scholarly journals Metabolic Architecture of the Deep Ocean Microbiome

2019 ◽  
Author(s):  
Silvia G. Acinas ◽  
Pablo Sánchez ◽  
Guillem Salazar ◽  
Francisco M. Cornejo-Castillo ◽  
Marta Sebastián ◽  
...  
Keyword(s):  
Functional Diversity ◽  
Deep Sea ◽  
Deep Ocean ◽  
Sampling Effort ◽  
Free Living ◽  
The Earth ◽  
Metabolic Versatility ◽  
Trophic Strategy ◽  
Gene Collection ◽  
Ocean Ecosystem

AbstractThe deep sea, the largest compartment of the ocean, is an essential component of the Earth system, but the functional exploration of its microbial communities lags far behind that of other marine realms. Here we analyze 58 bathypelagic microbial metagenomes from the Atlantic, Indian, and Pacific Oceans in an unprecedented sampling effort from the Malaspina Global Expedition, to resolve the metabolic architecture of the deep ocean microbiome. The Malaspina Deep-Sea Gene Collection, 71% of which consists of novel genes, reveals a strong dichotomy between the functional traits of free-living and particle-attached microorganisms, and shows relatively patchy composition challenging the paradigm of a uniform dark ocean ecosystem. Metagenome Assembled Genomes uncovered 11 potential new phyla, establishing references for deep ocean microbial taxa, and revealed mixotrophy to be a widespread trophic strategy in the deep ocean. These results expand our understanding of the functional diversity, metabolic versatility, and carbon cycling in the largest ecosystem on Earth.One Sentence SummaryA whole community genomic survey of the deep microbiome sheds light on the microbial and functional diversity of the dark ocean.

scholarly journals Independent origins of parasitism in Animalia

2016 ◽  
Vol 12 (7) ◽  
pp. 20160324 ◽  
Author(s):  
Sara B. Weinstein ◽  
Armand M. Kuris
Keyword(s):  
Animal Species ◽  
Generalist Predators ◽  
Substantial Fraction ◽  
Free Living ◽  
The Earth ◽  
Animal Diversity ◽  
Comprehensive Survey ◽  
Parasitic Lifestyle ◽  
Trophic Strategy ◽  
Consumer Strategies

Nearly half of all animals may have a parasitic lifestyle, yet the number of transitions to parasitism and their potential for species diversification remain unresolved. Based on a comprehensive survey of the animal kingdom, we find that parasitism has independently evolved at least 223 times in just 15 phyla, with the majority of identified independent parasitic groups occurring in the Arthropoda, at or below the level of Family. Metazoan parasitology is dominated by the study of helminthes; however, only 20% of independently derived parasite taxa belong to those groups, with numerous transitions also seen in Mollusca, Rotifera, Annelida and Cnidaria. Parasitism is almost entirely absent from deuterostomes, and although worm-like morphology and host associations are widespread across Animalia, the dual symbiotic and trophic interactions required for parasitism may constrain its evolution from antecedent consumer strategies such as generalist predators and filter feeders. In general, parasitic groups do not differ from their free-living relatives in their potential for speciation. However, the 10 largest parasitic clades contain 90% of described parasitic species, or perhaps 40% of all animal species. Hence, a substantial fraction of animal diversity on the Earth arose following these few transitions to a parasitic trophic strategy.

scholarly journals Characterization of the first cultured free-living representative of Candidatus Izemoplasma uncovers its unique biology

2021 ◽  
Author(s):  
Rikuan Zheng ◽  
Rui Liu ◽  
Yeqi Shan ◽  
Ruining Cai ◽  
Ge Liu ◽  
...  
Keyword(s):  
Deep Sea ◽  
Deep Ocean ◽  
Dna Degradation ◽  
Extracellular Dna ◽  
The Novel ◽  
Metabolic Potential ◽  
Free Living ◽  
Successful Isolation ◽  
Living Wall ◽  
Pure Cultures

AbstractCandidatus Izemoplasma, an intermediate in the reductive evolution from Firmicutes to Mollicutes, was proposed to represent a novel class of free-living wall-less bacteria within the phylum Tenericutes. Unfortunately, the paucity of pure cultures has limited further insights into their physiological and metabolic features as well as ecological roles. Here, we report the first successful isolation of an Izemoplasma representative from the deep-sea methane seep, strain zrk13, using a DNA degradation-driven method given Izemoplasma’s prominent DNA-degradation potentials. We further present a detailed description of the physiological, genomic and metabolic traits of the novel strain, which allows for the first time the reconstruction of the metabolic potential and lifestyle of a member of the tentatively defined Candidatus Izemoplasma. On the basis of the description of strain zrk13, the novel species and genus Xianfuyuplasma coldseepsis is proposed. Using a combined biochemical and transcriptomic method, we further show the supplement of organic matter, thiosulfate or bacterial genomic DNA could evidently promote the growth of strain zrk13. In particular, strain zrk13 could degrade and utilize the extracellular DNA for growth in both laboraterial and deep-sea conditions. Moreover, the predicted genes determining DNA-degradation broadly distribute in the genomes of other Izemoplasma members. Given that extracellular DNA is a particularly crucial phosphorus as well as nitrogen and carbon source for microorganisms in the seafloor, Izemoplasma bacteria are thought to be important contributors to the biogeochemical cycling in the deep ocean.

