Phylogenetic analysis of six species of pacific abalone (Haliotidae) based on DNA sequences of 16s rRNA and cytochrome c oxidase subunit I mitochondrial genes

Six species of abalones (Haliotidae) are found on the Korean coasts. Identification and characterization of these abalones are usually based on morphologic characters. In this research we compared the partial sequences of the mitochondrial 16S ribosomal RNA and cytochrome c oxidase subunit I genes to identify species using molecular data and to determine their phylogenetic relationships. Sequence alignments and phylogenetic analysis revealed that the 6 species fell into 2 distinct groups which were genetically distant from each other and exhibited little internal phylogenetic resolution. One group included Haliotis discus hannai, H. discus discus, H. madaka, and H. gigantea, while the other group contained H. diversicolor supertexta and H. diversicolor diversicolor. The 16S rRNA sequences were relatively more conserved than to the COI sequences, but both gene sequences provided sufficient phylogenetic information to distinguish among the 6 species of Pacific abalone, and thus could be valuable molecular characters for species identification.     

First characterisation of the populations and immune-related activities of hemocytes from two edible gastropod species,the disk abalone,Haliotis discus discus and the spiny top shell,Turbo cornutus

The disk abalone Haliotis discus discus and the spiny top shell Turbo cornutus are edible gastropod species of high economic value, mainly in Asia. Mortality outbreaks and variations in worldwide stock abundance have been reported and suggested to be associated, at least in part, with pathogenic infections. Ecology, biology and immunology of both species are currently not well documented. The characterisation of the immune systems of these species is necessary to further assess the responses of H. discus discus and T. cornutus to environmental, chemical and disease stresses. In the present study, we investigated the morphology and immune-related activities of hemocytes in both species using light microscopy and flow cytometry. Two types of hemocytes were identified in the disk abalone hemolymph, blast-like cells and hyalinocytes; whereas four main hemocyte types were distinguished in the spiny top shell, blast-like cells, type I and II hyalinocytes, and granulocytes. Flow cytometric analysis also revealed differences between cell types in immune-related activities. Three subsets of hemocytes, defined by differing lysosomal characteristics, were observed in the hemolymph of the spiny top shell, and only one in the disk abalone. Phagocytic activity was higher in H. discus discus hemocytes than in T. cornutus hemocytes, and the kinetics of PMA-stimulated oxidative activity was different between hemocytes of the disk abalone and the spiny top shell. Finally our results suggest for the first time a predominant mitochondrial origin of oxidative activity in gastropod hemocytes.     

Shell of abalone Haliotis diversicolor supertexta can eliminate waterborne zinc biokinetically

Dietary and nondietary accumulation of waterborne zinc (Zn) by shell of abalone Haliotis diversicolor supertexta was studied to determine if abalone shell can accumulate and eliminate Zn biokinetically. Shell of H. diversicolor supertexta rapidly accumulated Zn at microgram per gram concentrations during a 7-d uptake period for dietary and nondietary exposure to 1 microgml(-1) Zn seawater. Depuration half-lives were 7.22 and 15.40 d for dietary and nondietary exposure, respectively. The uptake rate constants were 5.12 and 4.84 ml g(-1)d(-1), respectively, for dietary and nondietary exposure. The depuration rate constants were 0.048 and 0.10 d(-1), respectively for dietary and nondietary exposure. Results from this study showed that the shell of H. diversicolor supertexta accumulated Zn and that it reflected the composition of the seawater in which the abalone lived. This suggested that the shell of H. diversicolor supertexta can be used as a bioindicator or can act as a receptor to biokinetically eliminate heavy metals from aquatic food webs.     

Development and characterization of 60 microsatellite markers in the abalone Haliotis diversicolor

The abalone, Haliotis diversicolor, is one of the most important mariculture species in southern China. We developed 60 new polymorphic microsatellite markers for H. diversicolor and characterized them in 30 individuals from a cultured population in Sanya, China. All 60 markers were found to be polymorphic. The number of alleles ranged from two to nine per locus, with an average of 4.12/locus. The expected and observed heterozygosities ranged from 0.10 to 0.88 and from 0.07 to 0.87, respectively. Forty-four loci were in Hardy-Weinberg equilibrium. These 44 microsatellite markers should be useful for genome mapping and population genetic studies.     

