Occurrence and Molecular Identification of Microcotyle sebastis Isolated from Fish Farms of the Korean Rockfish,Sebastes schlegelii

Microcotyle sebastis is a gill monogenean ectoparasite that causes serious problems in the mariculture of the Korean rockfish, Sebastes schlegelii. In this study, we isolated the parasite from fish farms along the coasts of Tongyeong, South Korea in 2016, and characterized its infection, morphology and molecular phylogeny. The prevalence of M. sebastis infection during the study period ranged from 46.7% to 96.7%, and the mean intensity was 2.3 to 31.4 ind./fish, indicating that the fish was constantly exposed to parasitic infections throughout the year. Morphological observations under light and scanning electron microscopes of the M. sebastis isolates in this study showed the typical characteristics of the anterior prohaptor and posterior opisthaptor of monogenean parasites. In phylogenetic trees reconstructed using the nuclear 28S ribosomal RNA gene and the mitochondrial cytochrome c oxidase I gene (cox1), they consistently clustered together with their congeneric species, and showed the closest phylogenetic relationships to M. caudata and M. kasago in the cox1 tree.     

Timing of Parturition, Planktonic Duration, and Settlement Patterns of the Black Rockfish, Sebastes inermis

The microstructure of otoliths was used to examine the relationship among timing of parturition, duration of planktonic stage, and temporal patterns of settlement in young-of-the-year (YOY) Sebastes inermis collected during the settlement seasons of 1998–2001 in a seagrass bed at the northwestern coast of Japan. Parturition occurred in winter, predominantly around the new and full moons, and parturition dates were distributed mainly from early January to late February. In the 4 years YOY S. inermis settled into distinctive groups at early spring, synchronized mainly to a semi-lunar cycle at new and full moon phases; except for 1998, in which settlement occurred around the first and third quarter moons. In all years settlers extruded earlier in the parturition season encompassed the first settlement groups that appeared in the bed and vice versa. Planktonic period ranged from 53 to 113 days, and its mean values varied significantly among settlement groups and years. Mean size at settlement showed less variability among settled groups and between years (range: 18–26mm total length), which suggested an ideal size for settling and active migration. On the basis of our findings we discuss the extent to which the 'tidal control', 'settlement linkage', and 'competent size' hypotheses explain the temporal pattern of settlement.     

Movement Patterns and Residency of the Critically Endangered Horseshoe Crab Tachypleus tridentatus in a Semi-Enclosed Bay Determined Using Acoustic Telemetry

The horseshoe crab Tachypleus tridentatus is critically endangered in Japan due to rapidly decreasing numbers resulting from the loss of tidal flats and sandy beaches, and the deterioration of coastal environments. We monitored the year-round migratory patterns and residency of this species in a coastal embayment at Tsuyazaki, Japan, using acoustic telemetry. Total 20 adult crabs (15 males and 5 females) were tagged with ultrasonic transmitters and tracked during two periods (2006–2008; n = 10 and 2007–2009; n = 10). Adult crabs were more active during periods of higher water temperatures and their activity peaked in July, during the spawning period. Water temperature appeared to be one of the key factors influencing the movement patterns for the species. Moreover, the crabs tended to be more active at night than in the day. The nocturnal activity pattern was clearly evident before and during the reproductive period (May–August). Tracking data also showed that one pair-bond was maintained for a maximum of 17 days after the pair-bonded female had spawned. Overall, 11 males (73% of 15 individuals) remained in the bay area over winter, whereas three females (60% of 5 individuals) overwintered outside of the bay. Telemetry data showed that over 60% (13 of 20) of tagged crabs overwintered within the bay where there are sandy beaches, mudflats, and scattered seagrass beds. This year-round residence by adult T. tridentatus in the bay area identifies it as a critical habitat for the management of this species, regardless of life-stage. Not only is it a comprehensive management strategy that effectively reflects this species’ habitat use patterns but also its implementation, such as the establishment of a protected area, would contribute to its conservation.     