scholarly journals Characterization of the first cultured free-living representative of Candidatus Izimaplasma uncovers its unique biology

2020 ◽  
Author(s):  
Rikuan Zheng ◽  
Rui Liu ◽  
Yeqi Shan ◽  
Ruining Cai ◽  
Ge Liu ◽  
...  
Keyword(s):  
Deep Sea ◽  
Deep Ocean ◽  
Extracellular Dna ◽  
Phenotypic Traits ◽  
The Novel ◽  
Metabolic Potential ◽  
Free Living ◽  
Living Wall ◽  
First Time

AbstractCandidatus Izimaplasma, an intermediate in the reductive evolution from Firmicutes to Mollicutes, was proposed to represent a novel class of free-living wall-less bacteria within the phylum Tenericutes found in deep-sea methane seeps. Unfortunately, the paucity of marine isolates currently available has limited further insights into their physiological and metabolic features as well as ecological roles. Here, we present a detailed description of the phenotypic traits, genomic data and central metabolisms tested in both laboratorial and deep-sea environments of the novel strain zrk13, which allows for the first time the reconstruction of the metabolic potential and lifestyle of a member of the tentatively defined Candidatus Izimaplasma. On the basis of the description of strain zrk13, the novel species and genus Xianfuyuplasma coldseepsis is proposed. Notably, DNA degradation driven by X. coldseepsis zrk13 was detected in both laboratorial and in situ conditions, strongly indicating it is indeed a key DNA degrader. Moreover, the putative genes determining degradation broadly distribute in the genomes of other Izimaplasma members. Given extracellular DNA is a particularly crucial phosphorus as well as nitrogen and carbon source for microorganisms in the seafloor, Izimaplasma bacteria are thought to be important contributors to the biogeochemical cycling in the deep ocean.

ZONA EKONOMI EKSLUSIF (ZEE) DALAM POROS MARITIM DAN TOL LAUT

2018 ◽  
Author(s):  
Joko Dwi Sugihartono
Keyword(s):  
Deep Sea ◽  
Exclusive Economic Zone ◽  
National Unity ◽  
Logistics Cost ◽  
The Earth ◽  
Sea Bed ◽  
Sea Transportation ◽  
Economic Zone ◽  
The Law ◽  
Lack Of Knowledge

<p>in Indonesia is a region bordering the sea region of Indonesia determined by the law which included sea bed, land under it and water above it with the limit of 200miles. This is measured from Indonesian line of the sea.This whole time a lot of people see the shoreline as the sea border. This perspective makes us alienated and lack of knowledge to take advantage of the sea. This understanding also conjures the idea sea toll, to confirm that Indonesia is maritime country. Sea toll means building sea transportation with ships or sea logistic system which will serve nonstop back and forth from Sabang to Merauke. One of the factors to support this is by building ports (deep sea port) order to give faraway to big ships. A course that spreading as far as 5,000 kilometers or an eighth circumference of the earth One of the purposes of sea toll is to move the economy as efficient and evenly as possible. With the hope that, there will be ships back and forth on Indonesian water, so logistics cost will be cheap. That is why; sea toll is one of President Joko Widodo’s priorities which are also meant to develop Indonesia as maritime country and develop Indonesia as national unity. In addition sea toll can also be affirmation, that Indonesia is in every regions even if it is through ships.</p><p><strong>Keywords : Exclusive Economic Zone (ZEE) , Sea Toll , The Shaft Maritime, A Seaport</strong></p>

scholarly journals High and specific diversity of protists in the deep-sea basins dominated by diplonemids, kinetoplastids, ciliates and foraminiferans

2021 ◽  
Vol 4 (1) ◽  
Author(s):  
Alexandra Schoenle ◽  
Manon Hohlfeld ◽  
Karoline Hermanns ◽  
Frédéric Mahé ◽  
Colomban de Vargas ◽  
...  
Keyword(s):  
Carbon Cycling ◽  
Deep Sea ◽  
Trophic Levels ◽  
Earth System ◽  
Parasitic Species ◽  
Unicellular Eukaryotes ◽  
The Earth ◽  
Dna Metabarcoding ◽  
Global Carbon ◽  
Pelagic Communities

