The impact of Yangtze River discharge on the genetic structure of a population of the rock bream,Oplegnathus fasciatus

As a rocky reef species, Oplegnathus fasciatus displays significant geographic differences that may be congruent with patterns of molecular variation. We used 10 polymorphism microsatellite loci to characterize the genetic structure and test the impact of ocean currents and the Yangtze River on the population genetic connectivity of the rock bream, O. fasciatus, sampled from Jiaonan (JN), Zhoushan (ZS) and Taiwan (TW). The average number of alleles was 17.78, with a total of 160 alleles, and the average allele value in the East China Sea (ZS?=?13.70) was higher than that in the Yellow Sea (JN?=?6.70). The individuals at the ZS location showed the highest expected heterozygosity (He?=?0.86), Nei's genetic diversity (H?=?0.84) and Shannon genetic diversity (I?=?2.21). Genetic bottleneck tests showed that individuals had experienced a recent bottleneck effect in the JN location. AMOVA analysis showed that 12.19% of genetic variation existed among populations, indicating significant population genetic differentiation in the species. The values of the population pairwise differentiation index (F_st and Φ_pt) ranged from 0.01 to 0.29. The UPGMA tree showed two diverged genealogical branches corresponding to sampling localities (Clade A?=?JN, Clade B?=?ZS and TW) in the species. The AMOVA and STRUCTURE analyses suggested that O. fasciatus may be composed of two stocks in the examined range, and the freshwater discharge from the Yangtze River might act as a physical barrier to genetic exchange between north and south China stocks of the species.     

Genetic structure in two Phascolosoma species in the Pacific Ocean

Phascolosoma agassizii, a commonly reported species of sipunculan worm, occurs at various depths throughout the north Pacific. However, previous studies have shown that this nominal species is actually comprised of two genetically divergent lineages. Phascolosoma agassizii is isolated to the eastern Pacific, whereas a second species, here referred to Phascolosoma sp., is located in the western Pacific and represents a unique, non-sister taxon to P. agassizii. Both species exhibit the same developmental mode with a long-lived, planktotrophic, pelagosphera larval stage, which may facilitate long-distance dispersal, although developmental timing differs. Using an inter-simple sequence repeat polymerase chain reaction (ISSR-PCR) genetic fingerprinting approach, this study examines non-coding polymorphic regions of the nuclear genomes of P. agassizii from four eastern Pacific populations and of Phascolosoma sp. from six western Pacific locations. Small-scale spatial genetic variation was analysed separately for each coastline using an Analysis of Molecular Variance. The data pointed to the potential presence of fine-scale genetic structure within P. agassizii, and recovered significant genetic structure within Phascolosoma sp. from the western Pacific. This study shows that ISSR-PCR is a relatively fast and cost-effective way to study fine-scale genetic diversity in marine invertebrates, although possible analyses and interpretations of the data are subject to the same limitations as other size polymorphism-based approaches.     

Genetic diversity and population differentiation in the yellow drum Nibea albiflora along the coast of the China Sea

Nibea albiflora (yellow drum) is an important seafood fish species in East Asia. We explored the population genetic variation of N. albiflora along the coastal waters of the China Sea using microsatellite markers to facilitate a selective breeding programme that is undertaken in China. A total of 256 alleles were detected at 12 loci in four wild populations. A high level of genetic diversity was observed with the mean number of alleles and the observed and expected heterozygosity in each population ranging from 7.917 to 14.083, 0.701 to 0.764 and 0.765 to 0.841, respectively. Pairwise fixation index (F_ST) analysis indicated significant but weak genetic differentiation among populations from four localities (F_ST?=?0.030, P?<?0.01), which was also confirmed by analysis of molecular variance (AMOVA). Significant genetic differentiation was detected between Ningde and the other populations (F_ST?=?0.047–0.056, P?<?0.01). Structure analysis suggested that N. albiflora within the examined range might be composed of two stocks. The data of the present study revealed high genetic diversity and low genetic differentiation among the N. albiflora populations along the coast of the China Sea. This baseline information could be valuable for future selective breeding programmes of N. albiflora.     

