Population Structure of Humpback Whales from Their Breeding Grounds in the South Atlantic and Indian Oceans

Although humpback whales are among the best-studied of the large whales, population boundaries in the Southern Hemisphere (SH) have remained largely untested. We assess population structure of SH humpback whales using 1,527 samples collected from whales at fourteen sampling sites within the Southwestern and Southeastern Atlantic, the Southwestern Indian Ocean, and Northern Indian Ocean (Breeding Stocks A, B, C and X, respectively). Evaluation of mtDNA population structure and migration rates was carried out under different statistical frameworks. Using all genetic evidence, the results suggest significant degrees of population structure between all ocean basins, with the Southwestern and Northern Indian Ocean most differentiated from each other. Effective migration rates were highest between the Southeastern Atlantic and the Southwestern Indian Ocean, followed by rates within the Southeastern Atlantic, and the lowest between the Southwestern and Northern Indian Ocean. At finer scales, very low gene flow was detected between the two neighbouring sub-regions in the Southeastern Atlantic, compared to high gene flow for whales within the Southwestern Indian Ocean. Our genetic results support the current management designations proposed by the International Whaling Commission of Breeding Stocks A, B, C, and X as four strongly structured populations. The population structure patterns found in this study are likely to have been influenced by a combination of long-term maternally directed fidelity of migratory destinations, along with other ecological and oceanographic features in the region.     

Biogeographic patterns and the evolution of eureptantic nemerteans

The origin and evolution of the eureptantic nemerteans is discussed from a biogeographic point of view. It is most likely that East Indian Ocean was part of the ancestral distribution of the Eureptantia. The area cladogram estimated by Brooks parsimony analysis (BPA) is to a high degree congruent with a vicariance explanation of the evolution of the Eureptantia and suggests an ancestral distribution concordant with the Tethys Sea. A general area cladogram based on a combined BPA analysis of eureptantic nemerteans and acanthuroid fishes is reconstructed and suggested as a hypothesis of the relationships between east Indian Ocean, west Indian Ocean, west Pacific Ocean, east Adantic Ocean, west Atlantic Ocean, and the Mediterranean. This tree is compared with cladograms from the same areas based on other taxa.     

Metagenomic Exploration of Viruses throughout the Indian Ocean

The characterization of global marine microbial taxonomic and functional diversity is a primary goal of the Global Ocean Sampling Expedition. As part of this study, 19 water samples were collected aboard the Sorcerer II sailing vessel from the southern Indian Ocean in an effort to more thoroughly understand the lifestyle strategies of the microbial inhabitants of this ultra-oligotrophic region. No investigations of whole virioplankton assemblages have been conducted on waters collected from the Indian Ocean or across multiple size fractions thus far. Therefore, the goals of this study were to examine the effect of size fractionation on viral consortia structure and function and understand the diversity and functional potential of the Indian Ocean virome. Five samples were selected for comprehensive metagenomic exploration; and sequencing was performed on the microbes captured on 3.0-, 0.8- and 0.1 µm membrane filters as well as the viral fraction (<0.1 µm). Phylogenetic approaches were also used to identify predicted proteins of viral origin in the larger fractions of data from all Indian Ocean samples, which were included in subsequent metagenomic analyses. Taxonomic profiling of viral sequences suggested that size fractionation of marine microbial communities enriches for specific groups of viruses within the different size classes and functional characterization further substantiated this observation. Functional analyses also revealed a relative enrichment for metabolic proteins of viral origin that potentially reflect the physiological condition of host cells in the Indian Ocean including those involved in nitrogen metabolism and oxidative phosphorylation. A novel classification method, MGTAXA, was used to assess virus-host relationships in the Indian Ocean by predicting the taxonomy of putative host genera, with Prochlorococcus, Acanthochlois and members of the SAR86 cluster comprising the most abundant predictions. This is the first study to holistically explore virioplankton dynamics across multiple size classes and provides unprecedented insight into virus diversity, metabolic potential and virus-host interactions.     