AbstractHeterotrophic protists (unicellular eukaryotes) form a major link from bacteria and algae to higher trophic levels in the sunlit ocean. Their role on the deep seafloor, however, is only fragmentarily understood, despite their potential key function for global carbon cycling. Using the approach of combined DNA metabarcoding and cultivation-based surveys of 11 deep-sea regions, we show that protist communities, mostly overlooked in current deep-sea foodweb models, are highly specific, locally diverse and have little overlap to pelagic communities. Besides traditionally considered foraminiferans, tiny protists including diplonemids, kinetoplastids and ciliates were genetically highly diverse considerably exceeding the diversity of metazoans. Deep-sea protists, including many parasitic species, represent thus one of the most diverse biodiversity compartments of the Earth system, forming an essential link to metazoans.

Note on microseisms produced on the surface of the earth due to storm in the deep sea

1955 ◽  
Vol 42 (5) ◽  
pp. 119-119
Author(s):  
Sushil Chandra Das Gupta
Keyword(s):  
Deep Sea ◽  
The Earth

scholarly journals Glacial – interglacial atmospheric CO<sub>2</sub> change: a simple "hypsometric effect" on deep-ocean carbon sequestration?

2006 ◽  
Vol 2 (5) ◽  
pp. 711-743 ◽  
Author(s):  
L. C. Skinner
Keyword(s):  
Carbon Sequestration ◽  
Carbon Storage ◽  
Ocean Circulation ◽  
Deep Water ◽  
Deep Sea ◽  
Storage Capacity ◽  
Deep Ocean ◽  
Contributing Factors ◽  
Carbon Reservoir ◽  
Ocean Carbon

Abstract. Given the magnitude and dynamism of the deep marine carbon reservoir, it is almost certain that past glacial – interglacial fluctuations in atmospheric CO2 have relied at least in part on changes in the carbon storage capacity of the deep sea. To date, physical ocean circulation mechanisms that have been proposed as viable explanations for glacial – interglacial CO2 change have focussed almost exclusively on dynamical or kinetic processes. Here, a simple mechanism is proposed for increasing the carbon storage capacity of the deep sea that operates via changes in the volume of southern-sourced deep-water filling the ocean basins, as dictated by the hypsometry of the ocean floor. It is proposed that a water-mass that occupies more than the bottom 3 km of the ocean will essentially determine the carbon content of the marine reservoir. Hence by filling this interval with southern-sourced deep-water (enriched in dissolved CO2 due to its particular mode of formation) the amount of carbon sequestered in the deep sea may be greatly increased. A simple box-model is used to test this hypothesis, and to investigate its implications. It is suggested that up to 70% of the observed glacial – interglacial CO2 change might be explained by the replacement of northern-sourced deep-water below 2.5 km water depth by its southern counterpart. Most importantly, it is found that an increase in the volume of southern-sourced deep-water allows glacial CO2 levels to be simulated easily with only modest changes in Southern Ocean biological export or overturning. If incorporated into the list of contributing factors to marine carbon sequestration, this mechanism may help to significantly reduce the "deficit" of explained glacial – interglacial CO2 change.

scholarly journals The Search for Supernova-Produced Radionuclides in Terrestrial Deep-Sea Archives

2012 ◽  
Vol 29 (2) ◽  
pp. 109-114 ◽  
Author(s):  
J. Feige ◽  
A. Wallner ◽  
S. R. Winkler ◽  
S. Merchel ◽  
L. K. Fifield ◽  
...  
Keyword(s):  
Solar System ◽  
Marine Sediment ◽  
Deep Sea ◽  
Massive Stars ◽  
Sediment Cores ◽  
Deep Ocean ◽  
Transport Mechanisms ◽  
Supernova Shell ◽  
Process Element ◽  
Insight Into

AbstractAn enhanced concentration of 60Fe was found in a deep ocean crust in 2004 in a layer corresponding to an age of ∼2 Myr. The confirmation of this signal in terrestrial archives as supernova-induced and the detection of other supernova-produced radionuclides is of great interest. We have identified two suitable marine sediment cores from the South Australian Basin and estimated the intensity of a possible signal of the supernova-produced radionuclides 26Al, 53Mn, 60Fe, and the pure r-process element 244Pu in these cores. The finding of these radionuclides in a sediment core might allow us to improve the time resolution of the signal and thus to link the signal to a supernova event in the solar vicinity ∼2 Myr ago. Furthermore, it gives us an insight into nucleosynthesis scenarios in massive stars, condensation into dust grains and transport mechanisms from the supernova shell into the solar system.

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