Detecting voids in a 0.6 m coal seam, 7 m deep, using seismic reflection

USGS Publications Warehouse

Miller, R.D.; Steeples, D.W.

1991-01-01

Surface collapse over abandoned subsurface coal mines is a problem in many parts of the world. High-resolution P-wave reflection seismology was successfully used to evaluate the risk of an active sinkhole to a main north-south railroad line in an undermined area of southeastern Kansas, USA. Water-filled cavities responsible for sinkholes in this area are in a 0.6 m thick coal seam, 7 m deep. Dominant reflection frequencies in excess of 200 Hz enabled reflections from the coal seam to be discerned from the direct wave, refractions, air wave, and ground roll on unprocessed field files. Repetitive void sequences within competent coal on three seismic profiles are consistent with the "room and pillar" mining technique practiced in this area near the turn of the century. The seismic survey showed that the apparent active sinkhole was not the result of reactivated subsidence but probably erosion. ?? 1991.

The global catalogue of microorganisms 10K type strain sequencing project: closing the genomic gaps for the validly published prokaryotic and fungi species.

PubMed

Wu, Linhuan; McCluskey, Kevin; Desmeth, Philippe; Liu, Shuangjiang; Hideaki, Sugawara; Yin, Ye; Moriya, Ohkuma; Itoh, Takashi; Kim, Cha Young; Lee, Jung-Sook; Zhou, Yuguang; Kawasaki, Hiroko; Hazbón, Manzour Hernando; Robert, Vincent; Boekhout, Teun; Lima, Nelson; Evtushenko, Lyudmila; Boundy-Mills, Kyria; Bunk, Boyke; Moore, Edward R B; Eurwilaichitr, Lily; Ingsriswang, Supawadee; Shah, Heena; Yao, Su; Jin, Tao; Huang, Jinqun; Shi, Wenyu; Sun, Qinglan; Fan, Guomei; Li, Wei; Li, Xian; Kurtböke, Ipek; Ma, Juncai

2018-05-01

Genomic information is essential for taxonomic, phylogenetic, and functional studies to comprehensively decipher the characteristics of microorganisms, to explore microbiomes through metagenomics, and to answer fundamental questions of nature and human life. However, large gaps remain in the available genomic sequencing information published for bacterial and archaeal species, and the gaps are even larger for fungal type strains. The Global Catalogue of Microorganisms (GCM) leads an internationally coordinated effort to sequence type strains and close gaps in the genomic maps of microorganisms. Hence, the GCM aims to promote research by deep-mining genomic data.

Isolation and Characterization of a Geobacillus thermoleovorans Strain from an Ultra-Deep South African Gold Mine

DOE Office of Scientific and Technical Information (OSTI.GOV)

Deflaun, Mary F.; Fredrickson, Jim K.; Dong, Hailiang

2007-03-08

A thermophilic, facultative bacterium was isolated from a depth of 3.1 km below ground surface in an ultradeep gold mine in South Africa. This isolate, designated GE-7, was cultivated from pH 8.0, 600C fissure water. GE-7 grows optimally at 650C, pH 6.5 on a wide range of carbon substrates including GE-7 is a long rod-shaped bacterium (4-6 µm long x 0.5 wide) with terminal endospores and flagella, in addition to O2, can also utilize nitrate as an electron acceptor. Phylogenetic analysis of GE-7 16S rDNA sequence revealed high sequence similarity with G. thermoleovorans DSM 5366T (99.6%), however, certain phenotypic characteristicsmore » of GE-7 were distinct from this and other strains of G. thermoleovorans previously described.« less

Incorporating ecosystem services into environmental management of deep-seabed mining

NASA Astrophysics Data System (ADS)

Le, Jennifer T.; Levin, Lisa A.; Carson, Richard T.

2017-03-01

Accelerated exploration of minerals in the deep sea over the past decade has raised the likelihood that commercial mining of the deep seabed will commence in the near future. Environmental concerns create a growing urgency for development of environmental regulations under commercial exploitation. Here, we consider an ecosystem services approach to the environmental policy and management of deep-sea mineral resources. Ecosystem services link the environment and human well-being, and can help improve sustainability and stewardship of the deep sea by providing a quantitative basis for decision-making. This paper briefly reviews ecosystem services provided by habitats targeted for deep-seabed mining (hydrothermal vents, seamounts, nodule provinces, and phosphate-rich margins), and presents practical steps to incorporate ecosystem services into deep-seabed mining regulation. The linkages and translation between ecosystem structure, ecological function (including supporting services), and ecosystem services are highlighted as generating human benefits. We consider criteria for identifying which ecosystem services are vulnerable to potential mining impacts, the role of ecological functions in providing ecosystem services, development of ecosystem service indicators, valuation of ecosystem services, and implementation of ecosystem services concepts. The first three steps put ecosystem services into a deep-seabed mining context; the last two steps help to incorporate ecosystem services into a management and decision-making framework. Phases of environmental planning discussed in the context of ecosystem services include conducting strategic environmental assessments, collecting baseline data, monitoring, establishing marine protected areas, assessing cumulative impacts, identifying thresholds and triggers, and creating an environmental damage compensation regime. We also identify knowledge gaps that need to be addressed in order to operationalize ecosystem services concepts in deep-seabed mining regulation and propose potential tools to fill them.

15 CFR 970.701 - Significant adverse environmental effects.

Code of Federal Regulations, 2014 CFR

2014-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES... effects of deep seabed mining which cumulatively during commercial recovery have the potential for significant effect. These three effects also occur during mining system tests that may be conducted under a...

15 CFR 970.701 - Significant adverse environmental effects.

Code of Federal Regulations, 2013 CFR

2013-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES... effects of deep seabed mining which cumulatively during commercial recovery have the potential for significant effect. These three effects also occur during mining system tests that may be conducted under a...

15 CFR 970.701 - Significant adverse environmental effects.

Code of Federal Regulations, 2012 CFR

2012-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES... effects of deep seabed mining which cumulatively during commercial recovery have the potential for significant effect. These three effects also occur during mining system tests that may be conducted under a...

15 CFR 970.701 - Significant adverse environmental effects.

Code of Federal Regulations, 2010 CFR

2010-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES... effects of deep seabed mining which cumulatively during commercial recovery have the potential for significant effect. These three effects also occur during mining system tests that may be conducted under a...

15 CFR 970.701 - Significant adverse environmental effects.

Code of Federal Regulations, 2011 CFR

2011-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES... effects of deep seabed mining which cumulatively during commercial recovery have the potential for significant effect. These three effects also occur during mining system tests that may be conducted under a...

RNA-protein binding motifs mining with a new hybrid deep learning based cross-domain knowledge integration approach.

PubMed

Pan, Xiaoyong; Shen, Hong-Bin

2017-02-28

RNAs play key roles in cells through the interactions with proteins known as the RNA-binding proteins (RBP) and their binding motifs enable crucial understanding of the post-transcriptional regulation of RNAs. How the RBPs correctly recognize the target RNAs and why they bind specific positions is still far from clear. Machine learning-based algorithms are widely acknowledged to be capable of speeding up this process. Although many automatic tools have been developed to predict the RNA-protein binding sites from the rapidly growing multi-resource data, e.g. sequence, structure, their domain specific features and formats have posed significant computational challenges. One of current difficulties is that the cross-source shared common knowledge is at a higher abstraction level beyond the observed data, resulting in a low efficiency of direct integration of observed data across domains. The other difficulty is how to interpret the prediction results. Existing approaches tend to terminate after outputting the potential discrete binding sites on the sequences, but how to assemble them into the meaningful binding motifs is a topic worth of further investigation. In viewing of these challenges, we propose a deep learning-based framework (iDeep) by using a novel hybrid convolutional neural network and deep belief network to predict the RBP interaction sites and motifs on RNAs. This new protocol is featured by transforming the original observed data into a high-level abstraction feature space using multiple layers of learning blocks, where the shared representations across different domains are integrated. To validate our iDeep method, we performed experiments on 31 large-scale CLIP-seq datasets, and our results show that by integrating multiple sources of data, the average AUC can be improved by 8% compared to the best single-source-based predictor; and through cross-domain knowledge integration at an abstraction level, it outperforms the state-of-the-art predictors by 6%. Besides the overall enhanced prediction performance, the convolutional neural network module embedded in iDeep is also able to automatically capture the interpretable binding motifs for RBPs. Large-scale experiments demonstrate that these mined binding motifs agree well with the experimentally verified results, suggesting iDeep is a promising approach in the real-world applications. The iDeep framework not only can achieve promising performance than the state-of-the-art predictors, but also easily capture interpretable binding motifs. iDeep is available at http://www.csbio.sjtu.edu.cn/bioinf/iDeep.

15 CFR 971.204 - Environmental and use conflict analysis.

Code of Federal Regulations, 2013 CFR

2013-01-01

.... If the permit area lies within the area of NOAA's Deep Ocean Mining Environmental Study (DOMES), the... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS... Administrator to prepare an environmental impact statement (EIS) on the proposed mining activities, and to...

15 CFR 971.204 - Environmental and use conflict analysis.

Code of Federal Regulations, 2012 CFR

2012-01-01

.... If the permit area lies within the area of NOAA's Deep Ocean Mining Environmental Study (DOMES), the... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS... Administrator to prepare an environmental impact statement (EIS) on the proposed mining activities, and to...

15 CFR 971.204 - Environmental and use conflict analysis.

Code of Federal Regulations, 2011 CFR

2011-01-01

.... If the permit area lies within the area of NOAA's Deep Ocean Mining Environmental Study (DOMES), the... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS... Administrator to prepare an environmental impact statement (EIS) on the proposed mining activities, and to...

15 CFR 971.204 - Environmental and use conflict analysis.

Code of Federal Regulations, 2014 CFR

2014-01-01

.... If the permit area lies within the area of NOAA's Deep Ocean Mining Environmental Study (DOMES), the... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS... Administrator to prepare an environmental impact statement (EIS) on the proposed mining activities, and to...

Mind the seafloor

NASA Astrophysics Data System (ADS)

Boetius, Antje; Haeckel, Matthias

2018-01-01

As human use of rare metals has diversified and risen with global development, metal ore deposits from the deep ocean floor are increasingly seen as an attractive future resource. Japan recently completed the first successful test for zinc extraction from the deep seabed, and the number of seafloor exploration licenses filed at the International Seabed Authority (ISA) has tripled in the past 5 years. Seafloor-mining equipment is being tested, and industrial-scale production in national waters could start in a few years. We call for integrated scientific studies of global metal resources, the fluxes and fates of metal uses, and the ecological footprints of mining on land and in the sea, to critically assess the risks of deep-sea mining and the chances for alternative technologies. Given the increasing scientific evidence for long-lasting impacts of mining on the abyssal environment, precautionary regulations for commercial deep-sea mining are essential to protect marine ecosystems and their biodiversity.

15 CFR 971.103 - Prohibited activities and restrictions.

Code of Federal Regulations, 2014 CFR

2014-01-01

... THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS General... the effect of harassing, persons conducting deep seabed mining activities authorized by law...

15 CFR 971.103 - Prohibited activities and restrictions.

Code of Federal Regulations, 2012 CFR

2012-01-01

... THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS General... the effect of harassing, persons conducting deep seabed mining activities authorized by law...

15 CFR 971.103 - Prohibited activities and restrictions.

Code of Federal Regulations, 2013 CFR

2013-01-01

... THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS General... the effect of harassing, persons conducting deep seabed mining activities authorized by law...

15 CFR 971.103 - Prohibited activities and restrictions.

Code of Federal Regulations, 2010 CFR

2010-01-01

... THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS General... the effect of harassing, persons conducting deep seabed mining activities authorized by law...

15 CFR 971.103 - Prohibited activities and restrictions.

Code of Federal Regulations, 2011 CFR

2011-01-01

... THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS General... the effect of harassing, persons conducting deep seabed mining activities authorized by law...

15 CFR 970.207 - Antitrust information.

Code of Federal Regulations, 2014 CFR

2014-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970... license, provided that said agreement relates to deep seabed hard mineral resource exploration or mining...

15 CFR 970.207 - Antitrust information.

Code of Federal Regulations, 2012 CFR

2012-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970... license, provided that said agreement relates to deep seabed hard mineral resource exploration or mining...

15 CFR 970.207 - Antitrust information.

Code of Federal Regulations, 2013 CFR

2013-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970... license, provided that said agreement relates to deep seabed hard mineral resource exploration or mining...

15 CFR 970.207 - Antitrust information.

Code of Federal Regulations, 2010 CFR

2010-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970... license, provided that said agreement relates to deep seabed hard mineral resource exploration or mining...

15 CFR 970.207 - Antitrust information.

Code of Federal Regulations, 2011 CFR

2011-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970... license, provided that said agreement relates to deep seabed hard mineral resource exploration or mining...

Using pyrosequencing to shed light on deep mine microbial ecology

PubMed Central

Edwards, Robert A; Rodriguez-Brito, Beltran; Wegley, Linda; Haynes, Matthew; Breitbart, Mya; Peterson, Dean M; Saar, Martin O; Alexander, Scott; Alexander, E Calvin; Rohwer, Forest

2006-01-01

Background Contrasting biological, chemical and hydrogeological analyses highlights the fundamental processes that shape different environments. Generating and interpreting the biological sequence data was a costly and time-consuming process in defining an environment. Here we have used pyrosequencing, a rapid and relatively inexpensive sequencing technology, to generate environmental genome sequences from two sites in the Soudan Mine, Minnesota, USA. These sites were adjacent to each other, but differed significantly in chemistry and hydrogeology. Results Comparisons of the microbes and the subsystems identified in the two samples highlighted important differences in metabolic potential in each environment. The microbes were performing distinct biochemistry on the available substrates, and subsystems such as carbon utilization, iron acquisition mechanisms, nitrogen assimilation, and respiratory pathways separated the two communities. Although the correlation between much of the microbial metabolism occurring and the geochemical conditions from which the samples were isolated could be explained, the reason for the presence of many pathways in these environments remains to be determined. Despite being physically close, these two communities were markedly different from each other. In addition, the communities were also completely different from other microbial communities sequenced to date. Conclusion We anticipate that pyrosequencing will be widely used to sequence environmental samples because of the speed, cost, and technical advantages. Furthermore, subsystem comparisons rapidly identify the important metabolisms employed by the microbes in different environments. PMID:16549033

15 CFR 970.103 - Prohibited activities and restrictions.

Code of Federal Regulations, 2014 CFR

2014-01-01

... THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES General § 970... United States or any other nation; and any other activity designed to harass deep seabed mining...

15 CFR 970.103 - Prohibited activities and restrictions.

Code of Federal Regulations, 2013 CFR

2013-01-01

... THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES General § 970... United States or any other nation; and any other activity designed to harass deep seabed mining...

15 CFR 970.103 - Prohibited activities and restrictions.

Code of Federal Regulations, 2012 CFR

2012-01-01

... THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES General § 970... United States or any other nation; and any other activity designed to harass deep seabed mining...

15 CFR 970.103 - Prohibited activities and restrictions.

Code of Federal Regulations, 2010 CFR

2010-01-01

... THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES General § 970... United States or any other nation; and any other activity designed to harass deep seabed mining...

15 CFR 970.103 - Prohibited activities and restrictions.

Code of Federal Regulations, 2011 CFR

2011-01-01

... THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES General § 970... United States or any other nation; and any other activity designed to harass deep seabed mining...

Geology of the fushun coalfield, Liaoning Province, People's Republic of China

USGS Publications Warehouse

Johnson, E.A.

1990-01-01

The Fushun coalfield is located in Liaoning Province 45 km east of Shenyang in a relatively small east-west-trending exposure of Mesozoic and Cenozoic rocks surrounded by Precambrian terrane. The coal is included in a sequence of early Tertiary rocks consisting of Paleocene basalt and tuff, and Eocene coal, oil shale and mudstone. These units have been folded into a syncline that plunges gently to the east. The overturned north limb of this fold has been partly removed by a thrust fault. The principal coal beds are low-sulfur subbituminous and bituminous in rank, are of limnic origin, and are contained in the 55-m-thick Eocene Guchengzi Formation. The field, which has been active since the turn of the century, has both open pit and underground mines. The largest operation is the West Open Pit mine, which measures 2.0 km wide, 6.6 km long, and 300 m deep. Coal is mined by means of power shovels, trucks, and an electric rail system. Oil shale from the Eocene Jijuntun Formation is also mined. ?? 1990.

15 CFR 971.428 - Other necessary permits.

Code of Federal Regulations, 2010 CFR

2010-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Issuance/Transfer.... Each permit will provide that securing the deep seabed mining permit for activities described in the... Federal, State, and local permits. ...

77 FR 64144 - Affirmative Decisions on Petitions for Modification Granted in Whole or in Part

Federal Register 2010, 2011, 2012, 2013, 2014

2012-10-18

... govern the application, processing, and disposition of petitions for modification. This Federal Register..., West Virginia 25306. Mine: Blue Creek No. 1 Deep Mine, MSHA I.D. No. 46-09297, located in Kanawha...-C. FR Notice: 77 FR 811 (1/6/2012). Petitioner: D & F Deep Mine, 15 Motter Drive, Pine Grove...

Environmental genomics reveals a single species ecosystem deep within the Earth

DOE Office of Scientific and Technical Information (OSTI.GOV)

Chivian, Dylan; Brodie, Eoin L.; Alm, Eric J.

DNA from low biodiversity fracture water collected at 2.8 km depth in a South African gold mine was sequenced and assembled into a single, complete genome. This bacterium, Candidatus Desulforudis audaxviator, comprises>99.9percent of the microorganisms inhabiting the fluid phase of this particular fracture. Its genome indicates a motile, sporulating, sulfate reducing, chemoautotrophic thermophile that can fix its own nitrogen and carbon using machinery shared with archaea. Candidatus Desulforudis audaxviator is capable of an independent lifestyle well suited to long-term isolation from the photosphere deep within Earth?s crust, and offers the first example of a natural ecosystem that appears to havemore » its biological component entirely encoded within a single genome.« less

Presence of glucose, xylose, and glycerol fermenting bacteria in the deep biosphere of the former Homestake gold mine, South Dakota

PubMed Central

Rastogi, Gurdeep; Gurram, Raghu N.; Bhalla, Aditya; Gonzalez, Ramon; Bischoff, Kenneth M.; Hughes, Stephen R.; Kumar, Sudhir; Sani, Rajesh K.

2012-01-01

Eight fermentative bacterial strains were isolated from mixed enrichment cultures of a composite soil sample collected at 1.34 km depth from the former Homestake gold mine in Lead, SD, USA. Phylogenetic analysis of their 16S rRNA gene sequences revealed that these isolates were affiliated with the phylum Firmicutes belonging to genera Bacillus and Clostridium. Batch fermentation studies demonstrated that isolates had the ability to ferment glucose, xylose, or glycerol to industrially valuable products such as ethanol and 1,3-propanediol (PDO). Ethanol was detected as the major fermentation end product in glucose-fermenting cultures at pH 10 with yields of 0.205–0.304 g of ethanol/g of glucose. While a xylose-fermenting strain yielded 0.189 g of ethanol/g of xylose and 0.585 g of acetic acid/g of xylose at the end of fermentation. At pH 7, glycerol-fermenting isolates produced PDO (0.323–0.458 g of PDO/g of glycerol) and ethanol (0.284–0.350 g of ethanol/g of glycerol) as major end products while acetic acid and succinic acid were identified as minor by-products in fermentation broths. These results suggest that the deep biosphere of the former Homestake gold mine harbors bacterial strains which could be used in bio-based production of ethanol and PDO. PMID:23919089

Environmental hazard assessment of a marine mine tailings deposit site and potential implications for deep-sea mining.

PubMed

Mestre, Nélia C; Rocha, Thiago L; Canals, Miquel; Cardoso, Cátia; Danovaro, Roberto; Dell'Anno, Antonio; Gambi, Cristina; Regoli, Francesco; Sanchez-Vidal, Anna; Bebianno, Maria João

2017-09-01

Portmán Bay is a heavily contaminated area resulting from decades of metal mine tailings disposal, and is considered a suitable shallow-water analogue to investigate the potential ecotoxicological impact of deep-sea mining. Resuspension plumes were artificially created by removing the top layer of the mine tailings deposit by bottom trawling. Mussels were deployed at three sites: i) off the mine tailings deposit area; ii) on the mine tailings deposit beyond the influence from the resuspension plumes; iii) under the influence of the artificially generated resuspension plumes. Surface sediment samples were collected at the same sites for metal analysis and ecotoxicity assessment. Metal concentrations and a battery of biomarkers (oxidative stress, metal exposure, biotransformation and oxidative damage) were measured in different mussel tissues. The environmental hazard posed by the resuspension plumes was investigated by a quantitative weight of evidence (WOE) model that integrated all the data. The resuspension of sediments loaded with metal mine tails demonstrated that chemical contaminants were released by trawling subsequently inducing ecotoxicological impact in mussels' health. Considering as sediment quality guidelines (SQGs) those indicated in Spanish action level B for the disposal of dredged material at sea, the WOE model indicates that the hazard is slight off the mine tailings deposit, moderate on the mine tailings deposit without the influence from the resuspension plumes, and major under the influence of the resuspension plumes. Portmán Bay mine tailings deposit is a by-product of sulphide mining, and despite differences in environmental setting, it can reflect the potential ecotoxic effects to marine fauna from the impact of resuspension of plumes created by deep-sea mining of polymetallic sulphides. A similar approach as in this study could be applied in other areas affected by sediment resuspension and for testing future deep-sea mining sites in order to assess the associated environmental hazards. Copyright © 2017 Elsevier Ltd. All rights reserved.

25 CFR 215.25 - Other minerals and deep-lying lead and zinc minerals.

Code of Federal Regulations, 2010 CFR

2010-04-01

... 25 Indians 1 2010-04-01 2010-04-01 false Other minerals and deep-lying lead and zinc minerals. 215... LEAD AND ZINC MINING OPERATIONS AND LEASES, QUAPAW AGENCY § 215.25 Other minerals and deep-lying lead and zinc minerals. Except as provided in § 215.6(b), leases on Quapaw Indian lands, for mining...

25 CFR 215.25 - Other minerals and deep-lying lead and zinc minerals.

Code of Federal Regulations, 2011 CFR

2011-04-01

... 25 Indians 1 2011-04-01 2011-04-01 false Other minerals and deep-lying lead and zinc minerals. 215... LEAD AND ZINC MINING OPERATIONS AND LEASES, QUAPAW AGENCY § 215.25 Other minerals and deep-lying lead and zinc minerals. Except as provided in § 215.6(b), leases on Quapaw Indian lands, for mining...

Digital Marine Bioprospecting: Mining New Neurotoxin Drug Candidates from the Transcriptomes of Cold-Water Sea Anemones

PubMed Central

Urbarova, Ilona; Karlsen, Bård Ove; Okkenhaug, Siri; Seternes, Ole Morten; Johansen, Steinar D.; Emblem, Åse

2012-01-01

Marine bioprospecting is the search for new marine bioactive compounds and large-scale screening in extracts represents the traditional approach. Here, we report an alternative complementary protocol, called digital marine bioprospecting, based on deep sequencing of transcriptomes. We sequenced the transcriptomes from the adult polyp stage of two cold-water sea anemones, Bolocera tuediae and Hormathia digitata. We generated approximately 1.1 million quality-filtered sequencing reads by 454 pyrosequencing, which were assembled into approximately 120,000 contigs and 220,000 single reads. Based on annotation and gene ontology analysis we profiled the expressed mRNA transcripts according to known biological processes. As a proof-of-concept we identified polypeptide toxins with a potential blocking activity on sodium and potassium voltage-gated channels from digital transcriptome libraries. PMID:23170083

15 CFR 970.100 - Purpose.

Code of Federal Regulations, 2012 CFR

2012-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES General § 970.100 Purpose. (a) General... recognition that the deep seabed mining industry is still evolving and that more information must be developed...

15 CFR 970.100 - Purpose.

Code of Federal Regulations, 2013 CFR

2013-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES General § 970.100 Purpose. (a) General... recognition that the deep seabed mining industry is still evolving and that more information must be developed...

15 CFR 970.100 - Purpose.

Code of Federal Regulations, 2014 CFR

2014-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES General § 970.100 Purpose. (a) General... recognition that the deep seabed mining industry is still evolving and that more information must be developed...

15 CFR 970.100 - Purpose.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES General § 970.100 Purpose. (a) General... recognition that the deep seabed mining industry is still evolving and that more information must be developed...

15 CFR 970.100 - Purpose.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES General § 970.100 Purpose. (a) General... recognition that the deep seabed mining industry is still evolving and that more information must be developed...

Deep-sea mining: potential environmental, legal, economic, and societal implications - an interdisciplinary research.

PubMed

Koschinsky, Andrea; Heinrich, Luise; Boehnke, Klaus; Cohrs, J Christopher; Markus, Till; Shani, Maor; Singh, Pradeep; Stegen, Karen Smith; Werner, Welf

2018-06-19

Deep-sea mining refers to the retrieval of marine mineral resources such as manganese nodules, ferromanganese crusts and seafloor massive sulfide deposits, which contain a variety of metals that serve as crucial raw materials for a range of applications, from electronic devices to renewable energy technologies to construction materials. With the intent of decreasing dependence on imports, supporting the economy and potentially even overcoming the environmental problems related to conventional terrestrial mining, a number of public and private institutions have re-discovered their interest in exploring the prospects of deep-sea mining, which had been deemed economically and technically unfeasible in the early 1980 s. To date, many national and international research projects are grappling to understand the economic environmental, social and legal implications of potential commercial deep-sea mining operations: a challenging endeavor due to the complexity of direct impacts and spill-over effects. In this paper, we present a comprehensive overview of the current state of knowledge in the aforementioned fields as well as a comparison of the impacts associated with conventional terrestrial mining. Furthermore, we identify knowledge gaps that should be urgently addressed to ensure that the world at large benefits from safe, efficient and environmentally-sound mining procedures. We conclude by highlighting the need for interdisciplinary research and international cooperation. This article is protected by copyright. All rights reserved. This article is protected by copyright. All rights reserved.

New Bottom Roughness Calculation from Multibeam Echo Sounders for Mine Warfare

DTIC Science & Technology

2012-09-01

complex including craters, gullies, seaweed , rocks, sand ridges, tall obstructions, deep holes and sloping regions. Underwater mines can be hidden...and shadows for detecting objects lying on the seafloor. The seafloor is rather complex including craters, gullies, seaweed , rocks, sand ridges, tall...roughness as craters, gullies, seaweed , sand ridges, tall obstructions, deep holes, or steeply sloping regions. Slopes can make it possible for mines to

Cultivation Of Deep Subsurface Microbial Communities

NASA Astrophysics Data System (ADS)

Obrzut, Natalia; Casar, Caitlin; Osburn, Magdalena R.

2018-01-01

The potential habitability of surface environments on other planets in our solar system is limited by exposure to extreme radiation and desiccation. In contrast, subsurface environments may offer protection from these stressors and are potential reservoirs for liquid water and energy that support microbial life (Michalski et al., 2013) and are thus of interest to the astrobiology community. The samples used in this project were extracted from the Deep Mine Microbial Observatory (DeMMO) in the former Homestake Mine at depths of 800 to 2000 feet underground (Osburn et al., 2014). Phylogenetic data from these sites indicates the lack of cultured representatives within the community. We used geochemical data to guide media design to cultivate and isolate organisms from the DeMMO communities. Media used for cultivation varied from heterotrophic with oxygen, nitrate or sulfate to autotrophic media with ammonia or ferrous iron. Environmental fluid was used as inoculum in batch cultivation and strains were isolated via serial transfers or dilution to extinction. These methods resulted in isolating aerobic heterotrophs, nitrate reducers, sulfate reducers, ammonia oxidizers, and ferric iron reducers. DNA sequencing of these strains is underway to confirm which species they belong to. This project is part of the NASA Astrobiology Institute Life Underground initiative to detect and characterize subsurface microbial life; by characterizing the intraterrestrials, the life living deep within Earth’s crust, we aim to understand the controls on how and where life survives in subsurface settings. Cultivation of terrestrial deep subsurface microbes will provide insight into the survival mechanisms of intraterrestrials guiding the search for these life forms on other planets.

Depth-dependent geochemical and microbiological gradients in Fe(III) deposits resulting from coal mine-derived acid mine drainage

PubMed Central

Brantner, Justin S.; Haake, Zachary J.; Burwick, John E.; Menge, Christopher M.; Hotchkiss, Shane T.; Senko, John M.

2014-01-01

We evaluated the depth-dependent geochemistry and microbiology of sediments that have developed via the microbially-mediated oxidation of Fe(II) dissolved in acid mine drainage (AMD), giving rise to a 8–10 cm deep “iron mound” that is composed primarily of Fe(III) (hydr)oxide phases. Chemical analyses of iron mound sediments indicated a zone of maximal Fe(III) reducing bacterial activity at a depth of approximately 2.5 cm despite the availability of dissolved O2 at this depth. Subsequently, Fe(II) was depleted at depths within the iron mound sediments that did not contain abundant O2. Evaluations of microbial communities at 1 cm depth intervals within the iron mound sediments using “next generation” nucleic acid sequencing approaches revealed an abundance of phylotypes attributable to acidophilic Fe(II) oxidizing Betaproteobacteria and the chloroplasts of photosynthetic microeukaryotic organisms in the upper 4 cm of the iron mound sediments. While we observed a depth-dependent transition in microbial community structure within the iron mound sediments, phylotypes attributable to Gammaproteobacterial lineages capable of both Fe(II) oxidation and Fe(III) reduction were abundant in sequence libraries (comprising ≥20% of sequences) from all depths. Similarly, abundances of total cells and culturable Fe(II) oxidizing bacteria were uniform throughout the iron mound sediments. Our results indicate that O2 and Fe(III) reduction co-occur in AMD-induced iron mound sediments, but that Fe(II)-oxidizing activity may be sustained in regions of the sediments that are depleted in O2. PMID:24860562

Stress monitoring versus microseismic ruptures in an active deep mine

NASA Astrophysics Data System (ADS)

Tonnellier, Alice; Bouffier, Christian; Bigarré, Pascal; Nyström, Anders; Österberg, Anders; Fjellström, Peter

2015-04-01

Nowadays, underground mining industry has developed high-technology mass mining methods to optimise the productivity at deep levels. Such massive extraction induces high-level stress redistribution generating seismic events around the mining works, threatening safety and economics. For this reason mining irregular deep ore bodies calls for steadily enhanced scientific practises and technologies to guarantee the mine environment to be safer and stable for the miners and the infrastructures. INERIS, within the framework of the FP7 European project I2Mine and in partnership with the Swedish mining company Boliden, has developed new methodologies in order to monitor both quasi-static stress changes and ruptures in a seismic prone area. To this purpose, a unique local permanent microseismic and stress monitoring network has been installed into the deep-working Garpenberg mine situated to the north of Uppsala (Sweden). In this mine, ore is extracted using sublevel stoping with paste fill production/distribution system and long-hole drilling method. This monitoring network has been deployed between about 1100 and 1250 meter depth. It consists in six 1-component and five 3-component microseismic probes (14-Hz geophones) deployed in the Lappberget area, in addition to three 3D stress monitoring cells that focus on a very local exploited area. Objective is three-fold: to quantify accurately quasi-static stress changes and freshly-induced stress gradients with drift development in the orebody, to study quantitatively those stress changes versus induced detected and located microseismic ruptures, and possibly to identify quasi-static stress transfer from those seismic ruptures. Geophysical and geotechnical data are acquired continuously and automatically transferred to INERIS datacenter through the web. They are made available on a secured web cloud monitoring infrastructure called e.cenaris and completed with mine data. Such interface enables the visualisation of the monitoring data coming from the mine in quasi-real time and facilitates information exchanges and decision making for experts and stakeholders. On the basis of these data acquisition and sharing, preliminary analysis has been started to highlight whether stress variations and seismic sources behaviour might be directly bound with mine working evolution and could improve the knowledge on the equilibrium states inside the mine. Knowing such parameters indeed will be a potential solution to understand better the response of deep mining activities to the exploitation solicitations and to develop, if possible, methods to prevent from major hazards such as rock bursts and other ground failure phenomena.

Biological responses to disturbance from simulated deep-sea polymetallic nodule mining.

PubMed

Jones, Daniel O B; Kaiser, Stefanie; Sweetman, Andrew K; Smith, Craig R; Menot, Lenaick; Vink, Annemiek; Trueblood, Dwight; Greinert, Jens; Billett, David S M; Arbizu, Pedro Martinez; Radziejewska, Teresa; Singh, Ravail; Ingole, Baban; Stratmann, Tanja; Simon-Lledó, Erik; Durden, Jennifer M; Clark, Malcolm R

2017-01-01

Commercial-scale mining for polymetallic nodules could have a major impact on the deep-sea environment, but the effects of these mining activities on deep-sea ecosystems are very poorly known. The first commercial test mining for polymetallic nodules was carried out in 1970. Since then a number of small-scale commercial test mining or scientific disturbance studies have been carried out. Here we evaluate changes in faunal densities and diversity of benthic communities measured in response to these 11 simulated or test nodule mining disturbances using meta-analysis techniques. We find that impacts are often severe immediately after mining, with major negative changes in density and diversity of most groups occurring. However, in some cases, the mobile fauna and small-sized fauna experienced less negative impacts over the longer term. At seven sites in the Pacific, multiple surveys assessed recovery in fauna over periods of up to 26 years. Almost all studies show some recovery in faunal density and diversity for meiofauna and mobile megafauna, often within one year. However, very few faunal groups return to baseline or control conditions after two decades. The effects of polymetallic nodule mining are likely to be long term. Our analyses show considerable negative biological effects of seafloor nodule mining, even at the small scale of test mining experiments, although there is variation in sensitivity amongst organisms of different sizes and functional groups, which have important implications for ecosystem responses. Unfortunately, many past studies have limitations that reduce their effectiveness in determining responses. We provide recommendations to improve future mining impact test studies. Further research to assess the effects of test-mining activities will inform ways to improve mining practices and guide effective environmental management of mining activities.

Biological responses to disturbance from simulated deep-sea polymetallic nodule mining

PubMed Central

Kaiser, Stefanie; Sweetman, Andrew K.; Smith, Craig R.; Menot, Lenaick; Vink, Annemiek; Trueblood, Dwight; Greinert, Jens; Billett, David S. M.; Arbizu, Pedro Martinez; Radziejewska, Teresa; Singh, Ravail; Ingole, Baban; Stratmann, Tanja; Simon-Lledó, Erik; Durden, Jennifer M.; Clark, Malcolm R.