A northern rockhopper penguin unveils dispersion pathways in the Southern Ocean

We report the first record of a northern rockhopper penguin Eudyptes moseleyi on the Kerguelen Islands, Southern Indian Ocean. The penguin must have crossed the subtropical convergence to reach the island. This species was recently proved to be genetically different from the subantarctic eastern rockhopper penguin E. filholi that normally breeds on the Kerguelen Islands. The sequencing of a part of the mitochondrial control region shows that this bird may come from the population of Gough Island, 6,000 km away, in the south Atlantic Ocean. This finding confirms that the genetic isolation between these two penguin species is complete, although some individuals may sporadically disperse between the breeding sites. This first direct observation of a disperser from the Atlantic to the Indian Ocean also adds further support to a biogeographic dispersion pattern already suggested by phylogeographic patterns in other species from the Southern Ocean.     

Revision of the genus Poromitra (Melamphaidae): Part 2. New species of the group P. crassiceps

Five new species of the genus Poromitra (family Melamphaidae) belonging to the group of species P. crassiceps are described. An important specific feature of this group is the structure of praeoperculum in which bony crests of the anterior edge are at an acute angle to each other, and the posterior and lower edges are uniformly (without break) spinulated with small spinules. In P. decipiens sp. nova described from the Indian Ocean (from the East Indian Ridge), the insertion of ventral fins is located posteriorly the vertical of the posterior edge of pectoral fin insertion, which makes this species similar to P. crassiceps and P. rugosa. The remaining four species have the insertion of ventral fins anteriorly the vertical (or at its level) of the posterior edge of pectoral fin insertion (as in P. unicornis and P. coronata). P. curilensis sp. nova inhabits the northern part of the Pacific Ocean from the Kuril Islands and the Japanese Islands to the Gulf of Alaska; P. indooceanica sp. nova is described from several individuals from the subtropical part of the Indian Ocean; P. glochidiata sp. nova, from catch in the Great Australian Bight; and P. kukuevi sp. nova, from the individual from the western tropical part of the Atlantic Ocean.     

Geographical variation in the White-tailed Tropicbird Phaethon lepturus, with the description of a new subspecies endemic to Europa Island, southern Mozambique Channel

Geographical variation in measurements and colouration among populations and subspecies of White-tailed Tropicbirds Phaethon lepturus , including birds from Europa Island (southern Mozambique Channel] was examined worldwide. Two groups were distinguished: the 'large subspecies' (lepturus and fulvus from the Indian Ocean, catesbyi from the western Atlantic Ocean) and the 'small subspecies' (ascensionis from the central and eastern Atlantic Ocean, dorotheae from the Pacific Ocean, and the birds from Europa Island). No clinal variation was found in the Indian Ocean, the birds from Europa Island being the only 'small' ones. This population also had a high frequency of golden morphs, a feature that does not exist elsewhere in the western Indian Ocean. These results indicate that Europa's population is isolated from all nearby colonies in the Indian Ocean, and does not belong to any of the two previously known subspecies of the area. It also differs from the birds of the two small subspecies by the frequency of the colour morphs and the distribution. Consequently, we propose to treat this population as a previously undescribed subspecies, endemic to Europa Island, for which we propose the name Phaethon lepturus europae. Geographical isolation of Europa Island and oceanic conditions in the Mozambique Channel are discussed to explain the isolation of this population.     

Phylogeography of the green turtle, Chelonia mydas, in the Southwest Indian Ocean

Patterns of mitochondrial DNA (mtDNA) variation were used to analyse the population genetic structure of southwestern Indian Ocean green turtle (Chelonia mydas) populations. Analysis of sequence variation over 396 bp of the mtDNA control region revealed seven haplotypes among 288 individuals from 10 nesting sites in the Southwest Indian Ocean. This is the first time that Atlantic Ocean haplotypes have been recorded among any Indo-Pacific nesting populations. Previous studies indicated that the Cape of Good Hope was a major biogeographical barrier between the Atlantic and Indian Oceans because evidence for gene flow in the last 1.5 million years has yet to emerge. This study, by sampling localities adjacent to this barrier, demonstrates that recent gene flow has occurred from the Atlantic Ocean into the Indian Ocean via the Cape of Good Hope. We also found compelling genetic evidence that green turtles nesting at the rookeries of the South Mozambique Channel (SMC) and those nesting in the North Mozambique Channel (NMC) belong to separate genetic stocks. Furthermore, the SMC could be subdivided in two different genetic stocks, one in Europa and the other one in Juan de Nova. We suggest that this particular genetic pattern along the Mozambique Channel is attributable to a recent colonization from the Atlantic Ocean and is maintained by oceanic conditions in the northern and southern Mozambique Channel that influence early stages in the green turtle life cycle.     