Movement Patterns,Habitat Utilization,Home Range Size and Site Fidelity of Whitesaddle Goatfish,Parupeneus Porphyreus,In a Marine Reserve

Suitability of small (< 1km²) marine reserves for protecting a commercially important endemic Hawaiian goatfish, Parupeneus porphyreus, was examined by quantifying goatfish habitat use, home range size and site fidelity in an existing marine reserve (Coconut Island in Kaneohe Bay, Hawaii). Five goatfish equipped with acoustic transmitters were tracked for up to 93h each over 3–14 days. Daytime habitat use patterns of two of these fish were continuously monitored for one month using a fixed hydrophone hardwired to an onshore computer. Acoustically tagged fish showed consistent diel patterns of behavior, refuging in holes in the reef by day and moving over extensive areas of sand and coral rubble habitat at night. Remote monitoring of daytime habitat use by two goatfish revealed that the same daytime refuge was used by both fish for at least one month (the battery life of the transmitters). Home ranges of all fish were within the boundaries of the Coconut Island reserve suggesting that even small areas containing suitable habitat can make effective reserves for this species. A relatively low abundance of reproductive size P. porphyreus at Coconut Island in comparison with deeper areas may indicate an ontogenetic shift to deeper habitat in this species.     

Molecular characterization, expression, and functional analysis of two thioredoxins in the black rockfish (Sebastes schlegelii)

Thioredoxins (TRxs) are a family of small evolutionarily conserved proteins that are essential for the maintenance of cellular homeostasis. Two TRx homologue cDNAs were isolated from a black rockfish concanavalin A (Con A)/phorbol myristate acetate (PMA)-stimulated leucocyte cDNA library and named BrTPx1-1 and BrTPx1-2. As compared with other known TRx peptide sequences, the most conserved regions of both BrTRx1-1 and BrTRx1-2 peptides were found to be the redox-active site Trp-Cys-X-X-Cys (WCXXC). The TRx present in most species is a TRx1-2 protein with a Cys-Pro-Gly-Cys (CPGC) active site. However, in the larger 13 kDa BrTRx1-1 protein, a Cys-Pro-Pro-Cys (CPPC) active site was identified. Here, we report the identification of a new member of the TRx protein family from the teleost black rockfish, which defines a new subclass of 13-kDa TRx1-1 proteins. Phylogenetic analysis indicated that both BrTRx1-1 and BrTRx1-2 were grouped with other vertebrate TRx1 peptides. BrTRx1-1 expression was strongly induced in peripheral blood leucocytes (PBLs) 12-24 h following Con A/PMA stimulation, with peak expression at 24 h post-stimulation. BrTRx1-2 was induced in PBLs after stimulation with lipopolysaccharide (LPS), Con A/PMA, or poly I:C at 24 h. The BrTRx1-1 gene was predominantly expressed in the liver and gills, while BrTRx1-2 was expressed in PBLs and gills. After treatment with a high concentration (10 μg/mL) of rBrTRx1-1 or rBrTRx1-2, kidney leucocytes exhibited increased cell proliferation and viability under oxidative stress.     

Space Use and Habitat Selection by Female Louisiana Black Bears in the Tensas River Basin of Louisiana

Abstract: Studies of space use and habitat selection of endangered species are useful for identifying factors that influence fitness of individuals and viability of populations. However, there is a lack of published information regarding these behaviors for the federally threatened Louisiana black bear (Ursus americanus luteolus). We documented space use and habitat selection for 28 female black bears in 2 subpopulations of the Tensas River Basin population in northeast Louisiana, USA. The Tensas subpopulation inhabits a relatively large (>300-km²) contiguous area of bottomland hardwood forest, whereas the Deltic subpopulation exists mainly in 2 small (<7-km²) forested patches surrounded by an agricultural matrix. Females on Deltic maintained smaller seasonal and annual home ranges than females on Tensas (all P < 0.04), except for females with cubs during spring. On Tensas, females with cubs maintained smaller home ranges than females without cubs during spring (P = 0.01), but we did not detect this difference on Deltic or in other seasons. Females on Tensas and Deltic exhibited differences in habitat selection when establishing home ranges and within home ranges (P < 0.001). Deltic females selected mature bottomland hardwood forests and avoided agricultural habitats at both spatial scales. Tensas females selected a mixture of swamps, mature and regenerating forests, and exhibited variation in selection across scale, season, and reproductive status. We suggest that differences in space use and habitat selection between Tensas and Deltic are at least partially due to habitat differences at the landscape (i.e., amount of forested habitat) and patch (i.e., food availability) scales. Our results contribute to the understanding of factors that influence space use and habitat selection by black bears and provide specific information on habitat types selected by Louisiana black bears to agencies involved in habitat protection and restoration for this threatened subspecies.     