Vibrio neonatus sp. nov. and Vibrio ezurae sp. nov. isolated from the gut of Japanese abalones

Five alginolytic, facultative anaerobic, non-motile bacteria were isolated from the gut of Japanese abalones (Haliotis discus discus, H. diversicolor diversicolor and H. diversicolor aquatilis). Phylogenetic analyses based on 16S rRNA gene and gap gene sequences indicated that these strains are closely related to V. halioticoli. DNA-DNA hybridizations, FAFLP fingerprintings, and phylogenies of gap and 16S rRNA gene sequences showed that the five strains represent two species different from all currently described vibrios. The names Vibrio neonatus sp. nov. (IAM 15060T = LMG 19973T = HDD3-1T; mol% G+C of DNA is 42.1-43.9), and Vibrio ezurae sp. nov. (IAM 15061T = LMG 19970T = HDS1-1T; mol% G+C of DNA is 43.6-44.8) are proposed to encompass these new taxa. The two new species can be differentiated from V. halioticoli on the basis of several features, including beta-galactosidase activity, assimilation of glycerol, D-mannose and D-gluconate.     

Ovarian follicle cells are the site of vitellogenin synthesis in the Pacific abalone Haliotis discus hannai

Only a few biochemical and molecular studies on yolk proteins (vitellins) have been carried out in mollusks, mainly in bivalves, while information on prosobranch vitellogenesis is still limited. In this study, we cloned a full-length cDNA encoding vitellogenin (Vg) in the Pacific abalone Haliotis discus hannai. The complete Vg cDNA consists of 7753 nucleotides with a long open reading frame encoding 2391 amino acid residues. The deduced primary structure contains the N-terminal amino acid sequences of the 95 kDa and 150 kDa subunits of vitellin of the abalone and shows similarities to Vgs of other mollusk, fish, nematode and coral species. In common with bivalve Vgs, the abalone Vg gene was expressed only in the ovary. In situ hybridization analysis further localized Vg mRNA to the follicle cells in the ovary. We conclude that the follicle cells are the site of Vg synthesis in H. discus hannai.     

Effect of ammonia on the immune response of Taiwan abalone Haliotis diversicolor supertexta and its susceptibility to Vibrio parahaemolyticus

Taiwan abalone Haliotis diversicolor supertexta held in 30 parts/per thousand seawater and 26 degrees C were injected with TSB-grown Vibrio parahaemolyticus (1.6 x 10(5)cfu abalone(-1)), and then placed in water containing different concentrations of ammonia-N (un-ionized plus ionized ammonia) at 0.01 mg l(-1) (control), 1.12, 3.22, 5.24 and 10.18 mg l(-1). Mortality of abalone increased directly with ambient ammonia-N concentration. After 12 h, the mortality of V. parahaemolyticus-injected abalone held in 3.22 mg l(-1) ammonia-N was significantly higher than those placed in 1.12 mg l(-1) ammonia-N and the control solution. In another experiment, the abalone which had been exposed to control, 1.08, 3.16, 5.37 and 10.34 mg l(-1) ammonia-N for 24, 72 and 120 h were examined for THC (total haemocyte count), phenoloxidase activity, respiratory burst (release of superoxide anion), and phagocytic activity and clearance efficiency to V. parahaemolyticus. The abalone when exposed to 3.16 mg l(-1) ammonia-N had decreased THC after 72 h, and decreased phenoloxidase activity, phagocytic activity and clearance efficiency after 24 h. However, the abalone when exposed to 3.16 mg l(-1) ammonia-N had increased respiratory burst after 24 h. The immune parameters except superoxide anion seemed to be suppressed in a dose-dependent fashion after 24 h. It is concluded that ammonia caused a depression in immune parameters and an increase in mortality of H. diversicolor supertexta from V. parahaemolyticus infection.     

Cloning, characterization and tissue expression of disk abalone (Haliotis discus discus) catalase

Catalase is an antioxidant enzyme that plays a significant role in protection against oxidative stress by detoxification of hydrogen peroxide (H2O2). A gene coding for a putative catalase was isolated from the disk abalone (Haliotis discus discus) cDNA library and denoted as Ab-catalase. The full-length (2864 bp) Ab-catalase cDNA contained 1,503 bp open reading frame (ORF), encoding 501 amino acid residues with 56 kDa predicted molecular weight. The deduced amino acid sequence of Ab-catalase has characteristic features of catalase family such as catalytic site motif (61FNRERIPERVVHAKGAG77), heme-ligand signature motif (351RLYSYSDT358), NADPH and heme binding residues. Phylogenetic and pairwise identity results indicated that Ab-catalase is more similar to scallop (Chlamys farreri) catalase with 80% amino acid identity except for other reported disk abalone catalase sequences. Constitutive Ab-catalase expression was detected in gill, mantle, gonad, hemocytes, abductor muscle and digestive tract in tissue specific manner. Ab-catalase mRNA was up-regulated in gill and digestive tract tissues for the first 3h post injection of H2O2, showing the inducible ability of abalone catalase against oxidative stress generated by H2O2. The purified recombinant catalase showed 30,000 U/mg enzymatic activity against H2O2 and biochemical properties of higher thermal stability and broad spectrum of pH. Our results suggest that abalone catalase may play an important role in regulating oxidative stress by scavenging H2O2.     