Melanostigma bellingshauseni sp. n. (Zoarcidae): a New Pelagic Eelpout from Large Depths in the Central Part of the Kerguelen Plateau (Southern Ocean)

Journal of Ichthyology - A new species Melanostigma bellingshauseni sp. n. is described from large depths (1000−1010 m) in the central part of the Kerguelen plateau (the Indian Ocean sector...     

A review of flying fishes of the subgenus Hirundichthys (genus Hirundichthys, exocoetidae). 1. Oceanic species: H. speculiger, H. indicus sp. nova

A systematic revision of flying fishes of the subgenus Hirundichthys s.str was carried out based on a study of meristic and morphometric traits and characteristics of pigmentation of fishes from the local populations of species belonging to the subgenus. It is found out that the subgenus includes four species: oceanic H. speculiger from the Atlantic, Pacific and Indian Oceans, oceanic H. indicus sp.n. from the waters of the Indian Ocean, nerito-oceanic H. oxycephalus from the waters of the Indo-West Pacific and nerito-oceanic H. affinis from the Atlantic Ocean. The first part of the review focuses on two oceanic species with a large “mirror” on the pectoral fins: H. speculiger and H. indicus. A comparison of local populations showed that the species H. indicus is polytypic and consists of two subspecies. One of the subspecies—nominative H. indicus indicus—is distributed in the western and the central parts of the Indian Ocean and the other—H. indicus orientalis ssp.n.—in the Eastern Indian Ocean. Maps showing a geographical distribution of the species and the subspecies in the World Ocean are drawn up.     

Phylogeography of the Crown-of-Thorns Starfish in the Indian Ocean

Background

Understanding the limits and population dynamics of closely related sibling species in the marine realm is particularly relevant in organisms that require management. The crown-of-thorns starfish Acanthaster planci, recently shown to be a species complex of at least four closely related species, is a coral predator infamous for its outbreaks that have devastated reefs throughout much of its Indo-Pacific distribution.

Methodology/Principal Findings

In this first Indian Ocean-wide genetic study of a marine organism we investigated the genetic structure and inferred the paleohistory of the two Indian Ocean sister-species of Acanthaster planci using mitochondrial DNA sequence analyses. We suggest that the first of two main diversification events led to the formation of a Southern and Northern Indian Ocean sister-species in the late Pliocene-early Pleistocene. The second led to the formation of two internal clades within each species around the onset of the last interglacial. The subsequent demographic history of the two lineages strongly differed, the Southern Indian Ocean sister-species showing a signature of recent population expansion and hardly any regional structure, whereas the Northern Indian Ocean sister-species apparently maintained a constant size with highly differentiated regional groupings that were asymmetrically connected by gene flow.

Conclusions/Significance

Past and present surface circulation patterns in conjunction with ocean primary productivity were identified as the processes most likely to have shaped the genetic structure between and within the two Indian Ocean lineages. This knowledge will help to understand the biological or ecological differences of the two sibling species and therefore aid in developing strategies to manage population outbreaks of this coral predator in the Indian Ocean.     

Molecular phylogeography reveals island colonization history and diversification of western Indian Ocean sunbirds (Nectarinia: Nectariniidae)

