Deep-sea nematodes from the Indian Ocean: new and known species of the family Comesomatidae

Twelve new and known species of the genera Sabatieria,Cervonema, Paramesonchium, Hopperia and Dorylaimopsis and one new genus, Kenyanema aredescribed from the Indian Ocean and S. pisinna Vitiello,1970 from the Mediterranean Sea. Sabatieria lucia sp. n.is characterised by short but distinct inner and setiformouter labial sensilla and long (4–5 µm or 30–33% hd)cephalic sensilla; S. conicauda Vitiello, 1970, ischaracterised by tiny inner and outer labial sensilla andsetiform cephalic ones and short and thick cylindrical tail;Sabatieria pisinna is characterised by short innerand outer labial sensilla, setiform (3µm long) cephalicsensilla, multispiral amphids with 3.25–3.5 turns and a tailwhich is conical in the anterior 2/3 and posterior 1/3cylindrical; Cervonema tenuicauda Schuurmans Stekhoven,1950, is characterised by anterior sensilla in twocircles which are equal in length (3µm long), multispiralamphids with 3–4 turns and located at 1.5 times hd from theanterior end, simple spicules one abd long and 6–7 fineprecloacal supplements; Cervonema minutus sp. n.characterised by an extremely attenuated anterior end,spiral amphids with 4–5 turns (80–90% cbd) and short,simple spicules (0.8 abd long); Cervonema gourbaulti sp.n. characterised by long (4–5 µm) labialand cephalic sensilla, spiral amphids with 5–6 turns(73–88% cbd) and an elongate crenate terminal pharyngealbulb; Paramesonchium mombasi sp. n. characterised bylong labial (5 µm) and cephalic (21 µm) sensilla thatare close together and wide amphids (80–90% cbd); Kenyanema monorchis gen. et sp. n. characterised bya head region narrower than the rest of the body, fourcephalic sensilla (3 µm long) and spiral amphids with1.5–2 turns; Hopperia indiana sp. n. characterised byshort conical anterior sensilla, arcuatespicules that have a velum and a gubernaculum with a longand sharp pointed apophysis; Dorylaimopsis coomansi sp.n. characterised by long (8–10µm) cephalic setae,cuticular punctation with lateral differention of irregularlyarranged dots at the pharyngeal region and 1–3longitudinal rows of dots posterior of the pharynx; spiculeswith a unique shape; Dorylaimopsis gerardi sp. n.characterised by short setiform labial and long (6–7 µm)cephalic sensilla, punctated cuticle with lateraldifferentiation of irregularly arranged dots at firstthen three or four irregularly arranged longitudinal rows atthe pharyngeal and tail regions and two regularly arrangedlongitudinal rows of dots on the rest of the body, aconico-cylindrical tail with a distinctly swollen tip;Dorylaimopsis variabilis sp. n. is characterised byshort labial and setiform cephalic sensilla (33–58% hd),multispiral amphids with three turns, cuticular punctationswith lateral differentiation of three longitudinalrows at the pharyngeal and tail regions and two longitudinalrows on the rest of the body, spicules that are thin andslightly arcuate. The position of S. pisinna accordingto the grouping of Platt, 1985 of Sabatieriaspp. is also discussed. Kenyanema monorchis representsthe first monorchic species in the family.     

Evolution on oceanic islands: molecular phylogenetic approaches to understanding pattern and process

By their very nature oceanic island ecosystems offer great opportunities for the study of evolution and have for a long time been recognized as natural laboratories for studying evolution owing to their discrete geographical nature and diversity of species and habitats. The development of molecular genetic methods for phylogenetic reconstruction has been a significant advance for evolutionary biologists, providing a tool for answering questions about the diversity among the flora and fauna on such islands. These questions relate to both the origin and causes of species diversity both within an archipelago and on individual islands. Within a phylogenetic framework one can answer fundamental questions such as whether ecologically and/or morphologically similar species on different islands are the result of island colonization or convergent evolution. Testing hypotheses about ages of the individual species groups or entire community assemblages is also possible within a phylogenetic framework. Evolutionary biologists and ecologists are increasingly turning to molecular phylogenetics for studying oceanic island plant and animal communities and it is important to review what has been attempted and achieved so far, with some cautionary notes about interpreting phylogeographical pattern on oceanic islands.     