Comparative studies on the nutrition of two species of abalone,Haliotis tuberculata Linnaeus and Haliotis discus hannai Ino I. Effects of algal diets on growth and biochemical composition

Summary

This study was conducted to examine the nutritional value of eight algal diets for two species of abalone, Haliotis tuberculata and Haliotis discus hannai, by measuring biochemical composition of the algae and relating this to feeding rate, growth and biochemical composition of the animals. Nutritional value of algal diets can be divided into three categories for each species of abalone. For H. tuberculata the best performance was on the mixed diet and Palmaria palmata intermediate was Alaria esculenta, Ulva lactuca and Laminaria digitata, and lowest growth was on Laminaria saccharina and Chondrus crispus. For H. discus hannai, best performance was on A. esculenta, P. palmata and the mixed diet; intermediate was on L. saccharina and L. digitata and lowest was on U. lactuca. It is generally accepted that high “balanced” levels of protein (>15%), lipid (3–5%) and carbohydrate (20–30%), with no detrimental substances in natural algae are essential for optimal growth performance of these abalone. The fact that A. esculenta, L. saccharina and U. lactuca had different dietary values for the two abalone species indicates specific nutritive requirements and/or digestive physiology. Overall, H. tuberculata grew faster, had higher food conversion efficiencies and muscle yield than H. discus hannai. Generally abalone fed on the highest category diets, had higher muscle yields and levels of protein, visceral lipids and muscle carbohydrate. Viscera and foot muscle are reservoirs for lipid and carbohydrate, respectively. The effect of algal diet on sexual maturation is similar to that on somatic growth.     

Duplication and selection on abalone sperm lysin in an allopatric population

While gene duplication is a major source of evolutionary novelty, the importance of this process in reproductive protein evolution has not been widely investigated. Here, we report the first known case of gene duplication of abalone sperm lysin in an allopatric subspecies found in the Eastern Atlantic, Haliotis tuberculata coccinea. Mass spectrometry identified both copies of the lysin protein in testis tissue, and 3-dimensional structural modeling suggests that both proteins remain functional. We also detected positive selection acting on both paralogs after duplication and found evidence of a recent selective sweep. Because H. t. coccinea occurs in geographic isolation from other abalone species, these findings suggest that the evolution of lysin is not driven to create reproductive barriers to unfit hybrid formation with an overlapping species. Instead, sexual selection or sexual conflict acting during abalone fertilization could be responsible for the recent positive selection on this protein. The presence of multiple, rapidly evolving lysin genes in H. tuberculata presents an opportunity to study the early stages of diversification of a protein whose function is well understood.     

Population genetics of black abalone, Haliotis cracherodii, along the central California coast

Over the past three decades, the black abalone, Haliotis cracherodii, has experienced precipitous declines in abundance over portions of its range in southern and central California. The potential for recovery of these populations is dependent in part on dispersal processes; that is, can distant populations serve as sources of recruits to locales that no longer harbor H. cracherodii? Here we use population genetic analysis to assess levels of population subdivision and infer recruitment processes. Epipodial tissue samples were obtained from over 400 black abalone from seven geographic sites between Santa Cruz and Santa Barbara counties in central California. Allelic frequencies were determined for each population at three polymorphic enzyme-encoding loci (GPI, AAT-1 and PGM). Significant allelic frequency differentiation among sites was observed at all three loci. Genetic distance was found to be independent of geographic distance over the approximately 300-km sampling range. In addition, a limited number of DNA sequences (total N=51) were obtained for the mitochondrial cytochrome oxidase subunit I gene (COI) from five of the populations. Since the same common COI haplotype dominated each population, this analysis had little statistical power and failed to detect population structure. The observed level of population differentiation at allozyme loci was three-fold higher than that observed in California red abalone, H. rufescens. The species differ in their breeding period and it is suggested that the relatively short, summer breeding season of black abalone limits dispersal because larvae experience reduced variance in oceanographic conditions relative to red abalone that spawn year-round. Based on these results, rates of recolonization and recovery of locally depressed or extirpated black abalone populations are likely to be slow despite harvest restrictions.     