Fine-scale spatial partitioning of genetic variation and evolutionary contestability in the invasive estuarine mussel Xenostrobus securis

Initial studies of Australian populations of the widely invasive mussel Xenostrobus securis raised the possibility of non-random spatial partitioning within estuaries of mitochondrial DNA (mtDNA) clades that have dispersed intercontinentally and those that have not. A fine-scale phylogeographic investigation was made to examine this possibility using cytochrome c oxidase DNA sequences and data from five microsatellite loci developed here. X. securis in the study region was found to comprise multiple robustly supported mtDNA clades, many of which were genetically very distinct. Frequently, the clades comprised numerous haplotypes that have narrow ranges and may have evolved in situ within drainages or nearby. Microsatellite data reveal significant intra- and inter-drainage differentiation but at lower levels than mtDNA. Variation in mtDNA appears to reflect not only recolonization after infrequent local extinction within drainages but also the low probability of migratory haplotypes successfully establishing during evolutionary contests, with resident haplotypes having selective or demographic advantages derived from local occupation. The patterns of mtDNA haplotype distribution suggest that central New South Wales is the source of the internationally invasive lineages of X. securis.     

Morphological and genetic characterization of the sharpsnout seabream populations (Diplodus puntazzo,Sparidae) along a boundary area between the two Mediterranean basins

In order to test the potential ecological role of the Siculo-Tunisian Strait as a geographic barrier, the morphological and genetic variation of eight Tunisian samples of the sharpsnout seabream, Diplodus puntazzo, were studied, based on 23 truss network elements and 13 polymorphic allozyme loci. Significant morphological differences were observed between studied samples, especially between lagoon ones. Although genetic data did not support the detected morphometric variation, F-statistics indices (F_IS and F_ST) revealed a significant departure from panmixia with heterozygote deficiencies and slight genetic differentiation between samples. Genetic results suggested the existence of moderate and local genetic heterogeneity that can be explained by the chaotic genetic patchiness hypothesis. Morphological and genetic results showed that the Siculo-Tunisian Strait does not seem to act as a barrier limiting the connectivity between the natural populations of D. puntazzo, at least at the scale of the Tunisian coast. Thus, the phenotypic variation identified in this study appears to be environmentally induced through the exploitation of different ecological niches and hydrodynamic constraints.     

Phylogeography of the marbled crab Pachygrapsus marmoratus (Decapoda,Grapsidae) along part of the African Mediterranean coast reveals genetic homogeneity across the Siculo-Tunisian Strait versus heterogeneity across the Gibraltar Strait

We investigate the influence of previously postulated biogeographic barriers in the Mediterranean Sea on the population genetic structure of a highly dispersive and continuously distributed coastal species. In particular, we examine nuclear and mitochondrial genetic variation in the marbled crab, Pachygrapsus marmoratus, across part of the African Mediterranean coast in order to assess the influence of the Siculo-Tunisian Strait on its population genetic structure. Four polymorphic microsatellite loci were genotyped for 110 individuals, collected from eight locations covering parts of the Algerian, Tunisian and Libyan coasts. In addition, mtDNA corresponding to the Cox1 gene was sequenced for 80 samples. The corresponding results show contrasting patterns of genetic differentiation. While mtDNA results revealed a homogeneous haplotype composition in our study area, microsatellite data depicted genetic differentiation among populations, but not associated with any geographic barrier. This pattern, already recorded for this species from different geographic regions, may hint at the involvement of a complex series of abiotic and biotic factors in determining genetic structure. Demographic history reconstruction, inferred from mtDNA data, supports demographic and spatial expansion for the North African metapopulation dating back to the Mid-Pleistocene and following an historical bottleneck. Comparison of these African mitochondrial sequences with new sequences from a Turkish population and previously published sequences revealed a weak but significant separation of Atlantic and Mediterranean populations across the Gibraltar Strait, which was not recorded in previous studies of this grapsid species.     