Biodiversity patterns in Indian Ocean corals, and effects of taxonomic error in data

Corals from 26 sites in the Indian Ocean, from numerous taxonomic sources, are analysed for distribution patterns after applying a consistent synonymy. The data set contains double the amount of distribution information used previously. Cluster analysis shows several contiguous regional groupings within this ocean, and no geographically dispersed groupings exist. Between-site species similarity correlates negatively with distance between sites. Coral species diversity and genus diversity plotted with latitude and longitude confirm that a band of high diversity stretches across the entire Indian Ocean, but that in this Ocean, unlike the Pacific and greater Caribbean area, there is no clear gradient with latitude at least up to the latitudinal limits of coral growth. About half the species are widespread throughout the Indian Ocean. Species frequency/distribution curves and cumulative frequency curves show that 150 species occur at only 2–4 sites. Multi-dimensional scaling (MDS) analysis using only these species confirms that they are important in forming sub-regional groupings which are superimposed on a general Indian Ocean homogeneity.The perennial problem of error in taxonomic data sets is examined. Increasing taxonomic error is introduced into the data using random methods. It is found that about 25% more error can be added to this data set before the relationship between similarity coefficient and geographical distance between pairs of sites is lost. Measures extracted from the clustering procedure using the original data and the data sets with added taxonomic error, show a sharp loss in cluster formation after addition of about 10 or 20% more error.     

A new species, Parupeneus procerigena, from the Saya de Malha Bank in the western Indian Ocean (Perciformes: Mullidae)

A new mullid fish, Parupeneus procerigena, is described on the basis of 13 specimens (118.9–198.4 mm SL) from depths of 92–148 m off the Saya de Malha Bank in the western Indian Ocean. This species resembles P. chrysopleuron and P. heptacanthus in color pattern without black stripes or spots, but it differs from them in having more gill rakers, two scales in lachrymal region, deeper body, deeper cheek, and longer distance between nostrils. Received: April 4, 2000 / Revised: July 27, 2000 / Accepted: August 27, 2000     

Greta's Garbo: stranded seeds and fruits from Greta Beach, Christmas Island, Indian Ocean

Aim To describe the species composition of stranded seeds and fruits drifted by ocean currents to Christmas Island, Indian Ocean. Location Christmas Island, Indian Ocean. Methods Frequent visual searches along the strand line of the island's few accessible beaches over a 4-year period 1988–92, with most effort concentrated on Greta Beach, on the east coast. Results The collection contained not fewer than sixty-three species in forty-nine genera and twenty-nine families. Leguminous seeds were by far the most common (especially Caesalpinia bonduc (L.) Roxb., Dioclea spp., Entada spp., Erythrina spp. and Mucunagigantea (Willd.) DC.), but Calophyllum inophyllum L., Guettarda speciosa L., Hernandia ovigera L., Heritiera littoralis Aiton and Terminalia catappa L. were also common. Main conclusions Only about one-third of species recorded in the drift flora are native to the island, and most disseminules stranded on the island are probably not locally derived. The most likely distant sources of drift disseminules are probably the southern Indonesian islands and Sumatra, with most disseminules probably arriving via the Timor and Arafura Seas between Indonesia and Australia. However, some disseminules may originate from as far east as the Moluccas and the east coast of Kalimantan. The majority of species recorded in the drift flora are not native to the island, and yet some of these were encountered frequently and displayed a high degree of viability on arrival (e.g. Dioclea hexandra (Ralph) Mabb., Erythrina fusca Loureiro and Mucuna gigantea (Willd.) DC.). Several possible reasons for the failure of many drift species to establish on the island are discussed.     

Genetic structure and diversity of coffee (Coffea) across Africa and the Indian Ocean islands revealed using microsatellites

Background and Aims

The coffee genus (Coffea) comprises 124 species, and is indigenous to the Old World Tropics. Due to its immense economic importance, Coffea has been the focus of numerous genetic diversity studies, but despite this effort it remains insufficiently studied. In this study the genetic diversity and genetic structure of Coffea across Africa and the Indian Ocean islands is investigated.

