. of Geology & Geophysics, Texas A&M University, College Station, TX 77843, United States.
authors.forename: P G
authors.initials: PG
authors.lastname: Rachello-Dolmen
authors.affiliation: Naturalis Biodiversity Center, Darwinweg 2, 2333 CR Leiden, The Netherlands.
authors.forename: R G
authors.initials: RG
authors.lastname: Moolenbeek
authors.affiliation: Research Centre for Oceanography, Indonesian Institute of Sciences, Pasir Putih 1, Ancol Timur, Jakarta Utara 11048, Indonesia.
authors.forename: A
authors.initials: A
authors.lastname: Budiyanto
authors.affiliation: Research Centre for Oceanography, Indonesian Institute of Sciences, Pasir Putih 1, Ancol Timur, Jakarta Utara 11048, Indonesia.
authors.lastname: Yahmantoro
authors.affiliation: Research Centre for Oceanography, Indonesian Institute of Sciences, Pasir Putih 1, Ancol Timur, Jakarta Utara 11048, Indonesia.
authors.forename: Y
authors.initials: Y
authors.lastname: Tuti
authors.affiliation: Research Centre for Oceanography, Indonesian Institute of Sciences, Pasir Putih 1, Ancol Timur, Jakarta Utara 11048, Indonesia.
authors.lastname: Giyanto
authors.affiliation: Center of Excellence for Biodiversity of Peninsular Thailand, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand.
authors.forename: S G A
authors.initials: SG
authors.lastname: Draisma
authors.affiliation: Naturalis Biodiversity Center, Darwinweg 2, 2333 CR Leiden, The Netherlands.
authors.forename: W F
authors.initials: WF
authors.lastname: Prud'homme van Reine
authors.affiliation: Research Centre for Oceanography, Indonesian Institute of Sciences, Pasir Putih 1, Ancol Timur, Jakarta Utara 11048, Indonesia.
authors.forename: R
authors.initials: R
authors.lastname: Hariyanto
authors.affiliation: Naturalis Biodiversity Center, Darwinweg 2, 2333 CR Leiden, The Netherlands; Institute of Biology (IBL), Leiden University, P.O. Box 9516, 2300 RA Leiden, The Netherlands; GiMaRIS, J.H. Oortweg 21, 2333 CH Leiden, The Netherlands.
authors.forename: A
authors.initials: A
authors.lastname: Gittenberger
authors.affiliation: Research Centre for Oceanography, Indonesian Institute of Sciences, Pasir Putih 1, Ancol Timur, Jakarta Utara 11048, Indonesia.
authors.forename: M S
authors.initials: MS
authors.lastname: Rikoh
authors.affiliation: Naturalis Biodiversity Center, Darwinweg 2, 2333 CR Leiden, The Netherlands. Electronic address: nicole.devoogd@naturalis.nl.
authors.forename: N J
authors.initials: NJ
authors.lastname: de Voogd
mesh_terms: D000818:Animals; D037421:Anthozoa / Q000187:drug effects / Q000254:growth & development*; D059001:Aquatic Organisms / Q000145:classification* / Q000187:drug effects / Q000254:growth & development; D061006:Bays / Q000737:chemistry*; D044822:Biodiversity; D057894:Coral Reefs; D004447:Echinodermata / Q000254:growth & development; D017753:Ecosystem; D004784:Environmental Monitoring / Q000379:methods*; D005399:Fishes / Q000254:growth & development; D056908:Foraminifera / Q000254:growth & development; D007214:Indonesia; D062312:Islands; D008974:Mollusca / Q000254:growth & development; D011161:Porifera / Q000254:growth & development; D012623:Seawater / Q000737:chemistry*; D012624:Seaweed / Q000254:growth & development; D014507:Urbanization; D014561:Urochordata / Q000254:growth & development; D060753:Water Quality
keywords: Composition; Multi-taxon; Redundancy analysis; Urbanisation