Genetic diversity and species identification in the endangered white abalone (<Emphasis Type="Italic">Haliotis sorenseni</Emphasis>)

In 2001, the white abalone Haliotis sorenseni became the first marine invertebrate in United States waters to receive federal protection as an endangered species. Prior to the endangered species listing, 20 abalone were collected as potential broodstock for a captive rearing program. Using DNA from these animals, we have developed genetic markers, including five nuclear microsatellite loci and partial sequences of one nuclear (VERL) and two mitochondrial (COI and CytB) genes, to assess genetic variability in the species, aid in species identification, and potentially track the success of future outplanting of captive-reared animals. All five microsatellite loci were polymorphic and followed expectations of simple Mendelian inheritance in laboratory crosses. Each of the wild-caught adult abalone exhibited a unique composite microsatellite genotype, suggesting that significant genetic variation remains in natural populations. A combination of nuclear and mitochondrial gene sequencing demonstrated that one of the original wild-caught animals was, in fact, not a white abalone, but H. kamtschatkana (possibly subspecies assimilis). Similarly, another animal of uncertain identity accidentally collected by dredging was also shown to be H. kamtschatkana. Inclusion of these two animals as broodstock could have resulted in unintentional hybridizations detrimental to the white abalone recovery program. Molecular genetic identifications will be useful both in preventing broodstock contamination and as markers for future restocking operations.     

细菌攻毒杂色鲍血淋巴细胞抑制性差减杂交文库构建及巨噬细胞表达蛋白cDNA的克隆与差异表达

以雌性杂色鲍为对象, 以大肠杆菌、副溶血弧菌、溶壁微球菌、表皮葡萄球菌、金黄色葡萄球菌的混悬液做为攻毒菌, 利用抑制性差减杂交(SSH)技术构建细菌攻毒的杂色鲍血淋巴细胞SSH cDNA文库。随机挑取生长菌落110个克隆子, 进行菌液PCR鉴定, 计算文库重组率为98.18%, 文库容量为1.37×106 pfu。将重组子测序, 经BLAST一致性搜索比对分析, 有一重组片段含有穿孔素(Perforin)保守结构域, 为巨噬细胞表达蛋白(MEP)类穿孔素部分cDNA序列, 片段大小为1 551 bp, 连续编码517个氨基酸残基, 申请GenBank登录号为EU272049。经半定量PCR和荧光定量PCR差异显示分析, 发现在细菌感染状态下MEP基因在血淋巴细胞中存在明显的上调表达现象。     

Vibrio parahaemolyticus infectious for both humans and edible mollusk abalone

The aims of this study are to report evidence of the first laboratory-acquired infection of Vibrio parahaemolyticus associated with handling experimentally infected abalones and to describe the virulence of the two bacterial strains tested in these animals. Two strains of V. parahaemolyticus, one from the stool of a patient with acute gastroenteritis (strain 880713) and the other from the hemolymph of a diseased small abalone Haliotis diversicolor supertexta (strain 880915), were identified and characterized. Both strains were lethal to small abalone, with similar LD(50) values (8.36-8.41 x 10(4) colony-forming units/g abalone). Laboratory-acquired infection resulted in one individual experiencing two episodes of acute gastroenteritis due to handling virulence tests during a 1-week interval. Our present results suggest that a V. parahaemolyticus strain isolated from the stool of a patient with gastroenteritis was infectious for small abalone, a major species of edible mollusk abalone cultured in Taiwan, while a similar strain isolated from hemolymph of a diseased small abalone was infectious for humans. This is the first report of V. parahaemolyticus virulent to small abalone as a zoonotic pathogen.     

Testing subspecies hypothesis with molecular markers and morphometrics in the Pacific white tern complex

To test the validity of subspecies designations of the white tern, genetic and morphological data were used to assess differences among four putative Pacific subspecies Gygis alba candida , Gygis alba rothschildi , Gygis alba pacifica , and Gygis alba microrhyncha . The origin(s) of a recent colonization of Oahu was also examined using molecular data. Samples were collected from 209 birds, representing island groups of the North and South Pacific. Culmen length and depth, longest and shortest rectrix lengths, and wing chord measurements from an earlier dataset were compared. Mitochondrial DNA variation suggests that there are no phylogenetically distinct species within the Pacific Ocean. The genetic and morphological similarity of G. a. candida and G. a. rothschildi warrants merging them into one subspecies ( G. a. candida ). Gygis alba microrhyncha and G. a. pacifica are distinctly smaller and larger than the other two subspecies, respectively, but are not completely diagnosable across the morphological characters examined. Although the Pacific subspecies do not exhibit reciprocal monophyly, there is significant genetic differentiation among the two South Pacific groups, G. a. microrhyncha , G. a. pacifica , and all other Pacific subspecies. This differentiation warrants treating these two South Pacific groups as separate management units, but not species or subspecies. Finally, the recently established population of white terns on Oahu shared haplotypes with all subspecies, suggesting multiple origins from populations across the Pacific and confirming contemporary gene flow.  © 2009 The Linnean Society of London, Biological Journal of the Linnean Society , 2009, 98 , 586–595.     