2017-01-01

Commercial-scale mining for polymetallic nodules could have a major impact on the deep-sea environment, but the effects of these mining activities on deep-sea ecosystems are very poorly known. The first commercial test mining for polymetallic nodules was carried out in 1970. Since then a number of small-scale commercial test mining or scientific disturbance studies have been carried out. Here we evaluate changes in faunal densities and diversity of benthic communities measured in response to these 11 simulated or test nodule mining disturbances using meta-analysis techniques. We find that impacts are often severe immediately after mining, with major negative changes in density and diversity of most groups occurring. However, in some cases, the mobile fauna and small-sized fauna experienced less negative impacts over the longer term. At seven sites in the Pacific, multiple surveys assessed recovery in fauna over periods of up to 26 years. Almost all studies show some recovery in faunal density and diversity for meiofauna and mobile megafauna, often within one year. However, very few faunal groups return to baseline or control conditions after two decades. The effects of polymetallic nodule mining are likely to be long term. Our analyses show considerable negative biological effects of seafloor nodule mining, even at the small scale of test mining experiments, although there is variation in sensitivity amongst organisms of different sizes and functional groups, which have important implications for ecosystem responses. Unfortunately, many past studies have limitations that reduce their effectiveness in determining responses. We provide recommendations to improve future mining impact test studies. Further research to assess the effects of test-mining activities will inform ways to improve mining practices and guide effective environmental management of mining activities. PMID:28178346

Single-Domain Parvulins Constitute a Specific Marker for Recently Proposed Deep-Branching Archaeal Subgroups

PubMed Central

Lederer, Christoph; Heider, Dominik; van den Boom, Johannes; Hoffmann, Daniel; Mueller, Jonathan W.; Bayer, Peter

2011-01-01

Peptidyl-prolyl cis/trans isomerases (PPIases) are enzymes assisting protein folding and protein quality control in organisms of all kingdoms of life. In contrast to the other sub-classes of PPIases, the cyclophilins and the FK-506 binding proteins, little was formerly known about the parvulin type of PPIase in Archaea. Recently, the first solution structure of an archaeal parvulin, the PinA protein from Cenarchaeum symbiosum, was reported. Investigation of occurrence and frequency of PPIase sequences in numerous archaeal genomes now revealed a strong tendency for thermophilic microorganisms to reduce the number of PPIases. Single-domain parvulins were mostly found in the genomes of recently proposed deep-branching archaeal subgroups, the Thaumarchaeota and the ARMANs (archaeal Richmond Mine acidophilic nanoorganisms). Hence, we used the parvulin sequence to reclassify available archaeal metagenomic contigs, thereby, adding new members to these subgroups. A combination of genomic background analysis and phylogenetic approaches of parvulin sequences suggested that the assigned sequences belong to at least two distinct groups of Thaumarchaeota. Finally, machine learning approaches were applied to identify amino acid residues that separate archaeal and bacterial parvulin proteins from each other. When mapped onto the recent PinA solution structure, most of these positions form a cluster at one site of the protein possibly indicating a different functionality of the two groups of parvulin proteins. PMID:22065628

76 FR 65180 - Proposed Information Collection; Comment Request; Deep Seabed Mining Exploration Licenses

Federal Register 2010, 2011, 2012, 2013, 2014

2011-10-20

... Collection; Comment Request; Deep Seabed Mining Exploration Licenses AGENCY: National Oceanic and Atmospheric... documentation electronically when feasible. III. Data OMB Control Number: 0648-0145. Form Number: None. Type of... information on respondents, including through the use of automated collection techniques or other forms of...

High-speed railway real-time localization auxiliary method based on deep neural network

NASA Astrophysics Data System (ADS)

Chen, Dongjie; Zhang, Wensheng; Yang, Yang

2017-11-01

High-speed railway intelligent monitoring and management system is composed of schedule integration, geographic information, location services, and data mining technology for integration of time and space data. Assistant localization is a significant submodule of the intelligent monitoring system. In practical application, the general access is to capture the image sequences of the components by using a high-definition camera, digital image processing technique and target detection, tracking and even behavior analysis method. In this paper, we present an end-to-end character recognition method based on a deep CNN network called YOLO-toc for high-speed railway pillar plate number. Different from other deep CNNs, YOLO-toc is an end-to-end multi-target detection framework, furthermore, it exhibits a state-of-art performance on real-time detection with a nearly 50fps achieved on GPU (GTX960). Finally, we realize a real-time but high-accuracy pillar plate number recognition system and integrate natural scene OCR into a dedicated classification YOLO-toc model.

SEASAT economic assessment. Volume 4: Ocean mining case study and generalization. [economic benefits of SEASAT satellites for mineral exploration

NASA Technical Reports Server (NTRS)

1975-01-01

The results of a study of the weather sensitive features of near shore and deep water ocean mining industries are described. Problems with the evaluation of economic benefits for the deep water ocean mining industry are attributed to the relative immaturity and highly proprietary nature of the industry. Case studies on the gold industry, diamond industry, tin industry and sand and gravel industry are cited.

HSA: a heuristic splice alignment tool.

PubMed

Bu, Jingde; Chi, Xuebin; Jin, Zhong

2013-01-01

RNA-Seq methodology is a revolutionary transcriptomics sequencing technology, which is the representative of Next generation Sequencing (NGS). With the high throughput sequencing of RNA-Seq, we can acquire much more information like differential expression and novel splice variants from deep sequence analysis and data mining. But the short read length brings a great challenge to alignment, especially when the reads span two or more exons. A two steps heuristic splice alignment tool is generated in this investigation. First, map raw reads to reference with unspliced aligner--BWA; second, split initial unmapped reads into three equal short reads (seeds), align each seed to the reference, filter hits, search possible split position of read and extend hits to a complete match. Compare with other splice alignment tools like SOAPsplice and Tophat2, HSA has a better performance in call rate and efficiency, but its results do not as accurate as the other software to some extent. HSA is an effective spliced aligner of RNA-Seq reads mapping, which is available at https://github.com/vlcc/HSA.

Exploring single nucleotide polymorphism (SNP), microsatellite (SSR) and differentially expressed genes in the jellyfish (Rhopilema esculentum) by transcriptome sequencing.

PubMed

Li, Yunfeng; Zhou, Zunchun; Tian, Meilin; Tian, Yi; Dong, Ying; Li, Shilei; Liu, Weidong; He, Chongbo

2017-08-01

In this study, single nucleotide polymorphism (SNP), microsatellite (SSR) and differentially expressed genes (DEGs) in the oral parts, gonads, and umbrella parts of the jellyfish Rhopilema esculentum were analyzed by RNA-Seq technology. A total of 76.4 million raw reads and 72.1 million clean reads were generated from deep sequencing. Approximately 119,874 tentative unigenes and 149,239 transcripts were obtained. A total of 1,034,708 SNP markers were detected in the three tissues. For microsatellite mining, 5088 SSRs were identified from the unigene sequences. The most frequent repeat motifs were mononucleotide repeats, which accounted for 61.93%. Transcriptome comparison of the three tissues yielded a total of 8841 DEGs, of which 3560 were up-regulated and 5281 were down-regulated. This study represents the greatest sequencing effort carried out for a jellyfish and provides the first high-throughput transcriptomic resource for jellyfish. Copyright © 2017 Elsevier B.V. All rights reserved.

15 CFR 970.601 - Logical mining unit.

Code of Federal Regulations, 2014 CFR

2014-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Resource Development Concepts § 970.601 Logical mining unit. (a) In the case of an exploration license, a logical mining unit is an... 15 Commerce and Foreign Trade 3 2014-01-01 2014-01-01 false Logical mining unit. 970.601 Section...

15 CFR 970.601 - Logical mining unit.

Code of Federal Regulations, 2013 CFR

2013-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Resource Development Concepts § 970.601 Logical mining unit. (a) In the case of an exploration license, a logical mining unit is an... 15 Commerce and Foreign Trade 3 2013-01-01 2013-01-01 false Logical mining unit. 970.601 Section...

15 CFR 970.601 - Logical mining unit.

Code of Federal Regulations, 2012 CFR

2012-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Resource Development Concepts § 970.601 Logical mining unit. (a) In the case of an exploration license, a logical mining unit is an... 15 Commerce and Foreign Trade 3 2012-01-01 2012-01-01 false Logical mining unit. 970.601 Section...

15 CFR 970.601 - Logical mining unit.

Code of Federal Regulations, 2010 CFR

2010-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Resource Development Concepts § 970.601 Logical mining unit. (a) In the case of an exploration license, a logical mining unit is an... 15 Commerce and Foreign Trade 3 2010-01-01 2010-01-01 false Logical mining unit. 970.601 Section...

15 CFR 970.601 - Logical mining unit.

Code of Federal Regulations, 2011 CFR

2011-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Resource Development Concepts § 970.601 Logical mining unit. (a) In the case of an exploration license, a logical mining unit is an... 15 Commerce and Foreign Trade 3 2011-01-01 2011-01-01 false Logical mining unit. 970.601 Section...

Predicting temporal changes in total iron concentrations in groundwaters flowing from abandoned deep mines: a first approximation

NASA Astrophysics Data System (ADS)

Younger, Paul L.

2000-06-01

Discharges of contaminated groundwater from abandoned deep mines are a major environmental problem in many parts of the world. While process-based models of pollutant generation have been successfully developed for certain surface mines and waste rock piles of relatively simple geometry and limited areal extent, such models are not readily applicable to large systems of laterally extensive, interconnected, abandoned deep mines. As a first approximation for such systems, hydrological and lithological factors, which can reasonably be expected to influence pollutant release, have been assessed by empirically assessing data from 81 abandoned deep coal mine discharges in the UK. These data demonstrate that after flooding of a deep mine is complete and groundwater begins to migrate from the mine voids into surface waters or adjoining aquifers, flushing of the mine voids by fresh recharge results in a gradual improvement in the quality of groundwater (principally manifested as decreasing Fe concentrations and stabilisation of pH around 7). Alternative representations of the flushing process have been examined. While elegant analytical solutions of the advection-dispersion equation can be made to mimic the changes in iron concentration, parameterisation is tendentious in practice. Scrutiny of the UK data suggest that to a first approximation, the duration of the main period of flushing can be predicted to endure around four times as long as the foregoing process of mine flooding. Short- and long-term iron concentrations (i.e. at the start of the main period of flushing and after its completion, respectively) can be estimated from the sulphur content of the worked strata. If strata composition data are unavailable, some indication of pollution potential can be obtained from considerations of the proximity of worked strata to marine beds (which typically have high pyrite contents). The long-term concentrations of iron in a particular discharge can also be approximated on the basis of the proximity of the discharge location to the outcrop of the most closely associated coal seam (MCACS) and, thus, to zones of possible ongoing pyrite oxidation. The practical application of these simple predictive techniques is facilitated by means of a flowchart.

Earth Science Research at the Homestake Deep Underground Science and Engineering Laboratory

NASA Astrophysics Data System (ADS)

Roggenthen, W.; Wang, J.

2004-12-01

The Homestake Mine in South Dakota ceased gold production in 2002 and was sealed for entry in 2003. The announcement of mine closure triggered the revival of a national initiative to establish a deep underground facility, currently known as the Deep Underground Science and Engineering Laboratory (DUSEL). The National Science Foundation announced that solicitations were to be issued in 2004 and 2005, with the first one (known as S-1) issued in June, 2004. The focus of S-1 is on site non-specific technical requirements to define the scientific program at DUSEL. Earth scientists and physicists participated in an S-1 workshop at Berkeley in August, 2004. This abstract presents the prospects of the Homestake Mine to accommodate the earth science scientific programs defined at the S-1 workshop. The Homestake Mine has hundreds of kilometers of drifts over fifty levels accessible (upon mine reopening) for water evaluation, seepage quantification, seismic monitoring, geophysical imaging, geological mapping, mineral sampling, ecology and geo-microbiology. The extensive network of drifts, ramps, and vertical shafts allows installation of 10-kilometer-scale seismograph and electromagnetic networks. Ramps connecting different levels, typically separated by 150 ft, could be instrumented for flow and transport studies, prior to implementation of coupled thermal-hydro-chemical-mechanical-biological processes testing. Numerous large rooms are available for ecological and introduced-material evaluations. Ideas for installing instruments in cubic kilometers of rock mass can be realized over multiple levels. Environmental assessment, petroleum recovery, carbon sequestration were among the applications discussed in the S-1 workshop. If the Homestake Mine can be expediently reopened, earth scientists are ready to perform important tests with a phased approach. The drifts and ramps directly below the large open pit could be the first area for shallow testing. The 4,850 ft level is the next target area, which has a large lateral extent. Geophysical sensor stations could be installed at this level, together with stations along two main shafts accessing this level, and one winze below. After dewatering, rock mechanics and geotechnical engineering investigators could actively participate in room siting and excavation, at depths up to 8,000 ft. Geochemistry and geo-microbiology scientists would prefer additional drilling in deep zones beyond the mining and flooding perturbations. Additional earth science programs are being developed for the Homestake Mine, utilizing multiple levels and shafts. Many physics experiments require a site "as deep as possible" and special conditions to reduce background and cosmic rays. The Homestake Mine offers a very deep site and a vast amount of data and knowledge associated with its 125 years of mining operation. The cores from exploratory drilling into a mechanical strong unit, the Yates Formation, are available for scientific and engineering evaluations. A team from many institutions is being formed by Kevin Lesko, a neutrino scientist with experience in detecting neutrino oscillations with deep detectors in Canada and Japan. It is time for the United States to establish a DUSEL deep and large enough for next-generation physics and earth science long-term experiments. The Homestake Mine has these necessary attributes. The collaboration welcomes participation and contribution from scientists and engineers in the physics and earth science community for multi-disciplinary research during and after the restoration and conversion of the Homestake Mine.

The spatial-temporal evolution law of microseismic activities in the failure process of deep rock masses

NASA Astrophysics Data System (ADS)

Yuan-hui, Li; Gang, Lei; Shi-da, Xu; Da-wei, Wu

2018-07-01

Under high stress and blasting disturbance, the failure of deep rock masses is a complex, dynamic evolutionary process. To reveal the relation between macroscopic failure of deep rock masses and spatial-temporal evolution law of micro-cracking within, the initiation, extension, and connection of micro-cracks under blasting disturbance and the deformation and failure mechanism of deep rock masses were studied. The investigation was carried out using the microseismic (MS) monitoring system established in the deep mining area of Ashele Copper Mine (Xinjiang Uygur Autonomous Region, China). The results showed that the failure of the deep rock masses is a dynamic process accompanied with stress release and stress adjustment. It is not only related to the blasting-based mining, but also associated with zones of stress concentration formed due to the mining. In that space, the concentrated area in the cloud chart for the distribution of MS event density before failure of the rocks shows the basically same pattern with the damaged rocks obtained through scanning of mined-out areas, which indicates that the cloud chart can be used to determine potential risk areas of rocks in the spatial domain. In the time domain, relevant parameters of MS events presented different changes before the failure of the rocks: the energy index decreased while the cumulative apparent volume gradually increased, the magnitude distribution of microseismic events decreased rapidly, and the fractal dimension decreased at first and then remained stable. This demonstrates that the different changes in relevant MS parameters allow researchers to predict the failure time of the rocks. By analysing the dynamic evolution process of the failure of the deep rock masses, areas at potential risk can be predicted spatially and temporally. The result provides guidance for those involved in the safe production and management of underground engineering and establishes a theoretical basis for the study on the stability of deep rock masses.

A Global Survey and Interactive Map Suite of Deep Underground Facilities; Examples of Geotechnical and Engineering Capabilities, Achievements, Challenges: (Mines, Shafts, Tunnels, Boreholes, Sites and Underground Facilities for Nuclear Waste and Physics R&D)

NASA Astrophysics Data System (ADS)

Tynan, M. C.; Russell, G. P.; Perry, F.; Kelley, R.; Champenois, S. T.

2017-12-01

This global survey presents a synthesis of some notable geotechnical and engineering information reflected in four interactive layer maps for selected: 1) deep mines and shafts; 2) existing, considered or planned radioactive waste management deep underground studies, sites, or disposal facilities; 3) deep large diameter boreholes, and 4) physics underground laboratories and facilities from around the world. These data are intended to facilitate user access to basic information and references regarding deep underground "facilities", history, activities, and plans. In general, the interactive maps and database [http://gis.inl.gov/globalsites/] provide each facility's approximate site location, geology, and engineered features (e.g.: access, geometry, depth, diameter, year of operations, groundwater, lithology, host unit name and age, basin; operator, management organization, geographic data, nearby cultural features, other). Although the survey is not all encompassing, it is a comprehensive review of many of the significant existing and historical underground facilities discussed in the literature addressing radioactive waste management and deep mined geologic disposal safety systems. The global survey is intended to support and to inform: 1) interested parties and decision makers; 2) radioactive waste disposal and siting option evaluations, and 3) safety case development as a communication tool applicable to any mined geologic disposal facility as a demonstration of historical and current engineering and geotechnical capabilities available for use in deep underground facility siting, planning, construction, operations and monitoring.

Numerical modeling analysis of stress transfer modification concepts for deep longwall mines. Report of investigations/1995

DOE Office of Scientific and Technical Information (OSTI.GOV)

Vandergrift, T.L.; Jude, C.V.

1995-12-31

This U.S. Bureau of Mines (USBM) report evaluates three stress-transfer-modification concepts for their potential in reducing longwall gate road stresses and closures. In each of the three concepts--packwalling, gob infilling, and entry filling--support structures are constructed on the headgate side of the panel parallel with or inby the face line. When the headgate becomes the tailgate of the adjacent panel, these structures are in place to accept stresses transferred from the mined-out panel. Using the USBM nonlinear boundary-element program MULSIM/NL, baseline models of typical longwall stress transfer behavior were developed for both intermediate depth and deep mining conditions. These modelsmore » were verified by comparing model results with field measurements and observations. The stress-transfer-modification concepts were then incorporated into the deep baseline model to quantify the effects of each concept on tailgate closure.« less

EVIDENCE FOR METAL ATTENUATION IN ACID MINE WATER BY SULFATE REDUCTION, PENN MINE, CALAVERAS COUNTY, CALIFORNIA

EPA Science Inventory

The Penn Mine in Calaveras County, California, produced Cu from massive sulfide ores from 1861 to 1953. Mine wastes were removed to a landfill during the late 1990s, improving surface-water quality, but deep mine workings were not remediated and contain metalliferous water with p...

String Mining in Bioinformatics

NASA Astrophysics Data System (ADS)

Abouelhoda, Mohamed; Ghanem, Moustafa

Sequence analysis is a major area in bioinformatics encompassing the methods and techniques for studying the biological sequences, DNA, RNA, and proteins, on the linear structure level. The focus of this area is generally on the identification of intra- and inter-molecular similarities. Identifying intra-molecular similarities boils down to detecting repeated segments within a given sequence, while identifying inter-molecular similarities amounts to spotting common segments among two or multiple sequences. From a data mining point of view, sequence analysis is nothing but string- or pattern mining specific to biological strings. For a long time, this point of view, however, has not been explicitly embraced neither in the data mining nor in the sequence analysis text books, which may be attributed to the co-evolution of the two apparently independent fields. In other words, although the word "data-mining" is almost missing in the sequence analysis literature, its basic concepts have been implicitly applied. Interestingly, recent research in biological sequence analysis introduced efficient solutions to many problems in data mining, such as querying and analyzing time series [49,53], extracting information from web pages [20], fighting spam mails [50], detecting plagiarism [22], and spotting duplications in software systems [14].

Ecological impacts of large-scale disposal of mining waste in the deep sea

PubMed Central

Hughes, David J.; Shimmield, Tracy M.; Black, Kenneth D.; Howe, John A.

2015-01-01

Deep-Sea Tailings Placement (DSTP) from terrestrial mines is one of several large-scale industrial activities now taking place in the deep sea. The scale and persistence of its impacts on seabed biota are unknown. We sampled around the Lihir and Misima island mines in Papua New Guinea to measure the impacts of ongoing DSTP and assess the state of benthic infaunal communities after its conclusion. At Lihir, where DSTP has operated continuously since 1996, abundance of sediment infauna was substantially reduced across the sampled depth range (800–2020 m), accompanied by changes in higher-taxon community structure, in comparison with unimpacted reference stations. At Misima, where DSTP took place for 15 years, ending in 2004, effects on community composition persisted 3.5 years after its conclusion. Active tailings deposition has severe impacts on deep-sea infaunal communities and these impacts are detectable at a coarse level of taxonomic resolution. PMID:25939397

Ecological impacts of large-scale disposal of mining waste in the deep sea.

PubMed

Hughes, David J; Shimmield, Tracy M; Black, Kenneth D; Howe, John A

2015-05-05

Deep-Sea Tailings Placement (DSTP) from terrestrial mines is one of several large-scale industrial activities now taking place in the deep sea. The scale and persistence of its impacts on seabed biota are unknown. We sampled around the Lihir and Misima island mines in Papua New Guinea to measure the impacts of ongoing DSTP and assess the state of benthic infaunal communities after its conclusion. At Lihir, where DSTP has operated continuously since 1996, abundance of sediment infauna was substantially reduced across the sampled depth range (800-2020 m), accompanied by changes in higher-taxon community structure, in comparison with unimpacted reference stations. At Misima, where DSTP took place for 15 years, ending in 2004, effects on community composition persisted 3.5 years after its conclusion. Active tailings deposition has severe impacts on deep-sea infaunal communities and these impacts are detectable at a coarse level of taxonomic resolution.

Association mining of dependency between time series

NASA Astrophysics Data System (ADS)

Hafez, Alaaeldin

2001-03-01

Time series analysis is considered as a crucial component of strategic control over a broad variety of disciplines in business, science and engineering. Time series data is a sequence of observations collected over intervals of time. Each time series describes a phenomenon as a function of time. Analysis on time series data includes discovering trends (or patterns) in a time series sequence. In the last few years, data mining has emerged and been recognized as a new technology for data analysis. Data Mining is the process of discovering potentially valuable patterns, associations, trends, sequences and dependencies in data. Data mining techniques can discover information that many traditional business analysis and statistical techniques fail to deliver. In this paper, we adapt and innovate data mining techniques to analyze time series data. By using data mining techniques, maximal frequent patterns are discovered and used in predicting future sequences or trends, where trends describe the behavior of a sequence. In order to include different types of time series (e.g. irregular and non- systematic), we consider past frequent patterns of the same time sequences (local patterns) and of other dependent time sequences (global patterns). We use the word 'dependent' instead of the word 'similar' for emphasis on real life time series where two time series sequences could be completely different (in values, shapes, etc.), but they still react to the same conditions in a dependent way. In this paper, we propose the Dependence Mining Technique that could be used in predicting time series sequences. The proposed technique consists of three phases: (a) for all time series sequences, generate their trend sequences, (b) discover maximal frequent trend patterns, generate pattern vectors (to keep information of frequent trend patterns), use trend pattern vectors to predict future time series sequences.

Method for gasification of deep, thin coal seams. [DOE patent

DOEpatents

Gregg, D.W.

1980-08-29

A method of gasification of coal in deep, thin seams by using controlled bending subsidence to confine gas flow to a region close to the unconsumed coal face is given. The injection point is moved sequentially around the perimeter of a coal removal area from a production well to sweep out the area to cause the controlled bending subsidence. The injection holes are drilled vertically into the coal seam through the overburden or horizontally into the seam from an exposed coal face. The method is particularly applicable to deep, thin seams found in the eastern United States and at abandoned strip mines where thin seams were surface mined into a hillside or down a modest dip until the overburden became too thick for further mining.

Method for gasification of deep, thin coal seams

DOEpatents

Gregg, David W.

1982-01-01

A method of gasification of coal in deep, thin seams by using controlled bending subsidence to confine gas flow to a region close to the unconsumed coal face. The injection point is moved sequentially around the perimeter of a coal removal area from a production well to sweep out the area to cause the controlled bending subsidence. The injection holes are drilled vertically into the coal seam through the overburden or horizontally into the seam from an exposed coal face. The method is particularly applicable to deep, thin seams found in the eastern United States and at abandoned strip mines where thin seams were surface mined into a hillside or down a modest dip until the overburden became too thick for further mining.

RNA-Seq analysis of yak ovary: improving yak gene structure information and mining reproduction-related genes.

PubMed

Lan, DaoLiang; Xiong, XianRong; Wei, YanLi; Xu, Tong; Zhong, JinCheng; Zhi, XiangDong; Wang, Yong; Li, Jian

2014-09-01

RNA-Seq, a high-throughput (HT) sequencing technique, has been used effectively in large-scale transcriptomic studies, and is particularly useful for improving gene structure information and mining of new genes. In this study, RNA-Seq HT technology was employed to analyze the transcriptome of yak ovary. After Illumina-Solexa deep sequencing, 26826516 clean reads with a total of 4828772880 bp were obtained from the ovary library. Alignment analysis showed that 16992 yak genes mapped to the yak genome and 3734 of these genes were involved in alternative splicing. Gene structure refinement analysis showed that 7340 genes that were annotated in the yak genome could be extended at the 5' or 3' ends based on the alignments been the transcripts and the genome sequence. Novel transcript prediction analysis identified 6321 new transcripts with lengths ranging from 180 to 14884 bp, and 2267 of them were predicted to code proteins. BLAST analysis of the new transcripts showed that 1200?4933 mapped to the non-redundant (nr), nucleotide (nt) and/or SwissProt sequence databases. Comparative statistical analysis of the new mapped transcripts showed that the majority of them were similar to genes in Bos taurus (41.4%), Bos grunniens mutus (33.0%), Ovis aries (6.3%), Homo sapiens (2.8%), Mus musculus (1.6%) and other species. Functional analysis showed that these expressed genes were involved in various Gene Ontology (GO) categories and Kyoto Encyclopedia of Genes and Genomes pathways. GO analysis of the new transcripts found that the largest proportion of them was associated with reproduction. The results of this study will provide a basis for describing the normal transcriptome map of yak ovary and for future studies on yak breeding performance. Moreover, the results confirmed that RNA-Seq HT technology is highly advantageous in improving gene structure information and mining of new genes, as well as in providing valuable data to expand the yak genome information.

A Global Survey of Deep Underground Facilities; Examples of Geotechnical and Engineering Capabilities, Achievements, Challenges (Mines, Shafts, Tunnels, Boreholes, Sites and Underground Facilities for Nuclear Waste and Physics R&D): A Guide to Interactive Global Map Layers, Table Database, References and Notes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Tynan, Mark C.; Russell, Glenn P.; Perry, Frank V.

These associated tables, references, notes, and report present a synthesis of some notable geotechnical and engineering information used to create four interactive layer maps for selected: 1) deep mines and shafts; 2) existing, considered or planned radioactive waste management deep underground studies or disposal facilities 3) deep large diameter boreholes, and 4) physics underground laboratories and facilities from around the world. These data are intended to facilitate user access to basic information and references regarding “deep underground” facilities, history, activities, and plans. In general, the interactive maps and database provide each facility’s approximate site location, geology, and engineered features (e.g.:more » access, geometry, depth, diameter, year of operations, groundwater, lithology, host unit name and age, basin; operator, management organization, geographic data, nearby cultural features, other). Although the survey is not comprehensive, it is representative of many of the significant existing and historical underground facilities discussed in the literature addressing radioactive waste management and deep mined geologic disposal safety systems. The global survey is intended to support and to inform: 1) interested parties and decision makers; 2) radioactive waste disposal and siting option evaluations, and 3) safety case development applicable to any mined geologic disposal facility as a demonstration of historical and current engineering and geotechnical capabilities available for use in deep underground facility siting, planning, construction, operations and monitoring.« less

15 CFR 971.501 - Resource assessment, recovery plan, and logical mining unit.

Code of Federal Regulations, 2010 CFR

2010-01-01

..., and logical mining unit. 971.501 Section 971.501 Commerce and Foreign Trade Regulations Relating to... COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR... mining unit. (a) The applicant must submit with the application a resource assessment to provide a basis...

15 CFR 970.600 - General.

Code of Federal Regulations, 2012 CFR

2012-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Resource Development Concepts § 970.600 General. Several provisions in the Act relate to appropriate mining techniques or mining efficiency. These...

15 CFR 970.600 - General.

Code of Federal Regulations, 2014 CFR

2014-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Resource Development Concepts § 970.600 General. Several provisions in the Act relate to appropriate mining techniques or mining efficiency. These...

15 CFR 970.600 - General.

Code of Federal Regulations, 2013 CFR

2013-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Resource Development Concepts § 970.600 General. Several provisions in the Act relate to appropriate mining techniques or mining efficiency. These...

15 CFR 971.500 - General.

Code of Federal Regulations, 2013 CFR

2013-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Resource Development § 971.500 General. Several provisions in the Act relate to appropriate mining techniques or mining efficiency. These...

15 CFR 971.500 - General.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Resource Development § 971.500 General. Several provisions in the Act relate to appropriate mining techniques or mining efficiency. These...

15 CFR 971.500 - General.

Code of Federal Regulations, 2012 CFR

2012-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Resource Development § 971.500 General. Several provisions in the Act relate to appropriate mining techniques or mining efficiency. These...

15 CFR 971.500 - General.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Resource Development § 971.500 General. Several provisions in the Act relate to appropriate mining techniques or mining efficiency. These...

15 CFR 971.500 - General.

Code of Federal Regulations, 2014 CFR

2014-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Resource Development § 971.500 General. Several provisions in the Act relate to appropriate mining techniques or mining efficiency. These...

15 CFR 970.600 - General.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Resource Development Concepts § 970.600 General. Several provisions in the Act relate to appropriate mining techniques or mining efficiency. These...

15 CFR 970.600 - General.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Resource Development Concepts § 970.600 General. Several provisions in the Act relate to appropriate mining techniques or mining efficiency. These...

Predicting the sinkage of a moving tracked mining vehicle using a new rheological formulation for soft deep-sea sediment

NASA Astrophysics Data System (ADS)

Xu, Feng; Rao, Qiuhua; Ma, Wenbo

2018-03-01

The sinkage of a moving tracked mining vehicle is greatly affected by the combined compression-shear rheological properties of soft deep-sea sediments. For test purposes, the best sediment simulant is prepared based on soft deep-sea sediment from a C-C poly-metallic nodule mining area in the Pacific Ocean. Compressive creep tests and shear creep tests are combined to obtain compressive and shear rheological parameters to establish a combined compressive-shear rheological constitutive model and a compression-sinkage rheological constitutive model. The combined compression-shear rheological sinkage of the tracked mining vehicle at different speeds is calculated using the RecurDyn software with a selfprogrammed subroutine to implement the combined compression-shear rheological constitutive model. The model results are compared with shear rheological sinkage and ordinary sinkage (without consideration of rheological properties). These results show that the combined compression-shear rheological constitutive model must be taken into account when calculating the sinkage of a tracked mining vehicle. The combined compression-shear rheological sinkage decrease with vehicle speed and is the largest among the three types of sinkage. The developed subroutine in the RecurDyn software can be used to study the performance and structural optimization of moving tracked mining vehicles.

Hydrogeology of the vicinity of Homestake mine, South Dakota, USA

NASA Astrophysics Data System (ADS)

Murdoch, Larry C.; Germanovich, Leonid N.; Wang, Herb; Onstott, T. C.; Elsworth, Derek; Stetler, Larry; Boutt, David

2012-02-01

The former Homestake mine in South Dakota (USA) cuts fractured metamorphic rock over a region several km2 in plan, and plunges to the SE to a depth of 2.4 km. Numerical simulations of the development and dewatering of the mine workings are based on idealizing the mine-workings system as two overlapping continua, one representing the open drifts and the other representing the host rock with hydrologic properties that vary with effective stress. Equating macroscopic hydrologic properties with characteristics of deformable fractures allows the number of parameters to be reduced, and it provides a physically based justification for changes in properties with depth. The simulations explain important observations, including the co-existence of shallow and deep flow systems, the total dewatering flow rate, the spatial distribution of in-flow, and the magnitude of porosity in the mine workings. The analysis indicates that a deep flow system induced by ~125 years of mining is contained within a surface-truncated ellipsoid roughly 8 km by 4 km in plan view and 5.5 km deep with its long-axis aligned to the strike of the workings. Groundwater flow into the southern side of the workings is characterized by short travel times from the ground surface, whereas flow into the northern side and at depth consists of old water removed from storage.

Understanding social collaboration between actors and technology in an automated and digitised deep mining environment.

PubMed

Sanda, M-A; Johansson, J; Johansson, B; Abrahamsson, L

2011-10-01

The purpose of this article is to develop knowledge and learning on the best way to automate organisational activities in deep mines that could lead to the creation of harmony between the human, technical and the social system, towards increased productivity. The findings showed that though the introduction of high-level technological tools in the work environment disrupted the social relations developed over time amongst the employees in most situations, the technological tools themselves became substitute social collaborative partners to the employees. It is concluded that, in developing a digitised mining production system, knowledge of the social collaboration between the humans (miners) and the technology they use for their work must be developed. By implication, knowledge of the human's subject-oriented and object-oriented activities should be considered as an important integral resource for developing a better technological, organisational and human interactive subsystem when designing the intelligent automation and digitisation systems for deep mines. STATEMENT OF RELEVANCE: This study focused on understanding the social collaboration between humans and the technologies they use to work in underground mines. The learning provides an added knowledge in designing technologies and work organisations that could better enhance the human-technology interactive and collaborative system in the automation and digitisation of underground mines.

Stratification-Based Outlier Detection over the Deep Web.

PubMed

Xian, Xuefeng; Zhao, Pengpeng; Sheng, Victor S; Fang, Ligang; Gu, Caidong; Yang, Yuanfeng; Cui, Zhiming

2016-01-01

For many applications, finding rare instances or outliers can be more interesting than finding common patterns. Existing work in outlier detection never considers the context of deep web. In this paper, we argue that, for many scenarios, it is more meaningful to detect outliers over deep web. In the context of deep web, users must submit queries through a query interface to retrieve corresponding data. Therefore, traditional data mining methods cannot be directly applied. The primary contribution of this paper is to develop a new data mining method for outlier detection over deep web. In our approach, the query space of a deep web data source is stratified based on a pilot sample. Neighborhood sampling and uncertainty sampling are developed in this paper with the goal of improving recall and precision based on stratification. Finally, a careful performance evaluation of our algorithm confirms that our approach can effectively detect outliers in deep web.

