Variability of pressure adaptation in deep sea bacteria

Isolations of pressure-adapted deep sea bacteria from depths of 1,400 to 5,100 m resulted in a variety of psychrophilic barotolerant and barophilic strains. Growth rates determined at different pressures indicated a gradual transition between the two types of pressure-adapted isolates. The presence of barotolerant bacteria in deep water, sustained by sinking particulate matter, causes the nonbarophilic response of natural populations, i.e., increased growth after decompression. With increasing pressure-adaptation in barophilic isolates the maximum growth rates at optimum pressures decrease. Thus, the observed general slow-down of microbial activity in the deep sea takes effect regardless of the common occurrence of psychrophilic and barophilic bacteria. The highest degree of barophilism was observed in isolates from nutrient-rich habitats such as intestinal tracts of deep sea animals or decaying carcasses. Detailed studies with an isolate, growing barophilically on a complex as well as a single-carbon-source medium, showed that (1) culturing at pressures lower than optimal for growth resulted in the formation of cell filaments, (2) growth was unaffected by repeated compression/decompression cycles and (3) no perceptible differences in the distribution of radiolabeled carbon from an amino acid mixture occurred in cells grown at, below and above the pressure optimal for growth.Dedicated to Professor Dr. Hans G. Schlegel on the occasion of his 60th birthday in recognition of his broad microbiological interests and in special appreciation of his lasting support for the Marine Microbiology Course at the Stazione Zoologica (Naples, Italy) now for almost 25 yearsNon-standard abbreviations. The traditional use of atm as a unit of pressure (=10 m of water column, =1.013 bar, =101.3 kN/m²) is retained here in view of the important relation between water depth and hydrostatic pressure in the present study. Due to the compression of seawater and the geographic variability of gravity, there is a progressive deviation of the actual pressure with depth amounting to +4.9 atm at 5,000 m and a latitude of 30°. EPC, cell counts obtained by epifluorescence microscopy. PY, peptone yeast extract medium     

Caging experiment in the deep sea: Efficiency and artefacts from a case study at the Arctic long-term observatory HAUSGARTEN

Present theories of deep-sea community organization recognize the importance of small-scale biological disturbances, originated partly from the activities of epibenthic megafaunal organisms, in maintaining high benthic biodiversity in the deep sea. However, due to technical difficulties, in situ experimental studies to test hypotheses in the deep sea are lacking. The objective of the present study was to evaluate the potential of cages as tools for studying the importance of epibenthic megafauna for deep-sea benthic communities. Using the deep-diving Remotely Operated Vehicle (ROV) “VICTOR 6000”, six experimental cages were deployed at the sea floor at 2500 m water depth and sampled after 2 years (2y) and 4 years (4y) for a variety of sediment parameters in order to test for caging artefacts. Photo and video footage from both experiments showed that the cages were efficient at excluding the targeted fauna. The cage also proved to be appropriate to deep-sea studies considering the fact that there was no fouling on the cages and no evidence of any organism establishing residence on or adjacent to it. Environmental changes inside the cages were dependent on the experimental period analysed. In the 4y experiment, chlorophyll a concentrations were higher in the uppermost centimeter of sediment inside cages whereas in the 2y experiment, it did not differ between inside and outside. Although the cages caused some changes to the sedimentary regime, they are relatively minor compared to similar studies in shallow water. The only parameter that was significantly higher under cages at both experiments was the concentration of phaeopigments. Since the epibenthic megafauna at our study site can potentially affect phytodetritus distribution and availability at the seafloor (e.g. via consumption, disaggregation and burial), we suggest that their exclusion was, at least in part, responsible for the increases in pigment concentrations. Cages might be suitable tools to study the long-term effects of disturbances caused by megafaunal organisms on the diversity and community structure of smaller-sized organisms in the deep sea, although further work employing partial cage controls, greater replication, and evaluating faunal components will be essential to unequivocally establish their utility.     