Characterization of the glucagon receptor and its functional domains using monoclonal antibodies

Four monoclonal antibodies, designated 4H11, 6E10, 2C5, and 3E9 were prepared against partially purified rat hepatic glucagon receptor. These antibodies were characterized by their ability to recognize the glucagon receptor in target tissues using immunoblot and immunoprecipitation procedures. The antibodies recognized a 62-kDa receptor band in rat liver, kidney, and adipose tissue but not in lung, adrenals, and erythrocytes, indicating a high degree of specificity. These antibodies recognize different antigenic determinants; the 6E10 and 2C5 bind protein epitopes, while 4H11 and 3E9 bind carbohydrate epitopes. Furthermore, proteolytic mapping of the glucagon receptor established that monoclonal antibodies 6E10 and 2C5 recognize different domains of the receptor molecule. These antibodies were used to study the immunochemical similarities among the receptors from different species and to assess the topological location of the ligand-binding site. By combining the techniques of affinity cross-linking, proteolytic mapping, and antibody binding, we have identified the location of the glucagon-binding site near to the COOH-terminal domain of the receptor.     

Phylogeny and biogeography of the Japanese rhinoceros beetle,Trypoxylus dichotomus (Coleoptera: Scarabaeidae) based on SNP markers

The Japanese rhinoceros beetle Trypoxylus dichotomus is one of the largest beetle species in the world and is commonly used in traditional Chinese medicine. Ten subspecies of T. dichotomus and a related Trypoxylus species (T. kanamorii) have been described throughout Asia, but their taxonomic delimitations remain problematic. To clarify issues such as taxonomy, and the degree of genetic differentiation of Trypoxylus populations, we investigated the genetic structure, genetic variability, and phylogeography of 53 specimens of Trypoxylus species from 44 locations in five Asian countries (China, Japan, Korea, Thailand, and Myanmar). Using specific‐locus amplified fragment sequencing (SLAF‐seq) techniques, we developed 330,799 SLAFs over 114.16M reads, in turn yielding 46,939 high‐resolution single nucleotide polymorphisms (SNPs) for genotyping. Phylogenetic analysis of SNPs indicated the presence of three distinct genetic groups, suggesting that the various subspecies could be treated as three groups of populations. PCA and ADMIXTURE analysis also identified three genetic clusters (North, South, West), which corresponded to their locations, suggesting that geographic factors were important in maintaining within population homogeneity and between population divergence. Analyses of SNP data confirmed the monophyly of certain subspecies on islands, while other subspecies (e.g., T. d. septentrionalis) were found to be polyphyletic and nested in more than one lineage. AMOVA demonstrated high level of differentiation among populations/groups. Also, pairwise F_ST values revealed high differentiation, particularly between South and West, as well as between North and South. Despite the differentiation, measurable gene flow was inferred between genetic clusters but at varying rates and directions. Our study demonstrated that SLAF‐seq derived markers outperformed 16S and COII sequences and provided improved resolution of the genetic differentiation of rhinoceros beetle populations from a large part of the species’ range.     

Segregation of Microsatellite Alleles in Gynogenetic Diploid Pacific Abalone (Haliotis discus hannai)

Inheritance of 9 microsatellite loci was examined in 3 families of gynogenetic Pacific abalone Haliotis discus hannai produced by fertilizing eggs with UV-irradiated sperm followed by inhibition of the second meiotic division. The proportion of heterozygous progeny was used to estimate marker-centromere (M-C) distances. All loci conformed to Mendelian segregation in the control crosses when null alleles were accounted for. The absence of paternal alleles confirmed the gynogenetic origin of the offspring and indicated 100% success for 3 families. Estimated recombinant frequencies ranged from 0.10 to 0.60, which is lower than those observed in other gynogenetic diploid animals. The mean recombination frequency was 0.22, corresponding to a fixation index of 0.78 in one generation. This is 3.12 times the increase in homozygosity expected after one generation of sib mating (0.25), suggesting meiotic gynogenesis may be an effective means of rapid inbreeding in the abalone. M-C map distances for the 9 loci varied between 5 and 30 cM under the assumption of complete interference. The information about M-C distances will be useful for future gene mapping in H. discus hannai.