Expression of genes involved in the uptake of inorganic carbon in the gill of a deep-sea vesicomyid clam harboring intracellular thioautotrophic bacteria

Gene ◽  
2016 ◽  
Vol 585 (2) ◽  
pp. 228-240 ◽  
Author(s):  
Yuki Hongo ◽  
Tetsuro Ikuta ◽  
Yoshihiro Takaki ◽  
Shigeru Shimamura ◽  
Shuji Shigenobu ◽  
...  
2019 ◽  
Vol 116 (38) ◽  
pp. 18874-18879 ◽  
Author(s):  
Paul F. Hoffman ◽  
Kelsey G. Lamothe

Carbonate sediments of nonglacial Cryogenian (659 to 649 Ma) and early Ediacaran (635 to 590 Ma) age exhibit large positive and negative δ13Ccarb excursions in a shallow-water marine platform in northern Namibia. The same excursions are recorded in fringing deep-sea fans and in carbonate platforms on other paleocontinents. However, coeval carbonates in the upper foreslope of the Namibian platform, and to a lesser extent in the outermost platform, have relatively uniform δ13Ccarb compositions compatible with dissolved inorganic carbon (DIC) in the modern ocean. We attribute the uniform values to fluid-buffered diagenesis that occurred where seawater invaded the sediment in response to geothermal porewater convection. This attribution, which is testable with paired Ca and Mg isotopes, implies that large δ13Ccarb excursions observed in Neoproterozoic platforms, while sedimentary in origin, do not reflect the composition of ancient open-ocean DIC.


Radiocarbon ◽  
1989 ◽  
Vol 31 (03) ◽  
pp. 533-543 ◽  
Author(s):  
Sheila Griffin ◽  
Ellen R M Druffel

Radiocarbon measurements in deep-sea corals from the Little Bahama Bank were used to determine the source of carbon to the skeletal matrices. Specimens of Lophelia, Gerardia, Paragorgia johnsoni and Corallium noibe were sectioned according to visible growth rings and/or stem diameter. We determined that the source of carbon to the corals accreting organic matter was primarily from surface-derived sources. Those corals that accrete a calcerous skeleton were found to obtain their carbon solely from dissolved inorganic carbon (DIC) in sea water from the depth at which the corals grew. These results, in conjunction with growth-rate studies using short-lived radioisotopes, support the use of deep-sea corals to reconstruct time histories of transient and non-transient tracers at depth in the oceans.


Marine Drugs ◽  
2012 ◽  
Vol 10 (12) ◽  
pp. 1765-1783 ◽  
Author(s):  
Conceição Egas ◽  
Miguel Pinheiro ◽  
Paula Gomes ◽  
Cristina Barroso ◽  
Raul Bettencourt

2016 ◽  
Vol 82 (8) ◽  
pp. 2388-2398 ◽  
Author(s):  
Huahua Jian ◽  
Guanpeng Xu ◽  
Yingbao Gai ◽  
Jun Xu ◽  
Xiang Xiao

ABSTRACTAlthough the histone-like nucleoid structuring protein (H-NS) is well known for its involvement in the adaptation of mesophilic bacteria, such asEscherichia coli, to cold environments and high-pressure stress, an understanding of the role of H-NS in the cold-adapted benthic microorganisms that live in the deep-sea ecosystem, which covers approximately 60% of the earth's surface, is still lacking. In this study, we characterized the function of H-NS inShewanella piezotoleransWP3, which was isolated from West Pacific sediment at a depth of 1,914 m. Anhnsgene deletion mutant (WP3Δhns) was constructed, and comparative whole-genome microarray analysis was performed. H-NS had a significant influence (fold change, >2) on the expression of a variety of WP3 genes (274 and 280 genes were upregulated and downregulated, respectively), particularly genes related to energy production and conversion. Notably, WP3Δhnsexhibited higher expression levels of lateral flagellar genes than WP3 and showed enhanced swarming motility and lateral flagellar production compared to those of WP3. The DNA gel mobility shift experiment showed that H-NS bound specifically to the promoter of lateral flagellar genes. Moreover, the high-affinity binding sequences of H-NS were identified by DNase I protection footprinting, and the results support the “binding and spreading” model for H-NS functioning. To our knowledge, this is the first attempt to characterize the function of the universal regulator H-NS in a deep-sea bacterium. Our data revealed that H-NS has a novel function as a repressor of the expression of genes related to the energy-consuming secondary flagellar system and to swarming motility.


Radiocarbon ◽  
1997 ◽  
Vol 40 (1) ◽  
pp. 29-34 ◽  
Author(s):  
Sheila Griffin ◽  
Ellen R. M. Druffel

We have developed a technique using a single apparatus to recover the inorganic and organic carbon from a small (few milligrams) aliquot of dried marine material for radiocarbon analysis. The main advantages of using a single apparatus are: 1) less sample is required, 2) decreased handling reduces contamination, and 3) less time and materials are used. Blank values of ∼5 μg and 19–44 μg are obtained for the inorganic and organic carbon extractions, respectively. δ14C results from sinking particulate organic and inorganic carbon are presented for samples collected in deep-sea sediment traps deployed for 10–30 day periods at 650 and 100 m above bottom (mab) in the northeast Pacific Ocean.


2010 ◽  
Vol 68 (2) ◽  
pp. 357-364 ◽  
Author(s):  
Raul Bettencourt ◽  
Valentina Costa ◽  
Mário Laranjo ◽  
Domitília Rosa ◽  
Luís Pires ◽  
...  