An extremely thermophilic Methanococcus from a deep sea hydrothermal vent and its plasmid

An extremely thermophilic methanogen was isolated from a hydrothermal vent core sample from Guaymas Basin, Gulf of California, at a depth of 2003 m. The isolate, designated strain AG86, was a coccoid autotroph using H₂-CO₂ as energy and carbon source with a growth temperature range of 48 to 92°C, optimum, 85°C. AG86 required NaCl and Mg²⁺ and trace amounts of selenite and tungstate. Vitamins were not required. However, yeast extract, Casamino acids and Trypticase stimulated growth significantly. When grown in the presence of these stimulants and at the optimal growth temperature and pH 6.5, the minimum doubling time was 20 min. Cells were fragile and readily lysed by detergents. The mol% G+C was 33%. These results and partial 16S rRNA sequencing indicated that AG86 belonged to the genus Methanococcus and closely resembled Methanococcus jannaschii. Tests for extrachromosomal DNA revealed a plasmid in AG86 and two plasmids in M. jannaschii. Different patterns were obtained from restriction endonuclease digestion of the three plasmids, and no homology was observed with DNA-DNA hybridization.Abbreviations CCC DNA covalently close circular DNA - DM defined marine medium - G+C Guanine plus cytosine - MPN most probable number     

Psychrotrophic amylolytic bacteria from deep sea sediment of Prydz Bay, Antarctic: diversity and characterization of amylases

Seventeen psychrotrophic bacteria with cold-adaptive amylolytic, lipolytic or proteolytic activity were isolated from deep sea sediment of Prydz Bay, Antarctic. They were affiliated with γ-Proteobacteria (12 strains) and gram-positive bacteria (5 strains) as determined by 16S rDNA sequencing. The amylase-producing strains belonged to genus Pseudomonas, Rhodococcus, and Nocardiopsis. Two Pseudomonas strains, 7193 and 7197, which showed highest amylolytic activity were chosen for further study. The optimal temperatures for their growth and amylase-producing were between 15 and 20°C. Both of the purified amylases showed highest activity at 40°C and pH 9.0, and retained 50% activity at 5°C. The SDS-PAGE and zymogram activity staining showed that the molecular mass of strain 7193 and 7197 amylases were about 60 and 50 kDa respectively. The Pseudomonas sp. 7193 amylase hydrolyzed soluble starch into glucose, maltose, maltotriose, and maltotetraose, indicating that it had both activities of α-amylase and glucoamylase. The product hydrolyzed by Pseudomonas sp. 7197 amylase was meltotetraose.     

The dynamics of biogeographic ranges in the deep sea

Anthropogenic disturbances such as fishing, mining, oil drilling, bioprospecting, warming, and acidification in the deep sea are increasing, yet generalities about deep-sea biogeography remain elusive. Owing to the lack of perceived environmental variability and geographical barriers, ranges of deep-sea species were traditionally assumed to be exceedingly large. In contrast, seamount and chemosynthetic habitats with reported high endemicity challenge the broad applicability of a single biogeographic paradigm for the deep sea. New research benefiting from higher resolution sampling, molecular methods and public databases can now more rigorously examine dispersal distances and species ranges on the vast ocean floor. Here, we explore the major outstanding questions in deep-sea biogeography. Based on current evidence, many taxa appear broadly distributed across the deep sea, a pattern replicated in both the abyssal plains and specialized environments such as hydrothermal vents. Cold waters may slow larval metabolism and development augmenting the great intrinsic ability for dispersal among many deep-sea species. Currents, environmental shifts, and topography can prove to be dispersal barriers but are often semipermeable. Evidence of historical events such as points of faunal origin and climatic fluctuations are also evident in contemporary biogeographic ranges. Continued synthetic analysis, database construction, theoretical advancement and field sampling will be required to further refine hypotheses regarding deep-sea biogeography.     

Four new species of Desmosomatidae Sars, 1897 (Crustacea: Isopoda) from the deep sea of the Angola Basin

From a total of 104 species and 1741 individuals of Isopoda, the material from DIVA-1 (DIVersity of the Atlantic benthos) contained 364 specimens belonging to Desmosomatidae Sars, 1897. They are represented by 10 genera and 27 species. Most species (93%) are new to science. Four species are described in this study (Eugerdella theodori sp. nov., Desmosoma renatae sp. nov., Torwolia tinbiene sp. nov. and Momedossa longipedis sp. nov.). A discussion of the genera Desmosoma Sars, 1864, Momedossa Hessler, 1970 and Torwolia Hessler, 1970 is presented.     