Methods

Genetic data were produced using 13 polymorphic nuclear microsatellite markers (simple sequence repeats, SSRs), including seven expressed sequence tag-SSRs, and the data were analysed using model- and non-model-based methods. The study includes a total of 728 individuals from 60 species.

Key Results

Across Africa and the Indian Ocean islands Coffea comprises a closely related group of species with an overall pattern of genotypes running from west to east. Genetic structure was identified in accordance with pre-determined geographical regions and phylogenetic groups. There is a good relationship between morpho-taxonomic species delimitations and genetic units. Genetic diversity in African and Indian Ocean Coffea is high in terms of number of alleles detected, and Madagascar appears to represent a place of significant diversification in terms of allelic richness and species diversity.

Conclusions

Cross-species SSR transferability in African and Indian Ocean islands Coffea was very efficient. On the basis of the number of private alleles, diversification in East Africa and the Indian Ocean islands appears to be more recent than in West and West-Central Africa, although this general trend is complicated in Africa by the position of species belonging to lineages connecting the main geographical regions. The general pattern of phylogeography is not in agreement with an overall east to west (Mascarene, Madagascar, East Africa, West Africa) increase in genome size, the high proportion of shared alleles between the four regions or the high numbers of exclusive shared alleles between pairs or triplets of regions.     

Abundance of thraustochytrids and bacteria in the equatorial Indian Ocean, in relation to transparent exopolymeric particles (TEPs)

Thraustochytrid protists are often abundant in coastal waters. However, their population dynamics and substrate preferences in the oceanic water column are poorly understood. We studied the abundance and distribution of thraustochytrids, bacteria and TEPs in the equatorial Indian Ocean waters during September 2003, October 2004 and September 2006. Thraustochytrids and bacteria were abundant, suggesting high biological productivity of the region. Thraustochytrids were positively related to bacteria during October 2004 but not at other times, suggesting overlapping or varying substrate preferences at different times. Thraustochytrid and bacteria were positively related to TEPs only in a few stations during October 2004, but were mostly positively related to TEPs generated from in situ water in a roller table experiment. TEPs from natural samples during October 2004 had a much greater affinity to the lectin Concanavalin A than to Limulin compared with those in September 2006 and from the roller tank experiments. The chemical composition of TEPs might explain their relationship with thraustochytrids. Thraustochytrids averaged a higher biomass than bacteria in two of the three cruises, but were less frequent and more patchily distributed compared with bacteria.     

Persistence, extinction and different species pools within the flora of lake islands in western Ireland

The vascular flora on twenty-nine lake islands in Lough Corrib, western Ireland was surveyed in 1992–93. Thirteen of these islands had been surveyed by the author in 1974 (Roden, 1979). Data on species–area curves and species turnover between 1974 and 1992 are presented. Species numbers on each island did not change greatly in the 18-year interval and extinctions were most common on smaller islands. It is known that six of the islands surveyed are less than 150 years old and their flora must have immigrated over open water during that period. It is shown that this group of species has a different log species/log area regression than the remaining flora, with a much shallower slope (low Z value). The proportion of less widespread species was greatest on islands nearest to the mainland. The implication of different slopes in different species groups and the restriction of turnover to rare species is discussed with reference to the island Theory of Biogeography.     

A new genus and species of deep-sea glass sponge (Porifera, Hexactinellida, Aulocalycidae) from the Indian Ocean

New hexactinellid sponges were collected from 2589 m depth on the Carlsberg Ridge in the Indian Ocean during deep-sea dredging. All fragments belong to a new genus and species, Indiellagen. n.ridgenensissp. n., a representative of the family Aulocalycidae described here. The peculiar features of this sponge, not described earlier for other Aulocalycidae, are: longitudinal strands present in several layers and epirhyses channelization.     

