To re-evaluate the relationships of the major bivalve lineages, we amassed detailed morpho-anatomical, ultrastructural and molecular sequence data for a targeted selection of exemplar bivalves spanning the phylogenetic diversity of the class. We included molecular data for 103 bivalve species (up to five markers) and also analysed a subset of taxa with four additional nuclear protein-encoding genes. Novel as well as historically employed morphological characters were explored, and we systematically disassembled widely used descriptors such as gill and stomach ‘types’. Phylogenetic analyses, conducted using parsimony direct optimisation and probabilistic methods on static alignments (maximum likelihood and Bayesian inference) of the molecular data, both alone and in combination with morphological characters, offer a robust test of bivalve relationships. A calibrated phylogeny also provided insights into the tempo of bivalve evolution. Finally, an analysis of the informativeness of morphological characters showed that sperm ultrastructure characters are among the best morphological features to diagnose bivalve clades, followed by characters of the shell, including its microstructure. Our study found support for monophyly of most broadly recognised higher bivalve taxa, although support was not uniform for Protobranchia. However, monophyly of the bivalves with protobranchiate gills was the best-supported hypothesis with incremental morphological and/or molecular sequence data. Autobranchia, Pteriomorphia, Heteroconchia, Palaeoheterodonta, Archiheterodonta, Euheterodonta, Anomalodesmata and Imparidentia new clade ( = Euheterodonta excluding Anomalodesmata) were recovered across analyses, irrespective of data treatment or analytical framework. Another clade supported by our analyses but not formally recognised in the literature includes Palaeoheterodonta and Archiheterodonta, which emerged under multiple analytical conditions. The origin and diversification of each of these major clades is Cambrian or Ordovician, except for Archiheterodonta, which diverged from Palaeoheterodonta during the Cambrian, but diversified during the Mesozoic. Although the radiation of some lineages was shifted towards the Palaeozoic (Pteriomorphia, Anomalodesmata), or presented a gap between origin and diversification (Archiheterodonta, Unionida), Imparidentia showed steady diversification through the Palaeozoic and Mesozoic. Finally, a classification system with six major monophyletic lineages is proposed to comprise modern Bivalvia: Protobranchia, Pteriomorphia, Palaeoheterodonta, Archiheterodonta, Anomalodesmata and Imparidentia.

MAINBAZA

Deep-sea fishes have been poorly sampled globally, and overall knowledge of demersal fish distributions and the drivers of community composition and diversity remain limited. Here, we used nine comparable datasets with specieslevel identification of fishes from research surveys around the world to test the hypothesis that deep-sea demersal fish assemblage composition on seamounts is consistent between major oceans. Two levels of analysis were undertaken: the first combined all presence-absence data from a seamount, while a second more detailed analysis included catch weight data based on a smaller number of seamounts. Overall, there was a consistent separation of seamounts by region based on the compositions of their fish assemblages. New Zealand and SE Australian seamounts have a very similar ichthyofauna, which differs substantially from seamounts in the eastern South Pacific Ocean off Chile. In the North Atlantic, Bear Seamount appears to be distinct from all others, while seamount fish assemblages off Ireland, the Azores, and Faraday Seamount have some affinities. The Tasman Sea and New Caledonian seamounts show strong intra-regional variation. On an ocean basin scale we therefore reject the hypothesis that the composition of deep-sea demersal fish fauna is homogeneous globally. However, regional patterns of both species composition and relative abundance show some similarities between widely separated geographical locations, especially where orange roughy is a dominant species. Salinity was the main environmental factor identified in a multivariate analysis of environmental covariate data. This is likely to be a result of salinity being a key characteristic defining both Antarctic Intermediate Water and North Atlantic Deep Water, the water masses found over most seamounts examined in this study, and which may explain similarities between deep-sea fish assemblages.

HALIPRO 2

SANTO 2006

Four genera and seven species of trapeziid crabs are identified from recent collections taken in New Caledonia. Descriptions and illustrations are given for new species; Calocarcinus crosnieri and Tetraiia sanguineomaculata. New records are reported for Calocarcinus africanus, Quadrella maculosa and Trapezia guttata. Trapezia cymodoce and T. septata, identified by A. MILNE EDWARDS from New Caledonia under the wrong names, are commented upon.