Stratification-Based Outlier Detection over the Deep Web

PubMed Central

Xian, Xuefeng; Zhao, Pengpeng; Sheng, Victor S.; Fang, Ligang; Gu, Caidong; Yang, Yuanfeng; Cui, Zhiming

2016-01-01

For many applications, finding rare instances or outliers can be more interesting than finding common patterns. Existing work in outlier detection never considers the context of deep web. In this paper, we argue that, for many scenarios, it is more meaningful to detect outliers over deep web. In the context of deep web, users must submit queries through a query interface to retrieve corresponding data. Therefore, traditional data mining methods cannot be directly applied. The primary contribution of this paper is to develop a new data mining method for outlier detection over deep web. In our approach, the query space of a deep web data source is stratified based on a pilot sample. Neighborhood sampling and uncertainty sampling are developed in this paper with the goal of improving recall and precision based on stratification. Finally, a careful performance evaluation of our algorithm confirms that our approach can effectively detect outliers in deep web. PMID:27313603

SPMBR: a scalable algorithm for mining sequential patterns based on bitmaps

NASA Astrophysics Data System (ADS)

Xu, Xiwei; Zhang, Changhai

2013-12-01

Now some sequential patterns mining algorithms generate too many candidate sequences, and increase the processing cost of support counting. Therefore, we present an effective and scalable algorithm called SPMBR (Sequential Patterns Mining based on Bitmap Representation) to solve the problem of mining the sequential patterns for large databases. Our method differs from previous related works of mining sequential patterns. The main difference is that the database of sequential patterns is represented by bitmaps, and a simplified bitmap structure is presented firstly. In this paper, First the algorithm generate candidate sequences by SE(Sequence Extension) and IE(Item Extension), and then obtain all frequent sequences by comparing the original bitmap and the extended item bitmap .This method could simplify the problem of mining the sequential patterns and avoid the high processing cost of support counting. Both theories and experiments indicate that the performance of SPMBR is predominant for large transaction databases, the required memory size for storing temporal data is much less during mining process, and all sequential patterns can be mined with feasibility.

78 FR 42977 - Petitions for Modification of Application of Existing Mandatory Safety Standards

Federal Register 2010, 2011, 2012, 2013, 2014

2013-07-18

...-008-M. Petitioner: U.S. Silver Idaho, Inc., 1801 California Street, Suite 4900, Denver, Colorado 80202... Limited, 1801 California Street, Suite 4900, Denver, Colorado 80202. Mine: Lucky Friday Mine, MSHA I.D. No... ribs' structure stability. (1) The Gold Hunter portion of the Lucky Friday mine is a deep mining...

Numerical Study on 4-1 Coal Seam of Xiaoming Mine in Ascending Mining

PubMed Central

Tianwei, Lan; Hongwei, Zhang; Sheng, Li; Weihua, Song; Batugin, A. C.; Guoshui, Tang

2015-01-01

Coal seams ascending mining technology is very significant, since it influences the safety production and the liberation of dull coal, speeds up the construction of energy, improves the stability of stope, and reduces or avoids deep hard rock mining induced mine disaster. Combined with the Xiaoming ascending mining mine 4-1, by numerical calculation, the paper analyses ascending mining 4-1 factors, determines the feasibility of ascending mining 4-1 coalbed, and proposes roadway layout program about working face, which has broad economic and social benefits. PMID:25866840

String Mining in Bioinformatics

NASA Astrophysics Data System (ADS)

Abouelhoda, Mohamed; Ghanem, Moustafa

Sequence analysis is a major area in bioinformatics encompassing the methods and techniques for studying the biological sequences, DNA, RNA, and proteins, on the linear structure level. The focus of this area is generally on the identification of intra- and inter-molecular similarities. Identifying intra-molecular similarities boils down to detecting repeated segments within a given sequence, while identifying inter-molecular similarities amounts to spotting common segments among two or multiple sequences. From a data mining point of view, sequence analysis is nothing but string- or pattern mining specific to biological strings. For a long time, this point of view, however, has not been explicitly embraced neither in the data mining nor in the sequence analysis text books, which may be attributed to the co-evolution of the two apparently independent fields. In other words, although the word “data-mining” is almost missing in the sequence analysis literature, its basic concepts have been implicitly applied. Interestingly, recent research in biological sequence analysis introduced efficient solutions to many problems in data mining, such as querying and analyzing time series [49,53], extracting information from web pages [20], fighting spam mails [50], detecting plagiarism [22], and spotting duplications in software systems [14].

A Conceptual Hydrogeologic Model of the Vicinity of DUSEL Homestake

NASA Astrophysics Data System (ADS)

Murdoch, L. C.; Germanovich, L. N.; Boutt, D. F.; Kieft, T. L.; Wang, H. F.; Onstott, T. C.

2009-12-01

The Deep Underground Science and Engineering Laboratory (DUSEL) is a research facility planned to occupy the workings of the former Homestake gold mine in the northern Black Hills, South Dakota. The hydrogeology was of minor importance to locating and recovering gold ore, so it was overlooked during mining and is relatively unknown. This knowledge gap hinders planning of the Deep EcoHydrology Experiment at DUSEL and motivated the work described here. The conceptual hydrogeologic model is characterized by permeability that is assumed to be anisotropic and controlled by regional foliation, which strikes approximately N20W and dips steeply to the NE. Permeability is on the order of 0.1 mD in fresh rock, but increases to roughly 100 mD at shallow depths. The permeability distribution is assumed to result from unloading of the foliated rock, and a simple model of stress-dependence explains the permeability distribution and suggests that the more permeable zone is on the order of ~100 m thick. A stream hydrograph from Whitetail Creek (station 06436156) was analyzed to estimate recharge flux and the result indicates an average value of approximately 5 x 10-9 m/s. A numerical model of the vicinity of the mine was developed by representing the mine workings as a dual- porosity inclusion embedded in a single-porosity, anisotropic material. The extent of the dual-porosity medium was advanced downward based on the mining records and the hydraulic head within the material representing the mine workings was adjusted to represent filling and draining of the workings. The results suggest that the groundwater is characterized by a shallow flow system of distributed recharge that mostly discharges to nearby streams. The mine itself acts like a large sink that moves downward and to the southeast during mining, and then is controlled by variations in pumping rate once the mine reaches its greatest depth. The deep flow system consists of (i) a zone of relatively rapid flow from the ground surface to the mine workings overlying the southern part of the mine, and (ii) a much larger ellipsoidal zone extending up to several km from the workings where water has been removed from storage. Maximum downward fluxes in the deep system are less than the recharge rate because flow occurs at unit head gradient and the permeability of the rock is relatively low (~0.1 mD). This explains why dewatering has negligible impact on overlying streams and suggests that the regional water table remains within the shallow flow system. The results also indicate that water on the southern side of the mine is probably quite young (<~1 yr) and influenced by recent recharge, whereas water on the north side is much older and affected by removal from storage in deep pore space. The observed dewatering rate at the mine can be explained without requiring additional inflow from a large open pit or other surficial workings.

Text feature extraction based on deep learning: a review.

PubMed

Liang, Hong; Sun, Xiao; Sun, Yunlei; Gao, Yuan

2017-01-01

Selection of text feature item is a basic and important matter for text mining and information retrieval. Traditional methods of feature extraction require handcrafted features. To hand-design, an effective feature is a lengthy process, but aiming at new applications, deep learning enables to acquire new effective feature representation from training data. As a new feature extraction method, deep learning has made achievements in text mining. The major difference between deep learning and conventional methods is that deep learning automatically learns features from big data, instead of adopting handcrafted features, which mainly depends on priori knowledge of designers and is highly impossible to take the advantage of big data. Deep learning can automatically learn feature representation from big data, including millions of parameters. This thesis outlines the common methods used in text feature extraction first, and then expands frequently used deep learning methods in text feature extraction and its applications, and forecasts the application of deep learning in feature extraction.

Habitability from the Surface to the Deep

NASA Astrophysics Data System (ADS)

Cox, A. D.; Schmidt, R.; Dahlquist, G. R.; Foster, J.; Dillard, M.

2016-12-01

Merging aqueous geochemical parameters of habitability with microbial identity and activity will help determine microbial contributions to observed water-rock reactions in surface to deep environments. To determine habitability for microbial life and decipher mechanisms by which microbes survive and perform chemical reactions, over one hundred sites in diverse geological and geochemical environs have been sampled for aqueous geochemistry, mineralogy, and microbial identity and activity. Sites ranged from surficial creeks and rivers to the flooded mine shafts beneath to hydrothermal features in the caldera of a supervolcano 250 km distant; these environments contain metal scarcity, extreme anoxia, and wide variations in metal, organic carbon, and oxygen scarcity, respectively. Aqueous geochemistry included in situ measurement of temperature, pH, conductivity, and dissolved oxygen by meters; field spectrophotometry for redox active species; and synchronous sample collection and preservation for water isotopes, major cations and anions, trace elements, and dissolved inorganic and organic carbon, and more. Concurrent collection and preservation of planktonic and sediment biomass at each site will allow for microbial community identification and assessment of microbial activity. DNA extraction and PCR amplification using universal, eukaryotic, bacterial, and archaeal small subunit ribosomal RNA gene primers yielded products for sequencing. For many of the aqueous geochemical parameters analyzed, including Li and B, concentrations in flooded mine shafts fell on a continuum directly between local surface waters and those resulting from hydrothermal alteration suggesting an intermediate level of water-rock interaction in flooded mine shaft habitats. Concentrations of Li and B ranged from low micromolal in surface waters to millimolal in thermal waters. Other elements - Fe, Mn, Zn, and As included - were enriched in anoxic mine shafts by three to four orders of magnitude, due to exposure to and reaction with minerals. Concentrations of Fe and Zn ranged up to tens of millimolal whereas millimolal Mn and submillimolal As concentrations were reached. The transition from mostly unreacted surface water to waters nearly in equilibrium with rock provides vast geochemical habitat for microbes to exploit.

15 CFR 971.202 - Statement of technological experience and capabilities.

Code of Federal Regulations, 2012 CFR

2012-01-01

... GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL... results to commercial mining. The more test data offered with the application the less analysis will be... step in the mining process, including nodule collection, retrieval, transfer to ship, environmental...

15 CFR 971.202 - Statement of technological experience and capabilities.

Code of Federal Regulations, 2011 CFR

2011-01-01

... GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL... results to commercial mining. The more test data offered with the application the less analysis will be... step in the mining process, including nodule collection, retrieval, transfer to ship, environmental...

15 CFR 971.202 - Statement of technological experience and capabilities.

Code of Federal Regulations, 2010 CFR

2010-01-01

... GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL... results to commercial mining. The more test data offered with the application the less analysis will be... step in the mining process, including nodule collection, retrieval, transfer to ship, environmental...

15 CFR 970.203 - Exploration plan.

Code of Federal Regulations, 2013 CFR

2013-01-01

... DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970.203...; (iii) Designing and testing system components onshore and at sea; (iv) Designing and testing mining...

15 CFR 970.203 - Exploration plan.

Code of Federal Regulations, 2014 CFR

2014-01-01

... DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970.203...; (iii) Designing and testing system components onshore and at sea; (iv) Designing and testing mining...

15 CFR 970.203 - Exploration plan.

Code of Federal Regulations, 2012 CFR

2012-01-01

... DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970.203...; (iii) Designing and testing system components onshore and at sea; (iv) Designing and testing mining...

15 CFR 970.203 - Exploration plan.

Code of Federal Regulations, 2010 CFR

2010-01-01

... DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970.203...; (iii) Designing and testing system components onshore and at sea; (iv) Designing and testing mining...

15 CFR 970.203 - Exploration plan.

Code of Federal Regulations, 2011 CFR

2011-01-01

... DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970.203...; (iii) Designing and testing system components onshore and at sea; (iv) Designing and testing mining...

Stable, geochemically mediated biospheres in the Deep Mine Microbial Observatory, SD, USA

NASA Astrophysics Data System (ADS)

Osburn, M. R.; Casar, C. P.; Kruger, B.; Flynn, T. M.

2017-12-01

The terrestrial subsurface is a vast reservoir of life, hosting diverse microbial ecosystems with varying levels of connectivity to surface inputs. Understanding long term ecosystem dynamics within the subsurface biosphere is very challenging due to limitations in accessibility, sample availability, and slow microbial growth rates. The establishment of the Deep Mine Microbial Observatory (DeMMO) at the Sanford Underground Research Facility, SD, USA has allowed for bimonthly sampling for nearly two years at six sites spanning 250 to 1500 m below the surface. Here we present a time-resolved analysis of the geomicrobiology of the six DeMMO sites, which have been created from legacy mine boreholes modified to allow for controlled sampling. Our interdisciplinary approach includes analysis of passively draining fracture fluid for aqueous and gas geochemistry, DNA sequencing, microscopy, and isotopic measurements of organic and inorganic substrates. Fluid geochemistry varies significantly between sites, but is relatively stable over time for a given site, even through significant external perturbations such as drilling and installation of permanent sampling devices into the boreholes. The fluid-hosted microbial diversity follows these trends, with consistent populations present at each site through time, even through drilling events. For instance, the shallowest site (DeMMO 1) consistently hosts >30% uncharacterized phyla and >25% Omnitrophica whereas the deepest site (DeMMO 6) is dominated by Firmicutes and Bacterioidetes. Microbial diversity appears to respond to the availability of energy sources such as organic carbon, sulfate, sulfide, hydrogen, and iron. Carbon isotopic measurements reveal closed system behavior with significant recycling of organic carbon into the DIC pool. Together these observations suggest DeMMO hosts isolated subsurface microbial populations adapted to local geochemistry that are stable on yearlong timescales.

15 CFR 970.603 - Conservation of resources.

Code of Federal Regulations, 2012 CFR

2012-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Resource Development Concepts § 970.603 Conservation of resources. (a) With respect to the exploration phase of seabed mining, the... provisions only as the Administrator deems necessary. (b) NOAA views license phase mining system tests as an...

15 CFR 970.603 - Conservation of resources.

Code of Federal Regulations, 2014 CFR

2014-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Resource Development Concepts § 970.603 Conservation of resources. (a) With respect to the exploration phase of seabed mining, the... provisions only as the Administrator deems necessary. (b) NOAA views license phase mining system tests as an...

15 CFR 970.603 - Conservation of resources.

Code of Federal Regulations, 2013 CFR

2013-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Resource Development Concepts § 970.603 Conservation of resources. (a) With respect to the exploration phase of seabed mining, the... provisions only as the Administrator deems necessary. (b) NOAA views license phase mining system tests as an...

15 CFR 970.603 - Conservation of resources.

Code of Federal Regulations, 2010 CFR

2010-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Resource Development Concepts § 970.603 Conservation of resources. (a) With respect to the exploration phase of seabed mining, the... provisions only as the Administrator deems necessary. (b) NOAA views license phase mining system tests as an...

15 CFR 970.603 - Conservation of resources.

Code of Federal Regulations, 2011 CFR

2011-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Resource Development Concepts § 970.603 Conservation of resources. (a) With respect to the exploration phase of seabed mining, the... provisions only as the Administrator deems necessary. (b) NOAA views license phase mining system tests as an...

Transient states of air parameters after a stoppage and re-start of the main fan / Stany przejściowe parametrów powietrza po postoju i załączeniu wentylatora głównego

NASA Astrophysics Data System (ADS)

Wasilewski, Stanisław

2012-12-01

A stoppage of the main ventilation fan constitutes a disturbance of ventilation conditions of a deepmine and its effects can cause serious hazards by generating transient states of air and gas flow. Main ventilation fans are the basic deep-mine facilities; therefore, under mining regulations it is only allowed to stop them with the consent and under the conditions specified by the mine maintenance manager. The stoppage of the main ventilation fan may be accompanied by transient air parameters, including the air pressure and flow patterns. There is even the likelihood of reversing the direction of air flow, which, in case of methane mines, can pose a major hazard, particularly in sections of the mine with fire fields or large goaf areas. At the same time, stoppages of deep-mine main ventilation fans create interesting research conditions, which if conducted under the supervision of the monitoring systems, can provide much information about the transient processes of pressure, air and gas flow in underground workings. This article is a discussion of air parameter observations in mine workings made as part of such experiments. It also presents the procedure of the experiments, conducted in three mines. They involved the observation of transient processes of mine air parameters, and most interestingly, the recording of pressure and air and gas flow in the workings of the mine ventilation networks by mine monitoring systems and using specialist recording instruments. In mining practice, both in Poland and elsewhere, software tools and computer modelling methods are used to try and reproduce the conditions prior to and during disasters based on the existing network model and monitoring system data. The use of these tools to simulate the alternatives of combating and liquidation of the gas-fire hazard after its occurrence is an important issue. Measurement data collected during the experiments provides interesting research material for the verification and validation of the software tools used for the simulation of processes occurring in deep-mine ventilation systems.

Deep sequencing of evolving pathogen populations: applications, errors, and bioinformatic solutions

PubMed Central

2014-01-01

Deep sequencing harnesses the high throughput nature of next generation sequencing technologies to generate population samples, treating information contained in individual reads as meaningful. Here, we review applications of deep sequencing to pathogen evolution. Pioneering deep sequencing studies from the virology literature are discussed, such as whole genome Roche-454 sequencing analyses of the dynamics of the rapidly mutating pathogens hepatitis C virus and HIV. Extension of the deep sequencing approach to bacterial populations is then discussed, including the impacts of emerging sequencing technologies. While it is clear that deep sequencing has unprecedented potential for assessing the genetic structure and evolutionary history of pathogen populations, bioinformatic challenges remain. We summarise current approaches to overcoming these challenges, in particular methods for detecting low frequency variants in the context of sequencing error and reconstructing individual haplotypes from short reads. PMID:24428920

Randomization Based Privacy Preserving Categorical Data Analysis

ERIC Educational Resources Information Center

Guo, Ling

2010-01-01

The success of data mining relies on the availability of high quality data. To ensure quality data mining, effective information sharing between organizations becomes a vital requirement in today's society. Since data mining often involves sensitive information of individuals, the public has expressed a deep concern about their privacy.…

The Key Factors Analysis of Palisades Temperature in Deep Open-pit Mine

NASA Astrophysics Data System (ADS)

Wang, Yuan; Du, Cuifeng; Jin, Wenbo; Wang, Puyu

2018-01-01

In order to study the key factors of palisades temperature field in a deep open-pit mine in the natural environment, the influence of natural factors on the palisades temperature in a deep open-pit mine were analysed based on the principle of heat transfer. Four typical places with different ways of solar radiation were selected to carry out the field test. The results show that solar radiation, atmospheric temperature, and wind speed are three main factors affecting the temperature of palisades and that the direct sunlight plays a leading role. The time period of the sun shining directly on the shady slope of the palisades is short because of blocking effect, whose temperature changes in a smaller scale. At the same time, the sun slope of the palisades suffers from the solar radiation for a long time, whose temperature changes in a larger scale, and the variation is similar to the air temperature.

Geophysical Properties of Hard Rock for Investigation of Stress Fields in Deep Mines

NASA Astrophysics Data System (ADS)

Tibbo, M.; Young, R. P.; Schmitt, D. R.; Milkereit, B.

2014-12-01

A complication in geophysical monitoring of deep mines is the high-stress dependency of the physical properties of hard rocks. In-mine observations show anisotropic variability of the in situ P- and S-wave velocities and resistivity of the hard rocks that are likely related to stress field changes. As part of a comprehensive study in a deep, highly stressed mine located in Sudbury, Ontario, Canada, data from in situ monitoring of the seismicity, conductivity, stress, and stress dependent physical properties has been obtain. In-laboratory experiments are also being performed on borehole cores from the Sudbury mines. These experiments will measure the Norite borehole core's properties including elastic modulus, bulk modulus, P- and S-wave velocities, and density. Hydraulic fracturing has been successfully implemented in industries such as oil and gas and enhanced geothermal systems, and is currently being investigated as a potential method for preconditioning in mining. However, further research is required to quantify how hydraulic fractures propagate through hard, unfractured rock as well as naturally fractured rock typically found in mines. These in laboratory experiments will contribute to a hydraulic fracturing project evaluating the feasibility and effectiveness of hydraulic fracturing as a method of de-stressing hard rock mines. A tri-axial deformation cell equipped with 18 Acoustic Emission (AE) sensors will be used to bring the borehole cores to a tri-axial state of stress. The cores will then be injected with fluid until the the hydraulic fracture has propagated to the edge of the core, while AE waveforms will be digitized continuously at 10 MHz and 12-bit resolution for the duration of each experiment. These laboratory hydraulic fracture experiments will contribute to understanding how parameters including stress ratio, fluid injection rate, and viscosity, affect the fracturing process.

Analyzing Student Inquiry Data Using Process Discovery and Sequence Classification

ERIC Educational Resources Information Center

Emond, Bruno; Buffett, Scott

2015-01-01

This paper reports on results of applying process discovery mining and sequence classification mining techniques to a data set of semi-structured learning activities. The main research objective is to advance educational data mining to model and support self-regulated learning in heterogeneous environments of learning content, activities, and…

A Contextualized, Differential Sequence Mining Method to Derive Students' Learning Behavior Patterns

ERIC Educational Resources Information Center

Kinnebrew, John S.; Loretz, Kirk M.; Biswas, Gautam

2013-01-01

Computer-based learning environments can produce a wealth of data on student learning interactions. This paper presents an exploratory data mining methodology for assessing and comparing students' learning behaviors from these interaction traces. The core algorithm employs a novel combination of sequence mining techniques to identify deferentially…

BAC-end sequence-based SNP mining in Allotetraploid Cotton (Gossypium) utilizing re-sequencing data, phylogenetic inferences and perspectives for genetic mapping

USDA-ARS?s Scientific Manuscript database

A bacterial artificial chromosome (BAC) library and BAC-end sequences for Gossypium hirsutum L. have recently been developed. Here we report on genomic-based genome-wide SNP mining utilizing re-sequencing data with a BAC-end sequence reference for twelve G. hirsutum L. lines, one G. barbadense L. li...

15 CFR 971.207 - Antitrust information.

Code of Federal Regulations, 2010 CFR

2010-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Applications Contents... share it has with respect to the mining or marketing of the metals proposed to be recovered under the...

15 CFR 971.203 - Commercial recovery plan.

Code of Federal Regulations, 2011 CFR

2011-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Applications Contents... requirements for resource assessment and logical mining unit (§ 971.501); (6) A description of the methods and...

15 CFR 971.203 - Commercial recovery plan.

Code of Federal Regulations, 2010 CFR

2010-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Applications Contents... requirements for resource assessment and logical mining unit (§ 971.501); (6) A description of the methods and...

Paleontological analysis of a lacustrine carbonaceous uranium deposit at the Anderson mine, Date Creek basin, west-central Arizona (U.S.A.)

USGS Publications Warehouse

Otton, J.K.; Bradbury, J.P.; Forester, R.M.; Hanley, J.H.

1990-01-01

The Tertiary sedimentary sequence of the Date Creek basin area of Arizona is composed principally of intertonguing alluvial-fan and lacustrine deposits. The lacustrine rocks contain large intermediate- to, locally, high-grade uranium deposits that form one of the largest uranium resources in the United States (an estimated 670,000 tons of U3O8 at an average grade of 0.023% is indicated by drilling to date). At the Anderson mine, about 50,000 tons of U3O8 occurs in lacustrine carbonaceous siltstones and mudstones (using a cutoff grade of 0.01%). The Anderson mine constitutes a new class of ore deposit, a lacustrine carbonaceous uranium deposit. Floral and faunal remains at the Anderson mine played a critical role in creating and documenting conditions necessary for uranium mineralization. Organic-rich, uraniferous rocks at the Anderson mine contain plant remains and ostracodes having remarkably detailed preservation of internal features because of infilling by opaline silica. This preservation suggests that the alkaline lake waters in the mine area contained high concentrations of dissolved silica and that silicification occurred rapidly, before compaction or cementation of the enclosing sediment. Uranium coprecipitated with the silica. Thinly laminated, dark-colored, siliceous beds contain centric diatoms preserved with carbonaceous material suggesting that lake waters at the mine were locally deep and anoxic. These alkaline, silica-charged waters and a stagnant, anoxic environment in parts of the lake were necessary conditions for the precipitation of large amounts of uranium in the lake-bottom sediments. Sediments at the Anderson mine contain plant remains and pollen that were derived from diverse vegetative zones suggesting about 1500 m of relief in the area at the time of deposition. The pollen suggests that the valley floor was semiarid and subtropical, whereas nearby mountains supported temperate deciduous forests. ?? 1990.

15 CFR 971.205 - Vessel safety and documentation.

Code of Federal Regulations, 2010 CFR

2010-01-01

... THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS... research: (a) U.S. flag vessel. All mining ships and at least one of the transport ships used by each...

Fuzzy Clustering of Multiple Instance Data

DTIC Science & Technology

2015-11-30

depth is not. To illustrate this data, in figure 1 we display the GPR signatures of the same mine buried at 3 in deep in two geographically different...target signature depends on the soil properties of the site. The same mine type is buried at 3in deep in both sites. Since its formal introduction...drug design [15], and the problem of handwritten digit recognition [16]. To the best of our knowledge, Diet - terich, et. al [1] were the first to

A Case Study on the Strata Movement Mechanism and Surface Deformation Regulation in Chengchao Underground Iron Mine

NASA Astrophysics Data System (ADS)

Cheng, Guanwen; Chen, Congxin; Ma, Tianhui; Liu, Hongyuan; Tang, Chunan

2017-04-01

The regular pattern of surface deformation and the mechanism of underground strata movement, especially in iron mines constructed with the block caving method, have a great influence on infrastructure on the surface, so they are an important topic for research. Based on the engineering geology conditions and the surface deformation and fracture features in Chengchao Iron Mine, the mechanism of strata movement and the regular pattern of surface deformation in the footwall were studied by the geomechanical method, and the following conclusions can be drawn: I. The surface deformation process is divided into two stages over time, i.e., the chimney caving development stage and the post-chimney deformation stage. Currently, the surface deformation in Chengchao Iron Mine is at the post-chimney deformation stage. II. At the post-chimney deformation stage, the surface deformation and geological hazards in Chengchao Iron Mine are primarily controlled by the NWW-trending joints, with the phenomenon of toppling deformation and failure on the surface. Based on the surface deformation characteristics in Chengchao Iron Mine, the surface deformation area can be divided into the following four zones: the fracture extension zone, the fracture closure zone, the fracture formation zone and the deformation accumulation zone. The zones on the surface can be determined by the surface deformation characteristics. III. The cantilever beams near the chimney caving area, caused by the NWW-trending joints, have been subjected to toppling failure. This causes the different deformation and failure mechanisms in different locations of the deep rock mass. The deep rock can be divided into four zones, i.e., the fracture zone, fracture transition zone, deformation zone and undisturbed zone, according to the different deformation and failure mechanisms. The zones in the deep rock are the reason for the zones on the surface, so they can be determined by the zones on the surface. Through these findings, the degree of damage to the infrastructure in different locations can be determined based on the surface deformation zones. As the mining continues deeper, the development regulation of the zones on the surface and in deep rock mass can be further studied based on the zones in the deep rock.

Identifying Learning Behaviors by Contextualizing Differential Sequence Mining with Action Features and Performance Evolution

ERIC Educational Resources Information Center

Kinnebrew, John S.; Biswas, Gautam

2012-01-01

Our learning-by-teaching environment, Betty's Brain, captures a wealth of data on students' learning interactions as they teach a virtual agent. This paper extends an exploratory data mining methodology for assessing and comparing students' learning behaviors from these interaction traces. The core algorithm employs sequence mining techniques to…

15 CFR 970.300 - Purposes and definitions.

Code of Federal Regulations, 2014 CFR

2014-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Procedures for Applications... procedures which the Administrator will apply to applications filed with NOAA covering areas of the deep... the Administrator and a reciprocating state; and (ii) In which the deep seabed areas applied for...

15 CFR 970.300 - Purposes and definitions.

Code of Federal Regulations, 2013 CFR

2013-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Procedures for Applications... procedures which the Administrator will apply to applications filed with NOAA covering areas of the deep... the Administrator and a reciprocating state; and (ii) In which the deep seabed areas applied for...

15 CFR 970.300 - Purposes and definitions.

Code of Federal Regulations, 2012 CFR

2012-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Procedures for Applications... procedures which the Administrator will apply to applications filed with NOAA covering areas of the deep... the Administrator and a reciprocating state; and (ii) In which the deep seabed areas applied for...

15 CFR 970.300 - Purposes and definitions.

Code of Federal Regulations, 2010 CFR

2010-01-01

... the Administrator and a reciprocating state; and (ii) In which the deep seabed areas applied for... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Procedures for Applications... procedures which the Administrator will apply to applications filed with NOAA covering areas of the deep...

Research on parallel algorithm for sequential pattern mining

NASA Astrophysics Data System (ADS)

Zhou, Lijuan; Qin, Bai; Wang, Yu; Hao, Zhongxiao

2008-03-01

Sequential pattern mining is the mining of frequent sequences related to time or other orders from the sequence database. Its initial motivation is to discover the laws of customer purchasing in a time section by finding the frequent sequences. In recent years, sequential pattern mining has become an important direction of data mining, and its application field has not been confined to the business database and has extended to new data sources such as Web and advanced science fields such as DNA analysis. The data of sequential pattern mining has characteristics as follows: mass data amount and distributed storage. Most existing sequential pattern mining algorithms haven't considered the above-mentioned characteristics synthetically. According to the traits mentioned above and combining the parallel theory, this paper puts forward a new distributed parallel algorithm SPP(Sequential Pattern Parallel). The algorithm abides by the principal of pattern reduction and utilizes the divide-and-conquer strategy for parallelization. The first parallel task is to construct frequent item sets applying frequent concept and search space partition theory and the second task is to structure frequent sequences using the depth-first search method at each processor. The algorithm only needs to access the database twice and doesn't generate the candidated sequences, which abates the access time and improves the mining efficiency. Based on the random data generation procedure and different information structure designed, this paper simulated the SPP algorithm in a concrete parallel environment and implemented the AprioriAll algorithm. The experiments demonstrate that compared with AprioriAll, the SPP algorithm had excellent speedup factor and efficiency.

Microbial Diversity of Groundwater from Deep Subsurface Environment

NASA Astrophysics Data System (ADS)

Lin, L.; Onstott, T. C.; Hall, J.

2002-12-01

The subsurface environment harbors one of the most abundant reservoirs of biomass on Earth. The distribution of microbial ecosystems and the diversity of microbial metabolisms there remained poorly understood due to lack of detailed sampling over three-dimensional space with extremely heterogeneous characteristics. South African Au mines, however, provide the best access in the world to various types of groundwater and rocks at depths up to 4 km below surface. In this study, we present our recent analyses of microbial community structure of groundwater (with residence time of several million years) collected from depths between 850 to 1500 mbsl of Beatrix Au mine, South Africa. Five groundwater samples were collected anaerobically from freshly drilling boreholes with flow rates of 1 to 38 L/min. Cells were concentrated through filtration and total DNA were extracted from filters and PCR-amplified with primers targeting 16S rDNA gene. The amplicons were cloned and digested with restriction enzymes to identify the unique clone type. Sequences were obtained through direct sequencing of representative clones and compared with the closest matching sequences deposited in the gene bank for the construction of phylogenetic tree. The archaeal signatures were only found in one sample and close to the lineage of methanosarcina. The most predominant ribotype was similar to the environmental clone found in the same mine under the species level while the rest of ribotypes were either close to those capable of methanogenesis from long-chain alkanes or found in rice field or were distant from other environmental clones reported in previous study (Takai et al., 2001). The bacterial community exhibited a wide range of diversity among samples. Most samples were dominated by sequences close to alpha proteobacteria with various proportions of beta, gamma proteobacteria and environmental clones. A significant proportion of sequences close to thermophilic delta proteobacteria and clostridia were observed from one of the deepest samples. Since the in-situ water or rock temperature at sampling location is below the temperature range for thermophilic bacteria, this might indicate that the microorganisms once colonizing in the deeper and hotter portion of crust were transported upward with hydrothermal fluid and preserved in the sealed water pocket for a time scale of millions of years.

Solution mining and resultant evaporite karst development in Tully Valley, New York

DOE Office of Scientific and Technical Information (OSTI.GOV)

Rubin, P.A.; Ayers, J.C.; Grady, K.A.

1991-01-01

A solution mining operation was conducted in Tully Valley, New York from 1889 to 1988. In excess of 37 million m{sup 3} of halite was removed from 335 to 518 meters below the ground surface. An interbedded sequence of gypsum, shales, limestones, and sandstone overlie the halite beds. This sequence is capped by thick, unconsolidated deposits of till, sand and gravel, and lacustrine clay. As a result of this mining, large void cavities were created, followed by numerous fractures extending upward to the ground surface. The resulting settlement area is in excess of 550 hectares. Within this area sinkholes formed,more » gaping fractures developed and streams were pirated into the subsurface. Interformational mixing of groundwater now occurs between formerly separate flow systems, providing substantial recharge to deep formations. Some 2 kms downvalley of the brine fields, in a smaller settlement area, and volcanos'' effuse weakly saline groundwater that flows into Onondaga Creek. The clay fraction of the effluent gives Onondaga Creek the appearance of chocolate milk for the {approx}26 kms it takes to reach Onondaga Lake. The location of the mud volcanos appears to coincide with an upvalley moving salt front. The number of mud boils and their areal extent has substantially increased since the onset of brining operations. By characterizing the chemistry of groundwaters in local formations and performing mixing calculations based on mass balance, the volcano effluents were shown to represent a mixture of groundwaters from 3--4 formations. Several working hypotheses are advanced and critically evaluated in an effort to define the dynamics necessary for rapid mud volcano growth in a karst setting.« less

Solution mining and resultant evaporite karst development in Tully Valley, New York

DOE Office of Scientific and Technical Information (OSTI.GOV)

Rubin, P.A.; Ayers, J.C.; Grady, K.A.

1991-12-31

A solution mining operation was conducted in Tully Valley, New York from 1889 to 1988. In excess of 37 million m{sup 3} of halite was removed from 335 to 518 meters below the ground surface. An interbedded sequence of gypsum, shales, limestones, and sandstone overlie the halite beds. This sequence is capped by thick, unconsolidated deposits of till, sand and gravel, and lacustrine clay. As a result of this mining, large void cavities were created, followed by numerous fractures extending upward to the ground surface. The resulting settlement area is in excess of 550 hectares. Within this area sinkholes formed,more » gaping fractures developed and streams were pirated into the subsurface. Interformational mixing of groundwater now occurs between formerly separate flow systems, providing substantial recharge to deep formations. Some 2 kms downvalley of the brine fields, in a smaller settlement area, and ``volcanos`` effuse weakly saline groundwater that flows into Onondaga Creek. The clay fraction of the effluent gives Onondaga Creek the appearance of chocolate milk for the {approx}26 kms it takes to reach Onondaga Lake. The location of the mud volcanos appears to coincide with an upvalley moving salt front. The number of mud boils and their areal extent has substantially increased since the onset of brining operations. By characterizing the chemistry of groundwaters in local formations and performing mixing calculations based on mass balance, the volcano effluents were shown to represent a mixture of groundwaters from 3--4 formations. Several working hypotheses are advanced and critically evaluated in an effort to define the dynamics necessary for rapid mud volcano growth in a karst setting.« less

15 CFR 970.301 - Requirements for applications based on pre-enactment exploration.

Code of Federal Regulations, 2012 CFR

2012-01-01

... COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR.... (f) The coordinates and any chart of the logical mining unit applied for in an application based on a...