深海微生物资源研究开发技术进展

深海微生物由于生存环境的特殊性而具有各种与陆地和浅海微生物不同的功能,这些特殊功能具有重要的应用价值,是争夺激烈的深海热点资源之一。近年来,不断有新的研究技术和方法得到应用,推动了深海微生物资源的获取、研究和开发。对深海微生物菌株和基因资源研究开发方面的技术发展以及工作策略进行了综述与讨论。     

极地和深海环境中低温噬菌体研究进展

极地和深海是地球上较为独特的生态系统,生活在其中的生物由于长期处于低温、寡营养和黑暗封闭的环境中,大多缺乏基本的光合作用,而被认为是研究生命进化和地球环境演化等问题的＂活化石＂。在这样的极端环境中,低温噬菌体的丰度却很高,越来越多的证据表明它们在维持这类环境的生态平衡和调控生物地球化学循环等方面扮演着非常重要的角色。对极地与深海中低温噬菌体的研究进行简要综述。     

Novel rhodococci and other mycolate actinomycetes from the deep sea

A large number of mycolate actinomycetes have been recovered from deep-sea sediments in the NW Pacific Ocean using selective isolation methods. The isolates were putatively assigned to the genus Rhodococcus on the basis of colony characteristics and mycolic acid profiles. The diversity among these isolates and their relationship to type strains of Rhodococcus and other mycolate taxa were assessed by Curie point pyrolysis mass spectrometry (PyMS). Three major (A, C, D) and two minor (B, E) groups were defined by PyMS. Cluster A was a large group of isolates recovered from sediment in the Izu Bonin Trench (2679 m); Cluster C comprised isolates from both the Izu Bonin Trench (6390 and 6499 m) and from the Japan Trench (4418, 6048 and 6455 m). These Cluster C isolates showed close similarity to Dietzia maris and this was subsequently confirmed using molecular methods. Cluster D contained isolates recovered from a sediment taken from a depth of 1168m in Sagami Bay and were identified as members of the terrestrial species Rhodococcus luteus. Clusters B and E had close affinities with members of the genera Gordonia and Mycobacterium. The presence of Thermoactinomyces in certain of the deep-sea sediments studied was indicative of the movement of terrestrial material into the ocean depths.16S ribosomal RNA gene sequence analyses produced excellent definition of most genera of the mycolata, and indicated that the among the deep sea isolates (1) were novel species of Corynebacterium, Gordonia and Mycobacterium, and (2) a Sea of Japan isolate the phylogenetic depth of which suggests the possibility of a new genus. Polyphasic taxonomic analysis revealed considerable diversity among the deep sea rhodococci and evidence for recently diverged species or DNA groups.     

New family of sea anemones (Actiniaria,Acontiaria) from deep polar seas

We describe and illustrate two new species from polar deep seas that belong to a new genus and family. Antipodactidae fam. nov. is characterized by acontia with macrobasic p-amastigophores; this type of nematocyst has never been reported from acontia. Antipodactis gen. nov. is characterized by a column with a distinct scapus and scapulus, cuticle-bearing tenaculi on the scapus, more mesenteries proximally than distally, mesenteries regularly arranged, restricted and reniform retractor musculature, and macrobasic p-amastigophores in the acontia. Antipodactis scotiae sp. nov. and A. awii sp. nov. differ in number of mesenteries, retractor and parietobasilar muscles, cnidae, and geographic distribution. We discuss the familial and generic characters of Antipodactis gen. nov. and its relationship to other families of acontiarian sea anemones: it most closely resembles members of Kadosactidae in terms of anatomy and some aspects of cnidom, and has a cnidom identical to that of Diadumenidae in terms of the types of nematocysts. Because the morphology of nematocysts is critical to the diagnosis of this family, we review and comment on the nomenclature of mastigophores. The macrobasic p-amastigophores of Antipodactidae fam. nov. conform to England’s (Hydrobiologia 216/217:691–697, 1991) definition rather than that of Mariscal (Coelenterate Biology. Academic Press, New York, pp 129–178, 1974).     