Distribution, Habitat, and Behavior of Rockfishes, Sebastes spp., in Nearshore Waters of Southeastern Alaska: Observations From a Remotely Operated Vehicle

We examined distribution, habitat, and behavior of rockfishes, Sebastes spp., with a remotely operated vehicle (ROV) in coastal waters <90m deep of southeastern Alaska from 1998 to 2000. We identified black, S. melanops, canary, S. pinniger, China, S. nebulosus, copper, S. caurinus, dusky, S. ciliatus, harlequin, S. variegatus, Puget Sound, S. emphaeus, quillback, S. maliger, redstripe, S. proriger, rosethorn, S. helvomaculatus, silvergray, S. brevispinis, tiger, S. nigrocinctus, yelloweye, S. ruberrimus, and yellowtail, S. flavidus, rockfish. Quillback and dusky rockfish were the most widely distributed species, China and harlequin rockfish were the least widely distributed species. Species richness was greater at sites on or near the outer coast than at sites in more inside, sheltered waters. Most (>75%) observations of rockfish were over complex bottoms of boulder and rock or in vertical bedrock wall habitats. Few rockfish were observed over soft bottoms with no relief. Median depth of observation was 30m for black, copper, dusky, and yellowtail rockfish and >30m for all other species. Median temperature of observation ranged from 6.1°C for harlequin rockfish to 9.4°C for black rockfish. Size of fish was positively correlated (p 0.036) with depth for dusky, quillback, and yelloweye rockfish. Species often observed alone were China (67%), copper (46%), quillback (46%), and rosethorn (43%) rockfish. Most (70%) observations of harlequin, Puget Sound, silvergray, tiger, and yelloweye rockfish were in mixed species assemblages. When first observed, the behavior of most rockfish species was swimming or hovering. Notable exceptions were China, harlequin, rosethorn, and tiger rockfish; 33–57% were resting on bottom or in a hole or crevice.     

Insect Gut Bacterial Diversity Determined by Environmental Habitat,Diet, Developmental Stage,and Phylogeny of Host

Insects are the most abundant animals on Earth, and the microbiota within their guts play important roles by engaging in beneficial and pathological interactions with these hosts. In this study, we comprehensively characterized insect-associated gut bacteria of 305 individuals belonging to 218 species in 21 taxonomic orders, using 454 pyrosequencing of 16S rRNA genes. In total, 174,374 sequence reads were obtained, identifying 9,301 bacterial operational taxonomic units (OTUs) at the 3% distance level from all samples, with an average of 84.3 (±97.7) OTUs per sample. The insect gut microbiota were dominated by Proteobacteria (62.1% of the total reads, including 14.1% Wolbachia sequences) and Firmicutes (20.7%). Significant differences were found in the relative abundances of anaerobes in insects and were classified according to the criteria of host environmental habitat, diet, developmental stage, and phylogeny. Gut bacterial diversity was significantly higher in omnivorous insects than in stenophagous (carnivorous and herbivorous) insects. This insect-order-spanning investigation of the gut microbiota provides insights into the relationships between insects and their gut bacterial communities.     