We constructed a phylogenetic hypothesis for western Indian Ocean sunbirds (Nectarinia) and used this to investigate the geographic pattern of their diversification among the islands of the Indian Ocean. A total of 1309 bp of mitochondrial sequence data was collected from the island sunbird taxa of the western Indian Ocean region, combined with sequence data from a selection of continental (African and Asian) sunbirds. Topological and branch length information combined with estimated divergence times are used to present hypotheses for the direction and sequence of colonization events in relation to the geological history of the Indian Ocean region. Indian Ocean sunbirds fall into two well-supported clades, consistent with two independent colonizations from Africa within the last 3.9 million years. The first clade contains island populations representing the species Nectarinia notata, while the second includes Nectarinia souimanga, Nectarinia humbloti, Nectarinia dussumieri, and Nectarinia coquereli. With respect to the latter clade, application of Bremer's [Syst. Biol. 41 (1992) 436] ancestral areas method permits us to posit the Comoros archipelago as the point of initial colonization in the Indian Ocean. The subsequent expansion of the souimanga clade across its Indian Ocean range occurred rapidly, with descendants of this early expansion remaining on the Comoros and granitic Seychelles. The data suggest that a more recent expansion from Anjouan in the Comoros group led to the colonization of Madagascar by sunbirds representing the souimanga clade. In concordance with the very young geological age of the Aldabra group, the sunbirds of this archipelago have diverged little from the Madagascar population; this is attributed to colonization of the Aldabra archipelago in recent times, in one or possibly two or more waves originating from Madagascar. The overall pattern of sunbird radiation across Indian Ocean islands indicates that these birds disperse across ocean barriers with relative ease, but that their subsequent evolutionary success probably depends on a variety of factors including prior island occupation by competing species.     

Revision of the genus <Emphasis Type="Italic">Melamphaes</Emphasis> (Melamphaidae): Part 3. Multirakered species: <Emphasis Type="Italic">M. suborbitalis,M. parini</Emphasis>, and <Emphasis Type="Italic">M. acanthomus</Emphasis>

In the third part of the revision of the genus Melamphaes Melamphaidae (Melamphaidae), we examine multirakered species (20 and more rakers at the first gill arch) with seven soft rays in the ventral fin that have a posttemporal (temporal) spine directed anteriorly-upwards, with 14–15 rays in the pectoral fin, and 11 (rarely 12) trunk vertebrae. M. suborbitalis inhabits the Atlantic Ocean (in the north up to 57°N, in the south, up to 40°S), the Indian Ocean (is known in its southwestern part), and the western part of the Pacific Ocean. There is no significant evidence on catches of this species in the eastern part of the Pacific Ocean. Apparently, M. suborbitalis is absent in the tropical waters of the oceans. Until recently, M. parini was known from the holotype caught in the Sea of Okhotsk. Two specimens of this rare species: from the central (the area of the Hawaiian Islands) and the northeastern part of the Pacific Ocean are reported. M. acanthomus is an endemic of the eastern part of the Pacific Ocean where it is known along the coasts of America from California to the northern coast of Chile (approximately between 33°N and 21°S).     

Benthic foraminiferal extinctions linked to late Pliocene–Pleistocene deep-sea circulation changes in the northern Indian Ocean (ODP Sites 722 and 758)

During the late Pliocene–middle Pleistocene, 63 species of elongate, bathyal–upper abyssal benthic foraminifera (Extinction Group = Stilostomellidae, Pleurostomellidae, some Nodosariidae) declined in abundance and finally disappeared in the northern Indian Ocean (ODP Sites 722, 758), as part of the global extinction of at least 88 related species at this time. The detailed record of withdrawal of these species differs by depth and geography in the Indian Ocean. In northwest Indian Ocean Site 722 (2045 m), the Extinction Group of 54 species comprised 2–15% of the benthic foraminiferal fauna in the earliest Pleistocene, but declined dramatically during the onset of the mid-Pleistocene Transition (MPT) at 1.2–1.1 Ma, with all but three species disappearing by the end of the MPT (∼0.6 Ma). In northeast Indian Ocean Site 758 (2925 m), the Extinction Group of 44 species comprised 1–5% of the benthic foraminiferal fauna at ∼3.3–2.6 Ma, but declined in abundance and diversity in three steps, at ∼2.5, 1.7, and 1.2 Ma, with all but one species disappearing by the end of the MPT. At both sites there are strong positive correlations between the accumulation rate of the Extinction Group and proxies indicating low-oxygen conditions with a high organic carbon input. In both sites, there was a pulsed decline in Extinction Group abundance and species richness, especially in glacial periods, with some partial recoveries in interglacials. We infer that the glacial declines at the deeper Site 758 were a result of increased production of colder, well-ventilated Antarctic Bottom Water (AABW), particularly in the late Pliocene and during the MPT. The Extinction Group at shallower water depths (Site 722) were not impacted by the deeper water mass changes until the onset of the MPT, when cold, well-ventilated Glacial North Atlantic Intermediate Water (GNAIW) production increased and may have spread into the Indian Ocean. Increased chemical ventilation at various water depths since late Pliocene, particularly in glacial periods, possibly in association with decreased or more fluctuating organic carbon flux, might be responsible for the pulsed global decline and extinction of this rather specialised group of benthic foraminifera.     