15 CFR 970.301 - Requirements for applications based on pre-enactment exploration.

Code of Federal Regulations, 2014 CFR

2014-01-01

... COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR.... (f) The coordinates and any chart of the logical mining unit applied for in an application based on a...

15 CFR 970.301 - Requirements for applications based on pre-enactment exploration.

Code of Federal Regulations, 2013 CFR

2013-01-01

... COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR.... (f) The coordinates and any chart of the logical mining unit applied for in an application based on a...

15 CFR 970.301 - Requirements for applications based on pre-enactment exploration.

Code of Federal Regulations, 2011 CFR

2011-01-01

... COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR.... (f) The coordinates and any chart of the logical mining unit applied for in an application based on a...

15 CFR 970.301 - Requirements for applications based on pre-enactment exploration.

Code of Federal Regulations, 2010 CFR

2010-01-01

... COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR.... (f) The coordinates and any chart of the logical mining unit applied for in an application based on a...

DeepBase: annotation and discovery of microRNAs and other noncoding RNAs from deep-sequencing data.

PubMed

Yang, Jian-Hua; Qu, Liang-Hu

2012-01-01

Recent advances in high-throughput deep-sequencing technology have produced large numbers of short and long RNA sequences and enabled the detection and profiling of known and novel microRNAs (miRNAs) and other noncoding RNAs (ncRNAs) at unprecedented sensitivity and depth. In this chapter, we describe the use of deepBase, a database that we have developed to integrate all public deep-sequencing data and to facilitate the comprehensive annotation and discovery of miRNAs and other ncRNAs from these data. deepBase provides an integrative, interactive, and versatile web graphical interface to evaluate miRBase-annotated miRNA genes and other known ncRNAs, explores the expression patterns of miRNAs and other ncRNAs, and discovers novel miRNAs and other ncRNAs from deep-sequencing data. deepBase also provides a deepView genome browser to comparatively analyze these data at multiple levels. deepBase is available at http://deepbase.sysu.edu.cn/.

Analysis of Ground Water Flow and Deformation in the Vicinity of DUSEL Homestake

NASA Astrophysics Data System (ADS)

Murdoch, L. C.; Ebenhack, J.; Germanovich, L. N.; Wang, H. F.; Boutt, D. F.; Onstott, T. C.; Kieft, T.; Moser, D. P.; Elsworth, D.

2010-12-01

The Deep Underground Science and Engineering Laboratory (DUSEL) is an underground facility planned for the workings of the former Homestake gold mine in the northern Black Hills, South Dakota. The mine workings cover several km2 in plan and extend to a depth 2.4 km. The area is underlain by Proterozoic metamorphic rocks that were deformed into regional-scale folds whose axes plunge approximately 40o to the SSE. A conceptual model and preliminary numerical analysis of the hydrogeology of the area indicates that permeability depends on effective stress, with values ranging from 0.1 mD at a depth of 2 km to 100 mD at depths of 100m. A deep ground water flow system is contained within a surface-truncated ellipsoid roughly 8 km by 4 km in plan view and 5.5 km deep with its short-axis aligned to the strike of the workings. The deep flow system consists of a zone of relatively rapid flow from the ground surface to the workings overlying the southern part of the mine, and a much larger ellipsoidal zone extending up to several km from the workings where water has been removed from storage. Numerical analyses of the ground water flow and poroelastic deformation in the vicinity of Homestake DUSEL have been refined by sharpening the 3-D resolution of important features. Mine workings have been resolved into three to four major regions where relatively large densities of rock were removed. These mined regions are shaped roughly like plunging ellipsoids with minor axes of several hundred m and major axes up to more than 2 km. They are treated in the simulations as highly permeable regions with an average elastic modulus significantly less than the intact rock; e.g. like soft, permeable inclusions. Recent field investigations and evaluation of the mine database indicate the presence of a relatively large fault that strikes approximately N20W, roughly parallel to the mined out regions. The Homestake fault dips 60NE, cutting the top of one mined region and extending beneath and adjacent to another mined region. It extends at least 1.5 km along strike and dip, with a center roughly 1.5 km deep along the western side of the mine. The model includes large-scale folds, and in particular it includes the geometry of the Yates member at the core of the Lead Anticlinorium. Topography and the stream drainage network are also included. The findings generally confirm previous results of Murdoch et al. [Eos Trans. AGU, 90(52), Fall Meet. Suppl., Abstract H23E-1009], but the finer resolution from the new analyses provides improved detail on the distribution of hydraulic head and stress state in the vicinity of the workings. Including the poroelastic effect shows that dewatering of the mined workings may cause larger deformations than were previously expected, and it also indicates that dewatering should affect the distribution of stresses on the Homestake fault.

Out of Their Depth? Isolated Deep Populations of the Cosmopolitan Coral Desmophyllum dianthus May Be Highly Vulnerable to Environmental Change

PubMed Central

Miller, Karen J.; Rowden, Ashley A.; Williams, Alan; Häussermann, Vreni

2011-01-01

Deep sea scleractinian corals will be particularly vulnerable to the effects of climate change, facing loss of up to 70% of their habitat as the Aragonite Saturation Horizon (below which corals are unable to form calcium carbonate skeletons) rises. Persistence of deep sea scleractinian corals will therefore rely on the ability of larvae to disperse to, and colonise, suitable shallow-water habitat. We used DNA sequence data of the internal transcribed spacer (ITS), the mitochondrial ribosomal subunit (16S) and mitochondrial control region (MtC) to determine levels of gene flow both within and among populations of the deep sea coral Desmophyllum dianthus in SE Australia, New Zealand and Chile to assess the ability of corals to disperse into different regions and habitats. We found significant genetic subdivision among the three widely separated geographic regions consistent with isolation and limited contemporary gene flow. Furthermore, corals from different depth strata (shallow <600 m, mid 1000–1500 m, deep >1500 m) even on the same or nearby seamounts were strongly differentiated, indicating limited vertical larval dispersal. Genetic differentiation with depth is consistent with the stratification of the Subantarctic Mode Water, Antarctic Intermediate Water, the Circumpolar Deep and North Pacific Deep Waters in the Southern Ocean, and we propose that coral larvae will be retained within, and rarely migrate among, these water masses. The apparent absence of vertical larval dispersal suggests deep populations of D. dianthus are unlikely to colonise shallow water as the aragonite saturation horizon rises and deep waters become uninhabitable. Similarly, assumptions that deep populations will act as refuges for shallow populations that are impacted by activities such as fishing or mining are also unlikely to hold true. Clearly future environmental management strategies must consider both regional and depth-related isolation of deep-sea coral populations. PMID:21611159

Making sense of deep sequencing

PubMed Central

Goldman, D.; Domschke, K.

2016-01-01

This review, the first of an occasional series, tries to make sense of the concepts and uses of deep sequencing of polynucleic acids (DNA and RNA). Deep sequencing, synonymous with next-generation sequencing, high-throughput sequencing and massively parallel sequencing, includes whole genome sequencing but is more often and diversely applied to specific parts of the genome captured in different ways, for example the highly expressed portion of the genome known as the exome and portions of the genome that are epigenetically marked either by DNA methylation, the binding of proteins including histones, or that are in different configurations and thus more or less accessible to enzymes that cleave DNA. Deep sequencing of RNA (RNASeq) reverse-transcribed to complementary DNA is invaluable for measuring RNA expression and detecting changes in RNA structure. Important concepts in deep sequencing include the length and depth of sequence reads, mapping and assembly of reads, sequencing error, haplotypes, and the propensity of deep sequencing, as with other types of ‘big data’, to generate large numbers of errors, requiring monitoring for methodologic biases and strategies for replication and validation. Deep sequencing yields a unique genetic fingerprint that can be used to identify a person, and a trove of predictors of genetic medical diseases. Deep sequencing to identify epigenetic events including changes in DNA methylation and RNA expression can reveal the history and impact of environmental exposures. Because of the power of sequencing to identify and deliver biomedically significant information about a person and their blood relatives, it creates ethical dilemmas and practical challenges in research and clinical care, for example the decision and procedures to report incidental findings that will increasingly and frequently be discovered. PMID:24925306

15 CFR 971.1005 - Observers.

Code of Federal Regulations, 2012 CFR

2012-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Enforcement § 971.1005 Observers.... The Administrator shall require the placement of an observer on each permittee's mining vessel(s) at...

15 CFR 971.1005 - Observers.

Code of Federal Regulations, 2013 CFR

2013-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Enforcement § 971.1005 Observers.... The Administrator shall require the placement of an observer on each permittee's mining vessel(s) at...

15 CFR 971.1005 - Observers.

Code of Federal Regulations, 2014 CFR

2014-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Enforcement § 971.1005 Observers.... The Administrator shall require the placement of an observer on each permittee's mining vessel(s) at...

78 FR 49773 - Affirmative Decisions on Petitions for Modification Granted in Whole or in Part

Federal Register 2010, 2011, 2012, 2013, 2014

2013-08-15

... govern the application, processing, and disposition of petitions for modification. This Federal Register... 25306. Mine: Campbells Creek No. 4 Deep Mine, MSHA I.D. No. 46-08437, located in Kanawha County, West...

15 CFR 971.1005 - Observers.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Enforcement § 971.1005 Observers.... The Administrator shall require the placement of an observer on each permittee's mining vessel(s) at...

15 CFR 971.1005 - Observers.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Enforcement § 971.1005 Observers.... The Administrator shall require the placement of an observer on each permittee's mining vessel(s) at...

DRREP: deep ridge regressed epitope predictor.

PubMed

Sher, Gene; Zhi, Degui; Zhang, Shaojie

2017-10-03

The ability to predict epitopes plays an enormous role in vaccine development in terms of our ability to zero in on where to do a more thorough in-vivo analysis of the protein in question. Though for the past decade there have been numerous advancements and improvements in epitope prediction, on average the best benchmark prediction accuracies are still only around 60%. New machine learning algorithms have arisen within the domain of deep learning, text mining, and convolutional networks. This paper presents a novel analytically trained and string kernel using deep neural network, which is tailored for continuous epitope prediction, called: Deep Ridge Regressed Epitope Predictor (DRREP). DRREP was tested on long protein sequences from the following datasets: SARS, Pellequer, HIV, AntiJen, and SEQ194. DRREP was compared to numerous state of the art epitope predictors, including the most recently published predictors called LBtope and DMNLBE. Using area under ROC curve (AUC), DRREP achieved a performance improvement over the best performing predictors on SARS (13.7%), HIV (8.9%), Pellequer (1.5%), and SEQ194 (3.1%), with its performance being matched only on the AntiJen dataset, by the LBtope predictor, where both DRREP and LBtope achieved an AUC of 0.702. DRREP is an analytically trained deep neural network, thus capable of learning in a single step through regression. By combining the features of deep learning, string kernels, and convolutional networks, the system is able to perform residue-by-residue prediction of continues epitopes with higher accuracy than the current state of the art predictors.

De novo peptide sequencing by deep learning

PubMed Central

Tran, Ngoc Hieu; Zhang, Xianglilan; Xin, Lei; Shan, Baozhen; Li, Ming

2017-01-01

De novo peptide sequencing from tandem MS data is the key technology in proteomics for the characterization of proteins, especially for new sequences, such as mAbs. In this study, we propose a deep neural network model, DeepNovo, for de novo peptide sequencing. DeepNovo architecture combines recent advances in convolutional neural networks and recurrent neural networks to learn features of tandem mass spectra, fragment ions, and sequence patterns of peptides. The networks are further integrated with local dynamic programming to solve the complex optimization task of de novo sequencing. We evaluated the method on a wide variety of species and found that DeepNovo considerably outperformed state of the art methods, achieving 7.7–22.9% higher accuracy at the amino acid level and 38.1–64.0% higher accuracy at the peptide level. We further used DeepNovo to automatically reconstruct the complete sequences of antibody light and heavy chains of mouse, achieving 97.5–100% coverage and 97.2–99.5% accuracy, without assisting databases. Moreover, DeepNovo is retrainable to adapt to any sources of data and provides a complete end-to-end training and prediction solution to the de novo sequencing problem. Not only does our study extend the deep learning revolution to a new field, but it also shows an innovative approach in solving optimization problems by using deep learning and dynamic programming. PMID:28720701

Population-genomic variation within RNA viruses of the Western honey bee, Apis mellifera, inferred from deep sequencing

PubMed Central

2013-01-01

Background Deep sequencing of viruses isolated from infected hosts is an efficient way to measure population-genetic variation and can reveal patterns of dispersal and natural selection. In this study, we mined existing Illumina sequence reads to investigate single-nucleotide polymorphisms (SNPs) within two RNA viruses of the Western honey bee (Apis mellifera), deformed wing virus (DWV) and Israel acute paralysis virus (IAPV). All viral RNA was extracted from North American samples of honey bees or, in one case, the ectoparasitic mite Varroa destructor. Results Coverage depth was generally lower for IAPV than DWV, and marked gaps in coverage occurred in several narrow regions (< 50 bp) of IAPV. These coverage gaps occurred across sequencing runs and were virtually unchanged when reads were re-mapped with greater permissiveness (up to 8% divergence), suggesting a recurrent sequencing artifact rather than strain divergence. Consensus sequences of DWV for each sample showed little phylogenetic divergence, low nucleotide diversity, and strongly negative values of Fu and Li’s D statistic, suggesting a recent population bottleneck and/or purifying selection. The Kakugo strain of DWV fell outside of all other DWV sequences at 100% bootstrap support. IAPV consensus sequences supported the existence of multiple clades as had been previously reported, and Fu and Li’s D was closer to neutral expectation overall, although a sliding-window analysis identified a significantly positive D within the protease region, suggesting selection maintains diversity in that region. Within-sample mean diversity was comparable between the two viruses on average, although for both viruses there was substantial variation among samples in mean diversity at third codon positions and in the number of high-diversity sites. FST values were bimodal for DWV, likely reflecting neutral divergence in two low-diversity populations, whereas IAPV had several sites that were strong outliers with very low FST. Conclusions This initial survey of genetic variation within honey bee RNA viruses suggests future directions for studies examining the underlying causes of population-genetic structure in these economically important pathogens. PMID:23497218

Population-genomic variation within RNA viruses of the Western honey bee, Apis mellifera, inferred from deep sequencing.

PubMed

Cornman, Robert Scott; Boncristiani, Humberto; Dainat, Benjamin; Chen, Yanping; vanEngelsdorp, Dennis; Weaver, Daniel; Evans, Jay D

2013-03-07

Deep sequencing of viruses isolated from infected hosts is an efficient way to measure population-genetic variation and can reveal patterns of dispersal and natural selection. In this study, we mined existing Illumina sequence reads to investigate single-nucleotide polymorphisms (SNPs) within two RNA viruses of the Western honey bee (Apis mellifera), deformed wing virus (DWV) and Israel acute paralysis virus (IAPV). All viral RNA was extracted from North American samples of honey bees or, in one case, the ectoparasitic mite Varroa destructor. Coverage depth was generally lower for IAPV than DWV, and marked gaps in coverage occurred in several narrow regions (< 50 bp) of IAPV. These coverage gaps occurred across sequencing runs and were virtually unchanged when reads were re-mapped with greater permissiveness (up to 8% divergence), suggesting a recurrent sequencing artifact rather than strain divergence. Consensus sequences of DWV for each sample showed little phylogenetic divergence, low nucleotide diversity, and strongly negative values of Fu and Li's D statistic, suggesting a recent population bottleneck and/or purifying selection. The Kakugo strain of DWV fell outside of all other DWV sequences at 100% bootstrap support. IAPV consensus sequences supported the existence of multiple clades as had been previously reported, and Fu and Li's D was closer to neutral expectation overall, although a sliding-window analysis identified a significantly positive D within the protease region, suggesting selection maintains diversity in that region. Within-sample mean diversity was comparable between the two viruses on average, although for both viruses there was substantial variation among samples in mean diversity at third codon positions and in the number of high-diversity sites. FST values were bimodal for DWV, likely reflecting neutral divergence in two low-diversity populations, whereas IAPV had several sites that were strong outliers with very low FST. This initial survey of genetic variation within honey bee RNA viruses suggests future directions for studies examining the underlying causes of population-genetic structure in these economically important pathogens.

Transposable elements in TDP-43-mediated neurodegenerative disorders.

PubMed

Li, Wanhe; Jin, Ying; Prazak, Lisa; Hammell, Molly; Dubnau, Josh

2012-01-01

Elevated expression of specific transposable elements (TEs) has been observed in several neurodegenerative disorders. TEs also can be active during normal neurogenesis. By mining a series of deep sequencing datasets of protein-RNA interactions and of gene expression profiles, we uncovered extensive binding of TE transcripts to TDP-43, an RNA-binding protein central to amyotrophic lateral sclerosis (ALS) and frontotemporal lobar degeneration (FTLD). Second, we find that association between TDP-43 and many of its TE targets is reduced in FTLD patients. Third, we discovered that a large fraction of the TEs to which TDP-43 binds become de-repressed in mouse TDP-43 disease models. We propose the hypothesis that TE mis-regulation contributes to TDP-43 related neurodegenerative diseases.

Fate of copper complexes in hydrothermally altered deep-sea sediments from the Central Indian Ocean Basin.

PubMed

Chakraborty, Parthasarathi; Sander, Sylvia G; Jayachandran, Saranya; Nath, B Nagender; Nagaraju, G; Chennuri, Kartheek; Vudamala, Krushna; Lathika, N; Mascarenhas-Pereira, Maria Brenda L

2014-11-01

The current study aims to understand the speciation and fate of Cu complexes in hydrothermally altered sediments from the Central Indian Ocean Basin and assess the probable impacts of deep-sea mining on speciation of Cu complexes and assess the Cu flux from this sediment to the water column in this area. This study suggests that most of the Cu was strongly associated with different binding sites in Fe-oxide phases of the hydrothermally altered sediments with stabilities higher than that of Cu-EDTA complexes. The speciation of Cu indicates that hydrothermally influenced deep-sea sediments from Central Indian Ocean Basin may not significantly contribute to the global Cu flux. However, increasing lability of Cu-sediment complexes with increasing depth of sediment may increase bioavailability and Cu flux to the global ocean during deep-sea mining. Copyright © 2014 Elsevier Ltd. All rights reserved.

Deep-coal potential in the Appalachian Coal Basin, USA: The Kentucky model

USGS Publications Warehouse

Haney, D.C.; Chesnut, D.R.

1997-01-01

The Eastern Kentucky Coal Field is located in the Appalachian Basin of the United States and occupies an area of approximately 15,000 square kilometers. The coal beds range from a few centimeters to several meters in thickness and consist of high-grade bituminous coal. Currently the amount of coal mined by surface methods exceeds underground extraction; however, there is a steady and gradual shift toward underground mining. In the future, as near-surface resources are depleted, this trend toward increased underground mining will continue. Knowledge about deeper coals is essential for future economic development of resources. Preliminary investigations indicate that coal-bearing strata with deep-mining potential exist in several parts of eastern Kentucky, especially along the Eastern Kentucky Syncline. Eastern Kentucky coals are Westphalian A through D; however, current production is from major beds of Westphalian A and B. Because coals that occur above drainage are more easily accessible and are generally of better quality, most of the current mining takes place in formations that are at or near the surface. In the future, however, due to environmental regulations and increased demands, it will be necessary to attempt to utilize deeper coals about which little is known. Future development of deep resources will require data from boreholes and high-resolution geophysical-logging techniques. There is also potential for coal-bed methane from the deeper coals which could be an important resource in the Appalachian Coal Basin where a natural gas distribution system already exists.

GENERAL EXTERIOR VIEW, LOOKING NORTHEAST, OF THE SURFACE PLANT WITH ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

GENERAL EXTERIOR VIEW, LOOKING NORTHEAST, OF THE SURFACE PLANT WITH CONVEYORS. JIM WALTER RESOURCES INC. MINING DIVISION OPERATES FOUR UNDERGROUND COAL MINES IN THE BLUE CREEK COAL FIELD OF BIRMINGHAM DISTRICT, THREE IN TUSCALOOSA COUNTY AND ONE IN JEFFERSON COUNTY. TOTAL ANNUAL PRODUCTION IS 8,000,000 TONS. AT 2,300 DEEP, JIM WALTER'S BROOKWOOD MINES ARE THE DEEPEST UNDERGROUND COAL MINES IN NORTH AMERICA. THEY PRODUCE A HIGH-GRADE MEDIUM VOLATILE LOW SULPHUR METALLURGICAL COAL. THE BROOKWOOD NO. 5 MINE (PICTURED IN THIS PHOTOGRAPH) EMPLOYS THE LONGWALL MINING TECHNIQUES WITH BELTS CONVEYING COAL FROM UNDERGROUND OPERATIONS TO THE SURFACE. - JIm Walter Resources, Incorporated, Brookwood No. 5 Mine, 12972 Lock 17 Road, Brookwood, Tuscaloosa County, AL

DOE Office of Scientific and Technical Information (OSTI.GOV)

None

The Staunton 1 Reclamation Demonstration Project involves an evaluation of the reclamation process for a deep coal mine refuse system. A typical abandoned midwestern deep coal mine refuse site was selected, final land use was determined, baseline data were collected, engineering plans were developed and implemented, and a post-construction evaluation was begun. The project is a cooperative effort by two state agencies--the Abandoned Mined Land Reclamation Council of Illinois the Illinois Institute for Environmental Quality--and the U.S. Department of Energy through the Land Reclamation Program at Argonne National Laboratory. Current investigations are monitoring groundwater, surface water quality, aquatic ecosystems, revegetation,more » soil characteristics, erosion and runoff, soil microbial and soil fauna populations, wildlife, and economic effects of the reclamation effort. The research is a multidisciplinary approach to the concept of ecosystem response to reclamation.« less

Exploring fungal diversity in deep-sea sediments from Okinawa Trough using high-throughput Illumina sequencing

NASA Astrophysics Data System (ADS)

Zhang, Xiao-Yong; Wang, Guang-Hua; Xu, Xin-Ya; Nong, Xu-Hua; Wang, Jie; Amin, Muhammad; Qi, Shu-Hua

2016-10-01

The present study investigated the fungal diversity in four different deep-sea sediments from Okinawa Trough using high-throughput Illumina sequencing of the nuclear ribosomal internal transcribed spacer-1 (ITS1). A total of 40,297 fungal ITS1 sequences clustered into 420 operational taxonomic units (OTUs) with 97% sequence similarity and 170 taxa were recovered from these sediments. Most ITS1 sequences (78%) belonged to the phylum Ascomycota, followed by Basidiomycota (17.3%), Zygomycota (1.5%) and Chytridiomycota (0.8%), and a small proportion (2.4%) belonged to unassigned fungal phyla. Compared with previous studies on fungal diversity of sediments from deep-sea environments by culture-dependent approach and clone library analysis, the present result suggested that Illumina sequencing had been dramatically accelerating the discovery of fungal community of deep-sea sediments. Furthermore, our results revealed that Sordariomycetes was the most diverse and abundant fungal class in this study, challenging the traditional view that the diversity of Sordariomycetes phylotypes was low in the deep-sea environments. In addition, more than 12 taxa accounted for 21.5% sequences were found to be rarely reported as deep-sea fungi, suggesting the deep-sea sediments from Okinawa Trough harbored a plethora of different fungal communities compared with other deep-sea environments. To our knowledge, this study is the first exploration of the fungal diversity in deep-sea sediments from Okinawa Trough using high-throughput Illumina sequencing.

First Microbial Community Assessment of Borehole Fluids from the Deep Underground Science and Engineering Laboratory (DUSEL)

NASA Astrophysics Data System (ADS)

Moser, D. P.; Anderson, C.; Bang, S.; Jones, T. L.; Boutt, D.; Kieft, T.; Sherwood Lollar, B.; Murdoch, L. C.; Pfiffner, S. M.; Bruckner, J.; Fisher, J. C.; Newburn, J.; Wheatley, A.; Onstott, T. C.

2010-12-01

Fluid and gas samples were collected from two flowing boreholes at the 4100 (1,250 m) and 4850 ft (1478 m) levels of the former Homestake Gold Mine in Lead, South Dakota. Service- and flood water samples were also collected as comparative benchmarks. With a maximum depth of 8,000 ft, (2,438 m), this mine currently hosts the Sanford Laboratory and is the proposed location for the US Deep Underground Science and Engineering Laboratory (DUSEL). The uncased 4100L hole is a legacy of mining; whereas, the cased 4850 hole was drilled in 2009 in support of large cavity construction. Both were packered or valved to exclude mine air and sampled anaerobically using aseptic technique. Physical measurements, aquatic and dissolved gas chemistry, cell counts, and microbial community assessments (SSU rRNA libraries) were performed on all samples. This study represents the first at Sanford Lab/DUSEL specifically focused on the deep biosphere rather than mine microbiology. Fluids from the two holes differed markedly, with that from 4100L being characterized by NaHCO3 and 4850 by Na2SO4. pH values of 8.2 vs. 7.5, conductivities (μS) of 1790 vs. 7667 and alkalinities (mg/L) of 767 vs. 187 were obtained from 4100L and 4850, respectively. As expected, the deeper 4850L hole had the higher temperature (38 vs. 30 oC). Neither had measureable nitrate, but both had similar dissolved organic C (DOC) concentrations (0.8 vs. 0.9 mg/L). Sulfate was present at 337 vs. 4,470 mg/L in 4100L and 4850L. Major dissolved gases were N2 (91 and 81 vol%), O2 (12 and 16 vol%) and CH4 (0.07 and 3.35 vol%) in 4100L and 4850L. The δ13C of CH4 was -51 and -56.7 permil in 4100L and 4850, respectively. The uncorrected 14C age of DIC was calculated at 25,310 (+/- 220) and 47,700 (+/-3,100) years for the two fluids. Cell counts were 5.9e3 and 2.01e5 in 4100L and 4850. Microbial community structure was diverse in both holes and distinct from that of service water. A large proportion of rRNA library clones were Proteobacteria and closely related to known or expected aerobes including: Thiobacillus, Siderooxidans, Leptothrix, Hydrogenophaga, Pseaudomonas, Methylomonas and Thiothrix, consistent with possible mine water or air contamination. Conversely, Deltaproteobacteria and Firmicute clones, often very closely related to others detected from deep mine or sediment habitats, suggests a deep subsurface component as well. Archaeal clones from 4100L were dominated by a deeply-branching clade with no cultivated representatives; whereas, those from 4850 were mostly related to known methanogens (e.g. Methanolobus). Collectively, this dataset suggests mixed end-member or deeply-sourced water partially overprinted by mine-related artifacts. However, until more is known concerning the deep hydrogeology of this system, it will be difficult to ascertain indigenous from impacted microbial communities in DUSEL.

76 FR 80884 - The Department of Commerce will submit to the Office of Management and Budget (OMB) for clearance...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-12-27

...: National Oceanic and Atmospheric Administration (NOAA). Title: Deep Seabed Mining Regulations for... the issuing and monitoring of exploration licenses under the Deep Seabed Hard Mineral Resources Act...

25 CFR 215.25 - Other minerals and deep-lying lead and zinc minerals.

Code of Federal Regulations, 2014 CFR

2014-04-01

... 25 Indians 1 2014-04-01 2014-04-01 false Other minerals and deep-lying lead and zinc minerals. 215.25 Section 215.25 Indians BUREAU OF INDIAN AFFAIRS, DEPARTMENT OF THE INTERIOR ENERGY AND MINERALS LEAD AND ZINC MINING OPERATIONS AND LEASES, QUAPAW AGENCY § 215.25 Other minerals and deep-lying lead...

25 CFR 215.25 - Other minerals and deep-lying lead and zinc minerals.

Code of Federal Regulations, 2012 CFR

2012-04-01

... 25 Indians 1 2012-04-01 2011-04-01 true Other minerals and deep-lying lead and zinc minerals. 215.25 Section 215.25 Indians BUREAU OF INDIAN AFFAIRS, DEPARTMENT OF THE INTERIOR ENERGY AND MINERALS LEAD AND ZINC MINING OPERATIONS AND LEASES, QUAPAW AGENCY § 215.25 Other minerals and deep-lying lead...

25 CFR 215.25 - Other minerals and deep-lying lead and zinc minerals.

Code of Federal Regulations, 2013 CFR

2013-04-01

... 25 Indians 1 2013-04-01 2013-04-01 false Other minerals and deep-lying lead and zinc minerals. 215.25 Section 215.25 Indians BUREAU OF INDIAN AFFAIRS, DEPARTMENT OF THE INTERIOR ENERGY AND MINERALS LEAD AND ZINC MINING OPERATIONS AND LEASES, QUAPAW AGENCY § 215.25 Other minerals and deep-lying lead...

Deep-Subterranean Microbial Habitats in the Hishikari Epithermal Gold Mine: Active Thermophilic Microbial Communities and Endolithic Ancient Microbial Relicts.

NASA Astrophysics Data System (ADS)

Hirayama, H.; Takai, K.; Inagaki, F.; Horikoshi, K.

2001-12-01

Deep subterranean microbial community structures in an epithermal gold-silver deposit, Hishikari gold mine, southern part of Kyusyu Japan, were evaluated through the combined use of enrichment culture methods and culture-independent molecular surveys. The geologic setting of the Hishikari deposit is composed of three lithologies; basement oceanic sediments of the Cretaceous Shimanto Supergroup, Quaternary andesites, and auriferous quartz vein. We studied the drilled core rock of these, and the geothermal hot waters from the basement aquifers collected by means of the dewatering system located at the deepest level in the mining sites. Culture-independent molecular phylogenetic analyses of PCR-amplified ribosomal DNA (rDNA) recovered from drilled cores suggested that the deep-sea oceanic microbial communities were present as ancient indigenous relicts confined in the Shimanto basement. On the other hand, genetic signals of active thermophilic microbial communities, mainly consisting of thermophilic hydrogen-oxidizer within Aquificales, thermophilic methanotroph within g-Proteobacteria and yet-uncultivated bacterium OPB37 within b-Proteobacteria, were detected with these of oceanic relicts from the subterranean geothermal hot aquifers (temp. 70-100ºC). Successful cultivation and FISH analyses strongly supported that these thermophilic lithotrophic microorganisms could be exactly active and they grew using geochemically produced hydrogen and methane gasses as nutrients. Based on these results, the deep-subsurface biosphere occurring in the Hishikari epithermal gold mine was delineated as endolithic ancient microbial relicts and modern habitats raising active lithotrophic thermophiles associated with the geological and geochemical features of the epithermal gold deposit.

BRAD, the genetics and genomics database for Brassica plants.

PubMed

Cheng, Feng; Liu, Shengyi; Wu, Jian; Fang, Lu; Sun, Silong; Liu, Bo; Li, Pingxia; Hua, Wei; Wang, Xiaowu

2011-10-13

Brassica species include both vegetable and oilseed crops, which are very important to the daily life of common human beings. Meanwhile, the Brassica species represent an excellent system for studying numerous aspects of plant biology, specifically for the analysis of genome evolution following polyploidy, so it is also very important for scientific research. Now, the genome of Brassica rapa has already been assembled, it is the time to do deep mining of the genome data. BRAD, the Brassica database, is a web-based resource focusing on genome scale genetic and genomic data for important Brassica crops. BRAD was built based on the first whole genome sequence and on further data analysis of the Brassica A genome species, Brassica rapa (Chiifu-401-42). It provides datasets, such as the complete genome sequence of B. rapa, which was de novo assembled from Illumina GA II short reads and from BAC clone sequences, predicted genes and associated annotations, non coding RNAs, transposable elements (TE), B. rapa genes' orthologous to those in A. thaliana, as well as genetic markers and linkage maps. BRAD offers useful searching and data mining tools, including search across annotation datasets, search for syntenic or non-syntenic orthologs, and to search the flanking regions of a certain target, as well as the tools of BLAST and Gbrowse. BRAD allows users to enter almost any kind of information, such as a B. rapa or A. thaliana gene ID, physical position or genetic marker. BRAD, a new database which focuses on the genetics and genomics of the Brassica plants has been developed, it aims at helping scientists and breeders to fully and efficiently use the information of genome data of Brassica plants. BRAD will be continuously updated and can be accessed through http://brassicadb.org.

Chapter 3: Selecting materials for mine soil construction when establishing forests on Appalachian mined lands

Treesearch

Jeff Skousen; Carl Zipper; Jim Burger; Christopher Barton; Patrick. Angel

2017-01-01

The Forestry Reclamation Approach (FRA), a method for reclaiming coal-mined land to forest (Chapter 2, this volume), is based on research, knowledge, and experience of forest soil scientists and reclamation practitioners. Step 1 of the FRA is to create a suitable rooting medium for good tree growth that is no less than 4 feet deep and consists of topsoil, weathered...

Learning Behavior Characterization with Multi-Feature, Hierarchical Activity Sequences

ERIC Educational Resources Information Center

Ye, Cheng; Segedy, James R.; Kinnebrew, John S.; Biswas, Gautam

2015-01-01

This paper discusses Multi-Feature Hierarchical Sequential Pattern Mining, MFH-SPAM, a novel algorithm that efficiently extracts patterns from students' learning activity sequences. This algorithm extends an existing sequential pattern mining algorithm by dynamically selecting the level of specificity for hierarchically-defined features…

Modeling of the Nano- and Picoseismicity Rate Changes Resulting from Static Stress Triggering due to Small (MW2.2) Event Recorded at Mponeng Deep Gold Mine, South Africa

NASA Astrophysics Data System (ADS)

Kozlowska, M.; Orlecka-Sikora, B.; Kwiatek, G.; Boettcher, M. S.; Dresen, G. H.

2014-12-01

Static stress changes following large earthquakes are known to affect the rate and spatio-temporal distribution of the aftershocks. Here we utilize a unique dataset of M ≥ -3.4 earthquakes following a MW 2.2 earthquake in Mponeng gold mine, South Africa, to investigate this process for nano- and pico- scale seismicity at centimeter length scales in shallow, mining conditions. The aftershock sequence was recorded during a quiet interval in the mine and thus enabled us to perform the analysis using Dietrich's (1994) rate and state dependent friction law. The formulation for earthquake productivity requires estimation of Coulomb stress changes due to the mainshock, the reference seismicity rate, frictional resistance parameter, and the duration of aftershock relaxation time. We divided the area into six depth intervals and for each we estimated the parameters and modeled the spatio-temporal patterns of seismicity rates after the stress perturbation. Comparing the modeled patterns of seismicity with the observed distribution we found that while the spatial patterns match well, the rate of modeled aftershocks is lower than the observed rate. To test our model, we used four metrics of the goodness-of-fit evaluation. Testing procedure allowed rejecting the null hypothesis of no significant difference between seismicity rates only for one depth interval containing the mainshock, for the other, no significant differences have been found. Results show that mining-induced earthquakes may be followed by a stress relaxation expressed through aftershocks located on the rupture plane and in regions of positive Coulomb stress change. Furthermore, we demonstrate that the main features of the temporal and spatial distribution of very small, mining-induced earthquakes at shallow depths can be successfully determined using rate- and state-based stress modeling.