Cytotoxic cytochalasins from the endozoic fungus Phoma sp. of the giant jellyfish Nemopilema nomurai

Four new cytochalasin derivatives (1-4), together with cytochalasin B (5), were isolated from the fungus Phoma sp. obtained from the giant jellyfish Nemopilema nomurai. The planar structure and relative stereochemistry were established by analysis of 1D and 2D NMR data. The absolute configuration was defined by the modified Mosher's method. The compounds showed significant cytotoxicity against a small panel of human solid tumor cell lines (A549, SK-OV-3, SK-MEL-2, XF 498, and HCT15) with IC(50) values in the range of 0.5-30 μM. The cytochalasin B (5) showed obvious cytotoxicity with IC(50) of 7.9 μM against HeLa human cervical carcinoma cells.     

Fine structure, histochemistry, and morphogenesis during excystment of the podocysts of the giant jellyfish Nemopilema nomurai (Scyphozoa, Rhizostomeae)

Production of podocysts is the exclusive form of asexual reproduction by polyps of the giant jellyfish Nemopilema nomurai, which has been recurrently blooming in the East Asian seas in the last decade. Podocycts consist of a dome-shaped chitinous capsule with laminated structure that encapsulates a mass of cyst cells filled with granules containing nutrient reserves such as proteins, carbohydrates, and lipids. Mitochondria, rough endoplasmic reticulum, and Golgi complexes are scarce in the cytoplasm of these cells, and the staining reaction for RNA is weak, indicating very low metabolic activity. Podocysts are capable of dormancy for at least 5 years without significant change of internal structure or nutrient reserves. Integrated information about spontaneous and artificially induced metamorphosis suggests that the following processes occur during excystment: (1) nematocyst formation in the internal cell mass, (2) stratification of the cell mass into endoderm and ectoderm, (3) extrusion of the cell mass through a gradual opening of the capsule, (4) formation of primordial polyp mouth and tentacles, and (5) metamorphosis to a polyp. We morphologically confirmed that N. nomurai podocysts have the capacity for long-term dormancy, an ability that should contribute to the periodic nature of the massive blooms of medusae of this species.     

Physical processes influencing the occurrence of the giant jellyfish Nemopilema nomurai (Scyphozoa: Rhizostomeae) around Jeju Island, Korea

The physical and biological processes affecting the spatialdistribution of the giant jellyfish Nemopilema nomurai wereinvestigated in the northern East China Sea and southern YellowSea in July 2006, when large abundances of this jellyfish occurredin Korean waters. Well-characterized water masses were detectedduring the study period. These were the Tsushima Current water,Yellow Sea Bottom Cold Water and Changjiang Diluted Water (CDW).The spatial distribution of Chl a concentrations estimated byocean colour imagery showed that the CDW flows to the northeast.The CDW was accompanied by high abundances of small and medium-sizedzooplankton (0.2–0.5 mm and 0.5–1.0 mm, respectively)and N. nomurai, in comparison with the other water masses. Large(1.0–2.0 mm) and macro-sized zooplankton (2.0–5.0mm) did not show a relationship with the CDW. The distributionof N. nomurai was very restricted and intimately related withthe CDW. In fact, large abundances only occurred in the westernboundary region of the CDW. The results were supported by Pearson’scorrelation analysis, which showed a positive relationship betweenthe CDW, small- and medium-sized zooplankton and the giant jellyfish.We conclude that the CDW had entrained N. nomurai into the watersoff the southwest coast of the Korean peninsula and it was thentransported into the Yellow and East/Japan seas.     

海水中沙海蜇消亡对水体碳、氮、磷的释放与补充

水母暴发频率在中国海域逐渐增加,暴发后的消亡对海洋生态环境有重大影响.本试验通过对沙海蜇消亡进行模拟,研究了水母消亡过程中碳、氮、磷的释放特征.结果表明:水母消亡是一个快速的生源要素释放过程,水母消亡时碳、氮、磷的释放速率与浓度均在消亡初期达到最大.水母消亡释放的溶解态物质远高于颗粒态.其中,溶解态有机碳与颗粒态有机碳的最大净释放速率分别为(103.77±12.60)与(1.52±0.37)mg·kg~(-1)·h~(-1).整个消亡过程中溶解态氮主要为NH_4~+-N,约占总溶解氮的69.6%-91.6%;消亡初期,溶解态磷主要以溶解有机磷为主约占总溶解磷的63.9%-86.7%,消亡后期则主要为PO_4~(3-)-P,约占50.4%-60.2%.相反颗粒态氮则主要以颗粒有机氮为主,占总颗粒氮的(88.6±6.9)%,颗粒态磷则以颗粒无机磷为主,占总颗粒磷的(73.9±10.5)%.总体上,水母消亡释放的生源要素量为碳氮磷.同时,水母消亡使水体中C/N降低,N/P升高,表明水母消亡可导致水体相对的高碳、高氮负荷.     