Vertical Distribution of Archaea and Bacteria in a Meromictic Lake as Determined by Fluorescent In Situ Hybridization

The prokaryotic cells distribution in the water column of the coastal saline meromictic Lake Faro (Messina, Italy) was investigated by microscopic counting techniques. Water samples were collected at a central station from the surface to the bottom, when waters were characterized by a marked stratification. A “red-water” layer, caused by a dense growth of photosynthetic sulfur bacteria, was present at a depth of 15 m, defining a transition area between oxic (mixolimnion) and anoxic (monimolimnion) layers. Fluorescently labeled 16S rRNA oligonucleotide, group-specific probes were used to determine the abundance of Bacteria and Archaea, and their subgroups, Green Sulfur Bacteria (GSB), Sulfate Reducing Bacteria (SRB), Cyanobacteria and Chromatium okenii, and Crenarchaeota and Euryarchaeota, as key elements of the microbial community. Bacteria decreased from surface to bottom, while Archaea increased with depth and reached the maximum value at 30 m, where they outnumbered the Bacteria. Bacteria and picophytoplankton prevailed in the mixolimnion. At the chemocline high numbers of prokaryotic cells were present, mainly represented by Cyanobacteria, Chromatium okenii and Euryarchaeota. GSB, SRB, and Crenarchaeota prevailed below the chemocline. Although Archaea constitute a minor fraction of microbial community, they could represent active contributors to the meromictic Lake Faro ecosystem.     

In Situ Analysis of Nitrifying Biofilms as Determined by In Situ Hybridization and the Use of Microelectrodes

We investigated the in situ spatial organization of ammonia-oxidizing and nitrite-oxidizing bacteria in domestic wastewater biofilms and autotrophic nitrifying biofilms by using microsensors and fluorescent in situ hybridization (FISH) performed with 16S rRNA-targeted oligonucleotide probes. The combination of these techniques made it possible to relate in situ microbial activity directly to the occurrence of nitrifying bacterial populations. In situ hybridization revealed that bacteria belonging to the genus Nitrosomonas were the numerically dominant ammonia-oxidizing bacteria in both types of biofilms. Bacteria belonging to the genus Nitrobacter were not detected; instead, Nitrospira-like bacteria were the main nitrite-oxidizing bacteria in both types of biofilms. Nitrospira-like cells formed irregularly shaped aggregates consisting of small microcolonies, which clustered around the clusters of ammonia oxidizers. Whereas most of the ammonia-oxidizing bacteria were present throughout the biofilms, the nitrite-oxidizing bacteria were restricted to the active nitrite-oxidizing zones, which were in the inner parts of the biofilms. Microelectrode measurements showed that the active ammonia-oxidizing zone was located in the outer part of a biofilm, whereas the active nitrite-oxidizing zone was located just below the ammonia-oxidizing zone and overlapped the location of nitrite-oxidizing bacteria, as determined by FISH.     

Ranging,Activity and Habitat Use by Tigers in the Mangrove Forests of the Sundarban

The Sundarban of India and Bangladesh (about 6000 km²) are the only mangrove forests inhabited by a sizeable population of tigers. The adjoining area also supports one of the highest human densities and experiences severe human-tiger conflicts. We used GPS-Satellite and VHF radio-collars on 6 (3 males and 3 female) tigers to study their ranging patterns and habitat preference. The average home range (95% Fixed Kernel) for resident females was 56.4 (SE 5.69) and for males it was 110 (SE 49) km². Tigers crossed an average of 5 water channels > 30 meters per day with a mean width of 54 meters, whereas channels larger than 400 meters were rarely crossed. Tigers spent over 58% of their time within Phoenix habitat but compositional analysis showed a habitat preference of the order Avicennia-Sonneratia > Phoenix > Ceriops > Barren > Water. Average daily distance moved was 4.6 km (range 0.1–23). Activity of tigers peaked between 05:00 hours and 10:00 hours showing some overlap with human activity. Territory boundaries were demarcated by large channels which tigers intensively patrolled. Extra caution should be taken while fishing or honey collection during early morning in Avicennia-Sonneratia and Phoenix habitat types along wide channels to reduce human-tiger conflict. Considering home-range core areas as exclusive, tiger density was estimated at 4.6 (SE range 3.6 to 6.7) tigers/100 km² giving a total population of 76 (SE range 59–110) tigers in the Indian Sundarban. Reluctance of tigers to cross wide water channels combined with increasing commercial boat traffic and sea level rise due to climate change pose a real threat of fragmenting the Sundarban tiger population.     