Evidence for Permo-Triassic colonization of the deep sea by isopods

The deep sea is one of the largest ecosystems on Earth and is home to a highly diverse fauna, with polychaetes, molluscs and peracarid crustaceans as dominant groups. A number of studies have proposed that this fauna did not survive the anoxic events that occurred during the Mesozoic Era. Accordingly, the modern fauna is thought to be relatively young, perhaps having colonized the deep sea after the Eocene/Oligocene boundary. To test this hypothesis, we performed phylogenetic analyses of nuclear ribosomal 18S and 28S and mitochondrial cytochrome oxidase I and 16S sequences from isopod crustaceans. Using a molecular clock calibrated with multiple isopod fossils, we estimated the timing of deep-sea colonization events by isopods. Our results show that some groups have an ancient origin in the deep sea, with the earliest estimated dates spanning 232–314 Myr ago. Therefore, anoxic events at the Permian–Triassic boundary and during the Mesozoic did not cause the extinction of all the deep-sea fauna; some species may have gone extinct while others survived and proliferated. The monophyly of the ‘munnopsid radiation’ within the isopods suggests that the ancestors of this group evolved in the deep sea and did not move to shallow-water refugia during anoxic events.     

Biodiversity and historical biogeography of stalked crinoids (Echinodermata) in the deep sea

About 95 species of stalked crinoids are now described from 60m to hadal depths, but our knowledge remains far from complete. Depending on which species concept is used, estimates of species richness can be dramatically different. It is necessary to have a homogeneous concept for taxonomic units. The abundance of the crinoid fossil record allows a discussion of the ancestry of deep sea crinoid fauna. Stalked crinoids have a horizontal diversity pattern with three regional centres of high diversity (i.e. western tropical Pacific, western tropical Atlantic and north-eastern Atlantic). Vertical patterns show two faunal strata which vary in importance among provinces. The epibathyal stratum has apparently remained relatively similar in intertropical areas since the Mesozoic. Despite environmental changes related to glaciation since the Middle Miocene, the deepest crinoid fauna (i.e. the deep sea fauna sensu stricto at depths more than 1000 ± 200 m) have a very ancient origin with a dispersion closely related to plate tectonics. The bathyal fauna on hard substrates includes a few living fossils and has a high historical interest.     

Diversification of acorn worms (Hemichordata, Enteropneusta) revealed in the deep sea

Enteropneusts (phylum Hemichordata), although studied extensively because of their close relationship to chordates, have long been considered shallow-water, burrowing animals. The present paper more than doubles the number of enteropneust species recorded in the deep sea based on high-resolution imaging and sampling with remotely operated vehicles. We provide direct evidence that some enteropneusts are highly mobile-using changes in posture and currents to drift between feeding sites-and are prominent members of deep, epibenthic communities. In addition, we provide ecological information for each species. We also show that despite their great morphological diversity, most deep-living enteropneusts form a single clade (the rediagnosed family Torquaratoridae) on the basis of rDNA sequences and morphology of the proboscis skeleton and stomochord. The phylogenetic position of the torquaratorids indicates that the group, after evolving from near-shore ancestors, radiated extensively in the deep sea.     

Effect of sea water concentration on hyphal growth and antimicrobial metabolite production in marine fungi

We studied the effect of sea water concentration in a culture medium on fungal growth and the production of antimicrobial metabolites. Most of the marine fungal isolates were identified as members of the same genera as terrestrial isolates, such asAspergillus andTrichoderma. Many of the marine fungi isolated grew more abundantly as the sea water concentration increased. The production of antimicrobial materials was improved as the sea water concentration increased. Even though the marine fungi were considered to be similar to fungi from terrestrial environments, from a mycological perspective, the two types have different physiological characteristics. The fungi from marine samples are useful microbial resources in the search for new bioactive compounds.     

我国深海微生物资源研发现状、挑战与对策

深海具有多种复杂独特的生境,蕴藏着极为丰富的物种多样性,被公认为未来重要的基因资源来源地,具有巨大的应用开发潜力。目前,深海微生物资源已成为国家重要的战略资源储备,也是各国海洋战略的核心关注点。预计在未来20年内,深海微生物资源将在多个领域得到产业化应用。我国在历时近二十年的深海微生物资源采探中,已分离鉴定并规范保藏大洋来源的菌株9 376株,分属于1 443个种444个属,实现了一定的资源积累,并快速提升了知识产权拥有量。但是,随着深海微生物资源获取和开发活动的快速发展,联合国大会"养护和可持续利用国家管辖范围以外海域的生物多样性"谈判进程趋紧,我国深海微生物资源领域依然存在采样区域较为局限、绝大多数微生物难以培养、资源量有待扩容、产业化推进机制缺失、知识产权占有量不足等问题。因此,本文认为应从加强政策引导、强化资源库的基础建设、建立产学研一体化机制、增强国际合作几个方面入手,实现我国深海生物资源产业由"跟跑者"到"领跑者"的跨越。     