Distribution and genetic diversity of the parasitic dinoflagellate Amoebophrya in coastal waters of China

Amoebophrya is an obligate endoparasite infecting wide ranges of marine organisms in coastal and oceanic waters. The parasitoid has received growing attention, due to its enormous genetic diversity in seawaters and suppressive effects on the growth of host dinoflagellates. Harmful algal blooms (HABs) caused by planktonic dinoflagellates have significantly impacted the coastal environment and mariculture in China. Series of studies have been conducted to reveal the occurrence mechanism and negative impacts of HABs in past decades, while the factors contributing to the recession of HABs have rarely been studied. Thus, the host range, prevalence and diversity of Amoebophrya along the coastline of China were systemically investigated to facilitate future studies on the ecological roles of the parasitoid. Overall, 10 dinoflagellate taxa were found to be infected by Amoebophrya spp., and the prevalence ranged from 0.03% to 2.50%. Sequencing of environmental genomic DNA revealed substantial diversity and significant regional heterogeneity of Amoebophryidae sequences derived from 12 coastal bays, while no significant correlation was observed among geographical locations. Phylogenetic analyses of 18S rDNA sequences derived from individual Amoebophrya-infected cells indicated the host divergence of the parasitoid and lend credence to the multiple species assumption. The results further revealed the broad host range, wide distribution and substantial diversity of Amoebophrya in the coastal waters of China, that should not be neglected in future studies on the succession of HABs, as well as the ecological significance of this parasitoid in marine microbial food webs.     

Genetic characterization of the scyphozoan jellyfish Aurelia spp. in Chinese coastal waters using mitochondrial markers

Blooms of the moon jellyfish Aurelia spp. have occurred in the harbors and coastal waters around the world. The phylogenetic relationship and genetic characterization of Aurelia spp. was determined along the Chinese coastal waters based on sequences of the mitochondrial cytochrome c oxidase subunit I (COI) gene. The molecular analysis confirmed that all samples collected in Chinese coastal waters were Aurelia sp.1. We also analyzed the phylogenetic and population genetic structure of Aurelia sp.1 using the newly generated sequences supplemented with existing data from previous studies. The phylogenetic analyses of the COI regions did not support geographically restricted groups among the global samples of Aurelia sp.1. Analysis of molecular variance (AMOVA) indicated a complex genetic population structure and pattern of connectivity. Populations of Aurelia sp.1 were highly structured between most sampling sites over distances as small as 100 km (Rizhao and Qingdao) in certain cases. However, non-significant pairwise F_ST values were also observed between short geographic distances (Yantai, Rongcheng and Qingdao) and relatively distant sampling sites (Caofeidian, Rizhao and Japan). The life-cycle characteristics, together with the prevailing ocean currents in this region and possible anthropogenic introduction, were proposed and discussed as the main factors that determined the genetic patterns of Aurelia sp.1.     