Multi‐locus sequence data reveal a new species of coral reef goby (Teleostei: Gobiidae: Eviota), and evidence of Pliocene vicariance across the Coral Triangle

Here, multi‐locus sequence data are coupled with observations of live colouration to recognize a new species, Eviota punyit from the Coral Triangle, Indian Ocean and Red Sea. Relaxed molecular clock divergence time estimation indicates a Pliocene origin for the new species, and the current distribution of the new species and its sister species Eviota sebreei supports a scenario of vicariance across the Indo‐Pacific Barrier, followed by subsequent range expansion and overlap in the Coral Triangle. These results are consistent with the ‘centre of overlap’ hypothesis, which states that the increased diversity in the Coral Triangle is due in part to the overlapping ranges of Indian Ocean and Pacific Ocean faunas. These findings are discussed in the context of other geminate pairs of coral reef fishes separated by the Indo‐Pacific Barrier.     

Radiolarian biogeography in surface sediments of the eastern Indian Ocean

We analyzed recurrent groups of Radiolaria in 74 core top samples from a transect through the eastern Indian Ocean in order to supplement our previous results from the western Indian Ocean (Johnson and Nigrini, 1980). We now identify six distinct recurrent groups and nine radiolarian assemblages in the combined data set of 120 samples; this extended sample coverage has led to several re-interpretations of the oceanographic significance of the radiolarian distribution patterns. Assemblage boundaries closely reflect the presence of major oceanographic fronts and surface currents including the South Equatorial Divergence, Subtropical Gyre, Subtropical Convergence, and Antarctic Convergence. At least four major aspects of the assemblages in the eastern transect are notably different from those in the western transect, leading to a marked east-west asymmetry in faunal distribution patterns across the Indian Ocean. The assemblage formerly associated with strong upwelling near the Arabian Peninsula is present throughout the Bay of Bengal as well, and is interpreted to reflect high salinity and low oxygen in the subsurface waters of the Indian Ocean north of the Equator. A new assemblage has been identified associated with the westward-flowing Pacific water into the eastern Indian Ocean in low latitudes, and may be a potential stratigraphic and paleoclimatic marker for times of low sea level when this westward near-surface flow was shut off (i.e., glacial maxima). An extensive region in the core of the subtropical gyre between 25°S and 35°S is relatively barren of Radiolaria, yet is marked by a characteristic assemblage distributed asymmetrically, perhaps reflecting the lack of a strong boundary current off the west coast of Australia. Assemblage boundaries in the vicinity of the eastward circumpolar flow are not strictly zonal, and may indicate significant deviations from the mean eastward flow as a necessary condition for conservation of potential vorticity when the flow encounters topographic irregularities.     

Multiple population structure of the giant mottled eel, Anguilla marmorata

The population structure of the giant mottled eel, Anguilla marmorata, was investigated with mitochondrial and microsatellite DNA analyses using 449 specimens from 13 localities throughout the species range. Control region F-statistics indicated the North Pacific (Japan, Taiwan, Philippines, Sulawesi), South Pacific (Tahiti, Fiji, New Caledonia, Papua New Guinea), eastern Indian Ocean (Sumatra), western Indian Ocean (Réunion, Madagascar), Ambon, and Guam regions were significantly different (Phi(ST) = 0.131-0.698, P < 0.05) while only a few differences were observed between localities within the South Pacific. These regions were roughly clustered in the neighbour-joining tree, although Ambon individuals were mainly divided into North and South Pacific groups. Analysis with eight microsatellite loci showed almost identical results to those of the control region, except no genetic difference was observed between the western and eastern Indian Ocean (F(ST) = 0.009, P > 0.05). The Bayesian cluster analysis of the microsatellite data detected two genetic groups. One included four North Pacific localities, and the other included eight localities in the South Pacific, Indian Ocean, and Guam, but Ambon individuals were evenly assigned to these two groups. These results showed that A. marmorata has four genetically different populations (North Pacific, South Pacific, Indian Ocean, Guam region). The North Pacific population is fully panmictic whereas the South Pacific and Indian Ocean populations have a metapopulation structure. Interestingly, Guam was suggested to be inhabited by a reproductive population restricted to that region, and the individuals from the North and South Pacific populations co-exist in Ambon.     