Fissuroderes, a new genus of Kinorhyncha (Cyclorhagida) from the deep sea and continental shelf of New Zealand and from the continental shelf of Costa Rica

Specimens of Kinorhyncha collected by RV Sonne from the continental shelf off the coast of Costa Rica and from the deep sea East of New Zealand as well as by RV Kaharoa in the Firth of Thames are identified as five new species of a new genus Fissuroderes gen. nov. which is distinguished from all other kinorhynch genera by a ring-like cuticle in the first trunk segment and a cuticle with midventral and lateral articulations resulting in two sternal plates and one tergal plate in segments 2-10. Fissuroderes higginsi sp. nov. can be distinguished from all other species of Fissuroderes by a laterodorsal spine in segment 2 and the lack of a lateroventral spine in segment 8. Fissuroderes rangi sp. nov. is recognized from all other species by the lack of a ventrolateral spine in segment 2, the lack of a lateroventral spine in segment 5, an extremely elongate spinose tergal extension of segment 11 and a prominent midventral spinose process of the sternal plates in segment 11. Fissuroderes papai sp. nov. is identified by the short spinose process of the sternal plate of segment 11. Only Fissuroderes thermoi sp. nov. possesses bilobed sternal plates in segment 11 and a short conical tergal extension. Fissuroderes novaezealandia sp. nov. differs from F. higginsi sp. nov. in the lack of a laterodorsal spine in segment 2, the lack of an accessory spine in a lateral position in segment 8, the lack of a sublateral spine in segment 10, the existence of a lateroventral spine in segment 8 and in the lack of a subdorsal type 2-gland cell outlet in segment 2. The former species differs from F. papai sp. nov. in the lack of a lateroventral spine in segment 8, the lack of longitudinal indentations in the posterior part of the trunk cuticle of each segment and in the existence of an elongate spinose tergal extension of segment 11 and of many fine hairs on the surface of the cuticle. Fissuroderes is included into the Echinoderidae which is suggested to enclose also the genera Echinoderes and Cephalorhyncha. Echinoderes nybakkeni Higgins, 1988 is now combined as Cephalorhyncha nybakkeni (Higgins, 1988) comb. nov.     

光照对深海热液喷口周围可培养微生物的生长影响

研究采用析因实验设计,探讨了光照和培养温度对深海热液喷口周围可培养微生物生长繁殖的影响。样品培养10天后。对培养液中蛔菌量进行显微计数,实验数据用SFSS11．0统计软件中的方差分析程序进行处理。统计结果显示：在标准大气压下,在33℃、50℃和65℃三个实验温度中,当温度为33℃时,光照培养液中细茼浓度约为暗培养液中的3．5倍;而在50℃和65℃的培养液中其细菌浓度均比暗培养液中的要低。研究结果为进一步荻取、认识与开发利用深海喷口周围细菌贵源打下了基础。     

From principles to practice: a spatial approach to systematic conservation planning in the deep sea

Increases in the demand and price for industrial metals, combined with advances in technological capabilities have now made deep-sea mining more feasible and economically viable. In order to balance economic interests with the conservation of abyssal plain ecosystems, it is becoming increasingly important to develop a systematic approach to spatial management and zoning of the deep sea. Here, we describe an expert-driven systematic conservation planning process applied to inform science-based recommendations to the International Seabed Authority for a system of deep-sea marine protected areas (MPAs) to safeguard biodiversity and ecosystem function in an abyssal Pacific region targeted for nodule mining (e.g. the Clarion–Clipperton fracture zone, CCZ). Our use of geospatial analysis and expert opinion in forming the recommendations allowed us to stratify the proposed network by biophysical gradients, maximize the number of biologically unique seamounts within each subregion, and minimize socioeconomic impacts. The resulting proposal for an MPA network (nine replicate 400 × 400 km MPAs) covers 24% (1 440 000 km²) of the total CCZ planning region and serves as example of swift and pre-emptive conservation planning across an unprecedented area in the deep sea. As pressure from resource extraction increases in the future, the scientific guiding principles outlined in this research can serve as a basis for collaborative international approaches to ocean management.