胶州湾近岸浅水区鱼类群落结构及多样性

根据2009年3月-2010年2月在胶州湾西北部近岸浅水区进行的鱼类逐月定置网调查数据,采用生态多样性指数和多元统计分析等方法研究了该海域的鱼类群落结构及多样性特征.结果表明:调查共鉴定出44种鱼类,其中海洋性27种,河口性鱼类17种.鱼类种类组成与底层水温和盐度有密切关系.胶州湾近岸浅水区鱼类群落Margalef种类丰富度指数(R)变化范围为0.33-3.50,Shannon-Wiener多样性指数(H’)为0.42-2.25,Pielou均匀度指数(J’)为0.23-0.93.聚类分析(CLUSTER)和多维标度排序(MDS)分析表明,不同鱼类种类组成的各月份样品可划分为3个组分:水温较低的冬季组G1(12月-翌年4月)、水温次高的春秋季组G2(5-6月、10-11月)和水温最高的夏季组G3(7-9月).其中G1的典型种主要为尖海龙(Syngnathus acus)、方氏云鳚(Enedrias fangi)和玉筋鱼(Ammodytes personatus)等冷温性常栖类群种类,G2的主要典型种为鳀鱼(Engraulis japonicus)和尖海龙,G3的主要典型种为鲐鱼(Scomber japonicus)、细条天竺鱼(Apogonichthys lineatus)和普氏缰虾虎鱼(Amoya pflaumi)等洄游性鱼类.单因子相似性分析(ANOSIM)表明,3个月份组间鱼类群落结构差异显著,不同月份组间两两差异均显著.生物-环境分析(BIOENV)表明,底层水温是影响胶州湾近岸浅水区鱼类群落结构时间变化的主要环境因子.在胶州湾内近岸浅水区发现40余种幼鱼,但占优势的主要为低值鱼类,表明胶州湾的产卵、肥育场功能有所下降,应加强胶州湾近岸水域生态环境和渔业资源的保护及修复.     

Low genetic structure and diversity of Red-billed Tropicbirds in the Mexican Pacific

Understanding genetic structure and gene flow can elucidate the mechanisms of diversification and adaptation in seabirds and help define conservation and management units. From 2012 to 2016, we collected blood and feather samples from 156 Red-billed Tropicbirds (Phaethon aethereus) from seven colonies distributed along the Gulf of California and Mexican tropical Pacific to estimate genetic diversity, genetic structure, and gene flow using microsatellite markers and mitochondrial DNA (mtDNA; control region) sequences. Nuclear and mtDNA data revealed relatively low or null levels of genetic diversity, respectively, possibly the result of a founder effect in the eastern Pacific followed by a subsequent population expansion. Nuclear data revealed significant genetic structure among the colonies, but the differences were not associated with regional grouping (i.e., Gulf of California vs. Tropical Pacific). Greater gene flow was observed from the tropical Pacific toward the Gulf of California, possibly related to shared dispersal patterns during the non-breeding season (individuals traveling north to reach warm currents with abundant prey). With the exception of one colony in the Mexican tropical Pacific, we found no evidence of recent bottleneck events. Nonetheless, the overall reduced genetic diversity suggests a high intrinsic vulnerability and risk of extinction for this species.     

Remarkably low genetic diversity and strong population structure in common bottlenose dolphins (Tursiops truncatus) from coastal waters of the Southwestern Atlantic Ocean

Knowledge about the ecology of bottlenose dolphins in the Southwestern Atlantic Ocean is scarce. Increased by-catch rates over the last decade in coastal waters of southern Brazil have raised concerns about the decline in abundance of local dolphin communities. Lack of relevant data, including information on population structure and connectivity, have hampered an assessment of the conservation status of bottlenose dolphin communities in this region. Here we combined analyses of 16 microsatellite loci and mitochondrial DNA (mtDNA) control region sequences to investigate genetic diversity, structure and connectivity in 124 biopsy samples collected over six communities of photographically identified coastal bottlenose dolphins in southern Brazil, Uruguay and central Argentina. Levels of nuclear genetic diversity were remarkably low (mean values of allelic diversity and heterozygosity across all loci were 3.6 and 0.21, respectively), a result that possibly reflects the small size of local dolphin communities. On a broad geographical scale, strong and significant genetic differentiation was found between bottlenose dolphins from southern Brazil–Uruguay (SB–U) and Bahía San Antonio (BSA), Argentina (AMOVA mtDNA Φ_ST = 0.43; nuclear F_ST = 0.46), with negligible contemporary gene flow detected based on Bayesian estimates. On a finer scale, moderate but significant differentiation (AMOVA mtDNA Φ_ST = 0.29; nuclear F_ST = 0.13) and asymmetric gene flow was detected between five neighbouring communities in SB–U. Based on the results we propose that BSA and SB–U represent two distinct evolutionarily significant units, and that communities from SB–U comprise five distinct Management Units (MUs). Under this scenario, conservation efforts should prioritize the areas in southern Brazil where dolphins from three MUs overlap in their home ranges and where by-catch rates are reportedly higher.