The evolution of the Indian Ocean parrots (Psittaciformes): extinction, adaptive radiation and eustacy

Parrots are among the most recognisable and widely distributed of all bird groups occupying major parts of the tropics. The evolution of the genera that are found in and around the Indian Ocean region is particularly interesting as they show a high degree of heterogeneity in distribution and levels of speciation. Here we present a molecular phylogenetic analysis of Indian Ocean parrots, identifying the possible geological and geographical factors that influenced their evolution. We hypothesise that the Indian Ocean islands acted as stepping stones in the radiation of the Old-World parrots, and that sea-level changes may have been an important determinant of current distributions and differences in speciation. A multi-locus phylogeny showing the evolutionary relationships among genera highlights the interesting position of the monotypic Psittrichas, which shares a common ancestor with the geographically distant Coracopsis. An extensive species-level molecular phylogeny indicates a complex pattern of radiation including evidence for colonisation of Africa, Asia and the Indian Ocean islands from Australasia via multiple routes, and of island populations ‘seeding’ continents. Moreover, comparison of estimated divergence dates and sea-level changes points to the latter as a factor in parrot speciation. This is the first study to include the extinct parrot taxa, Mascarinus mascarinus and Psittacula wardi which, respectively, appear closely related to Coracopsis nigra and Psittacula eupatria.     

<Emphasis Type="Italic">Rhinobatos nudidorsalis</Emphasis>, a new species of shovelnose ray (Batoidea: Rhinobatidae) from the Mascarene Ridge,central Indian Ocean

A new shovelnose ray, Rhinobatos nudidorsalis, is described from the Mascarene Ridge, an inadequately surveyed chain of seamounts in the central Indian Ocean. Of the three subgroups of Rhinobatos occurring in the Indian Ocean, it most closely conforms with the subgenus Rhinobatos (Linnaeus). A small species, known only from the holotype, it is unique within the family in having an almost completely naked dorsal surface. In addition, it is further distinguished from other Indo-Pacific members of the genus by the combination of a pale, plain-colored disc, large eyes, the inner edge of the anterior nasal flap penetrating slightly into the internarial space, low dorsal fins, a long pelvic-fin inner margin, a narrow interdorsal space, two spiracular folds, an elongate to oval-shaped denticle patch on the caudal peduncle, and a small, weakly asymmetrical caudal fin.     

Large temperature plunges recorded by data loggers at different depths on an Indian Ocean atoll: comparison with satellite data and relevance to coral refuges

Seawater temperature was recorded at two-hourly intervals for two years (March 2006-March 2008) by six data loggers in Diego Garcia atoll, central Indian Ocean. Loggers were substrate mounted, in two transects of 5, 15 and 25 m depth on a seaward reef and in a lagoonal pass. During the season of mixed but predominantly northwest winds, regular plunges of temperature of 5–7°C occurred with a periodicity of 1–4 days. This partly coincided with the period of greatest annual warming. Temperature fluctuations increased with increasing depth. Temperature traces are compared with HadISST1 and AVHRR satellite-derived temperature data which do not capture the deeper water temperature plunges. Reasons for the regular temperature plunges appear to include both tidal cycles and unidentified, internal waves. This is important for issues of coral refuges, complicating use of satellite-derived temperature data for planning optimal coral reef conservation areas.     

Environmental preferences of bigeye tuna, <Emphasis Type="Italic">Thunnus obesus</Emphasis>, in the Indian Ocean: an application to a longline fishery

A survey of the fishing grounds for bigeye tuna, Thunnus obesus, in the Indian Ocean was carried out for a better understanding of the environmental preferences of bigeye tuna in a longline fishery. Catch rates of bigeye tuna were analyzed with respect to the ranges of depth, temperature, salinity, chlorophyll-a, and dissolved oxygen. The optimum capture depth, water temperature, and dissolved oxygen range of bigeye tuna were identified as 240.0 m to 279.9 m, 12.0°C to 13.9°C, and 2.00 mg·L⁻¹ to 2.99 mg·L⁻¹, respectively, in the study area of Indian Ocean. Neither salinity nor chlorophyll-a had a detectable effect on the vertical distribution of the adult bigeye tuna. The dissolved oxygen is the principal factor limiting the vertical distribution of bigeye tuna.     