Abstract Bettencourt, R., Costa, V., Laranjo, M., Rosa, D., Pires, L., Colaço, A., Lopes, H., and Serrão Santos, R. 2011. Out of the deep sea into a land-based aquarium environment: investigating physiological adaptations in the hydrothermal vent mussel Bathymodiolus azoricus. – ICES Journal of Marine Science, 68: 357–364. Deep-sea hydrothermal vents are considered to be some of the most extreme environments in the world, yet the animals dwelling around the vent sites exhibit high productivity and must therefore deal with unusual levels of heavy metals, pH, temperature, CO2, and sulphides, in addition to environmental microbes. In an attempt to understand the physiological reactions of animals able to endure these extreme conditions, adaptation processes in the mussel Bathymodiolus azoricus maintained for long periods under laboratory conditions were investigated. Even in the absence of the characteristic high hydrostatic pressure found at deep-sea vent sites and without methane and/or sulphide supplementation, vent mussels seem to survive well in aquarium conditions. Therefore, the maintenance of live vent mussels in our laboratory is a key factor in gaining insights into their physiology, as well as into the study of evolutionary conserved molecules commonly found in other marine bivalves. With the aim of finding distinct genetic signatures in the expression of genes such as the metal-binding protein metallothionein (MT), the present work centred on cellular and humoral mechanisms in animals acclimatized to “sea-level” conditions. In addition, we also conducted experiments under hydrostatic pressure, using the hyperbaric chamber IPOCAMP to establish an in vitro experimental system in which the expression of genes that typically respond to heavy metal contaminants and oxidative stress could be studied under controlled hyperbaric pressure. We also analysed the occurrence of glycosylation in mantle and gill tissues from mussels subjected to elevated hyperbaric pressure, as well as the variation in haemocyte total counts as a result of increased pressure. Our results suggest that even after prolonged aquarium maintenance at atmospheric pressure, mussels were still able to induce the MT gene, whether or not they had been subjected to repressurization in the IPOCAMP chamber. Taken together, our results suggest that B. azoricus can be used as a model species and is particularly useful for the assessment of expression levels of critical genes, such as MT, in response to experimentally induced hydrostatic pressure.


Radiocarbon ◽  
2002 ◽  
Vol 44 (2) ◽  
pp. 567-580 ◽  
Author(s):  
Jess F Adkins ◽  
Shelia Griffin ◽  
Michaele Kashgarian ◽  
Hai Cheng ◽  
E R M Druffel ◽  
...  

Deep-sea corals are a promising new archive of paleoclimate. Coupled radiocarbon and U-series dates allow 14C to be used as a tracer of ocean circulation rate in the same manner as it is used in the modern ocean. Diagenetic alteration of coral skeletons on the seafloor requires a thorough cleaning of contaminating phases of carbon. In addition, 10% of the coral must be chemically leached prior to dissolution to remove adsorbed modern CO2. A survey of modern samples from the full δ14C gradient in the deep ocean demonstrates that the coralline CaCO3 records the radiocarbon value of the dissolved inorganic carbon.


Radiocarbon ◽  
1995 ◽  
Vol 37 (2) ◽  
pp. 617-627 ◽  
Author(s):  
Toshiyuki Masuzawa ◽  
Hiroyuki Kitagawa ◽  
Takeshi Nakatsuka ◽  
Nobuhiko Handa ◽  
Toshio Nakamura

We collected pore waters using an in situ pore water-squeezer for a submersible Shinkai 2000 at six depths beneath the sediment surface within a deep-sea “cold seep” giant clam community off Hatsushima Island, Sagami Bay, Japan. A box core sample was also collected ca. 4.5 km east of the community and pore waters were separated. Dissolved inorganic carbon (DIC) was extracted and purified in a vacuum line and 14C concentration was determined with a Tandetron accelerator mass spectrometer at Nagoya University after conversion to graphite targets using a batch Fe-catalytic hydrogen reduction method. ∆14C values decreased with increasing depth to −938‰ at the sulfate concentration minimum. This indicates that methane used for the active reduction of sulfate and formation of hydrogen sulfide, which is used by symbiotic chemoautotrophic bacteria in gills of the giant clams, is almost dead and is likely supplied from the deep. ∆14C values of DIC vary linearly with δ13C values along a mixing line between that in the bottom water and that produced by the oxidation of dead methane. The δ13C value of DIC oxidized from dead methane is estimated to be ca. −45‰.


Radiocarbon ◽  
1986 ◽  
Vol 28 (2A) ◽  
pp. 397-407 ◽  
Author(s):  
Ellen R M Druffel ◽  
Susumu Honjo ◽  
Sheila Griffin ◽  
C S Wong

Carbon isotope ratios were measured in organic and inorganic carbon of settling particulate matter collected with a sediment trap at Ocean Station “P” in the Gulf of Alaska from March to October, 1983. Dissolved inorganic carbon (DIG) in surface sea water collected during two different seasons in 1984 were analyzed using large gas proportional counters and revealed a minimum seasonal Δ14C variation of 14‰. Results show that the Δ14C of calcium carbonate scdimenting to the deep sea is the same as that measured in surface water DIC. In contrast, particulate organic carbon (POC) had significantly higher Δ14C values (by 25–70‰) than that in surface water DIC. Also, the δ13C of the POC was markedly lower than previously reported values from other trap stations and marine particulate matter in general. Results from this study suggest that a significant amount of the POC settling to the deep sea at this pelagic station is of terrestrial origin, not strictly of marine origin as had previously been believed.


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