Diversity and distribution of avian haematozoan parasites in the western Indian Ocean region: a molecular survey

The genetic diversity of haematozoan parasites in island avifauna has only recently begun to be explored, despite the potential insight that these data can provide into the history of association between hosts and parasites and the possible threat posed to island endemics. We used mitochondrial DNA sequencing to characterize the diversity of 2 genera of vector-mediated parasites (Plasmodium and Haemoproteus) in avian blood samples from the western Indian Ocean region and explored their relationship with parasites from continental Africa. We detected infections in 68 out of 150 (45·3%) individuals and cytochrome b sequences identified 9 genetically distinct lineages of Plasmodium spp. and 7 lineages of Haemoproteus spp. We found considerable heterogeneity in parasite lineage composition across islands, although limited sampling may, in part, be responsible for perceived differences. Two lineages of Plasmodium spp. and 2 lineages of Haemoproteus spp. were shared by hosts in the Indian Ocean and also on mainland Africa, suggesting that these lineages may have arrived relatively recently. Polyphyly of island parasites indicated that these parasites were unlikely to constitute an endemic radiation and instead probably represent multiple colonization events. This study represents the first molecular survey of vector-mediated parasites in the western Indian Ocean, and has uncovered a diversity of parasites. Full understanding of parasite community composition and possible threats to endemic avian hosts will require comprehensive surveys across the avifauna of this region.     

Revision of genus Melamphaes (Melamphaidae): Part 4. Multi-raker species: M. ebelingi, M. occlusus sp. nova, and M. nikolayi sp. nova

In the fourth part of the revision of the genus Melamphaes (Melamphaidae) multi-raker species (20 and more rakers at the first gill arch, rarely 19??in M. ebelingi) with eight soft rays in the ventral fin are considered. In this species, temporal spine is absent, there are 15 rays in the pectoral fin, and there are 11 to 12 abdominal vertebrae. M. ebelingi inhabits tropical and subtropical waters of the Atlantic Ocean. A new catch of this rare species in the northeastern part of the ocean is reported. The new species M. occlusus is described from one specimen from the subtropical part of the southwestern part of the Indian Ocean. Still another new species, M. nikolayi, is described from one specimen from the northwestern part of the Pacific Ocean (subtropical waters). A table for identification of 15 multi-raker species of the genus Melamphaes is provided.     

Genetic diversity and life-history traits of bonefish Albula spp. from the Red Sea

The management of bonefishes Albula spp. has been hindered by unresolved species distributions and a general lack of life-history information. This study provides the first genetic species identifications of Albula spp. from the northern Indian Ocean. The roundjaw bonefish Albula glossodonta was documented in the Red Sea, and the smallscale bonefish A. oligolepis was identified in the Gulf of Aden with no evidence supporting sympatry. Estimates of genetic differentiation indicate three closely related lineages of A. glossodonta in the Red Sea, Indian Ocean and Pacific Ocean (Red Sea-Pacific Ocean, F_st = 0.295; Red Sea-Seychelles, F_st = 0.193; Pacific Ocean-Seychelles, F_st = 0.141). In addition, the authors provide the first life-history information of Albula spp. in the Indian Ocean. Age-based growth models of A. glossodonta from the Red Sea demonstrated statistically significant differences compared to previously published data from the Pacific Ocean. Spawning activity during winter months was derived from gonado-somatic index values of A. glossodonta from the Red Sea and corresponded with spawning seasonality previously documented for the species in the Pacific Ocean. The results of this study aid in refining biogeographical uncertainties of Albula spp. and illustrate the importance of collecting regional growth information for subsequent management of A. glossodonta.