Planktonic foraminifera from the eastern Indian Ocean: distribution and ecology in relation to the Western Pacific Warm Pool (WPWP)

Faunal assemblages, principal component (PCA), canonical correspondence (CCA), and factor analysis are applied to planktonic foraminifera from 57 core-top samples from the eastern Indian Ocean. The foraminiferal lysocline occurs at 2400 m north of 15°S where carbonate dissolution is induced by the Java upwelling system, and occurs deeper south of 15°S where carbonate dissolution is characteristic of the oligotrophic regions in the Indian Ocean. Dissolution effects, the February standing stock at the time of collection of the plankton-tow material, and different production rates explain the different foraminiferal assemblages found between plankton-tow and core-top samples. Core-top samples are differentiated by PCA into four groups — Upwelling, Western Pacific Warm Pool (WPWP), Transitional, and Southern — that are related to environmental variables (temperature, salinity and nutrients); all environmental variables follow a strong latitudinal component as indicated by the CCA analysis. Similarly, three assemblages are recognized by factor analysis: Factor 1 (dominated by Globigerinoides sacculifer, G. ruber, Globigerinita glutinata and Globorotalia cultrata), factor 2 (dominated by Globigerina bulloides and Globorotalia inflata) and factor 3 (dominated by Neogloboquadrina dutertrei) explain more than 92% of the variance, and are related to sea-surface temperature, thermocline depth and nutrient levels. The seasonal influence of the Java upwelling system supplies nutrients, phyto- and zooplankton to the oligotrophic eastern Indian Ocean (factor 1). South of 24°S, a deep chlorophyll maximum, a deep euphotic zone, a deep thermocline, SSTs below 22°C, and brief upwelling pulses seem to explain factors 2 and 3. The ratio of G. sacculifer and N. dutertrei, two mutually excluding species, appears to indicate the southern boundary of the WPWP. This ratio is applied to core Fr10/95-11 to demonstrate past shifts of the southern boundary of the WPWP.     

Allopatric speciation of Meteterakis (Heterakoidea: Heterakidae), a highly dispersible parasitic nematode,in the East Asian islands

To clarify how the species diversity of highly dispersible parasites has developed, molecular phylogenetic analyses of Meteterakis spp., multi-host endoparasitic nematodes of reptiles and amphibians from the East Asian islands, were conducted. The results demonstrated the existence of two major clades, the J- and A-groups, with exclusive geographic ranges that are discordant with the host faunal province. However, diversification within the J-group was concordant with the host biogeography and suggested co-divergence of this group with vicariance of the host fauna. In contrast, the phylogenetic pattern within the A-group was discordant with host biogeography and implied diversification by repeated colonization. In addition, the mosaic distribution pattern of a J-group and an A-group species in the Japanese Archipelago, along with comparison of population genetic parameters and the genetic distance from their closest relatives, suggested the initial occurrence of a J-group lineage followed by exclusion in the western part of this region caused by invasion of an A-group lineage. Thus, the present study suggested that the species diversity of highly dispersible parasites including Meteterakis is formed not only by co-divergence with host faunal vicariance but also by peripatric speciation and exclusive interactions between species.     

Phylogeny,extinction and conservation: embracing uncertainties in a time of urgency

Evolutionary studies have played a fundamental role in our understanding of life, but until recently, they had only a relatively modest involvement in addressing conservation issues. The main goal of the present discussion meeting issue is to offer a platform to present the available methods allowing the integration of phylogenetic and extinction risk data in conservation planning. Here, we identify the main knowledge gaps in biodiversity science, which include incomplete sampling, reconstruction biases in phylogenetic analyses, partly known species distribution ranges, and the difficulty in producing conservation assessments for all known species, not to mention that much of the effective biological diversity remains to be discovered. Given the impact that human activities have on biodiversity and the urgency with which we need to address these issues, imperfect assumptions need to be sanctioned and surrogates used in the race to salvage as much as possible of our natural and evolutionary heritage. We discuss some aspects of the uncertainties found in biodiversity science, such as the ideal surrogates for biodiversity, the gaps in our knowledge and the numerous available phylogenetic diversity-based methods. We also introduce a series of cases studies that demonstrate how evolutionary biology can effectively contribute to biodiversity conservation science.     