CHALCAL 2, LAGON, MUSORSTOM 4, MUSORSTOM 5

Chelarctus Holthuis, 2002 is widely distributed throughout the Indo-West Pacific, but its biogeographic patterns are unknown because Southern Hemisphere areas, such as the Coral Sea, remained poorly explored. Recent cruises organized by the Muséum national d'Histoire naturelle of Paris and the Australian Institute of Marine Science allowed the molecular identification of Crenarctus crenatus (Whitelegge, 1900), Chelarctus aureus (Holthuis, 1963) and Chelarctus crosnieri Holthuis, 2002 phyllosomae. The Coral Sea C. crenatus larvae are identical to stages IX and X of Scyllarus sp. Z, described in detail by Webber and Booth (2001). Descriptions of phyllosoma stages VI, IX and X of Ch. aureus and stages IX and X of Ch. crosnieri are also presented here. Morphological differences between Crenarctus and Chelarctus larvae are established for the first time and previous misidentifications in the literature are re-assessed.

BIOPAPUA, KANADEEP, PAPUA NIUGINI, SANTO 2006

Abstract The superfamily Buccinoidea is distributed across the oceans of the world from the Arctic Ocean to the Antarctic and from intertidal to abyssal depths. It encompasses 3351 recent species in 337 genera. The latest taxonomic account recognized eight full families. For the first time, the monophyly of the superfamily and the relationships among the families are tested with molecular data supplemented by anatomical and radula data. Five genetic markers were used: fragments of mitochondrial COI, 16S rRNA, 12S rRNA and nuclear Histone 3 (H3) and 28S rRNA genes (for 225 species of 117 genera). Our analysis recovered Buccinoidea monophyletic in Bayesian analyses. The relationships between the formerly recognized families and subfamilies are drastically revised and a new classification of the superfamily is here proposed, now including 20 taxa of family rank and 23 subfamilies. Five new families (Chauvetiidae, Dolicholatiridae, Eosiphonidae, Prodotiidae and Retimohniidae) and one subfamily of Nassariidae (Tomliniinae) are described. Austrosiphonidae and Tudiclidae are resurrected from synonymy and employed in a new taxonomical extension. All but 40 recent genera are reclassified. Our results demonstrate that anatomy is rather uniform within the superfamily. With exceptions, the rather uniform radular morphology alone does not allow the allocation of genera to a particular family without additional molecular data.

ATIMO VATAE, AURORA 2007, BIOPAPUA, BOA1, CEAMARC-AA, CHALCAL 2, CONCALIS, CORSICABENTHOS 1, ???msg.security.private???, ???msg.security.private???, DongSha 2014, EBISCO, GUYANE 2014, ILES DU SALUT, INHACA 2011, KANACONO, KARUBENTHOS 2, KARUBENTHOS 2012, KAVALAN 2018, KOUMAC 2.1, KOUMAC 2.3, MADIBENTHOS, MAINBAZA, MIRIKY, MUSORSTOM 4, ???msg.security.private???, NORFOLK 2, NanHai 2014, PANGLAO 2004, PANGLAO 2005, PAPUA NIUGINI, ???msg.security.private???, SALOMON 2, SALOMONBOA 3, SANTO 2006, TAIWAN 2000, TAIWAN 2004, TARASOC, TERRASSES, Tuhaa Pae 2013, ???msg.security.private???, ZhongSha 2015

The evolutionary relationships of the brachyuran crab superfamily Eriphioidea, commonly known as stone or rubble crabs, are examined. Analysis of three mitochondrial (12S, 16S and COI) and two nuclear loci (18S and Histone 3) was carried out for 51 taxa representing the Carpilioidea, Dairoidea, Eriphioidea, Goneplacoidea, Parthenopoidea, Pilumnoidea, Portunoidea, Pseudozioidea and Xanthoidea. Phylogenetic analyses of molecular data used three methods of inference that recovered similar topologies with minor differences. Maximum parsimony analysis of 20 morphological characters taken from first zoeas of 11 species yielded two equally parsimonious trees and generally supported the molecular analyses. None of the analyses recovered Eriphioidea as monophyletic, and each of the eriphioid families represented by two or more taxa was shown to be polyphyletic in both molecular and larval analyses. This study indicates that the present classification based on adult morphology is incongruent with phylogenetic relationships and that the diagnostic characters the result of convergence (particularly in feeding morphology) rather than shared ancestry.