Quantitative phenotyping via deep barcode sequencing.

PubMed

Smith, Andrew M; Heisler, Lawrence E; Mellor, Joseph; Kaper, Fiona; Thompson, Michael J; Chee, Mark; Roth, Frederick P; Giaever, Guri; Nislow, Corey

2009-10-01

Next-generation DNA sequencing technologies have revolutionized diverse genomics applications, including de novo genome sequencing, SNP detection, chromatin immunoprecipitation, and transcriptome analysis. Here we apply deep sequencing to genome-scale fitness profiling to evaluate yeast strain collections in parallel. This method, Barcode analysis by Sequencing, or "Bar-seq," outperforms the current benchmark barcode microarray assay in terms of both dynamic range and throughput. When applied to a complex chemogenomic assay, Bar-seq quantitatively identifies drug targets, with performance superior to the benchmark microarray assay. We also show that Bar-seq is well-suited for a multiplex format. We completely re-sequenced and re-annotated the yeast deletion collection using deep sequencing, found that approximately 20% of the barcodes and common priming sequences varied from expectation, and used this revised list of barcode sequences to improve data quality. Together, this new assay and analysis routine provide a deep-sequencing-based toolkit for identifying gene-environment interactions on a genome-wide scale.

Deep Sequencing to Identify the Causes of Viral Encephalitis

PubMed Central

Chan, Benjamin K.; Wilson, Theodore; Fischer, Kael F.; Kriesel, John D.

2014-01-01

Deep sequencing allows for a rapid, accurate characterization of microbial DNA and RNA sequences in many types of samples. Deep sequencing (also called next generation sequencing or NGS) is being developed to assist with the diagnosis of a wide variety of infectious diseases. In this study, seven frozen brain samples from deceased subjects with recent encephalitis were investigated. RNA from each sample was extracted, randomly reverse transcribed and sequenced. The sequence analysis was performed in a blinded fashion and confirmed with pathogen-specific PCR. This analysis successfully identified measles virus sequences in two brain samples and herpes simplex virus type-1 sequences in three brain samples. No pathogen was identified in the other two brain specimens. These results were concordant with pathogen-specific PCR and partially concordant with prior neuropathological examinations, demonstrating that deep sequencing can accurately identify viral infections in frozen brain tissue. PMID:24699691

15 CFR 970.204 - Environmental and use conflict analysis.

Code of Federal Regulations, 2012 CFR

2012-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES... activities in the area, including the testing of integrated mining systems which simulate commercial recovery... baseline data or plans for acquiring them. The applicant may at his option delay submission of baseline and...

15 CFR 970.204 - Environmental and use conflict analysis.

Code of Federal Regulations, 2014 CFR

2014-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES... activities in the area, including the testing of integrated mining systems which simulate commercial recovery... baseline data or plans for acquiring them. The applicant may at his option delay submission of baseline and...

15 CFR 970.204 - Environmental and use conflict analysis.

Code of Federal Regulations, 2013 CFR

2013-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES... activities in the area, including the testing of integrated mining systems which simulate commercial recovery... baseline data or plans for acquiring them. The applicant may at his option delay submission of baseline and...

15 CFR 970.204 - Environmental and use conflict analysis.

Code of Federal Regulations, 2010 CFR

2010-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES... activities in the area, including the testing of integrated mining systems which simulate commercial recovery... baseline data or plans for acquiring them. The applicant may at his option delay submission of baseline and...

15 CFR 970.204 - Environmental and use conflict analysis.

Code of Federal Regulations, 2011 CFR

2011-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES... activities in the area, including the testing of integrated mining systems which simulate commercial recovery... baseline data or plans for acquiring them. The applicant may at his option delay submission of baseline and...

Monitoring genotoxic exposure in uranium mines.

PubMed Central

Srám, R J; Dobiás, L; Rössner, P; Veselá, D; Veselý, D; Rakusová, R; Rericha, V

1993-01-01

Recent data from deep uranium mines in Czechoslovakia indicated that mines are exposed to other mutagenic factors in addition to radon daughter products. Mycotoxins were identified as a possible source of mutagens in these mines. Mycotoxins were examined in 38 samples from mines and in throat swabs taken from 116 miners and 78 controls. The following mycotoxins were identified from mines samples: aflatoxins B1 and G1, citrinin, citreoviridin, mycophenolic acid, and sterigmatocystin. Some mold strains isolated from mines and throat swabs were investigated for mutagenic activity by the SOS chromotest and Salmonella assay with strains TA100 and TA98. Mutagenicity was observed, especially with metabolic activation in vitro. These data suggest that mycotoxins produced by molds in uranium mines are a new genotoxic factor for uranium miners. PMID:8143610

Seismic tomography as a tool for measuring stress in mines

USGS Publications Warehouse

Scott, Douglas F.; Williams, T.J.; Denton, D.K.; Friedel, M.J.

1999-01-01

Spokane Research Center personnel have been investigating the use of seismic tomography to monitor the behavior of a rock mass, detect hazardous ground conditions and assess the mechanical integrity of a rock mass affected by mining. Seismic tomography can be a valuable tool for determining relative stress in deep, >1,220-m (>4,000-ft), underground pillars. If high-stress areas are detected, they can be destressed prior to development or they can be avoided. High-stress areas can be monitored with successive seismic surveys to determine if stress decreases to a level where development can be initiated safely. There are several benefits to using seismic tomography to identify high stress in deep underground pillars. The technique is reliable, cost-effective, efficient and noninvasive. Also, investigators can monitor large rock masses, as well as monitor pillars during the mining cycle. By identifying areas of high stress, engineers will be able to assure that miners are working in a safer environment.Spokane Research Center personnel have been investigating the use of seismic tomography to monitor the behavior of a rock mass, detect hazardous ground conditions and assess the mechanical integrity of a rock mass affected by mining. Seismic tomography can be a valuable tool for determining relative stress in deep, >1,200-m (>4,000-ft), underground pillars. If high-stress areas are detected, they can be destressed prior to development or they can be avoided. High-stress areas can be monitored with successive seismic surveys to determine if stress decreases to a level where development can be initiated safely. There are several benefits to using seismic tomography to identify high stress in deep underground pillars. The technique is reliable, cost-effective, efficient and noninvasive. Also, investigators can monitor large rock masses, as well as monitor pillars during the mining cycle. By identifying areas of high stress. engineers will be able to assure that miners are working in a safer environment.

Data Mining Research with the LSST

NASA Astrophysics Data System (ADS)

Borne, Kirk D.; Strauss, M. A.; Tyson, J. A.

2007-12-01

The LSST catalog database will exceed 10 petabytes, comprising several hundred attributes for 5 billion galaxies, 10 billion stars, and over 1 billion variable sources (optical variables, transients, or moving objects), extracted from over 20,000 square degrees of deep imaging in 5 passbands with thorough time domain coverage: 1000 visits over the 10-year LSST survey lifetime. The opportunities are enormous for novel scientific discoveries within this rich time-domain ultra-deep multi-band survey database. Data Mining, Machine Learning, and Knowledge Discovery research opportunities with the LSST are now under study, with a potential for new collaborations to develop to contribute to these investigations. We will describe features of the LSST science database that are amenable to scientific data mining, object classification, outlier identification, anomaly detection, image quality assurance, and survey science validation. We also give some illustrative examples of current scientific data mining research in astronomy, and point out where new research is needed. In particular, the data mining research community will need to address several issues in the coming years as we prepare for the LSST data deluge. The data mining research agenda includes: scalability (at petabytes scales) of existing machine learning and data mining algorithms; development of grid-enabled parallel data mining algorithms; designing a robust system for brokering classifications from the LSST event pipeline (which may produce 10,000 or more event alerts per night); multi-resolution methods for exploration of petascale databases; visual data mining algorithms for visual exploration of the data; indexing of multi-attribute multi-dimensional astronomical databases (beyond RA-Dec spatial indexing) for rapid querying of petabyte databases; and more. Finally, we will identify opportunities for synergistic collaboration between the data mining research group and the LSST Data Management and Science Collaboration teams.

Geology of the Deep Creek area, Washington, and its regional significance

USGS Publications Warehouse

Yates, Robert Giertz

1976-01-01

This report, although primarily concerned with the stratigraphy and structure of a lead-zinc mining district in northern Stevens County, Washington, discusses and integrates the geology of the region about the Deep Creek area. Although the study centers in an area of about 200 square miles immediately south of the International Boundary, the regional background comes from: (1)the previously undescribed Northport quadrangle to the west, (2) published reports and reconnaissance of the Metaline quadrangle to the east, and (3) from published reports and maps of a 16 mile wide area that lies to the north adjacent to these three quadrangles in British Columbia. The report is divided into three parts: (1) descriptions of rocks and structures of the Deep Creek area, (2) descriptions of the regional setting of the Deep Creek area, and (3) an analysis and interpretation of the depositional and tectonic events that produced the geologic features exposed today. In the Deep Creek area surficial deposits of sand and gravel of glacial origin cover much of the consolidated rocks, which range in age from greenschist of the late Precambrlan to albite granite of the Eocene. Three broad divisions of depositional history are represented: (1) Precambrian, (2) lower Paleozoic and (3) upper Paleozoic; the record of the Mesozoic and Eocene is fragmentary. The lower Paleozoic division is the only fossil-controlled sequence; the age of the other two divisions were established by less direct methods. Both Precambrian and upper Paleozoic sequences are dominated by fine-grained detrital sediments, the Precambrian tending towards the alumina-rich and the upper Paleozoic tending towards the black shale facies with high silica. Neither sequence has more than trivial amounts of coarse clastics. Both include limestones, but in minor abundance. The lower Paleozoic sequence, on the other hand, represents a progressive change in deposition. The sequence began during the very late Precambrian with the deposition of clean quartz sand. This was followed by the accumulation of a comparatively thin limestone unit succeeded by a thick shale. The shale grades into a thick carbonate unit which in turn is overlain by black graptolitic slates (Ordovician). This general order of deposition holds for the Cambro-Ordovician throughout the area. Precambrian rocks indigenous to the Deep Creek area, have undergone at least six tectonic events of greatly different intensities. The first three of these events are epeirogentic, the fourth involves intense folding, the fifth, crossfolding, and the sixth, block faulting without folding. These events are dated with varying degrees of precision. The two epeirogentic events of the Precambrian, one gentle folding at the beginning of Windermere time and the other high angle faulting and volcanism in mid-Windermere time, did little to deform or metamorphose the rocks. The third event consists of uplift of northern Idaho and adjacent Montana and westward decollement thrusting of essentially unfolded lower Paleozoic rocks. The decollement faulting is inferred to explain anomalous rock distribution and cannot be accurately dated. It occurred sometime after the Devonian and before the Jurassic. A late Paleozoic age is favored.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-16

A volunteer talks with a mining judge near the mining arena on the third day of NASA's 9th Robotic Mining Competition, May 16, at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

15 CFR 971.602 - Significant adverse environmental effects.

Code of Federal Regulations, 2010 CFR

2010-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS... testing of recovery equipment, the recovery of manganese nodules in commercial quantities from the deep seabed, and the construction and operation of commercial-scale processing facilities as activities which...

Parametrization and evaluation of marine environmental impacts produced by deep-sea manganese nodule mining

NASA Astrophysics Data System (ADS)

Oebius, Horst U.; Becker, Hermann J.; Rolinski, Susanne; Jankowski, Jacek A.

The evaluation of marine environmental impacts resulting from the exploitation of marine resources requires the numerical description, parametrization, and modelling of such processes in order to be able to transfer, compare, and forecast the effects of anthropogenic activities in the deep sea. One of the controversial effects is the formation and behaviour of sediment clouds as a consequence of anthropogenic activities on the seafloor. Since there is a need for reliable data, two subprojects of the "Interdisciplinary Deep-sea Environmental Protection Group (TUSCH)"-project "Impacts from Technical Activities on the Deep-Sea Ecosystem of the South East Pacific Offshore Peru (ATESEPP)" were devoted to the assembly of such data. Based on the German technical approach for deep-sea mining, the possible environmental impacts by a miner were estimated, the impacts on the seafloor were simulated and investigated by tests with large volume undisturbed sediment samples on board the research vessel and in the laboratory, and the results were evaluated and extrapolated. This report gives a comprehensive presentation of the physical problems, the technical approach, and the results of these investigations.

Static-stress impact of the 1992 Landers earthquake sequence on nucleation and slip at the site of the 1999 M=7.1 Hector Mine earthquake, southern California

USGS Publications Warehouse

Parsons, Tom; Dreger, Douglas S.

2000-01-01

The proximity in time (∼7 years) and space (∼20 km) between the 1992 M=7.3 Landers earthquake and the 1999 M=7.1 Hector Mine event suggests a possible link between the quakes. We thus calculated the static stress changes following the 1992 Joshua Tree/Landers/Big Bear earthquake sequence on the 1999 M=7.1 Hector Mine rupture plane in southern California. Resolving the stress tensor into rake-parallel and fault-normal components and comparing with changes in the post-Landers seismicity rate allows us to estimate a coefficient of friction on the Hector Mine plane. Seismicity following the 1992 sequence increased at Hector Mine where the fault was unclamped. This increase occurred despite a calculated reduction in right-lateral shear stress. The dependence of seismicity change primarily on normal stress change implies a high coefficient of static friction (µ≥0.8). We calculated the Coulomb stress change using µ=0.8 and found that the Hector Mine hypocenter was mildly encouraged (0.5 bars) by the 1992 earthquake sequence. In addition, the region of peak slip during the Hector Mine quake occurred where Coulomb stress is calculated to have increased by 0.5–1.5 bars. In general, slip was more limited where Coulomb stress was reduced, though there was some slip where the strongest stress decrease was calculated. Interestingly, many smaller earthquakes nucleated at or near the 1999 Hector Mine hypocenter after 1992, but only in 1999 did an event spread to become a M=7.1 earthquake.

The Study of Geotechnical Properties of Sediment in C-C Zone in the Northeastern Pacific for Deep-sea Mining

NASA Astrophysics Data System (ADS)

Chi, S.; Kim, K.; Lee, H.; Ju, S.; Yoo, C.

2007-12-01

Recently the market price of valuable metals are rapidly increased due to the high demand and limited resources. Therefore, manganese (Mn)-nodules (Polymetallic nodules) in the Clarion-Clipperton fracture zone have stimulated economic interest. Nickel, copper, cobalt and manganese are the economically most interesting metals of Mn-nodules. In order to mine Mn-nodules from sea floor, understanding the geotechnical properties of surface sediment are very important for two major reasons. First, geotechnical data are required to design and build the stable and environmentally acceptable mining vehicles. Second, deep-sea mining activity could significantly effect on the surface layer of deep sea floor. For example, surface sediments will be redistributed through the resuspension and redeposition. Reliable sedimentological and soil mechanical baseline data of the undisturbed benthic environment are essential to assess and evaluate these environmental impacts by mining activity using physical and numerical modeling. The 225 times deployments of the multiple corer guaranteed undisturbed sediment samples in which geotechnical parameters were measured including sediment grain size, density, water content, shear strength. The sea floor sediments in this study area are generally characterized into three different types as follow. The seabed of the middle part (8-12° N) of this study area is mainly covered with biogenic siliceous sediment compared with pelagic red clays in the northern part (16-17° N). However, the southern part (5-6° N) is dominant with calcareous sediments because its water depth is shallower than the carbonate compensation depth (CCD). This result suggests that middle area, covered with siliceous sediment, is more feasible for commercial mining than northern area, covered with pelagic red clay, with the consideration of the nodule miner maneuverability and the environmental impact. Especially, middle part with the highest nodule abundance and valuable metal contents is mainly (more than 90% of area) covered with consolidated sediments, which are expected to be appropriate for effective miner movement. Furthermore, middle part with coarse siliceous sediments could be less environmentally disturbed by the mining activity. It makes middle part more plausible site than other sites in this study area for the commercial mining.

15 CFR 971.204 - Environmental and use conflict analysis.

Code of Federal Regulations, 2010 CFR

2010-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS... Administrator to prepare an environmental impact statement (EIS) on the proposed mining activities, and to... Administrator may require the submission of additional data, in the event he determines that the basis for a...

In-depth characterization of bacterial and archaeal communities present in the abandoned Kettara pyrrhotite mine tailings (Morocco).

PubMed

Bruneel, Odile; Mghazli, N; Hakkou, R; Dahmani, I; Filali Maltouf, A; Sbabou, L

2017-07-01

In Morocco, pollution caused by closed mines continues to be a serious threat to the environment, like the generation of acid mine drainage. Mine drainage is produced by environmental and microbial oxidation of sulfur minerals originating from mine wastes. The fundamental role of microbial communities is well known, like implication of Fe-oxidizing and to a lesser extent S-oxidizing microorganism in bioleaching. However, the structure of the microbial communities varies a lot from one site to another, like diversity depends on many factors such as mineralogy, concentration of metals and metalloids or pH, etc. In this study, prokaryotic communities in the pyrrhotite-rich tailings of Kettara mine were characterized using the Illumina sequencing. In-depth phylogenetic analysis revealed a total of 12 phyla of bacteria and 1 phyla of Archaea. The majority of sequences belonged to the phylum of Proteobacteria and Firmicutes with a predominance of Bacillus, Pseudomonas or Corynebacterium genera. Many microbial populations are implicated in the iron, sulfur and arsenic cycles, like Acidiferrobacter, Leptospirillum, or Alicyclobacillus in Fe; Acidiferrobacter and Sulfobacillus in S; and Bacillus or Pseudomonas in As. This is one of the first description of prokaryotic communities in pyrrhotite-rich mine tailings using high-throughput sequencing.

How to Access and Sample the Deep Subsurface of Mars

NASA Technical Reports Server (NTRS)

Briggs, G.; Blacic, J.; Dreesen, D.; Mockler, T.

2000-01-01

We are developing a technology roadmap to support a series of Mars lander missions aimed at successively deeper and more comprehensive explorations of the Martian subsurface. The proposed mission sequence is outlined. Key to this approach is development of a drilling and sampling technology robust and flexible enough to successfully penetrate the presently unknown subsurface geology and structure. Martian environmental conditions, mission constraints of power and mass and a requirement for a high degree of automation all limit applicability of many proven terrestrial drilling technologies. Planetary protection and bioscience objectives further complicate selection of candidate systems. Nevertheless, recent advances in drilling technologies for the oil & gas, mining, underground utility and other specialty drilling industries convinces us that it will be possible to meet science and operational objectives of Mars subsurface exploration.

Quantitative phenotyping via deep barcode sequencing

PubMed Central

Smith, Andrew M.; Heisler, Lawrence E.; Mellor, Joseph; Kaper, Fiona; Thompson, Michael J.; Chee, Mark; Roth, Frederick P.; Giaever, Guri; Nislow, Corey

2009-01-01

Next-generation DNA sequencing technologies have revolutionized diverse genomics applications, including de novo genome sequencing, SNP detection, chromatin immunoprecipitation, and transcriptome analysis. Here we apply deep sequencing to genome-scale fitness profiling to evaluate yeast strain collections in parallel. This method, Barcode analysis by Sequencing, or “Bar-seq,” outperforms the current benchmark barcode microarray assay in terms of both dynamic range and throughput. When applied to a complex chemogenomic assay, Bar-seq quantitatively identifies drug targets, with performance superior to the benchmark microarray assay. We also show that Bar-seq is well-suited for a multiplex format. We completely re-sequenced and re-annotated the yeast deletion collection using deep sequencing, found that ∼20% of the barcodes and common priming sequences varied from expectation, and used this revised list of barcode sequences to improve data quality. Together, this new assay and analysis routine provide a deep-sequencing-based toolkit for identifying gene–environment interactions on a genome-wide scale. PMID:19622793

Low frequency seismic noise acquisition and analysis in the Homestake Mine with tunable monolithic horizontal sensors

NASA Astrophysics Data System (ADS)

Acernese, Fausto; De Rosa, Rosario; DeSalvo, Riccardo; Giordano, Gerardo; Harms, Jan; Mandic, Vuk; Sajeva, Angelo; Trancynger, Thomas; Barone, Fabrizio

2010-04-01

In this paper we describe the scientific data recorded along one month of data taking of two mechanical monolithic horizontal sensor prototypes located in a blind-ended (side) tunnel 2000 ft deep in the Homestake (South Dakota, USA) mine chosen to host the Deep Underground Science and Engineering Laboratory (DUSEL). The two mechanical monolithic sensors, developed at the University of Salerno, are placed, in thermally insulating enclosures, onto concrete slabs connected to the bedrock, and behind a sound-proofing wall. The main goal of this experiment is to characterize the Homestake site in the frequency band 10-4 - 30Hz and to estimate the level of Newtonian noise in a deep underegropund laboratory. The horizontal semidiurnal Earth tide and the Peterson's New Low Noise Model have been measured.

Development of a novel low frequency GPR system for ultra-deep detection in Mine

NASA Astrophysics Data System (ADS)

Xu, Xianlei; Peng, Suping; Yang, Feng

2016-04-01

Mine disasters sources is the main source of the underground coal mine accidents in China. This paper describes the development of a novel explosion proof ground penetrating radar (GPR) for mine disasters sources detection, aiming to solve the current problems of the small detection range and low precision in the mine advanced detection in China. A high performance unipolar pulse transmitting unit is developed by using avalanche transistors, and an effective pulse excitation source network. And a new pluggable combined low-frequency antenna involving three frequencies with 12.5MHz, 25 MHz and 50MHz, is designed and developed. The plate-type structure is designed, aiming to enhance the directivity of the antenna, and the achievement of the antenna impedance matching is implemented in the feed point based on the extensions interface design, enhancing the antenna bandwidth and reducing the standing wave interference. Moreover, a high precision stepper delay circuit is designed by transforming the number of the operational amplifier step and using the differential compensation between the metal-oxide semiconductor field effect transistors, aiming to improve the accuracy of the signal acquisition system. In order to adapt to the mine environment, the explosion-proof design is implemented for the GPR system, including the host, transmitter, receiver, battery box, antenna, and other components.Mine detection experiments is carried out and the results show: the novel GPR system can effectively detect the location and depth of the geological disasters source with the depth greater than30 m and the diameter greater than 3m, the maximum detection depth can be up to 80m, which break the current detection depth limitations within 30m, providing an effective technical support for the ultra-deep mine disasters detection and the safety problems in coal mine production.

Hymenoptera Genome Database: integrating genome annotations in HymenopteraMine

PubMed Central

Elsik, Christine G.; Tayal, Aditi; Diesh, Colin M.; Unni, Deepak R.; Emery, Marianne L.; Nguyen, Hung N.; Hagen, Darren E.

2016-01-01

We report an update of the Hymenoptera Genome Database (HGD) (http://HymenopteraGenome.org), a model organism database for insect species of the order Hymenoptera (ants, bees and wasps). HGD maintains genomic data for 9 bee species, 10 ant species and 1 wasp, including the versions of genome and annotation data sets published by the genome sequencing consortiums and those provided by NCBI. A new data-mining warehouse, HymenopteraMine, based on the InterMine data warehousing system, integrates the genome data with data from external sources and facilitates cross-species analyses based on orthology. New genome browsers and annotation tools based on JBrowse/WebApollo provide easy genome navigation, and viewing of high throughput sequence data sets and can be used for collaborative genome annotation. All of the genomes and annotation data sets are combined into a single BLAST server that allows users to select and combine sequence data sets to search. PMID:26578564

Preliminary study of detection of buried landmines using a programmable hyperspectral imager

NASA Astrophysics Data System (ADS)

McFee, John E.; Ripley, Herb T.; Buxton, Roger; Thriscutt, Andrew M.

1996-05-01

Experiments were conducted to determine if buried mines could be detected by measuring the change in reflectance spectra of vegetation above mine burial sites. Mines were laid using hand methods and simulated mechanical methods and spectral images were obtained over a three month period using a casi hyperspectral imager scanned from a personnel lift. Mines were not detectable by measurement of the shift of the red edge of vegetative spectra. By calculating the linear correlation coefficient image, some mines in light vegetative cover (grass, grass/blueberries) were apparently detected, but mines buried in heavy vegetation cover (deep ferns) were not detectable. Due to problems with ground truthing, accurate probabilities of detection and false alarm rates were not obtained.

Anchor-Free Localization Method for Mobile Targets in Coal Mine Wireless Sensor Networks

PubMed Central

Pei, Zhongmin; Deng, Zhidong; Xu, Shuo; Xu, Xiao

2009-01-01

Severe natural conditions and complex terrain make it difficult to apply precise localization in underground mines. In this paper, an anchor-free localization method for mobile targets is proposed based on non-metric multi-dimensional scaling (Multi-dimensional Scaling: MDS) and rank sequence. Firstly, a coal mine wireless sensor network is constructed in underground mines based on the ZigBee technology. Then a non-metric MDS algorithm is imported to estimate the reference nodes’ location. Finally, an improved sequence-based localization algorithm is presented to complete precise localization for mobile targets. The proposed method is tested through simulations with 100 nodes, outdoor experiments with 15 ZigBee physical nodes, and the experiments in the mine gas explosion laboratory with 12 ZigBee nodes. Experimental results show that our method has better localization accuracy and is more robust in underground mines. PMID:22574048

Anchor-free localization method for mobile targets in coal mine wireless sensor networks.

PubMed

Pei, Zhongmin; Deng, Zhidong; Xu, Shuo; Xu, Xiao

2009-01-01

Severe natural conditions and complex terrain make it difficult to apply precise localization in underground mines. In this paper, an anchor-free localization method for mobile targets is proposed based on non-metric multi-dimensional scaling (Multi-dimensional Scaling: MDS) and rank sequence. Firstly, a coal mine wireless sensor network is constructed in underground mines based on the ZigBee technology. Then a non-metric MDS algorithm is imported to estimate the reference nodes' location. Finally, an improved sequence-based localization algorithm is presented to complete precise localization for mobile targets. The proposed method is tested through simulations with 100 nodes, outdoor experiments with 15 ZigBee physical nodes, and the experiments in the mine gas explosion laboratory with 12 ZigBee nodes. Experimental results show that our method has better localization accuracy and is more robust in underground mines.

Sanford Underground Research Facility - The United State's Deep Underground Research Facility

NASA Astrophysics Data System (ADS)

Vardiman, D.

2012-12-01

The 2.5 km deep Sanford Underground Research Facility (SURF) is managed by the South Dakota Science and Technology Authority (SDSTA) at the former Homestake Mine site in Lead, South Dakota. The US Department of Energy currently supports the development of the facility using a phased approach for underground deployment of experiments as they obtain an advanced design stage. The geology of the Sanford Laboratory site has been studied during the 125 years of operations at the Homestake Mine and more recently as part of the preliminary geotechnical site investigations for the NSF's Deep Underground Science and Engineering Laboratory project. The overall geology at DUSEL is a well-defined stratigraphic sequence of schist and phyllites. The three major Proterozoic units encountered in the underground consist of interbedded schist, metasediments, and amphibolite schist which are crosscut by Tertiary rhyolite dikes. Preliminary geotechnical site investigations included drift mapping, borehole drilling, borehole televiewing, in-situ stress analysis, laboratory analysis of core, mapping and laser scanning of new excavations, modeling and analysis of all geotechnical information. The investigation was focused upon the determination if the proposed site rock mass could support the world's largest (66 meter diameter) deep underground excavation. While the DUSEL project has subsequently been significantly modified, these data are still available to provide a baseline of the ground conditions which may be judiciously extrapolated throughout the entire Proterozoic rock assemblage for future excavations. Recommendations for facility instrumentation and monitoring were included in the preliminary design of the DUSEL project design and include; single and multiple point extensometers, tape extensometers and convergence measurements (pins), load cells and pressure cells, smart cables, inclinometers/Tiltmeters, Piezometers, thermistors, seismographs and accelerometers, scanners (laser/LIDAR), surveying instruments, and surveying benchmarks and optical survey points. Currently an array of single and multipoint extensometers monitors the Davis Campus. A facility-wide micro seismic monitoring system is anticipated to be deployed during the latter half of 2012. This system is designed to monitor minor events initiated within the historical mined out portions of the facility. The major science programs for the coming five years consist of the MAJORANA DEMONSTRATOR (MJD) neutrinoless double beta decay experiment; the Large Underground Xenon (LUX) dark matter search, the Center for Ultralow Background Experiments at DUSEL (CUBED), numerous geoscience installations, Long-Baseline Neutrino Experiment (LBNE), a nuclear astrophysics program involving a low energy underground particle accelerator, second and third generation dark matter experiments, and additional low background counting facilities. The Sanford Lab facility is an active, U.S. based, deep underground research facility dedicated to science, affording the science community the opportunity to conduct unprecedented scientific research in a broad range of physics, biology and geoscience fields at depth. SURF is actively interested in hosting additional research collaborations and provides resources for full facility design, cost estimation, excavation, construction and support management services.

ClusterMine360: a database of microbial PKS/NRPS biosynthesis

PubMed Central

Conway, Kyle R.; Boddy, Christopher N.

2013-01-01

ClusterMine360 (http://www.clustermine360.ca/) is a database of microbial polyketide and non-ribosomal peptide gene clusters. It takes advantage of crowd-sourcing by allowing members of the community to make contributions while automation is used to help achieve high data consistency and quality. The database currently has >200 gene clusters from >185 compound families. It also features a unique sequence repository containing >10 000 polyketide synthase/non-ribosomal peptide synthetase domains. The sequences are filterable and downloadable as individual or multiple sequence FASTA files. We are confident that this database will be a useful resource for members of the polyketide synthases/non-ribosomal peptide synthetases research community, enabling them to keep up with the growing number of sequenced gene clusters and rapidly mine these clusters for functional information. PMID:23104377

Mitigating wildfire carbon loss in managed northern peatlands through restoration.

PubMed

Granath, Gustaf; Moore, Paul A; Lukenbach, Maxwell C; Waddington, James M

2016-06-27

Northern peatlands can emit large amounts of carbon and harmful smoke pollution during a wildfire. Of particular concern are drained and mined peatlands, where management practices destabilize an array of ecohydrological feedbacks, moss traits and peat properties that moderate water and carbon losses in natural peatlands. Our results demonstrate that drained and mined peatlands in Canada and northern Europe can experience catastrophic deep burns (>200 t C ha(-1) emitted) under current weather conditions. Furthermore, climate change will cause greater water losses in these peatlands and subject even deeper peat layers to wildfire combustion. However, the rewetting of drained peatlands and the restoration of mined peatlands can effectively lower the risk of these deep burns, especially if a new peat moss layer successfully establishes and raises peat moisture content. We argue that restoration efforts are a necessary measure to mitigate the risk of carbon loss in managed peatlands under climate change.

Mitigating wildfire carbon loss in managed northern peatlands through restoration

NASA Astrophysics Data System (ADS)

Granath, Gustaf; Moore, Paul A.; Lukenbach, Maxwell C.; Waddington, James M.

2016-06-01

Northern peatlands can emit large amounts of carbon and harmful smoke pollution during a wildfire. Of particular concern are drained and mined peatlands, where management practices destabilize an array of ecohydrological feedbacks, moss traits and peat properties that moderate water and carbon losses in natural peatlands. Our results demonstrate that drained and mined peatlands in Canada and northern Europe can experience catastrophic deep burns (>200 t C ha-1 emitted) under current weather conditions. Furthermore, climate change will cause greater water losses in these peatlands and subject even deeper peat layers to wildfire combustion. However, the rewetting of drained peatlands and the restoration of mined peatlands can effectively lower the risk of these deep burns, especially if a new peat moss layer successfully establishes and raises peat moisture content. We argue that restoration efforts are a necessary measure to mitigate the risk of carbon loss in managed peatlands under climate change.

Mitigating wildfire carbon loss in managed northern peatlands through restoration

PubMed Central

Granath, Gustaf; Moore, Paul A.; Lukenbach, Maxwell C.; Waddington, James M.

2016-01-01

Northern peatlands can emit large amounts of carbon and harmful smoke pollution during a wildfire. Of particular concern are drained and mined peatlands, where management practices destabilize an array of ecohydrological feedbacks, moss traits and peat properties that moderate water and carbon losses in natural peatlands. Our results demonstrate that drained and mined peatlands in Canada and northern Europe can experience catastrophic deep burns (>200 t C ha−1 emitted) under current weather conditions. Furthermore, climate change will cause greater water losses in these peatlands and subject even deeper peat layers to wildfire combustion. However, the rewetting of drained peatlands and the restoration of mined peatlands can effectively lower the risk of these deep burns, especially if a new peat moss layer successfully establishes and raises peat moisture content. We argue that restoration efforts are a necessary measure to mitigate the risk of carbon loss in managed peatlands under climate change. PMID:27346604

Discovery radiomics via evolutionary deep radiomic sequencer discovery for pathologically proven lung cancer detection.

PubMed

Shafiee, Mohammad Javad; Chung, Audrey G; Khalvati, Farzad; Haider, Masoom A; Wong, Alexander

2017-10-01

While lung cancer is the second most diagnosed form of cancer in men and women, a sufficiently early diagnosis can be pivotal in patient survival rates. Imaging-based, or radiomics-driven, detection methods have been developed to aid diagnosticians, but largely rely on hand-crafted features that may not fully encapsulate the differences between cancerous and healthy tissue. Recently, the concept of discovery radiomics was introduced, where custom abstract features are discovered from readily available imaging data. We propose an evolutionary deep radiomic sequencer discovery approach based on evolutionary deep intelligence. Motivated by patient privacy concerns and the idea of operational artificial intelligence, the evolutionary deep radiomic sequencer discovery approach organically evolves increasingly more efficient deep radiomic sequencers that produce significantly more compact yet similarly descriptive radiomic sequences over multiple generations. As a result, this framework improves operational efficiency and enables diagnosis to be run locally at the radiologist's computer while maintaining detection accuracy. We evaluated the evolved deep radiomic sequencer (EDRS) discovered via the proposed evolutionary deep radiomic sequencer discovery framework against state-of-the-art radiomics-driven and discovery radiomics methods using clinical lung CT data with pathologically proven diagnostic data from the LIDC-IDRI dataset. The EDRS shows improved sensitivity (93.42%), specificity (82.39%), and diagnostic accuracy (88.78%) relative to previous radiomics approaches.