Rhagada revisited: on the taxonomy of species from the Kimberley and Dampierland,Western Australia (Pulmonata,Camaenidae)

The genus Rhagada is the second most diverse camaenid genus in Australia. We examined anatomical and mitochondrial characters of previously unidentified material from the Kimberley that was earmarked to potentially represent new species in recently published molecular phylogenetic studies. Our comparisons revealed that specimens from Gibbings Island (‘R. sp. Gibbings’) were morphologically and genetically most similar to Rhagada cygna from the Dampier Peninsula. Hence, ‘R. sp. Gibbings’ is considered to be identical to R. cygna. In addition, we found that R. cygna as so delimited is not clearly distinguished from the second species on the Dampier Peninsula, Rhagada bulgana. Both species differ rather subtly in anatomical and mitochondrial characters, indicating their close relationships and potentially incomplete evolutionary differentiation. Furthermore, we describe two new species based on comparative morphology and mitochondrial sequences: Rhagada worora n. sp. from the Prince Regent Reserve in the Kimberley and Rhagada karajarri n. sp. from Dampierland. The present study confirms that species in Rhagada are best identified by means of both morphological and molecular data.

http://zoobank.org/urn:lsid:zoobank.org:pub:556E1866-6F9E-4CC0-8ACF-CD56E929501F     

Macromitrium maolanense Zeyou Zhang,D.D.Li,Jing Yu & S.L.Guo,a new species from China based on molecular and morphological evidence

Introduction. During a field excursion in Guizhou Province, China, we collected some interesting moss specimens with branch leaves subulate in the upper part, partially and variably bistratose laminae, and a Macromitrium-like epiphytic growth habit on tree trunks. We present morphological and phylogenetic arguments for recognising these plants as a new moss species in the genus Macromitrium Brid. (Orthotrichaceae).

Methods. We compared the morphology of the potential new species with closely related species of Macromitrium, and constructed a phylogenetic tree based on ITS2, trnL and trnG including sampling from 14 other morphologically similar species of Macromitrium.

Key results. The proposed new species belongs to the genus Macromitrium (Orthotrichaceae, Musci). It is closely related to M. gymnostomum Sull. & Lesq. in the phylogenetic tree and according to gametophytic morphological features, represents a hitherto undescribed species.

Conclusions. A new moss species, Macromitrium maolanense Zeyou Zhang, D.D.Li, Jing Yu & S.L.Guo, is described and illustrated. The new species can be distinguished from all congeners by the combination of the following features of the branch leaves: (1) oblong-lanceolate, lanceolate to linear-lanceolate, gradually narrowed to an easily broken subula; (2) rather obscure upper and medial cells, often with blackish stains among cells, densely pluripapillose; (3) variably and partially bistratose laminae in the upper 1/3 portion; (4) basal cells clear, hyaline and smooth, those near costae forming a ‘cancellina region’; and (5) with numerous brownish, clavate gemmae on upper portion. We also discuss the principal distinctive characters separating the new species from its nearest congeners.     

Origin and diversification of Thymelaea (Thymelaeaceae): inferences from a phylogenetic study based on ITS (rDNA) sequences

Thymelaea is a Mediterranean genus belonging to a primarily tropical and subtropical family. This genus is here presented as a particular case on which the hypothesis of an in situ evolution of the Mediterranean flora from a Tertiary subtropical stock can be phylogenetically tested. To better understand the evolutionary history of Thymelaea, molecular phylogenies based on ITS (rDNA) sequences are estimated. Phylogenetic analyses strongly support the monophyly of Thymelaea and the sister position of Daphne. Unexpected relationships between sequences of T. granatensis, T. pubescens and T. sanamunda are found and explained as a case of cryptic nuclear introgression. Phylogenetic analyses also reveal the polyphyletic character of Diarthron, sensu Tan, suggesting that Dendrostellera and Stelleropsis should be reinstated as independent genera. Based on the resulting phylogenetic hypothesis and using statistical tests it is suggested that Thymelaea experienced an initial rapid diversification. Time estimates for the origin and radiation of Thymelaea based on independent sources of evidence—paleontological, paleoclimatic and paleogeographic data, on one hand, and ITS substitution rates reported for other angiosperm groups, on the other—give strikingly similar results. The early radiation of Thymelaea is inferred to have occurred in the Upper Miocene, after this lineage diverged from that of Daphne in the Lower or Middle Miocene. Both evolutionary events are related to the overall climatic deterioration (declining temperature and increasing dryness) registered throughout the Miocene in Eurasia. The rapid and extensive diversification of Thymelaea is placed in the Iberian Peninsula or here and in the neighbouring North African territory.