Habitat utilization, movement and use of groundwater seepages by larval and juvenile Black Redhorse, Moxostoma duquesnei

Black Redhorse (Moxostoma duquesnei) larval and juvenile habitat was characterized in the Grand River, Ontario from June to September 2007–2012. Similar to adult Black Redhorse and their congeners, larval Black Redhorse were most likely to be located in clean, clear, stable runs with low to moderate flow, over pebble, gravel and cobble substrate, mixed with sand. Areas (n?=?22) where 0+ Black Redhorse were observed and collected were 1.4?±?0.2 m from shore, with a mean water temperature of 22.0?±?0.5 °C, mean depth of 0.20?±?0.02 m and mean water velocity of 0.12?±?0.05 m/s. Larval and juvenile Black Redhorse occupied riffles, runs, pools and backwater areas; however, there was a strong preference for runs. Juvenile Black Redhorse moved upstream in the early evening and at night to overwintering areas in the Grand River in November when water temperature approached 5 °C. The persistence of Black Redhorse populations in the Grand River may be related to the presence of groundwater, which provides refuge from extreme temperature and poor water quality during the summer.     

Effects of Predation Risk and Food Availability on the Activity,Habitat Use,Feeding Behavior and Mating Behavior of a Pond Water Strider,Gerris marginatus (Hemiptera)

By experimentally manipulating predation risk and food availability, we explored the effects of these factors on refuge use, general activity, feeding activity, and mating activity of adults of the pond water strider Gerris marginatus. Predation risk (from adult backswimmers Notonecta undulata) profoundly influenced the behavior of G. marginatus, reducing mating activity, general activity in males and females, decreasing feeding activity in females and increasing the use of refuge by both sexes. Surprisingly, variations in food availability failed to produce significant effects on any of these behavior patterns. Risk x food interactions were also not statistically significant for any gerrid behavior. The significant responses to predators all changed in directions that should decrease the risk of predation for G. marginatus.     

Habitat Use by Weddell Seals and Emperor Penguins Foraging in the Ross Sea, Antarctica

The only apex predators that live year-round at high latitudesof the Ross Sea are the Weddell seal and emperor penguin. Theseasonal distribution, foraging depths, and diet of these twospecies appear to overlap. What makes it possible for emperorpenguins and Weddell seals to co-exist at high latitude throughoutthe winter when other marine tetrapods apparently cannot? Bothspecies have similar adaptations for exploitation of the deep-waterhabitat, forage on the same species, and routinely make longand deep dives. Yet, despite these similarities, there is probablylittle trophic overlap between the adults of both species dueto geographical and seasonal differences in habitat use. Forexample, during the winter months while female emperor penguinsare ranging widely in the pack ice, adult seals are foragingand fattening for the upcoming summer fast, literally beneaththe feet of the male penguins. However, there is more extensiveoverlap between juvenile seals and adult penguins, and shiftsin prey abundance and/or distribution would likely affect thesetwo groups similarly. In contrast, juvenile penguins appearto avoid inter- and intra- specific competition by leaving theRoss Sea once they molt.     

Patterns of Juvenile Habitat Use and Seasonality of Settlement by Permit, Trachinotus falcatus

Synopsis Permit, Trachinotus falcatus are economically and ecologically important throughout their range of the Caribbean, subtropical and tropical western Atlantic, and Gulf of Mexico. Despite their economic importance, little is known about the biology and ecology of permit, and most existing information is from Florida. While sufficient information is available to paint a general picture of permit life history, details are lacking for most life stages. For the juvenile life stage, nursery habitats and size and age at settlement have not yet been defined. Although six distinct habitat types (medium energy and low energy windward beaches, leeward beaches, and windward, leeward, and lagoon interior mangrove shorelines) were sampled to determine spatial patterns of habitat use by early juvenile permit at Turneffe Atoll, Belize, Central America, and the Florida Keys, USA, 99% of juvenile permit were found along medium energy windward beaches, indicating their role as nursery habitat for this species. A sub-sample of juvenile permit from Florida was examined to estimate spawning date and age at settlement from otoliths. Size-frequency distributions and otolith age analysis indicate that larval duration is approximately 15 – 20 days, and settlement occurs year-round. Since permit in Florida spawn March through July, from March through September in Cuba, and from February through October in Belize, year-round settlement indicates population connectivity via larval transport. These results lay the foundation for future research on larval supply, population connectivity, and juvenile ecology, and will aid in the ongoing formulation of a conservation plan toward a sustainable fishery for permit.     