Large-Scale Constraint-Based Pattern Mining

ERIC Educational Resources Information Center

Zhu, Feida

2009-01-01

We studied the problem of constraint-based pattern mining for three different data formats, item-set, sequence and graph, and focused on mining patterns of large sizes. Colossal patterns in each data formats are studied to discover pruning properties that are useful for direct mining of these patterns. For item-set data, we observed robustness of…

Discontinuum-Equivalent Continuum Analysis of the Stability of Tunnels in a Deep Coal Mine Using the Distinct Element Method

NASA Astrophysics Data System (ADS)

Shreedharan, Srisharan; Kulatilake, Pinnaduwa H. S. W.

2016-05-01

An imperative task for successful underground mining is to ensure the stability of underground structures. This is more so for deep excavations which may be under significantly high stresses. In this manuscript, we present stability studies on two tunnels, a horseshoe-shaped and an inverted arch-shaped tunnel, in a deep coal mine in China, performed using the 3DEC distinct element code. The rock mass mechanical property values for the tunnel shapes have been estimated through a back-analysis procedure using available field deformation data. The back-analysis has been carried out through a pseudo-time dependent support installation routine which incorporates the effect of time through a stress-relaxation mechanism. The back-analysis indicates that the rock mass cohesion, tensile strength, uniaxial compressive strength, and elastic modulus values are about 35-45 % of the corresponding intact rock property values. Additionally, the importance of incorporating stress relaxation before support installation has been illustrated through the increased support factor of safety and reduced grout failures. The calibrated models have been analyzed for different supported and unsupported cases to estimate the significance and adequacy of the current supports being used in the mine and to suggest a possible optimization. The effects of supports have been demonstrated using deformations and yield zones around the tunnels, and average factors of safety and grout failures of the supports. The use of longer supports and floor bolting has provided greater stability for the rock masses around the tunnels. Finally, a comparison between the two differently shaped tunnels establishes that the inverted arch tunnel may be more efficient in reducing roof sag and floor heave for the existing geo-mining conditions.

Deep Submarine Tailings Disposal (DSTP) the Proposed Use of Submarine Canyons and Artificial Turbidity Currents for the Disposal of Mine Waste: Current Practice, Future Plans, and Cumulative Impacts.

NASA Astrophysics Data System (ADS)

Young, R.; Moran, R.

2015-12-01

The wastes from mining operations ( tailings) have been disposed of in the fluvial environment (riverine disposal) and in nearshore marine environments for much of the last century. The scale of modern mining operations has led to increasing use of steep slopes and submarine canyons for deposition of these wastes at depths of 2000m - 4000m. Current mine disposal operations in Indonesia and Papua New Guinea which use Deep Sea Tailings Placement (DSTP) release volumes between 5000 tpd and 160,000 tpd. Planning is underway by the"Consortium," an industry and government group in Chile which would deposit mine waste of 1M tpd into the Humbolt Current Large Marine Ecosystem (HCLME) which provides nearly 20% of the fish biomass harvested on a sustainable basis worldwide. Underwater pipelines discharge tailings as a slurry to create a continuous artificial turbidity current with particle size distribtions (PSD's) ranging from sand to clay sized fractions. Potential problems arise from benthic smothering, angular particulate uptake by benthic organisms, and from the bioaccumulation of a complex of heavy metals by both benthic and pelagic species. While much is known about the binding of copper and other toxic heavy metals in a reducing environment, little has been done to consider the implications of ocean dumping where 1% of tailings discharged may consist of unrecovered heavy metals. Synergistic cumulative impacts to just the HCLME from the dumping of the more than 3M tpy of reactive metals in these tailings sediments remains unknown and poses substantial risks. DSTP assumes a stable deep sea depositional environment but upwelling currents and plume shear may make this hard to accomplish.

Roadway backfill method to prevent geohazards induced by room and pillar mining: a case study in Changxing coal mine, China

NASA Astrophysics Data System (ADS)

Zhou, Nan; Li, Meng; Zhang, Jixiong; Gao, Rui

2016-11-01

Coal mines in the western areas of China experience low mining rates and induce many geohazards when using the room and pillar mining method. In this research, we proposed a roadway backfill method during longwall mining to target these problems. We tested the mechanical properties of the backfill materials to determine a reasonable ratio of backfill materials for the driving roadway during longwall mining. We also introduced the roadway layout and the backfill mining technique required for this method. Based on the effects of the abutment stress from a single roadway driving task, we designed the distance between roadways and a driving and filling sequence for multiple-roadway driving. By doing so, we found the movement characteristics of the strata with quadratic stabilization for backfill mining during roadway driving. Based on this research, the driving and filling sequence of the 3101 working face in Changxing coal mine was optimized to avoid the superimposed influence of mining-induced stress. According to the analysis of the surface monitoring data, the accumulated maximum subsidence is 15 mm and the maximum horizontal deformation is 0.8 mm m-1, which indicated that the ground basically had no obvious deformation after the implementation of the roadway backfill method at 3101 working face.

Predicting RNA-protein binding sites and motifs through combining local and global deep convolutional neural networks.

PubMed

Pan, Xiaoyong; Shen, Hong-Bin

2018-05-02

RNA-binding proteins (RBPs) take over 5∼10% of the eukaryotic proteome and play key roles in many biological processes, e.g. gene regulation. Experimental detection of RBP binding sites is still time-intensive and high-costly. Instead, computational prediction of the RBP binding sites using pattern learned from existing annotation knowledge is a fast approach. From the biological point of view, the local structure context derived from local sequences will be recognized by specific RBPs. However, in computational modeling using deep learning, to our best knowledge, only global representations of entire RNA sequences are employed. So far, the local sequence information is ignored in the deep model construction process. In this study, we present a computational method iDeepE to predict RNA-protein binding sites from RNA sequences by combining global and local convolutional neural networks (CNNs). For the global CNN, we pad the RNA sequences into the same length. For the local CNN, we split a RNA sequence into multiple overlapping fixed-length subsequences, where each subsequence is a signal channel of the whole sequence. Next, we train deep CNNs for multiple subsequences and the padded sequences to learn high-level features, respectively. Finally, the outputs from local and global CNNs are combined to improve the prediction. iDeepE demonstrates a better performance over state-of-the-art methods on two large-scale datasets derived from CLIP-seq. We also find that the local CNN run 1.8 times faster than the global CNN with comparable performance when using GPUs. Our results show that iDeepE has captured experimentally verified binding motifs. https://github.com/xypan1232/iDeepE. xypan172436@gmail.com or hbshen@sjtu.edu.cn. Supplementary data are available at Bioinformatics online.

PlanMine--a mineable resource of planarian biology and biodiversity.

PubMed

Brandl, Holger; Moon, HongKee; Vila-Farré, Miquel; Liu, Shang-Yun; Henry, Ian; Rink, Jochen C

2016-01-04

Planarian flatworms are in the midst of a renaissance as a model system for regeneration and stem cells. Besides two well-studied model species, hundreds of species exist worldwide that present a fascinating diversity of regenerative abilities, tissue turnover rates, reproductive strategies and other life history traits. PlanMine (http://planmine.mpi-cbg.de/) aims to accomplish two primary missions: First, to provide an easily accessible platform for sharing, comparing and value-added mining of planarian sequence data. Second, to catalyze the comparative analysis of the phenotypic diversity amongst planarian species. Currently, PlanMine houses transcriptomes independently assembled by our lab and community contributors. Detailed assembly/annotation statistics, a custom-developed BLAST viewer and easy export options enable comparisons at the contig and assembly level. Consistent annotation of all transcriptomes by an automated pipeline, the integration of published gene expression information and inter-relational query tools provide opportunities for mining planarian gene sequences and functions. For inter-species comparisons, we include transcriptomes of, so far, six planarian species, along with images, expert-curated information on their biology and pre-calculated cross-species sequence homologies. PlanMine is based on the popular InterMine system in order to make the rich biology of planarians accessible to the general life sciences research community. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

Evaluation of the Kloswall longwall mining system

NASA Astrophysics Data System (ADS)

Guay, P. J.

1982-04-01

A new longwal mining system specifically designed to extract a very deep web (48 inches or deeper) from a longwall panel was studied. Productivity and cost analysis comparing the new mining system with a conventional longwall operation taking a 30 inch wide web is presented. It is shown that the new system will increase annual production and return on investment in most cases. Conceptual drawings and specifications for a high capacity three drum shearer and a unique shield type of roof support specifically designed for very wide web operation are reported. The advantages and problems associated with wide web mining in general and as they relate specifically to the equipment selected for the new mining system are discussed.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-16

Team members cheer during their robot miner's turn in the mining arena on the third day of NASA's 9th Robotic Mining Competition, May 16, at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-16

On the third day of NASA's 9th Robotic Mining Competition, May 16, two robot miners dig in the dirt in the mining arena at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Resilience of benthic deep-sea fauna to mining activities.

PubMed

Gollner, Sabine; Kaiser, Stefanie; Menzel, Lena; Jones, Daniel O B; Brown, Alastair; Mestre, Nelia C; van Oevelen, Dick; Menot, Lenaick; Colaço, Ana; Canals, Miquel; Cuvelier, Daphne; Durden, Jennifer M; Gebruk, Andrey; Egho, Great A; Haeckel, Matthias; Marcon, Yann; Mevenkamp, Lisa; Morato, Telmo; Pham, Christopher K; Purser, Autun; Sanchez-Vidal, Anna; Vanreusel, Ann; Vink, Annemiek; Martinez Arbizu, Pedro

2017-08-01

With increasing demand for mineral resources, extraction of polymetallic sulphides at hydrothermal vents, cobalt-rich ferromanganese crusts at seamounts, and polymetallic nodules on abyssal plains may be imminent. Here, we shortly introduce ecosystem characteristics of mining areas, report on recent mining developments, and identify potential stress and disturbances created by mining. We analyze species' potential resistance to future mining and perform meta-analyses on population density and diversity recovery after disturbances most similar to mining: volcanic eruptions at vents, fisheries on seamounts, and experiments that mimic nodule mining on abyssal plains. We report wide variation in recovery rates among taxa, size, and mobility of fauna. While densities and diversities of some taxa can recover to or even exceed pre-disturbance levels, community composition remains affected after decades. The loss of hard substrata or alteration of substrata composition may cause substantial community shifts that persist over geological timescales at mined sites. Copyright © 2017 Elsevier Ltd. All rights reserved.

Hydrogeochemistry and stable isotopes of ground and surface waters from two adjacent closed basins, Atacama Desert, northern Chile

USGS Publications Warehouse

Alpers, Charles N.; Whittemore, Donald O.

1990-01-01

The geochemistry and stable isotopes of groundwaters, surface waters, and precipitation indicate different sources of some dissolved constituents, but a common source of recharge and other constituents in two adjacent closed basins in the Atacama Desert region of northern Chile (24??15???-24??45???S). Waters from artesian wells, trenches, and ephemeral streams in the Punta Negra Basin are characterized by concentrations of Na>Ca>Mg and Cl ???SO4, with TDS Mg ??? Ca and SO4 > Cl, with TDS also Mg ??? Ca and SO4 > Cl, but with TDS up to 40 g/l. The deep mine waters have pH between 3.2 and 3.9, and are high in dissolved CO2 (??13 C = -4.8%PDB), indicating probable interaction with oxidizing sulfides. The deep mine waters have ??18O values of ???-1.8%.compared with values < -3.5??? for other Hamburgo Basin waters; thus the mine waters may represent a mixture of meteoric waters with deeper "metamorphic" waters, which had interacted with rocks and exchanged oxygen isotopes at elevated temperatures. Alternatively, the deep mine waters may represent fossil meteoric waters which evolved isotopically along an evaporative trend starting from values quite depleted in ??18O and ??Dd relative to either precipitation or shallow groundwaters. High I/Br ratios in the Hamburgo Basin waters and La Escondida mine waters are consistent with regionally high I in surficial deposits in the Atacama Desert region and may represent dissolution of a wind-blown evaporite component. Rain and snow collected during June 1984, indicate systematic ??18O and ??D fractionation with increasing elevation between 3150 and 4180 m a.s.l. (-0.21??.??18O and -1.7??.??D per 100 m). Excluding the deep mine waters from La Escondida, the waters from the Hamburgo and Punta Negra Basins have similar ??D and ??18O values and together show a distinct evaporative trend (??D = 5.0 ??18O - 20.2). Snowmelt from the central Andes Cordillera to the east is the most likely source of recharge to both basins. Some of the waters in the Hamburgo Basin may have been recharged during late Pleistocene, when the climate was wetter and a lake filled the intervening Punta Negra Basin, as suggested by recent archaeological and geomorphological studies. ?? 1990.

Monitoring genotoxic exposure in uranium mines

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sram, R.J.; Vesela, D.; Vesely, D.

1993-10-01

Recent data from deep uranium mines in Czechoslovakia indicated that miners are exposed to other mutagenic factors in addition to radon daughter products. Mycotoxins were identified as a possible source of mutagens in these mines. Mycotoxins were examined in 38 samples from mines and in throat swabs taken from 116 miners and 78 controls. The following mycotoxins were identified from mines samples: aflatoxins B{sub 1} and G1, citrinin, citreoviridin, mycophenolic acid, and sterigmatocystin. Some mold strains isolated from mines and throat swabs were investigated for mutagenic activity by the SOS chromotest and Salmonella assay with strains TA100 and TA98. Mutagenicitymore » was observed, especially with metabolic activation in citro. These data suggest that mycotoxins produced by molds in uranium mines are a new genotoxic factor im uranium miners. 17 refs., 4 tabs.« less

A Prototype Performance Assessment Model for Generic Deep Borehole Repository for High-Level Nuclear Waste - 12132

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lee, Joon H.; Arnold, Bill W.; Swift, Peter N.

2012-07-01

A deep borehole repository is one of the four geologic disposal system options currently under study by the U.S. DOE to support the development of a long-term strategy for geologic disposal of commercial used nuclear fuel (UNF) and high-level radioactive waste (HLW). The immediate goal of the generic deep borehole repository study is to develop the necessary modeling tools to evaluate and improve the understanding of the repository system response and processes relevant to long-term disposal of UNF and HLW in a deep borehole. A prototype performance assessment model for a generic deep borehole repository has been developed using themore » approach for a mined geological repository. The preliminary results from the simplified deep borehole generic repository performance assessment indicate that soluble, non-sorbing (or weakly sorbing) fission product radionuclides, such as I-129, Se-79 and Cl-36, are the likely major dose contributors, and that the annual radiation doses to hypothetical future humans associated with those releases may be extremely small. While much work needs to be done to validate the model assumptions and parameters, these preliminary results highlight the importance of a robust seal design in assuring long-term isolation, and suggest that deep boreholes may be a viable alternative to mined repositories for disposal of both HLW and UNF. (authors)« less

Nematoda from the terrestrial deep subsurface of South Africa.

PubMed

Borgonie, G; García-Moyano, A; Litthauer, D; Bert, W; Bester, A; van Heerden, E; Möller, C; Erasmus, M; Onstott, T C

2011-06-02

Since its discovery over two decades ago, the deep subsurface biosphere has been considered to be the realm of single-cell organisms, extending over three kilometres into the Earth's crust and comprising a significant fraction of the global biosphere. The constraints of temperature, energy, dioxygen and space seemed to preclude the possibility of more-complex, multicellular organisms from surviving at these depths. Here we report species of the phylum Nematoda that have been detected in or recovered from 0.9-3.6-kilometre-deep fracture water in the deep mines of South Africa but have not been detected in the mining water. These subsurface nematodes, including a new species, Halicephalobus mephisto, tolerate high temperature, reproduce asexually and preferentially feed upon subsurface bacteria. Carbon-14 data indicate that the fracture water in which the nematodes reside is 3,000-12,000-year-old palaeometeoric water. Our data suggest that nematodes should be found in other deep hypoxic settings where temperature permits, and that they may control the microbial population density by grazing on fracture surface biofilm patches. Our results expand the known metazoan biosphere and demonstrate that deep ecosystems are more complex than previously accepted. The discovery of multicellular life in the deep subsurface of the Earth also has important implications for the search for subsurface life on other planets in our Solar System.

Groundwater mixing dynamics at a Canadian Shield mine

NASA Astrophysics Data System (ADS)

Douglas, M.; Clark, I. D.; Raven, K.; Bottomley, D.

2000-08-01

Temporal and spatial variations in geochemistry and isotopes in mine inflows at the Con Mine, Yellowknife, are studied to access the impact of underground openings on deep groundwater flow in the Canadian Shield. Periodic sampling of inflow at 20 sites from 700 to 1615 m depth showed that salinities range from 1.4 to 290 g/l, with tritium detected at all depths. Three mixing end-members are identified: (1) Ca(Na)-Cl Shield brine; (2) glacial meltwater recharged at the margin of the retreating Laurentide ice sheet at ˜10 ka; and (3) modern meteoric water. Mixing fractions, calculated for inflows on five mine levels, illustrate the infiltration of modern water along specific fault planes. Tritium data for the modern component are corrected for mixing with brine and glacial waters and interpreted with an exponential-piston flow model. Results indicate that the mean transit time from surface to 1300 m depth is about 23 years in the early period after drift construction in 1979, but decreases to about 17 years in the past decade. The persistence of glacial meltwater in the subsurface to the present time, and the rapid circulation of modern meteoric water since the start of mining activities underline the importance of gradient, in addition to permeability, as a control on deep groundwater flow in the Canadian Shield.

Mining biological databases for candidate disease genes

NASA Astrophysics Data System (ADS)

Braun, Terry A.; Scheetz, Todd; Webster, Gregg L.; Casavant, Thomas L.

2001-07-01

The publicly-funded effort to sequence the complete nucleotide sequence of the human genome, the Human Genome Project (HGP), has currently produced more than 93% of the 3 billion nucleotides of the human genome into a preliminary `draft' format. In addition, several valuable sources of information have been developed as direct and indirect results of the HGP. These include the sequencing of model organisms (rat, mouse, fly, and others), gene discovery projects (ESTs and full-length), and new technologies such as expression analysis and resources (micro-arrays or gene chips). These resources are invaluable for the researchers identifying the functional genes of the genome that transcribe and translate into the transcriptome and proteome, both of which potentially contain orders of magnitude more complexity than the genome itself. Preliminary analyses of this data identified approximately 30,000 - 40,000 human `genes.' However, the bulk of the effort still remains -- to identify the functional and structural elements contained within the transcriptome and proteome, and to associate function in the transcriptome and proteome to genes. A fortuitous consequence of the HGP is the existence of hundreds of databases containing biological information that may contain relevant data pertaining to the identification of disease-causing genes. The task of mining these databases for information on candidate genes is a commercial application of enormous potential. We are developing a system to acquire and mine data from specific databases to aid our efforts to identify disease genes. A high speed cluster of Linux of workstations is used to analyze sequence and perform distributed sequence alignments as part of our data mining and processing. This system has been used to mine GeneMap99 sequences within specific genomic intervals to identify potential candidate disease genes associated with Bardet-Biedle Syndrome (BBS).

Improving microbial fitness in the mammalian gut by in vivo temporal functional metagenomics

DOE Office of Scientific and Technical Information (OSTI.GOV)

Yaung, Stephanie J.; Deng, Luxue; Li, Ning

Elucidating functions of commensal microbial genes in the mammalian gut is challenging because many commensals are recalcitrant to laboratory cultivation and genetic manipulation. We present Temporal FUnctional Metagenomics sequencing (TFUMseq), a platform to functionally mine bacterial genomes for genes that contribute to fitness of commensal bacteria in vivo. Our approach uses metagenomic DNA to construct large-scale heterologous expression libraries that are tracked over time in vivo by deep sequencing and computational methods. To demonstrate our approach, we built a TFUMseq plasmid library using the gut commensal Bacteroides thetaiotaomicron (Bt) and introduced Escherichia coli carrying this library into germfree mice. Populationmore » dynamics of library clones revealed Bt genes conferring significant fitness advantages in E. coli over time, including carbohydrate utilization genes, with a Bt galactokinase central to early colonization, and subsequent dominance by a Bt glycoside hydrolase enabling sucrose metabolism coupled with co-evolution of the plasmid library and E. coli genome driving increased galactose utilization. Here, our findings highlight the utility of functional metagenomics for engineering commensal bacteria with improved properties, including expanded colonization capabilities in vivo.« less

Improving microbial fitness in the mammalian gut by in vivo temporal functional metagenomics

DOE PAGES

Yaung, Stephanie J.; Deng, Luxue; Li, Ning; ...

2015-03-11

Elucidating functions of commensal microbial genes in the mammalian gut is challenging because many commensals are recalcitrant to laboratory cultivation and genetic manipulation. We present Temporal FUnctional Metagenomics sequencing (TFUMseq), a platform to functionally mine bacterial genomes for genes that contribute to fitness of commensal bacteria in vivo. Our approach uses metagenomic DNA to construct large-scale heterologous expression libraries that are tracked over time in vivo by deep sequencing and computational methods. To demonstrate our approach, we built a TFUMseq plasmid library using the gut commensal Bacteroides thetaiotaomicron (Bt) and introduced Escherichia coli carrying this library into germfree mice. Populationmore » dynamics of library clones revealed Bt genes conferring significant fitness advantages in E. coli over time, including carbohydrate utilization genes, with a Bt galactokinase central to early colonization, and subsequent dominance by a Bt glycoside hydrolase enabling sucrose metabolism coupled with co-evolution of the plasmid library and E. coli genome driving increased galactose utilization. Here, our findings highlight the utility of functional metagenomics for engineering commensal bacteria with improved properties, including expanded colonization capabilities in vivo.« less

Insights into Deep-Sea Sediment Fungal Communities from the East Indian Ocean Using Targeted Environmental Sequencing Combined with Traditional Cultivation

PubMed Central

Zhang, Xiao-yong; Tang, Gui-ling; Xu, Xin-ya; Nong, Xu-hua; Qi, Shu-Hua

2014-01-01

The fungal diversity in deep-sea environments has recently gained an increasing amount attention. Our knowledge and understanding of the true fungal diversity and the role it plays in deep-sea environments, however, is still limited. We investigated the fungal community structure in five sediments from a depth of ∼4000 m in the East India Ocean using a combination of targeted environmental sequencing and traditional cultivation. This approach resulted in the recovery of a total of 45 fungal operational taxonomic units (OTUs) and 20 culturable fungal phylotypes. This finding indicates that there is a great amount of fungal diversity in the deep-sea sediments collected in the East Indian Ocean. Three fungal OTUs and one culturable phylotype demonstrated high divergence (89%–97%) from the existing sequences in the GenBank. Moreover, 44.4% fungal OTUs and 30% culturable fungal phylotypes are new reports for deep-sea sediments. These results suggest that the deep-sea sediments from the East India Ocean can serve as habitats for new fungal communities compared with other deep-sea environments. In addition, different fungal community could be detected when using targeted environmental sequencing compared with traditional cultivation in this study, which suggests that a combination of targeted environmental sequencing and traditional cultivation will generate a more diverse fungal community in deep-sea environments than using either targeted environmental sequencing or traditional cultivation alone. This study is the first to report new insights into the fungal communities in deep-sea sediments from the East Indian Ocean, which increases our knowledge and understanding of the fungal diversity in deep-sea environments. PMID:25272044

Hydrology of some deep mines in Precambrian rocks

DOE Office of Scientific and Technical Information (OSTI.GOV)

Yardley, D.H.

1975-10-01

A number of underground mines were investigated during the summer of 1975. All of them are in Precambrian rocks of the Lake Superior region. They represent a variety of geologic settings. The purpose of the investigations was to make a preliminary study of the dryness, or lack of dryness of these rocks at depth. In other words, to see if water was entering the deeper workings through the unmined rock by some means such as fracture or fault zones, joints or permeable zones. Water entering through old mine workings extending to, or very near to the surface, or from themore » drilling equipment, was of interest only insofar as it might mask any water whose source was through the hanging or footwall rocks. No evidence of running, seeping or moving water was seen or reported at depths exceeding 3,000 feet. At depths of 3,000 feet or less, water seepages do occur in some of the mines, usually in minor quantities but increased amounts occur as depth becomes less. Others are dry at 2,000 feet of depth. Rock movements associated with extensive mining should increase the local secondary permeability of the rocks adjoining the mined out zones. Also most ore bodies are located where there has been a more than average amount of faulting, fracturing, and folding during the geologic past. They tend to cluster along crustal flows. In general, Precambrian rocks of similar geology, to those seen, well away from zones that have been disturbed by extensive deep mining, and well away from the zones of more intense geologic activity ought to be even less permeable than their equivalents in a mining district.« less

Characterization of the hydrogeology and stress state in the vicinity of the homestake mine, Lead, SD

NASA Astrophysics Data System (ADS)

Ebenhack, Johnathan Foss

Underground workings in fractured rock are common worldwide. They have applications in numerous areas and fields of study. These include mining operations, civil engineering projects like tunnels and underground facilities, and research projects that require underground laboratories such as the physics research being conducted by Sanford Laboratory at the former Homestake mine and Fermi Laboratory near Chicago (Bahcall et al. 2001, Elsworth 2009, Sadoulet et al. 2006, bge science DUSEL, fnal.gov). These excavations can reach several kilometers in depth including the 3.9 km deep TauTona mine in South Africa, the 3 km deep LaRonde mine in Quebec and the 2.4 km deep Homestake mine in South Dakota. Large quantities of rock are removed when constructing deep excavations, for example Rahn and Roggenthen (2002) estimated the total volume of rock removed from the Homestake mine to be 2.1x107 m3. Removing large volumes of rock alters the local stress state and ground water flow, potentially increasing risks to workers and the environment (Kaiser et al. 2008, Blodgett et al. 2002, Lucier et al. 2009, Goldbach 2010, Kang et al. 2010). The objective of this research is to develop a better understanding of how deep rock excavations can alter groundwater flow, stress state, and deformation in the rock that envelopes them. The approach is to evaluate how the hydraulic head, flow paths and stress state have been affected by excavation at the Homestake mine in Lead, South Dakota, one of the deepest mines in North America. The Homestake mine was selected as a focus of this research because it has recently been evaluated as the site of a deep underground research laboratory where an understanding of the groundwater flow and stress state was needed to plan underground experiments. The investigation includes poroelastic modeling of the Homestake mine using available geologic and geophysical data and mine records. Results from the analyses indicate that mining and dewatering have changed the hydrology and stress state in the vicinity of the Homestake mine. Dewatering reduces the hydraulic head and changes the flow systems in the vicinity of the mine. Four major hydrogeologic zones are recognized: 1.) a Shallow Flow System in the upper few hundred meters that dominates recharge and discharge to streams, 2.) a Recharge Capture Zone where water that has entered the region as recharge since mining began is captured by the mine, 3.) a Storage Capture Zone where water from storage in the host rock around the mine is captured, and 4.) a Mine Workings Zone where rock has been removed. Water enters the system at the top of the Shallow Flow System and either discharges to the streams or flows downward and becomes recharge to the lower capture zones. The Recharge Capture Zone grows with time as regions of storage are depleted and new recharge enters, and eventually it is assumed that the entire capture zone for the mine will become the Recharge Capture Zone. Fluxes from the Shallow Flow System to the Recharge Capture Zone typically range from 1x10-9 to 4x10-9 m/s. The largest recharge fluxes from the Shallow Flow System to the Recharge Capture Zone occur above the shallowest portions of the mine. Recharge flux also occurs above areas adjacent to the mine, and when projected to the surface the Recharge Capture Zone creates a roughly elliptical shape that is 6 km x 3.6 km. The Storage Capture Zone extends out beyond and below the Recharge Capture Zone and when projected to the surface creates a roughly elliptical region that is approximately 8.3 km x 6.6 km and extends down to depths of almost 5 km. Hydraulic heads and flow paths have been affected beyond the Storage Capture Zone but this water had not reached the mine by 135 years and therefore these regions are not included in the capture zones. The model was calibrated using in-situ stress data at various points in the mine to improve its ability to estimate the stress state and mechanical deformation around the Homestake mine. This was done by varying the rock density, Poisson's ratio, the effective Young's modulus of the workings region, and including initial stresses until predicted stresses best fit in-situ stress data. The changing mechanical properties in the workings and dewatering cause changes to the stress around the mine. The mining process typically causes increased compression laterally around the workings and decreased compression above, below, and within the workings. The greatest changes in total stress are near the base of the mine and reach roughly 40 MPa between the ore bodies and in the lower portions of the West Ore Body. The softening of the mine region because of material removal and decreased fluid pressure in the workings results in deformation in the vicinity of the mine. Subsidence occurs above the mine region and is greatest near the surface and decreases with depth; above the shallowest workings subsidence can reach approximately 0.18 m. There is also uplift along the footwall of the workings in the deeper portions of the mine that can reach up to 0.022 m. Horizontal displacements of as much as several centimeters occur around the mine and with displacement towards the workings region. Deformation in the vicinity of the mine results in tilt that is towards the workings with the greatest tilts near the surface. A fault that intersects the West Ore Body was considered as a location for an experiment into the mechanics of earthquake nucleation, so the stress state in the vicinity of this feature was of particular interest. This simulation shows that mining and dewatering reduce fluid pressure and change stresses along the fault. The shear stress along the fault typically increases along most of the fault and decreases in the region where the fault and West Ore Body intersect. Increased shear is typically on the order of 1 to 2 MPa but can reach as much as 5 MPa in areas around the intersection of the fault and West Ore Body. In the region along the fault intersecting the West Ore Body, the decrease in shear can reach -11 MPa. The total normal stress along the fault becomes more compressive along most of the fault and less compressive in the intersection between the fault and West Ore Body. The increase in total compression is approximately 2 MPa, and the reduction in compression in the intersection is approximately 10 MPa. The critical shear stress along the fault was calculated using Mohr-Coulomb failure criteria presented by Byerlee (1978), and the ratio of the estimated shear stress along the fault and the critical shear stress (ts/tf) was found to approximate the potential for slip along the fault. Mining results in a reduction in slip potential with values of ts/t f ranging from 0.66 to 1.1 before mining and from 0.22 to 0.67 after mining. This reduction in slip potential results from reductions in fluid pressure and increased normal compression caused by mining activities.

Deep neural networks: A promising tool for fault characteristic mining and intelligent diagnosis of rotating machinery with massive data

NASA Astrophysics Data System (ADS)

Jia, Feng; Lei, Yaguo; Lin, Jing; Zhou, Xin; Lu, Na

2016-05-01

Aiming to promptly process the massive fault data and automatically provide accurate diagnosis results, numerous studies have been conducted on intelligent fault diagnosis of rotating machinery. Among these studies, the methods based on artificial neural networks (ANNs) are commonly used, which employ signal processing techniques for extracting features and further input the features to ANNs for classifying faults. Though these methods did work in intelligent fault diagnosis of rotating machinery, they still have two deficiencies. (1) The features are manually extracted depending on much prior knowledge about signal processing techniques and diagnostic expertise. In addition, these manual features are extracted according to a specific diagnosis issue and probably unsuitable for other issues. (2) The ANNs adopted in these methods have shallow architectures, which limits the capacity of ANNs to learn the complex non-linear relationships in fault diagnosis issues. As a breakthrough in artificial intelligence, deep learning holds the potential to overcome the aforementioned deficiencies. Through deep learning, deep neural networks (DNNs) with deep architectures, instead of shallow ones, could be established to mine the useful information from raw data and approximate complex non-linear functions. Based on DNNs, a novel intelligent method is proposed in this paper to overcome the deficiencies of the aforementioned intelligent diagnosis methods. The effectiveness of the proposed method is validated using datasets from rolling element bearings and planetary gearboxes. These datasets contain massive measured signals involving different health conditions under various operating conditions. The diagnosis results show that the proposed method is able to not only adaptively mine available fault characteristics from the measured signals, but also obtain superior diagnosis accuracy compared with the existing methods.

Application and research of block caving in Pulang copper mine

NASA Astrophysics Data System (ADS)

Ge, Qifa; Fan, Wenlu; Zhu, Weigen; Chen, Xiaowei

2018-01-01

The application of block caving in mines shows significant advantages in large scale, low cost and high efficiency, thus block caving is worth promoting in the mines that meets the requirement of natural caving. Due to large scale of production and low ore grade in Pulang copper mine in China, comprehensive analysis and research were conducted on rock mechanics, mining sequence, undercutting and stability of bottom structure in terms of raising mine benefit and maximizing the recovery mineral resources. Finally this study summarizes that block caving is completely suitable for Pulang copper mine.

Picking Deep Filter Responses for Fine-Grained Image Recognition (Open Access Author’s Manuscript)

DTIC Science & Technology

2016-12-16

stages. Our method explores a unified framework based on two steps of deep filter response picking. The first picking step is to find distinctive... filters which respond to specific patterns significantly and consistently, and learn a set of part detectors via iteratively alternating between new...positive sample mining and part model retraining. The second picking step is to pool deep filter responses via spatially weighted combination of Fisher

Implications of Emerging Data Mining

NASA Astrophysics Data System (ADS)

Kulathuramaiyer, Narayanan; Maurer, Hermann

Data Mining describes a technology that discovers non-trivial hidden patterns in a large collection of data. Although this technology has a tremendous impact on our lives, the invaluable contributions of this invisible technology often go unnoticed. This paper discusses advances in data mining while focusing on the emerging data mining capability. Such data mining applications perform multidimensional mining on a wide variety of heterogeneous data sources, providing solutions to many unresolved problems. This paper also highlights the advantages and disadvantages arising from the ever-expanding scope of data mining. Data Mining augments human intelligence by equipping us with a wealth of knowledge and by empowering us to perform our daily tasks better. As the mining scope and capacity increases, users and organizations become more willing to compromise privacy. The huge data stores of the ‚master miners` allow them to gain deep insights into individual lifestyles and their social and behavioural patterns. Data integration and analysis capability of combining business and financial trends together with the ability to deterministically track market changes will drastically affect our lives.

From the Surface to the Deep-Sea: Bacterial Distributions across Polymetallic Nodule Fields in the Clarion-Clipperton Zone of the Pacific Ocean.

PubMed

Lindh, Markus V; Maillot, Brianne M; Shulse, Christine N; Gooday, Andrew J; Amon, Diva J; Smith, Craig R; Church, Matthew J

2017-01-01

Marine bacteria regulate fluxes of matter and energy essential for pelagic and benthic organisms and may also be involved in the formation and maintenance of commercially valuable abyssal polymetallic nodules. Future mining of these nodule fields is predicted to have substantial effects on biodiversity and physicochemical conditions in mined areas. Yet, the identity and distributions of bacterial populations in deep-sea sediments and associated polymetallic nodules has received relatively little attention. We examined bacterial communities using high-throughput sequencing of bacterial 16S rRNA gene fragments from samples collected in the water column, sediment, and polymetallic nodules in the Pacific Ocean (bottom depth ≥4,000 m) in the eastern Clarion-Clipperton Zone. Operational taxonomic units (OTUs; defined at 99% 16S rRNA gene identity) affiliated with JTB255 (Gammaproteobacteria) and Rhodospirillaceae (Alphaproteobacteria) had higher relative abundances in the nodule and sediment habitats compared to the water column. Rhodobiaceae family and Vibrio OTUs had higher relative abundance in nodule samples, but were less abundant in sediment and water column samples. Bacterial communities in sediments and associated with nodules were generally similar; however, 5,861 and 6,827 OTUs found in the water column were retrieved from sediment and nodule habitats, respectively. Cyanobacterial OTUs clustering among Prochlorococcus and Synechococcus were detected in both sediments and nodules, with greater representation among nodule samples. Such results suggest that vertical export of typically abundant photic-zone microbes may be an important process in delivery of water column microorganisms to abyssal habitats, potentially influencing the structure and function of communities in polymetallic nodule fields.