AURORA 2007, PANGLAO 2004, PANGLAO 2005

Currently, 13 subfamilies are recognised in the brachyuran family Xanthidae: Actaeinae, Antrocarcininae, Chlorodiellinae, Cymoinae, Etisinae, Euxanthinae, Kraussiinae, Liomerinae, Polydectinae, Speocarcininae, Xanthinae, Zalasiinae and Zosiminae. This classification has been based on shared adult features like a transversely ovate carapace, well defined dorsal carapace regions, usually with lateral dentition, stout chelipeds and relatively short ambulatory legs. Such characters are now considered to be convergent. Consequently a number of higher xanthid taxa may be artifical and not monophyletic. A broad sample of 147 xanthid species representing 75 out of 124 genera from all 13 xanthid subfamilies were sampled in a multi-gene analysis. Four markers (three mitochondria] and one nuclear) were used and yielded a tree with ca. 30 xanthid clades. Monophyletic support was demonstrated for the Antrocarcininae (although substantially redefined), Cymoinae, and Polydectinae. Almost every other subfamily was para- or polyphyletic. Furthermore, the two other families of the Xanthoidea, Pseudorhombilidae and Panopeidae, were found nested within the Xanthidae. The molecular results were consistent with phylogenetic relationships implied by a suite of novel and/or neglected "ventral" adult characters including sternal characters, position of genital openings and morphology of the first zoea, instead of "dorsal" characters traditionally used to infer xanthid relationships. (C) 2011 Elsevier GmbH. All rights reserved.

AURORA 2007, PANGLAO 2004, PANGLAO 2005, SANTO 2006, SMCB

PANGLAO 2004

BIOPAPUA

Recent efforts to reconstruct the phylogeny of brittle stars (ophiuroids) have shown the need for more objective and reproducible data collection methods than the traditional visual examination and verbal description of morphological characters. Complex skeletal structures may be better understood in three dimensions than in two dimensions obtained from techniques like scanning electron microscopy (SEM). We test this hypothesis using three types of three-dimensional tomographic imaging methods—lab-based micro-CT, X-ray microscopy and synchrotron-based tomography—to examine the morphology of ophiuroid arms, and compare them with twodimensional data obtained from SEM. We describe the advantages and disadvantages of each instrument and set of parameters in terms of the ease and efficiency of data collection for morphometric analyses. We present new morphological observations obtained by digital sectioning of three-dimensional images that could not be achieved with SEM. Overall, our findings suggest that three-dimensional imaging has a high potential to address the gaps in knowledge of the internal ophiuroid skeleton, which will be pivotal to providing morphological characters that will aid in phylogenetic reconstructions.

LIFOU 2000

Low coverage ‘genome-­skims’ are often used to assemble organelle genomes and ribosomal gene sequences for cost-­effective phylogenetic and barcoding studies. Natural history collections hold invaluable biological information, yet poor preservation resulting in degraded DNA often hinders polymerase chain reaction-­based analyses. However, it is possible to generate libraries and sequence the short fragments typical of degraded DNA to generate genome-­skims from museum collections. Here we introduce a snakemake toolkit comprised of three pipelines skim2mito, skim2rrna and gene2phylo, designed to unlock the genomic potential of historical museum specimens using genome skimming. Specifically, skim2mito and skim2rrna perform the batch assembly, annotation and phylogenetic analysis of mitochondrial genomes and nuclear ribosomal genes, respectively, from low-­coverage genome skims. The third pipeline gene2phylo takes a set of gene alignments and performs phylogenetic analysis of individual genes, partitioned analysis of concatenated alignments and a phylogenetic analysis based on gene trees. We benchmark our pipelines with simulated data, followed by testing with a novel genome skimming dataset from both recent and historical solariellid gastropod samples. We show that the toolkit can recover mitochondrial and ribosomal genes from poorly preserved museum specimens of the gastropod family Solariellidae, and the phylogenetic analysis is consistent with our current understanding of taxonomic relationships. The generation of bioinformatic pipelines that facilitate processing large quantities of sequence data from the vast repository of specimens held in natural history museum collections will greatly aid species discovery and exploration of biodiversity over time, ultimately aiding conservation efforts in the face of a changing planet.

BERYX 11, BORDAU 1, EXBODI, KARUBENTHOS 2, KARUBENTHOS 2012, MADEEP, NORFOLK 1