Comparison of Vertical Distributions of Prokaryotic Assemblages in the Anoxic Cariaco Basin and Black Sea by Use of Fluorescence In Situ Hybridization

Individual prokaryotic cells from two major anoxic basins, the Cariaco Basin and the Black Sea, were enumerated throughout their water columns using fluorescence in situ hybridization (FISH) with the fluorochrome Cy3 or horseradish peroxidase-modified oligonucleotide probes. For both basins, significant differences in total prokaryotic abundance and phylogenetic composition were observed among oxic, anoxic, and transitional (redoxcline) waters. Epsilon-proteobacteria, Crenarchaeota, and Euryarchaeota were more prevalent in the redoxclines, where previous studies reported high rates of chemoautotrophic production relative to those in waters above and below the redoxclines. Relative abundances of Archaea in both systems varied between 1% and 28% of total prokaryotes, depending on depth. The prokaryotic community composition varied between the two anoxic basins, consistent with distinct geochemical and physical conditions. In the Black Sea, the relative contributions of group I Crenarchaeota (median, 5.5%) to prokaryotic communities were significantly higher (P < 0.001; n = 20) than those of group II Euryarchaeota (median, 2.9%). In contrast, their proportions were nearly equivalent in the Cariaco Basin. Beta-proteobacteria were unexpectedly common throughout the Cariaco Basin's water column, accounting for an average of 47% of 4′,6′-diamidino-2-phenylindole (DAPI)-stained cells. This group was below the detection limit (<1%) in the Black Sea samples. Compositional differences between basins may reflect temporal variability in microbial populations and/or systematic differences in environmental conditions and the populations for which they select.     

Discrimination of Sebastes viviparus, Sebastes marinus and Sebastes mentella from Faroe Islands by chemometry of the fatty acid profile in heart and gill tissues and in the skull oil

The composition of fatty acids in the tissue of heart, gill and skull oil of the three redfish species, Sebastes viviparus, Sebastes marinus and Sebastes mentella was determined by a chemometric method. The method consists of methanolysis of samples of the tissues and of the oils, gas chromatography of the resulting fatty acid methyl esters and multivariate statistical treatment, by principal component analysis, of the analytical data. Although the differences in fatty acid composition among the three tissues were the dominating features of the data, the three species had significantly different fatty acid profiles within each tissue, even though variation among the individuals was considerable. The fatty acid profiles appear to be species specific. The mutual relationship between S. marinus and S. mentella is closer than the relationship between either of them and S. viviparus.     

Movements and Habitat Use by the Endangered Australian Freshwater Mary River cod, Maccullochella peelii mariensis

The decline of the endangered Mary River cod, Maccullochella peelii mariensis, of Queensland, Australia, has been attributed to anthropomorphic habitat alterations, however, the relationships between this subspecies and its physical environment are poorly understood. We used radiotelemetry to investigate the movements and use of habitats by nine Mary River cod (total length 420–760mm; weight 1.3–5.5kg) in the Mary River system over a 20 month period. The mean distance moved each month was positively correlated with monthly stream discharge, but the direction of movements was unpredictable. Patterns of movement varied considerably among individuals and appeared to be unrelated to size. Cod established home ranges of between 70 and 820m in length. Five of the tagged cod returned to a previous home range after moving more than 10km, whereas three did not move more than 2km from their capture location for the duration of the study. Cod used large woody debris complexes more than any other type of habitat, and rarely used areas of open water. Managers should give high priority to maintenance of fish passage and protection/rehabilitation of large woody debris habitats if cod populations are to recover.