Hymenoptera Genome Database: integrating genome annotations in HymenopteraMine.

PubMed

Elsik, Christine G; Tayal, Aditi; Diesh, Colin M; Unni, Deepak R; Emery, Marianne L; Nguyen, Hung N; Hagen, Darren E

2016-01-04

We report an update of the Hymenoptera Genome Database (HGD) (http://HymenopteraGenome.org), a model organism database for insect species of the order Hymenoptera (ants, bees and wasps). HGD maintains genomic data for 9 bee species, 10 ant species and 1 wasp, including the versions of genome and annotation data sets published by the genome sequencing consortiums and those provided by NCBI. A new data-mining warehouse, HymenopteraMine, based on the InterMine data warehousing system, integrates the genome data with data from external sources and facilitates cross-species analyses based on orthology. New genome browsers and annotation tools based on JBrowse/WebApollo provide easy genome navigation, and viewing of high throughput sequence data sets and can be used for collaborative genome annotation. All of the genomes and annotation data sets are combined into a single BLAST server that allows users to select and combine sequence data sets to search. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

OVERVIEW OF AERIAL TRAM SUPPORT TOWERS NINE, TEN, AND DEEP ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

OVERVIEW OF AERIAL TRAM SUPPORT TOWERS NINE, TEN, AND DEEP RAVINE,LOOKING SOUTH FROM BREAK OVER TOWER LOCATION. A SINGLE ORE BUCKET HANGS FROM THE CABLE AT CENTER. DEATH VALLEY'S FLOOR IS IN THE DISTANCE (TOP). - Keane Wonder Mine, Park Route 4 (Daylight Pass Cutoff), Death Valley Junction, Inyo County, CA

[Bronchopulmonary diseases in workers engaged in deep-mined extraction of copper-nickel ore].

PubMed

Siurin, S A; Derevoedov, A A; Nikanov, A N

2008-01-01

Examinations were made in 220 male workers exposed to dust-gas (low-silicon dioxide, nitric oxides, and carbon oxide) mixture, physical exercises, and cooling microclimate on deep-mined output of copper-nickel ore. Twenty-eight per cent of the workers were found to have evolving chronic bronchitis that did not substantially affect the patients' working capacity; 3.2% had chronic obstructive pulmonary disease and 1.4% had asthma that had developed before the onset of professional activity. 32.3% of the examinees were ascertained to have individual clinicofunctional disorders that permit their identification as a bronchopulmonary disease risk group to carry out early preventive and rehabilitative measures.

Recognition physical activities with optimal number of wearable sensors using data mining algorithms and deep belief network.

PubMed

Al-Fatlawi, Ali H; Fatlawi, Hayder K; Sai Ho Ling

2017-07-01

Daily physical activities monitoring is benefiting the health care field in several ways, in particular with the development of the wearable sensors. This paper adopts effective ways to calculate the optimal number of the necessary sensors and to build a reliable and a high accuracy monitoring system. Three data mining algorithms, namely Decision Tree, Random Forest and PART Algorithm, have been applied for the sensors selection process. Furthermore, the deep belief network (DBN) has been investigated to recognise 33 physical activities effectively. The results indicated that the proposed method is reliable with an overall accuracy of 96.52% and the number of sensors is minimised from nine to six sensors.

Integrated Earth Science Research in Deep Underground Science and Engineering Laboratories

NASA Astrophysics Data System (ADS)

Wang, J. S.; Hazen, T. C.; Conrad, M. E.; Johnson, L. R.; Salve, R.

2004-12-01

There are three types of sites being considered for deep-underground earth science and physics experiments: (1) abandoned mines (e.g., the Homestake Gold Mine, South Dakota; the Soudan Iron Mine, Minnesota), (2) active mines/facilities (e.g., the Henderson Molybdenum Mine, Colorado; the Kimballton Limestone Mine, Virginia; the Waste Isolation Pilot Plant [in salt], New Mexico), and (3) new tunnels (e.g., Icicle Creek in the Cascades, Washington; Mt. San Jacinto, California). Additional sites have been considered in the geologically unique region of southeastern California and southwestern Nevada, which has both very high mountain peaks and the lowest point in the United States (Death Valley). Telescope Peak (along the western border of Death Valley), Boundary Peak (along the California-Nevada border), Mt. Charleston (outside Las Vegas), and Mt. Tom (along the Pine Creek Valley) all have favorable characteristics for consideration. Telescope Peak can site the deepest laboratory in the United States. The Mt. Charleston tunnel can be a highway extension connecting Las Vegas to Pahrump. The Pine Creek Mine next to Mt. Tom is an abandoned tungsten mine. The lowest levels of the mine are accessible by nearly horizontal tunnels from portals in the mining base camp. Drainage (most noticeable in the springs resulting from snow melt) flows (from the mountain top through upper tunnel complex) out of the access tunnel without the need for pumping. While the underground drifts at Yucca Mountain, Nevada, have not yet been considered (since they are relatively shallow for physics experiments), they have undergone extensive earth science research for nearly 10 years, as the site for future storage of nation's spent nuclear fuels. All these underground sites could accommodate different earth science and physics experiments. Most underground physics experiments require depth to reduce the cosmic-ray-induced muon flux from atmospheric sources. Earth science experiments can be spatially extensive, from sub-room-size scale to ten-kilometer scale. The DUSEL sites with vertical depth and lateral extent can accommodate many different experiments. Hydrologic studies can characterize the in-flow along drifts, ramps, and shafts. Geophysical and rock mechanics studies can have seismic and electromagnetic sensors stationed on site, for both local monitoring of excavations and long-term stability, and mine-scale network of sensors to form a large aperture for tomography imaging. The geo-biochemical studies can include the ecological evaluation of the effects of introduced materials and the search for the origin of life in isolated fluid pockets at depth. The muon flux can be measured underground to detect empty space (or lack of it) above detectors, as demonstrated at the Chephren pyramid, Egypt, in the 1970s and currently at the Pyramid of the Sun, Mexico. Conventional geophysical tomography, with wave propagation through rock mass, can be extended to include particle rays, with high-energy muon flux as an example. Muons interacting with atoms have implications for both geochemical and biological processes. This type of research can further promote collaboration between earth scientists with physicists. A deep laboratory can accommodate a deep campus for suites of physics detectors, and several campuses at different depths within the same site for earth science experiments in rock mechanics, hydrology, geochemistry, ecology, geo-microbiology, coupled processes, and many other branches of earth and planetary sciences.

Mining of high utility-probability sequential patterns from uncertain databases

PubMed Central

Zhang, Binbin; Fournier-Viger, Philippe; Li, Ting

2017-01-01

High-utility sequential pattern mining (HUSPM) has become an important issue in the field of data mining. Several HUSPM algorithms have been designed to mine high-utility sequential patterns (HUPSPs). They have been applied in several real-life situations such as for consumer behavior analysis and event detection in sensor networks. Nonetheless, most studies on HUSPM have focused on mining HUPSPs in precise data. But in real-life, uncertainty is an important factor as data is collected using various types of sensors that are more or less accurate. Hence, data collected in a real-life database can be annotated with existing probabilities. This paper presents a novel pattern mining framework called high utility-probability sequential pattern mining (HUPSPM) for mining high utility-probability sequential patterns (HUPSPs) in uncertain sequence databases. A baseline algorithm with three optional pruning strategies is presented to mine HUPSPs. Moroever, to speed up the mining process, a projection mechanism is designed to create a database projection for each processed sequence, which is smaller than the original database. Thus, the number of unpromising candidates can be greatly reduced, as well as the execution time for mining HUPSPs. Substantial experiments both on real-life and synthetic datasets show that the designed algorithm performs well in terms of runtime, number of candidates, memory usage, and scalability for different minimum utility and minimum probability thresholds. PMID:28742847

Mining dynamic noteworthy functions in software execution sequences.

PubMed

Zhang, Bing; Huang, Guoyan; Wang, Yuqian; He, Haitao; Ren, Jiadong

2017-01-01

As the quality of crucial entities can directly affect that of software, their identification and protection become an important premise for effective software development, management, maintenance and testing, which thus contribute to improving the software quality and its attack-defending ability. Most analysis and evaluation on important entities like codes-based static structure analysis are on the destruction of the actual software running. In this paper, from the perspective of software execution process, we proposed an approach to mine dynamic noteworthy functions (DNFM)in software execution sequences. First, according to software decompiling and tracking stack changes, the execution traces composed of a series of function addresses were acquired. Then these traces were modeled as execution sequences and then simplified so as to get simplified sequences (SFS), followed by the extraction of patterns through pattern extraction (PE) algorithm from SFS. After that, evaluating indicators inner-importance and inter-importance were designed to measure the noteworthiness of functions in DNFM algorithm. Finally, these functions were sorted by their noteworthiness. Comparison and contrast were conducted on the experiment results from two traditional complex network-based node mining methods, namely PageRank and DegreeRank. The results show that the DNFM method can mine noteworthy functions in software effectively and precisely.

Quasispecies Analyses of the HIV-1 Near-full-length Genome With Illumina MiSeq

PubMed Central

Ode, Hirotaka; Matsuda, Masakazu; Matsuoka, Kazuhiro; Hachiya, Atsuko; Hattori, Junko; Kito, Yumiko; Yokomaku, Yoshiyuki; Iwatani, Yasumasa; Sugiura, Wataru

2015-01-01

Human immunodeficiency virus type-1 (HIV-1) exhibits high between-host genetic diversity and within-host heterogeneity, recognized as quasispecies. Because HIV-1 quasispecies fluctuate in terms of multiple factors, such as antiretroviral exposure and host immunity, analyzing the HIV-1 genome is critical for selecting effective antiretroviral therapy and understanding within-host viral coevolution mechanisms. Here, to obtain HIV-1 genome sequence information that includes minority variants, we sought to develop a method for evaluating quasispecies throughout the HIV-1 near-full-length genome using the Illumina MiSeq benchtop deep sequencer. To ensure the reliability of minority mutation detection, we applied an analysis method of sequence read mapping onto a consensus sequence derived from de novo assembly followed by iterative mapping and subsequent unique error correction. Deep sequencing analyses of aHIV-1 clone showed that the analysis method reduced erroneous base prevalence below 1% in each sequence position and discarded only < 1% of all collected nucleotides, maximizing the usage of the collected genome sequences. Further, we designed primer sets to amplify the HIV-1 near-full-length genome from clinical plasma samples. Deep sequencing of 92 samples in combination with the primer sets and our analysis method provided sufficient coverage to identify >1%-frequency sequences throughout the genome. When we evaluated sequences of pol genes from 18 treatment-naïve patients' samples, the deep sequencing results were in agreement with Sanger sequencing and identified numerous additional minority mutations. The results suggest that our deep sequencing method would be suitable for identifying within-host viral population dynamics throughout the genome. PMID:26617593

Psycho-social aspects of productivity in underground coal mining

DOE Office of Scientific and Technical Information (OSTI.GOV)

Akin, G.

1981-10-01

The psychosocial aspects of productivity in underground coal mining were investigated. The following topics were studied: (1) labor productivity in deep mines and the explanations for productivity changes; (2) current concepts and research on psychosocial factors in productivity; (3) a survey of experiments in productivity improvement (4) the impact of the introduction of new technology on the social system and the way that it accomplishes production (5) a clinical study of a coal mining operation, model described how production is actually accomplished by workers at the coal face; and (6) implications and recommendations for new technology design, implementation and ongoingmore » management.« less

2006 SME annual meeting & 7th ICARD, March 26-29, 2006, St. Louis, Missouri. Pre-prints

DOE Office of Scientific and Technical Information (OSTI.GOV)

NONE

2006-07-01

Subjects covered by the papers include: enhanced coalbed methane through carbon sequestration, application of laser surface coatings for raw coal screen wear resistance enhancement, application of cross-flow teeter-bed separator in the US coal industry, arsenic removal from drinking water, modelling of fire spread along combustibles in a mine entry, coal's role in sustaining society, real time characterisation of frother bubble thin films, diesel emissions, overcoming stress measurements form underground coal amines, dry jigging coal, estimation of roof strata strength, improving screen bowl centrifuge performance, installation of ventilation shaft at a New Mexico coal mine, evaluation of feasibility of CO{sub 2}more » sequestration in deep coal, robot-human control interaction in mining operations, small mine and contractor safety, coal dust explosibility meter, US coal mine fatalities versus age of mine, and water and slurry bulkheads in underground coal mines.« less

Virus Identification in Unknown Tropical Febrile Illness Cases Using Deep Sequencing

PubMed Central

Balmaseda, Angel; Harris, Eva; DeRisi, Joseph L.

2012-01-01

Dengue virus is an emerging infectious agent that infects an estimated 50–100 million people annually worldwide, yet current diagnostic practices cannot detect an etiologic pathogen in ∼40% of dengue-like illnesses. Metagenomic approaches to pathogen detection, such as viral microarrays and deep sequencing, are promising tools to address emerging and non-diagnosable disease challenges. In this study, we used the Virochip microarray and deep sequencing to characterize the spectrum of viruses present in human sera from 123 Nicaraguan patients presenting with dengue-like symptoms but testing negative for dengue virus. We utilized a barcoding strategy to simultaneously deep sequence multiple serum specimens, generating on average over 1 million reads per sample. We then implemented a stepwise bioinformatic filtering pipeline to remove the majority of human and low-quality sequences to improve the speed and accuracy of subsequent unbiased database searches. By deep sequencing, we were able to detect virus sequence in 37% (45/123) of previously negative cases. These included 13 cases with Human Herpesvirus 6 sequences. Other samples contained sequences with similarity to sequences from viruses in the Herpesviridae, Flaviviridae, Circoviridae, Anelloviridae, Asfarviridae, and Parvoviridae families. In some cases, the putative viral sequences were virtually identical to known viruses, and in others they diverged, suggesting that they may derive from novel viruses. These results demonstrate the utility of unbiased metagenomic approaches in the detection of known and divergent viruses in the study of tropical febrile illness. PMID:22347512

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-16

Team members from the University of Colorado at Boulder pause with their robot miner outside of the mining arena on the third day of NASA's 9th Robotic Mining Competition, May 16, at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-16

On the third day of NASA's 9th Robotic Mining Competition, May 16, team members from Temple University prepare their robot miner for its turn in the mining arena at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-16

On the third day of NASA's 9th Robotic Mining Competition, May 16, team members prepare their robot miner for its turn in the mining arena at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-16

On the third day of NASA's 9th Robotic Mining Competition, May 16, judges watch as a robot miner digs in the dirt in the mining arena at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-16

On the third day of NASA's 9th Robotic Mining Competition, May 16, team members from the University of Portland prepare their robot miner for its turn in the mining arena at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-16

Members of a college team watch on the monitor as their robot miner digs in the mining arena on the third day of NASA's 9th Robotic Mining Competition, May 16, at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-17

Team members from the South Dakota School of Mines & Technology pause with their robot miner in the RobotPits on the fourth day of NASA's 9th Robotic Mining Competition, May 17, at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. are using their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-16

On the third day of NASA's 9th Robotic Mining Competition, May 16, a university team cleans their robot miner after its turn in the mining arena at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-16

On the third day of NASA's 9th Robotic Mining Competition, May 16, team members from the University of Portland pause with their robot miner before its turn in the mining arena at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-16

Team members from New York University prepare their robot miner for its turn in the mining arena on the third day of NASA's 9th Robotic Mining Competition, May 16, at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Economic geology of the Zipaquira quadrangle and adjoining area, Department of Cundinamarca, Colombia

USGS Publications Warehouse

McLaughlin, Donald H.; Arce Herrera, Marino

1970-01-01

At least four evaporite sequences are interbedded with Cretaceous strata in the Bogotga area of the Cordillera Oriental of Colombia. The easternmost and oldest evaporite interval is of probable Berriasian-Valanglnian age; the next oldest is of probable late Barremian-early Aptian age, and is followed by a possible late Aptian sequence. The westernmost and best known sequence is Turonian-early Coniacian in age, in the Sabana de Bogota. This youngest sequence contains the thickest known salt deposits and is probably the most widespread geographically. Three gypsum deposits of probable Barremian-Valanginian age are in the eastern part of the area under investigation. These deposits may have been leached from former salt accumulations. No other evaporites are exposed, but numerous brine springs are known, That the sources of these brines are neither deep not distant is suggested by the generally high concentrations, of the brines, the local presence of rute (leached salt residue), and the commonly significant amounts of H2S gas emitted at these springs. The rock salt exposed in three accessible mines commonly has a characteristic lamination caused by alternating layers of relatively pure halite and very argillaceous halite. Ubiquitously scattered throughout all salt deposits are small clasts of black, commonly pyritic, marly claystone. This lithology is also present as large claystone bodies conformably interbedded in the salt strata. Anhydrite is rare and is apparently more abundant at the Zipaquira mine that at the Nemocon and Upin mine. Paleontologic evidence in the Sabana de Bogota demonstrates that the salt-claystone series, hematite impregnated strata, and carbonaceous to locally coaly claystone are coeval. The salt-claystone facies may have been deposited in shallow evaporite pans that were separated within the overall evaporite interval by barriers on which the locally hematitic strata were deposited. The carbonaceous facies may also have formed in barrier areas or on the edges of the evaporite basins. Whether or not this facies relationship prevails in the older evaporite intervals is not known; meager evidence suggests that it does. Nonmetallic mineral resources other than the evaporite minerals are phosphate rock, limestone, kaolinite, and emeralds. Metallic mineral deposits present in the Zone include hematite at Pericos, La Caldera, Tibirita, Nueva Vizcaya, and Cerro de Montecristo; chalcopyrite at Cerro do Cobre and at Farallones de Medina; galena in several places along the Rio Farallones and Rio Gacheta; and spahlerite in the Junin district.

Special astronomical configurations, solar activity and deep degassing as a trigger of natural hazards

NASA Astrophysics Data System (ADS)

Natyaganov, Vladimir; Syvorotkin, Vladimir; Fedorov, Valeriy; Shopin, Sergey

2016-04-01

Extraordinary cases of tectonic events (strong earthquakes, volcano eruptions), mine explosions, typhoons, hurricanes, tornado outbreak sequences, ball lightnings, transient luminous events are analyzed in relation with special astronomical configurations, which are specific relative positions of the Sun, Earth, Moon and the closest planets of the Solar System (Venus, Mars and Jupiter) [1]. Usage of special astronomical coordinate systems give evidence not only of correlations but also of hidden causes-and-effect relations between the analyzed phenomena. The geocentric ecliptic latitude system is an example of such astronomical coordinate systems. It gives clear evidence of coherence between strong earthquakes and the maximal Moon declination from the plane of the ecliptic. Extraordinary cases of planet activity from the beginning of XX century till the present time are shown in the years of special astronomical configurations and abrupt increasing of solar activity. According to the empirical scheme of short-term earthquake prediction [3], geomagnetic disturbances are the triggers of earthquakes. Geomagnetic disturbances perform electromagnetic pumping (electromagnetic excitation) of the Earth's interior in the regions of intersections of seismomagnetic meridians with the plate boundaries as a result of electrothermal breakdowns in the heterogeneous medium of tectonic faults. This results in the local intensification of deep degassing [4], decreasing of shear strength of the medium that triggers earthquakes usually after 2 or 3 weeks (±2 days) after the geomagnetic disturbance. Examples of officially registered predictions of Kamchatka earthquakes with M7+ without missing events, including deep-focus earthquakes in the Okhotsk Sea since the year of 2002, are shown. It is discussed correlations and possible cause-and-effect relations between a different phenomena such as - dangerous natural hazardous events such as the record tornado outbreak sequences in the USA (May 2003, 400 tornadoes in 20 states and the 2011 Superb Outbreak in April 2011 (580 tornadoes), which corresponds to a third and about a half of the average annual number of tornadoes) - naturally-anthropogenic accidents with gas explosions in diggings and coal mines [4]; - special Moon phases (new moons and full moons); - local intensification of deep hydrogen-methane degassing; - extensive spatial anomalies of total ozone content in the stratosphere; - strong geomagnetic disturbances. The work was financially supported by the Ministry of Education and Science of the Russian Federation (in accordance with the requirements of the contract No. 14.577.21.0109, project UID RFMEFI57714X0109) References 1. V. M. Fedorov, Gravitational factors and astronomical chronology of geosphere processes [Gravitacionnye faktory i astronomicheskaja hronologija geosfernyh processov]. Moscow State University, Moscow, 2000. 368p. (In Russian) 2. V. L. Natyaganov, A. M. Nechaev, I. V. Stepanov, "Spatio-tempral relations of planet tectonic activity [Prostranstvenno-vremennye zakonomernosti tektonicheskoj aktivnosti planety]", Eurasian Union of Scientists, 2015, No. 3(12), Vol. 8. pp. 120-123. (In Russian) 3. L. N. Doda, V. L. Natyaganov, I. V. Stepanov, "An empirical scheme of short-term earthquake prediction," Doklady Earth Sciences, vol. 453, no.5, pp.551-557, Dec., 2013 4. V. L. Syvorotkin. Deep degassing and global catastrophes. Geoinformcentr. Moscow, 2002, 250 p. (In Russian)

deepTools: a flexible platform for exploring deep-sequencing data.

PubMed

Ramírez, Fidel; Dündar, Friederike; Diehl, Sarah; Grüning, Björn A; Manke, Thomas

2014-07-01

We present a Galaxy based web server for processing and visualizing deeply sequenced data. The web server's core functionality consists of a suite of newly developed tools, called deepTools, that enable users with little bioinformatic background to explore the results of their sequencing experiments in a standardized setting. Users can upload pre-processed files with continuous data in standard formats and generate heatmaps and summary plots in a straight-forward, yet highly customizable manner. In addition, we offer several tools for the analysis of files containing aligned reads and enable efficient and reproducible generation of normalized coverage files. As a modular and open-source platform, deepTools can easily be expanded and customized to future demands and developments. The deepTools webserver is freely available at http://deeptools.ie-freiburg.mpg.de and is accompanied by extensive documentation and tutorials aimed at conveying the principles of deep-sequencing data analysis. The web server can be used without registration. deepTools can be installed locally either stand-alone or as part of Galaxy. © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research.

Mining of relations between proteins over biomedical scientific literature using a deep-linguistic approach.

PubMed

Rinaldi, Fabio; Schneider, Gerold; Kaljurand, Kaarel; Hess, Michael; Andronis, Christos; Konstandi, Ourania; Persidis, Andreas

2007-02-01

The amount of new discoveries (as published in the scientific literature) in the biomedical area is growing at an exponential rate. This growth makes it very difficult to filter the most relevant results, and thus the extraction of the core information becomes very expensive. Therefore, there is a growing interest in text processing approaches that can deliver selected information from scientific publications, which can limit the amount of human intervention normally needed to gather those results. This paper presents and evaluates an approach aimed at automating the process of extracting functional relations (e.g. interactions between genes and proteins) from scientific literature in the biomedical domain. The approach, using a novel dependency-based parser, is based on a complete syntactic analysis of the corpus. We have implemented a state-of-the-art text mining system for biomedical literature, based on a deep-linguistic, full-parsing approach. The results are validated on two different corpora: the manually annotated genomics information access (GENIA) corpus and the automatically annotated arabidopsis thaliana circadian rhythms (ATCR) corpus. We show how a deep-linguistic approach (contrary to common belief) can be used in a real world text mining application, offering high-precision relation extraction, while at the same time retaining a sufficient recall.

Differentially Private Frequent Sequence Mining via Sampling-based Candidate Pruning

PubMed Central

Xu, Shengzhi; Cheng, Xiang; Li, Zhengyi; Xiong, Li

2016-01-01

In this paper, we study the problem of mining frequent sequences under the rigorous differential privacy model. We explore the possibility of designing a differentially private frequent sequence mining (FSM) algorithm which can achieve both high data utility and a high degree of privacy. We found, in differentially private FSM, the amount of required noise is proportionate to the number of candidate sequences. If we could effectively reduce the number of unpromising candidate sequences, the utility and privacy tradeoff can be significantly improved. To this end, by leveraging a sampling-based candidate pruning technique, we propose a novel differentially private FSM algorithm, which is referred to as PFS2. The core of our algorithm is to utilize sample databases to further prune the candidate sequences generated based on the downward closure property. In particular, we use the noisy local support of candidate sequences in the sample databases to estimate which sequences are potentially frequent. To improve the accuracy of such private estimations, a sequence shrinking method is proposed to enforce the length constraint on the sample databases. Moreover, to decrease the probability of misestimating frequent sequences as infrequent, a threshold relaxation method is proposed to relax the user-specified threshold for the sample databases. Through formal privacy analysis, we show that our PFS2 algorithm is ε-differentially private. Extensive experiments on real datasets illustrate that our PFS2 algorithm can privately find frequent sequences with high accuracy. PMID:26973430

15 CFR 970.500 - General.

Code of Federal Regulations, 2014 CFR

2014-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Issuance/Transfer/Terms, Conditions and...

15 CFR 970.500 - General.

Code of Federal Regulations, 2012 CFR

2012-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Issuance/Transfer/Terms, Conditions and...

15 CFR 970.500 - General.

Code of Federal Regulations, 2013 CFR

2013-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Issuance/Transfer/Terms, Conditions and...

15 CFR 970.500 - General.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Issuance/Transfer/Terms, Conditions and...

15 CFR 970.500 - General.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Issuance/Transfer/Terms, Conditions and...

Late-stage anhydrite-gypsum-siderite-dolomite-calcite assemblages record the transition from a deep to a shallow hydrothermal system in the Schwarzwald mining district, SW Germany

NASA Astrophysics Data System (ADS)

Burisch, Mathias; Walter, Benjamin F.; Gerdes, Axel; Lanz, Maximilian; Markl, Gregor

2018-02-01

The majority of hydrothermal vein systems of economic interest occur at relatively shallow crustal levels, although many of them formed at significantly greater depths. Their present position is a consequence of uplift and erosion. Although, many aspects of their formation are well constrained, the temporal chemical evolution of such systems during uplift and erosion is still poorly understood. These vein minerals comprise calcite, dolomite-ankerite, siderite-magnesite, anhydrite and gypsum forming the last gangue assemblages in Jurassic and Tertiary sulphide-fluorite-quartz-barite veins of the Schwarzwald mining district, SW Germany. Mineral textures of samples from nine localities reveal that in these sequences, mineral precipitation follows a recurring pattern: early calcite is followed by anhydrite or gypsum, siderite and/or dolomite. This succession may repeat up to three times. In-situ (LA-ICP-MS) U-Pb age dating of 15 carbonates from three subsequent generations of the late-stage vein assemblage yield robust ages between 20 and 0.6 Ma. Each mineral sequence forms in a distinctive period of about 2-5 Ma. These ages clearly relate these late-stage mineral phases to the youngest geological episode of the Schwarzwald, which is associated with the Cenozoic Rhine Graben rifting and basement uplift. Based on thermodynamic modelling, the formation of the observed mineral assemblages required an deeply sourced Mg-, Fe- and SO4-rich fluid (b), which was episodically mixed with a shallow crustal HCO3-rich fluid (a). As a consequence of fluid mixing, concentrations of Mg, Fe and SO4 temporarily increased and initiated the formation of the observed sulphate-carbonate mineral sequences. This discontinuous large-scale vertical fluid mixing was presumably directly related to episodes of active tectonics associated with the Cenozoic strike-slip regime of the Upper Rhine Graben. Analogously, episodic fluid mixing is a major key in the formation of older (Jurassic to early Tertiary) Pb-Zn-fluorite-quartz-barite assemblages in the same specific vein systems, albeit involving different fluid compositions. Late-stage hydrothermal (∼20-70 °C) vein assemblages reported in this study record the transition from deep (>2 km) to very shallow (0-1 km) crustal conditions. As a consequence of successive uplift, increasing proportions of shallower and cooler (∼50-70 °C) fluids could take part in such mixing processes. Associated changes in the fluid composition caused the vein mineralogy to change from sulphide-quartz-fluorite-barite to calcite-anhydrite/gypsum-siderite-dolomite, as the system passively ascended closer to the surface.

Detection of Flooding Responses at the River Basin Scale Enhanced by Land use Change

NASA Technical Reports Server (NTRS)

McCormick, Brian C.; Eshleman, Keith N.; Griffith, Jeff L.; Townsend, Philip A.

2009-01-01

The Georges Creek watershed (area 187.5 sq km) in western Maryland (United States) has experienced land use changes (>17% of area) associated with surface mining of coal. The adjacent Savage River watershed (area 127.2 sq km) is unmined. Moments of flood frequency distributions indicated that climatic variability affected both watersheds similarly. Normalizing annual maximum flows by antecedent streamflow and causative precipitation helped identify trends in flooding response. Analysis of contemporary storm events using Next Generation Weather Radar (NEXRAD) stage III precipitation data showed that Georges Creek floods are characterized by higher peak runoff and a shorter centroid lag than Savage River floods, likely attributable to differences in current land use. Interestingly, Georges Creek produces only two thirds of the storm-flow volume as Savage River, apparently because of infiltration into abandoned deep mine workings and an associated transbasin diversion constructed circa 1900. Empirical trend analysis is thus complicated by both hydroclimatic variability and the legacy of deep mining in the basin.

Cultivating the Deep Subsurface Microbiome

NASA Astrophysics Data System (ADS)

Casar, C. P.; Osburn, M. R.; Flynn, T. M.; Masterson, A.; Kruger, B.

2017-12-01

Subterranean ecosystems are poorly understood because many microbes detected in metagenomic surveys are only distantly related to characterized isolates. Cultivating microorganisms from the deep subsurface is challenging due to its inaccessibility and potential for contamination. The Deep Mine Microbial Observatory (DeMMO) in Lead, SD however, offers access to deep microbial life via pristine fracture fluids in bedrock to a depth of 1478 m. The metabolic landscape of DeMMO was previously characterized via thermodynamic modeling coupled with genomic data, illustrating the potential for microbial inhabitants of DeMMO to utilize mineral substrates as energy sources. Here, we employ field and lab based cultivation approaches with pure minerals to link phylogeny to metabolism at DeMMO. Fracture fluids were directed through reactors filled with Fe3O4, Fe2O3, FeS2, MnO2, and FeCO3 at two sites (610 m and 1478 m) for 2 months prior to harvesting for subsequent analyses. We examined mineralogical, geochemical, and microbiological composition of the reactors via DNA sequencing, microscopy, lipid biomarker characterization, and bulk C and N isotope ratios to determine the influence of mineralogy on biofilm community development. Pre-characterized mineral chips were imaged via SEM to assay microbial growth; preliminary results suggest MnO2, Fe3O4, and Fe2O3 were most conducive to colonization. Solid materials from reactors were used as inoculum for batch cultivation experiments. Media designed to mimic fracture fluid chemistry was supplemented with mineral substrates targeting metal reducers. DNA sequences and microscopy of iron oxide-rich biofilms and fracture fluids suggest iron oxidation is a major energy source at redox transition zones where anaerobic fluids meet more oxidizing conditions. We utilized these biofilms and fluids as inoculum in gradient cultivation experiments targeting microaerophilic iron oxidizers. Cultivation of microbes endemic to DeMMO, a system locally dominated by unclassified and candidate phyla, has the potential to yield novel subsurface organisms with unique physiologies. We intend to further utilize subsurface isolates to probe the effects of geochemical perturbations on biosignatures in future studies, thus broadening our understanding of subterranean ecosystems.

Mining and Development of Novel SSR Markers Using Next Generation Sequencing (NGS) Data in Plants.

PubMed

Taheri, Sima; Lee Abdullah, Thohirah; Yusop, Mohd Rafii; Hanafi, Mohamed Musa; Sahebi, Mahbod; Azizi, Parisa; Shamshiri, Redmond Ramin

2018-02-13

Microsatellites, or simple sequence repeats (SSRs), are one of the most informative and multi-purpose genetic markers exploited in plant functional genomics. However, the discovery of SSRs and development using traditional methods are laborious, time-consuming, and costly. Recently, the availability of high-throughput sequencing technologies has enabled researchers to identify a substantial number of microsatellites at less cost and effort than traditional approaches. Illumina is a noteworthy transcriptome sequencing technology that is currently used in SSR marker development. Although 454 pyrosequencing datasets can be used for SSR development, this type of sequencing is no longer supported. This review aims to present an overview of the next generation sequencing, with a focus on the efficient use of de novo transcriptome sequencing (RNA-Seq) and related tools for mining and development of microsatellites in plants.

A systematic review of data mining and machine learning for air pollution epidemiology.

PubMed

Bellinger, Colin; Mohomed Jabbar, Mohomed Shazan; Zaïane, Osmar; Osornio-Vargas, Alvaro

2017-11-28

Data measuring airborne pollutants, public health and environmental factors are increasingly being stored and merged. These big datasets offer great potential, but also challenge traditional epidemiological methods. This has motivated the exploration of alternative methods to make predictions, find patterns and extract information. To this end, data mining and machine learning algorithms are increasingly being applied to air pollution epidemiology. We conducted a systematic literature review on the application of data mining and machine learning methods in air pollution epidemiology. We carried out our search process in PubMed, the MEDLINE database and Google Scholar. Research articles applying data mining and machine learning methods to air pollution epidemiology were queried and reviewed. Our search queries resulted in 400 research articles. Our fine-grained analysis employed our inclusion/exclusion criteria to reduce the results to 47 articles, which we separate into three primary areas of interest: 1) source apportionment; 2) forecasting/prediction of air pollution/quality or exposure; and 3) generating hypotheses. Early applications had a preference for artificial neural networks. In more recent work, decision trees, support vector machines, k-means clustering and the APRIORI algorithm have been widely applied. Our survey shows that the majority of the research has been conducted in Europe, China and the USA, and that data mining is becoming an increasingly common tool in environmental health. For potential new directions, we have identified that deep learning and geo-spacial pattern mining are two burgeoning areas of data mining that have good potential for future applications in air pollution epidemiology. We carried out a systematic review identifying the current trends, challenges and new directions to explore in the application of data mining methods to air pollution epidemiology. This work shows that data mining is increasingly being applied in air pollution epidemiology. The potential to support air pollution epidemiology continues to grow with advancements in data mining related to temporal and geo-spacial mining, and deep learning. This is further supported by new sensors and storage mediums that enable larger, better quality data. This suggests that many more fruitful applications can be expected in the future.

dictyExpress: a web-based platform for sequence data management and analytics in Dictyostelium and beyond.

PubMed

Stajdohar, Miha; Rosengarten, Rafael D; Kokosar, Janez; Jeran, Luka; Blenkus, Domen; Shaulsky, Gad; Zupan, Blaz

2017-06-02

Dictyostelium discoideum, a soil-dwelling social amoeba, is a model for the study of numerous biological processes. Research in the field has benefited mightily from the adoption of next-generation sequencing for genomics and transcriptomics. Dictyostelium biologists now face the widespread challenges of analyzing and exploring high dimensional data sets to generate hypotheses and discovering novel insights. We present dictyExpress (2.0), a web application designed for exploratory analysis of gene expression data, as well as data from related experiments such as Chromatin Immunoprecipitation sequencing (ChIP-Seq). The application features visualization modules that include time course expression profiles, clustering, gene ontology enrichment analysis, differential expression analysis and comparison of experiments. All visualizations are interactive and interconnected, such that the selection of genes in one module propagates instantly to visualizations in other modules. dictyExpress currently stores the data from over 800 Dictyostelium experiments and is embedded within a general-purpose software framework for management of next-generation sequencing data. dictyExpress allows users to explore their data in a broader context by reciprocal linking with dictyBase-a repository of Dictyostelium genomic data. In addition, we introduce a companion application called GenBoard, an intuitive graphic user interface for data management and bioinformatics analysis. dictyExpress and GenBoard enable broad adoption of next generation sequencing based inquiries by the Dictyostelium research community. Labs without the means to undertake deep sequencing projects can mine the data available to the public. The entire information flow, from raw sequence data to hypothesis testing, can be accomplished in an efficient workspace. The software framework is generalizable and represents a useful approach for any research community. To encourage more wide usage, the backend is open-source, available for extension and further development by bioinformaticians and data scientists.

15 CFR 970.101 - Definitions.

Code of Federal Regulations, 2012 CFR

2012-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES General § 970.101 Definitions. For...

15 CFR 971.800 - General.

Code of Federal Regulations, 2014 CFR

2014-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Miscellaneous § 971.800 General...

15 CFR 970.400 - General.

Code of Federal Regulations, 2012 CFR

2012-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Certification of Applications § 970.400...

15 CFR 970.2401 - Definitions.

Code of Federal Regulations, 2014 CFR

2014-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Pre-enactment Exploration § 970.2401...

15 CFR 970.2401 - Definitions.

Code of Federal Regulations, 2012 CFR

2012-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Pre-enactment Exploration § 970.2401...

15 CFR 970.400 - General.

Code of Federal Regulations, 2014 CFR

2014-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Certification of Applications § 970.400...

15 CFR 970.101 - Definitions.

Code of Federal Regulations, 2014 CFR

2014-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES General § 970.101 Definitions. For...

15 CFR 970.2401 - Definitions.

Code of Federal Regulations, 2013 CFR

2013-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Pre-enactment Exploration § 970.2401...

15 CFR 970.101 - Definitions.

Code of Federal Regulations, 2013 CFR

2013-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES General § 970.101 Definitions. For...

15 CFR 971.800 - General.

Code of Federal Regulations, 2012 CFR

2012-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Miscellaneous § 971.800 General...

15 CFR 971.800 - General.

Code of Federal Regulations, 2013 CFR

2013-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Miscellaneous § 971.800 General...

15 CFR 970.400 - General.

Code of Federal Regulations, 2013 CFR

2013-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Certification of Applications § 970.400...

15 CFR 970.101 - Definitions.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES General § 970.101 Definitions. For...

15 CFR 971.800 - General.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Miscellaneous § 971.800 General...

15 CFR 970.101 - Definitions.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES General § 970.101 Definitions. For...

15 CFR 971.800 - General.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Miscellaneous § 971.800 General...

15 CFR 970.2401 - Definitions.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Pre-enactment Exploration § 970.2401...

15 CFR 970.400 - General.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Certification of Applications § 970.400...

15 CFR 970.400 - General.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Certification of Applications § 970.400...

15 CFR 970.2401 - Definitions.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Pre-enactment Exploration § 970.2401...

Robotic Mining Competition - Setup

NASA Image and Video Library

2018-05-14

On the first day of NASA's 9th Robotic Mining Competition, set-up day on May 14, team members from the South Dakota School of Mines & Technology work on their robot miner in the RobotPits in the Educator Resource Center at Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Martian soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-17

Team members from York College CUNY make adjustments to their robot miner for its turn in the mining arena on the fourth day of NASA's 9th Robotic Mining Competition, May 17, inside the RobotPits at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. are using their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Low-Latency Telerobotic Sample Return and Biomolecular Sequencing for Deep Space Gateway

NASA Astrophysics Data System (ADS)

Lupisella, M.; Bleacher, J.; Lewis, R.; Dworkin, J.; Wright, M.; Burton, A.; Rubins, K.; Wallace, S.; Stahl, S.; John, K.; Archer, D.; Niles, P.; Regberg, A.; Smith, D.; Race, M.; Chiu, C.; Russell, J.; Rampe, E.; Bywaters, K.

2018-02-01

Low-latency telerobotics, crew-assisted sample return, and biomolecular sequencing can be used to acquire and analyze lunar farside and/or Apollo landing site samples. Sequencing can also be used to monitor and study Deep Space Gateway environment and crew health.

15 CFR 970.200 - General.

Code of Federal Regulations, 2012 CFR

2012-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications § 970.200 General. (a) Who...

15 CFR 970.208 - Fee.

Code of Federal Regulations, 2012 CFR

2012-01-01

... ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970.208 Fee. (a) General...

15 CFR 970.208 - Fee.

Code of Federal Regulations, 2014 CFR

2014-01-01

... ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970.208 Fee. (a) General...

15 CFR 971.1000 - General.

Code of Federal Regulations, 2012 CFR

2012-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Enforcement § 971.1000 General. (a...

15 CFR 970.406 - Fee payment.

Code of Federal Regulations, 2012 CFR

2012-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Certification of Applications § 970.406...

15 CFR 970.205 - Vessel safety.

Code of Federal Regulations, 2013 CFR

2013-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970.205 Vessel...

15 CFR 970.200 - General.

Code of Federal Regulations, 2013 CFR

2013-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications § 970.200 General. (a) Who...

15 CFR 970.406 - Fee payment.

Code of Federal Regulations, 2014 CFR

2014-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Certification of Applications § 970.406...

15 CFR 970.205 - Vessel safety.

Code of Federal Regulations, 2012 CFR

2012-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970.205 Vessel...

15 CFR 970.205 - Vessel safety.

Code of Federal Regulations, 2014 CFR

2014-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970.205 Vessel...

15 CFR 970.200 - General.

Code of Federal Regulations, 2014 CFR

2014-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications § 970.200 General. (a) Who...

15 CFR 971.100 - Purpose.

Code of Federal Regulations, 2014 CFR

2014-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS General § 971.100 Purpose. The...

15 CFR 971.1000 - General.

Code of Federal Regulations, 2014 CFR

2014-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Enforcement § 971.1000 General. (a...

15 CFR 971.1000 - General.

Code of Federal Regulations, 2013 CFR

2013-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Enforcement § 971.1000 General. (a...

15 CFR 970.208 - Fee.

Code of Federal Regulations, 2013 CFR

2013-01-01

... ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970.208 Fee. (a) General...

15 CFR 971.101 - Definitions.

Code of Federal Regulations, 2013 CFR

2013-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS General § 971.101 Definitions. For...

15 CFR 970.406 - Fee payment.

Code of Federal Regulations, 2013 CFR

2013-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Certification of Applications § 970.406...

15 CFR 971.100 - Purpose.

Code of Federal Regulations, 2013 CFR

2013-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS General § 971.100 Purpose. The...

15 CFR 971.101 - Definitions.

Code of Federal Regulations, 2012 CFR

2012-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS General § 971.101 Definitions. For...

15 CFR 971.100 - Purpose.

Code of Federal Regulations, 2012 CFR

2012-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS General § 971.100 Purpose. The...

15 CFR 971.101 - Definitions.

Code of Federal Regulations, 2014 CFR

2014-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS General § 971.101 Definitions. For...

15 CFR 970.208 - Fee.

Code of Federal Regulations, 2010 CFR

2010-01-01

... ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970.208 Fee. (a) General...

15 CFR 970.507 - Safety at sea.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Issuance/Transfer/Terms, Conditions and...

15 CFR 970.208 - Fee.

Code of Federal Regulations, 2011 CFR

2011-01-01

... ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970.208 Fee. (a) General...

15 CFR 971.100 - Purpose.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS General § 971.100 Purpose. The...

15 CFR 971.100 - Purpose.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS General § 971.100 Purpose. The...

15 CFR 970.406 - Fee payment.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Certification of Applications § 970.406...

15 CFR 970.507 - Safety at sea.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Issuance/Transfer/Terms, Conditions and...

15 CFR 971.1000 - General.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Enforcement § 971.1000 General. (a...

15 CFR 970.205 - Vessel safety.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970.205 Vessel...

15 CFR 971.101 - Definitions.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS General § 971.101 Definitions. For...

15 CFR 970.205 - Vessel safety.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications Contents § 970.205 Vessel...

15 CFR 971.1000 - General.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Enforcement § 971.1000 General. (a...

15 CFR 971.101 - Definitions.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS General § 971.101 Definitions. For...

15 CFR 970.406 - Fee payment.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Certification of Applications § 970.406...

15 CFR 970.200 - General.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications § 970.200 General. (a) Who...

15 CFR 970.200 - General.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Applications § 970.200 General. (a) Who...

Deep-sea nematode assemblage has not recovered 26 years after experimental mining of polymetallic nodules (Clarion-Clipperton Fracture Zone, Tropical Eastern Pacific)

NASA Astrophysics Data System (ADS)

Miljutin, Dmitry M.; Miljutina, Maria A.; Arbizu, Pedro Martínez; Galéron, Joëlle

2011-08-01

We investigated nematode assemblages inhabiting the 26-year-old track created by experimental deep-sea mining of polymetallic nodules, and two adjacent, undisturbed sites, one with nodules and one without nodules. The aim was to compare density, assemblage structure, and diversity indices in order to assess the process of recovery of the nematode assemblage inhabiting the disturbed site. This experimental dredging was conducted in 1978 by the Ocean Minerals Company (USA) in the area of a French mining claim in the Clarion-Clipperton Fracture Zone (Tropical Eastern Pacific) at a depth of about 5000 m. The nematode assemblage had not returned its initial state 26 years after the experimental dredging: the total nematode density and biomass within the dredging track were significantly lower than outside the track; the biodiversity indices showed significantly lower nematode diversity within the track; and the structure of the nematode assemblage within the track differed significantly from those in the two undisturbed sites outside the track. However, there were no significant differences in the mean body volumes of adult nematodes and adult-juvenile ratios between the track and reference sites. Parameters such as the rate of sediment restoration (which depends on local hydrological conditions) and the degree and character of the disturbance appeared to be of considerable importance for the recovery rate of the deep-sea nematode assemblages and their ability to recolonize disturbed areas. The rates of recolonization and recovery may vary widely in different deep-sea regions.

Mitochondrial DNA Analyses Indicate High Diversity, Expansive Population Growth and High Genetic Connectivity of Vent Copepods (Dirivultidae) across Different Oceans

PubMed Central

Kihara, Terue C.; Laurent, Stefan; Kodami, Sahar; Martinez Arbizu, Pedro

2016-01-01

Communities in spatially fragmented deep-sea hydrothermal vents rich in polymetallic sulfides could soon face major disturbance events due to deep-sea mineral mining, such that unraveling patterns of gene flow between hydrothermal vent populations will be an important step in the development of conservation policies. Indeed, the time required by deep-sea populations to recover following habitat perturbations depends both on the direction of gene flow and the number of migrants available for re-colonization after disturbance. In this study we compare nine dirivultid copepod species across various geological settings. We analyze partial nucleotide sequences of the mtCOI gene and use divergence estimates (FST) and haplotype networks to infer intraspecific population connectivity between vent sites. Furthermore, we evaluate contrasting scenarios of demographic population expansion/decline versus constant population size (using, for example, Tajima’s D). Our results indicate high diversity, population expansion and high connectivity of all copepod populations in all oceans. For example, haplotype diversity values range from 0.89 to 1 and FST values range from 0.001 to 0.11 for Stygiopontius species from the Central Indian Ridge, Mid Atlantic Ridge, East Pacific Rise, and Eastern Lau Spreading Center. We suggest that great abundance and high site occupancy by these species favor high genetic diversity. Two scenarios both showed similarly high connectivity: fast spreading centers with little distance between vent fields and slow spreading centers with greater distance between fields. This unexpected result may be due to some distinct frequency of natural disturbance events, or to aspects of individual life histories that affect realized rates of dispersal. However, our statistical performance analyses showed that at least 100 genomic regions should be sequenced to ensure accurate estimates of migration rate. Our demography parameters demonstrate that dirivultid populations are generally large and continuously undergoing population growth. Benthic and pelagic species abundance data support these findings. PMID:27732624

Mitochondrial DNA Analyses Indicate High Diversity, Expansive Population Growth and High Genetic Connectivity of Vent Copepods (Dirivultidae) across Different Oceans.

PubMed

Gollner, Sabine; Stuckas, Heiko; Kihara, Terue C; Laurent, Stefan; Kodami, Sahar; Martinez Arbizu, Pedro

2016-01-01

Communities in spatially fragmented deep-sea hydrothermal vents rich in polymetallic sulfides could soon face major disturbance events due to deep-sea mineral mining, such that unraveling patterns of gene flow between hydrothermal vent populations will be an important step in the development of conservation policies. Indeed, the time required by deep-sea populations to recover following habitat perturbations depends both on the direction of gene flow and the number of migrants available for re-colonization after disturbance. In this study we compare nine dirivultid copepod species across various geological settings. We analyze partial nucleotide sequences of the mtCOI gene and use divergence estimates (FST) and haplotype networks to infer intraspecific population connectivity between vent sites. Furthermore, we evaluate contrasting scenarios of demographic population expansion/decline versus constant population size (using, for example, Tajima's D). Our results indicate high diversity, population expansion and high connectivity of all copepod populations in all oceans. For example, haplotype diversity values range from 0.89 to 1 and FST values range from 0.001 to 0.11 for Stygiopontius species from the Central Indian Ridge, Mid Atlantic Ridge, East Pacific Rise, and Eastern Lau Spreading Center. We suggest that great abundance and high site occupancy by these species favor high genetic diversity. Two scenarios both showed similarly high connectivity: fast spreading centers with little distance between vent fields and slow spreading centers with greater distance between fields. This unexpected result may be due to some distinct frequency of natural disturbance events, or to aspects of individual life histories that affect realized rates of dispersal. However, our statistical performance analyses showed that at least 100 genomic regions should be sequenced to ensure accurate estimates of migration rate. Our demography parameters demonstrate that dirivultid populations are generally large and continuously undergoing population growth. Benthic and pelagic species abundance data support these findings.

76 FR 60474 - Intent To Prepare a Draft Environmental Impact Statement (DEIS) for the Haile Gold Mine in...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-09-29

...--County on January 28, 2011. The public notice is available on Charleston District's public Web site at... eight open mining pits over a twelve-year period, with pit depths ranging from 110 to 840 feet deep. The... of January 28, 2011, and are available on Charleston District's public Web site at http://www.sac...

Graph mining for next generation sequencing: leveraging the assembly graph for biological insights.

PubMed

Warnke-Sommer, Julia; Ali, Hesham

2016-05-06

The assembly of Next Generation Sequencing (NGS) reads remains a challenging task. This is especially true for the assembly of metagenomics data that originate from environmental samples potentially containing hundreds to thousands of unique species. The principle objective of current assembly tools is to assemble NGS reads into contiguous stretches of sequence called contigs while maximizing for both accuracy and contig length. The end goal of this process is to produce longer contigs with the major focus being on assembly only. Sequence read assembly is an aggregative process, during which read overlap relationship information is lost as reads are merged into longer sequences or contigs. The assembly graph is information rich and capable of capturing the genomic architecture of an input read data set. We have developed a novel hybrid graph in which nodes represent sequence regions at different levels of granularity. This model, utilized in the assembly and analysis pipeline Focus, presents a concise yet feature rich view of a given input data set, allowing for the extraction of biologically relevant graph structures for graph mining purposes. Focus was used to create hybrid graphs to model metagenomics data sets obtained from the gut microbiomes of five individuals with Crohn's disease and eight healthy individuals. Repetitive and mobile genetic elements are found to be associated with hybrid graph structure. Using graph mining techniques, a comparative study of the Crohn's disease and healthy data sets was conducted with focus on antibiotics resistance genes associated with transposase genes. Results demonstrated significant differences in the phylogenetic distribution of categories of antibiotics resistance genes in the healthy and diseased patients. Focus was also evaluated as a pure assembly tool and produced excellent results when compared against the Meta-velvet, Omega, and UD-IDBA assemblers. Mining the hybrid graph can reveal biological phenomena captured by its structure. We demonstrate the advantages of considering assembly graphs as data-mining support in addition to their role as frameworks for assembly.

Fungal communities from the calcareous deep-sea sediments in the Southwest India Ridge revealed by Illumina sequencing technology.

PubMed

Zhang, Likui; Kang, Manyu; Huang, Yangchao; Yang, Lixiang

2016-05-01

The diversity and ecological significance of bacteria and archaea in deep-sea environments have been thoroughly investigated, but eukaryotic microorganisms in these areas, such as fungi, are poorly understood. To elucidate fungal diversity in calcareous deep-sea sediments in the Southwest India Ridge (SWIR), the internal transcribed spacer (ITS) regions of rRNA genes from two sediment metagenomic DNA samples were amplified and sequenced using the Illumina sequencing platform. The results revealed that 58-63 % and 36-42 % of the ITS sequences (97 % similarity) belonged to Basidiomycota and Ascomycota, respectively. These findings suggest that Basidiomycota and Ascomycota are the predominant fungal phyla in the two samples. We also found that Agaricomycetes, Leotiomycetes, and Pezizomycetes were the major fungal classes in the two samples. At the species level, Thelephoraceae sp. and Phialocephala fortinii were major fungal species in the two samples. Despite the low relative abundance, unidentified fungal sequences were also observed in the two samples. Furthermore, we found that there were slight differences in fungal diversity between the two sediment samples, although both were collected from the SWIR. Thus, our results demonstrate that calcareous deep-sea sediments in the SWIR harbor diverse fungi, which augment the fungal groups in deep-sea sediments. This is the first report of fungal communities in calcareous deep-sea sediments in the SWIR revealed by Illumina sequencing.

Investigation of an Electromagnetic Induction Sensor

DTIC Science & Technology

2011-12-01

c) (f) Figure 5. Respose plotted on an Argand diagram over the center of a) TS-50 anti-personnel landmines buried 0 to...5 cm deep, b) MAI-75 anti- personnel landmines buried 0 to 5 cm deep, and c) patio stones buried 2.5 to 11 cm deep. Magnitude of the respose at the 21...Figure 6. Respose plotted on an Argand diagram over the center of empty grid locations. II - 377 a) b) c) d) Figure 5. Response of four mines

Fast Algorithms for Mining Co-evolving Time Series

DTIC Science & Technology

2011-09-01

Keogh et al., 2001, 2004] and (b) forecasting, like an autoregressive integrated moving average model ( ARIMA ) and related meth- ods [Box et al., 1994...computing hardware? We develop models to mine time series with missing values, to extract compact representation from time sequences, to segment the...sequences, and to do forecasting. For large scale data, we propose algorithms for learning time series models , in particular, including Linear Dynamical

Mining dynamic noteworthy functions in software execution sequences

PubMed Central

Huang, Guoyan; Wang, Yuqian; He, Haitao; Ren, Jiadong

2017-01-01

As the quality of crucial entities can directly affect that of software, their identification and protection become an important premise for effective software development, management, maintenance and testing, which thus contribute to improving the software quality and its attack-defending ability. Most analysis and evaluation on important entities like codes-based static structure analysis are on the destruction of the actual software running. In this paper, from the perspective of software execution process, we proposed an approach to mine dynamic noteworthy functions (DNFM)in software execution sequences. First, according to software decompiling and tracking stack changes, the execution traces composed of a series of function addresses were acquired. Then these traces were modeled as execution sequences and then simplified so as to get simplified sequences (SFS), followed by the extraction of patterns through pattern extraction (PE) algorithm from SFS. After that, evaluating indicators inner-importance and inter-importance were designed to measure the noteworthiness of functions in DNFM algorithm. Finally, these functions were sorted by their noteworthiness. Comparison and contrast were conducted on the experiment results from two traditional complex network-based node mining methods, namely PageRank and DegreeRank. The results show that the DNFM method can mine noteworthy functions in software effectively and precisely. PMID:28278276

Constructing and Classifying Email Networks from Raw Forensic Images

DTIC Science & Technology

2016-09-01

data mining for sequence and pattern mining ; in medical imaging for image segmentation; and in computer vision for object recognition” [28]. 2.3.1...machine learning and data mining suite that is written in Python. It provides a platform for experiment selection, recommendation systems, and...predictivemod- eling. The Orange library is a hierarchically-organized toolbox of data mining components. Data filtering and probability assessment are at the

Potential for Nitrogen Fixation and Nitrification in the Granite-Hosted Subsurface at Henderson Mine, CO

PubMed Central

Swanner, Elizabeth D.; Templeton, Alexis S.

2011-01-01

The existence of life in the deep terrestrial subsurface is established, yet few studies have investigated the origin of nitrogen that supports deep life. Previously, 16S rRNA gene surveys cataloged a diverse microbial community in subsurface fluids draining from boreholes 3000 feet deep at Henderson Mine, CO, USA (Sahl et al., 2008). The prior characterization of the fluid chemistry and microbial community forms the basis for the further investigation here of the source of NH4+. The reported fluid chemistry included N2, NH4+ (5–112 μM), NO2− (27–48 μM), and NO3− (17–72 μM). In this study, the correlation between low NH4+ concentrations in dominantly meteoric fluids and higher NH4+ in rock-reacted fluids is used to hypothesize that NH4+ is sourced from NH4+-bearing biotite. However, biotite samples from the host rocks and ore-body minerals were analyzed by Fourier transform infrared (FTIR) microscopy and none-contained NH4+. However, the nitrogenase-encoding gene nifH was successfully amplified from DNA of the fluid sample with high NH4+, suggesting that subsurface microbes have the capability to fix N2. If so, unregulated nitrogen fixation may account for the relatively high NH4+ concentrations in the fluids. Additionally, the amoA and nxrB genes for archaeal ammonium monooxygenase and nitrite oxidoreductase, respectively, were amplified from the high NH4+ fluid DNA, while bacterial amoA genes were not. Putative nitrifying organisms are closely related to ammonium-oxidizing Crenarchaeota and nitrite-oxidizing Nitrospira detected in other subsurface sites based upon 16S rRNA sequence analysis. Thermodynamic calculations underscore the importance of NH4+ as an energy source in a subsurface nitrification pathway. These results suggest that the subsurface microbial community at Henderson is adapted to the low nutrient and energy environment by their capability of fixing nitrogen, and that fixed nitrogen may support subsurface biomass via nitrification. PMID:22190904

Robotic Mining Competition - Awards Ceremony

NASA Image and Video Library

2018-05-18

NASA's 9th Annual Robotic Mining Competition concludes with an awards ceremony May 18, 2018, at the Apollo/Saturn V Center at the Kennedy Space Center Visitor Complex in Florida. The University of Alabama Team Astrobotics received first place in the On-Site Mining Award. At left is retired NASA astronaut Jerry Ross. At right is Rob Mueller, lead mining judge. More than 40 student teams from colleges and universities around the U.S. participated in the competition, May 14-18, by using their mining robots to dig in a supersized sandbox filled with BP-1, or simulated lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Awards Ceremony

NASA Image and Video Library

2018-05-18

NASA's 9th Annual Robotic Mining Competition concludes with an awards ceremony May 18, 2018, at the Apollo/Saturn V Center at the Kennedy Space Center Visitor Complex in Florida. The team from Kent State University received third place in the On-Site Mining Award. At left is retired NASA astronaut Jerry Ross. At right is Rob Mueller, lead mining judge. More than 40 student teams from colleges and universities around the U.S. participated in the competition, May 14-18, by using their mining robots to dig in a supersized sandbox filled with BP-1, or simulated lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Position-specific automated processing of V3 env ultra-deep pyrosequencing data for predicting HIV-1 tropism

PubMed Central

Jeanne, Nicolas; Saliou, Adrien; Carcenac, Romain; Lefebvre, Caroline; Dubois, Martine; Cazabat, Michelle; Nicot, Florence; Loiseau, Claire; Raymond, Stéphanie; Izopet, Jacques; Delobel, Pierre

2015-01-01

HIV-1 coreceptor usage must be accurately determined before starting CCR5 antagonist-based treatment as the presence of undetected minor CXCR4-using variants can cause subsequent virological failure. Ultra-deep pyrosequencing of HIV-1 V3 env allows to detect low levels of CXCR4-using variants that current genotypic approaches miss. However, the computation of the mass of sequence data and the need to identify true minor variants while excluding artifactual sequences generated during amplification and ultra-deep pyrosequencing is rate-limiting. Arbitrary fixed cut-offs below which minor variants are discarded are currently used but the errors generated during ultra-deep pyrosequencing are sequence-dependant rather than random. We have developed an automated processing of HIV-1 V3 env ultra-deep pyrosequencing data that uses biological filters to discard artifactual or non-functional V3 sequences followed by statistical filters to determine position-specific sensitivity thresholds, rather than arbitrary fixed cut-offs. It allows to retain authentic sequences with point mutations at V3 positions of interest and discard artifactual ones with accurate sensitivity thresholds. PMID:26585833

Position-specific automated processing of V3 env ultra-deep pyrosequencing data for predicting HIV-1 tropism.

PubMed

Jeanne, Nicolas; Saliou, Adrien; Carcenac, Romain; Lefebvre, Caroline; Dubois, Martine; Cazabat, Michelle; Nicot, Florence; Loiseau, Claire; Raymond, Stéphanie; Izopet, Jacques; Delobel, Pierre

2015-11-20

HIV-1 coreceptor usage must be accurately determined before starting CCR5 antagonist-based treatment as the presence of undetected minor CXCR4-using variants can cause subsequent virological failure. Ultra-deep pyrosequencing of HIV-1 V3 env allows to detect low levels of CXCR4-using variants that current genotypic approaches miss. However, the computation of the mass of sequence data and the need to identify true minor variants while excluding artifactual sequences generated during amplification and ultra-deep pyrosequencing is rate-limiting. Arbitrary fixed cut-offs below which minor variants are discarded are currently used but the errors generated during ultra-deep pyrosequencing are sequence-dependant rather than random. We have developed an automated processing of HIV-1 V3 env ultra-deep pyrosequencing data that uses biological filters to discard artifactual or non-functional V3 sequences followed by statistical filters to determine position-specific sensitivity thresholds, rather than arbitrary fixed cut-offs. It allows to retain authentic sequences with point mutations at V3 positions of interest and discard artifactual ones with accurate sensitivity thresholds.

Microbial diversity at the moderate acidic stage in three different sulfidic mine tailings dumps generating acid mine drainage.

PubMed

Korehi, Hananeh; Blöthe, Marco; Schippers, Axel

2014-11-01

In freshly deposited sulfidic mine tailings the pH is alkaline or circumneutral. Due to pyrite or pyrrhotite oxidation the pH is dropping over time to pH values <3 at which acidophilic iron- and sulfur-oxidizing prokaryotes prevail and accelerate the oxidation processes, well described for several mine waste sites. The microbial communities at the moderate acidic stage in mine tailings are only scarcely studied. Here we investigated the microbial diversity via 16S rRNA gene sequence analysis in eight samples (pH range 3.2-6.5) from three different sulfidic mine tailings dumps in Botswana, Germany and Sweden. In total 701 partial 16S rRNA gene sequences revealed a divergent microbial community between the three sites and at different tailings depths. Proteobacteria and Firmicutes were overall the most abundant phyla in the clone libraries. Acidobacteria, Actinobacteria, Bacteroidetes, and Nitrospira occurred less frequently. The found microbial communities were completely different to microbial communities in tailings at

Prediction of pork quality parameters by applying fractals and data mining on MRI.

PubMed

Caballero, Daniel; Pérez-Palacios, Trinidad; Caro, Andrés; Amigo, José Manuel; Dahl, Anders B; ErsbØll, Bjarne K; Antequera, Teresa

2017-09-01

This work firstly investigates the use of MRI, fractal algorithms and data mining techniques to determine pork quality parameters non-destructively. The main objective was to evaluate the capability of fractal algorithms (Classical Fractal algorithm, CFA; Fractal Texture Algorithm, FTA and One Point Fractal Texture Algorithm, OPFTA) to analyse MRI in order to predict quality parameters of loin. In addition, the effect of the sequence acquisition of MRI (Gradient echo, GE; Spin echo, SE and Turbo 3D, T3D) and the predictive technique of data mining (Isotonic regression, IR and Multiple linear regression, MLR) were analysed. Both fractal algorithm, FTA and OPFTA are appropriate to analyse MRI of loins. The sequence acquisition, the fractal algorithm and the data mining technique seems to influence on the prediction results. For most physico-chemical parameters, prediction equations with moderate to excellent correlation coefficients were achieved by using the following combinations of acquisition sequences of MRI, fractal algorithms and data mining techniques: SE-FTA-MLR, SE-OPFTA-IR, GE-OPFTA-MLR, SE-OPFTA-MLR, with the last one offering the best prediction results. Thus, SE-OPFTA-MLR could be proposed as an alternative technique to determine physico-chemical traits of fresh and dry-cured loins in a non-destructive way with high accuracy. Copyright © 2017. Published by Elsevier Ltd.

Accurate identification of RNA editing sites from primitive sequence with deep neural networks.

PubMed

Ouyang, Zhangyi; Liu, Feng; Zhao, Chenghui; Ren, Chao; An, Gaole; Mei, Chuan; Bo, Xiaochen; Shu, Wenjie

2018-04-16

RNA editing is a post-transcriptional RNA sequence alteration. Current methods have identified editing sites and facilitated research but require sufficient genomic annotations and prior-knowledge-based filtering steps, resulting in a cumbersome, time-consuming identification process. Moreover, these methods have limited generalizability and applicability in species with insufficient genomic annotations or in conditions of limited prior knowledge. We developed DeepRed, a deep learning-based method that identifies RNA editing from primitive RNA sequences without prior-knowledge-based filtering steps or genomic annotations. DeepRed achieved 98.1% and 97.9% area under the curve (AUC) in training and test sets, respectively. We further validated DeepRed using experimentally verified U87 cell RNA-seq data, achieving 97.9% positive predictive value (PPV). We demonstrated that DeepRed offers better prediction accuracy and computational efficiency than current methods with large-scale, mass RNA-seq data. We used DeepRed to assess the impact of multiple factors on editing identification with RNA-seq data from the Association of Biomolecular Resource Facilities and Sequencing Quality Control projects. We explored developmental RNA editing pattern changes during human early embryogenesis and evolutionary patterns in Drosophila species and the primate lineage using DeepRed. Our work illustrates DeepRed's state-of-the-art performance; it may decipher the hidden principles behind RNA editing, making editing detection convenient and effective.

The deep biosphere in terrestrial sediments in the chesapeake bay area, virginia, USA.

PubMed

Breuker, Anja; Köweker, Gerrit; Blazejak, Anna; Schippers, Axel

2011-01-01

For the first time quantitative data on the abundance of Bacteria, Archaea, and Eukarya in deep terrestrial sediments are provided using multiple methods (total cell counting, quantitative real-time PCR, Q-PCR and catalyzed reporter deposition-fluorescence in situ hybridization, CARD-FISH). The oligotrophic (organic carbon content of ∼0.2%) deep terrestrial sediments in the Chesapeake Bay area at Eyreville, Virginia, USA, were drilled and sampled up to a depth of 140 m in 2006. The possibility of contamination during drilling was checked using fluorescent microspheres. Total cell counts decreased from 10(9) to 10(6) cells/g dry weight within the uppermost 20 m, and did not further decrease with depth below. Within the top 7 m, a significant proportion of the total cell counts could be detected with CARD-FISH. The CARD-FISH numbers for Bacteria were about an order of magnitude higher than those for Archaea. The dominance of Bacteria over Archaea was confirmed by Q-PCR. The down core quantitative distribution of prokaryotic and eukaryotic small subunit ribosomal RNA genes as well as functional genes involved in different biogeochemical processes was revealed by Q-PCR for the uppermost 10 m and for 80-140 m depth. Eukarya and the Fe(III)- and Mn(IV)-reducing bacterial group Geobacteriaceae were almost exclusively found in the uppermost meter (arable soil), where reactive iron was detected in higher amounts. The bacterial candidate division JS-1 and the classes Anaerolineae and Caldilineae of the phylum Chloroflexi, highly abundant in marine sediments, were found up to the maximum sampling depth in high copy numbers at this terrestrial site as well. A similar high abundance of the functional gene cbbL encoding for the large subunit of RubisCO suggests that autotrophic microorganisms could be relevant in addition to heterotrophs. The functional gene aprA of sulfate reducing bacteria was found within distinct layers up to ca. 100 m depth in low copy numbers. The gene mcrA of methanogens was not detectable. Cloning and sequencing data of 16S rRNA genes revealed sequences of typical soil Bacteria. The closest relatives of the archaeal sequences were Archaea recovered from terrestrial and marine environments. Phylogenetic analysis of the Crenarchaeota and Euryarchaeota revealed new members of the uncultured South African Gold Mine Group, Deep Sea Hydrothermal Vent Euryarchaeotal Group 6, and Miscellaneous Crenarcheotic Group clusters.

15 CFR 970.800 - General.

Code of Federal Regulations, 2012 CFR

2012-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Safety of Life and Property at Sea § 970...

15 CFR 970.800 - General.

Code of Federal Regulations, 2014 CFR

2014-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Safety of Life and Property at Sea § 970...

15 CFR 970.800 - General.

Code of Federal Regulations, 2013 CFR

2013-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Safety of Life and Property at Sea § 970...

15 CFR 970.800 - General.

Code of Federal Regulations, 2010 CFR

2010-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Safety of Life and Property at Sea § 970...

15 CFR 970.800 - General.

Code of Federal Regulations, 2011 CFR

2011-01-01

... AND ATMOSPHERIC ADMINISTRATION, DEPARTMENT OF COMMERCE GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Safety of Life and Property at Sea § 970...

Raman spectroscopy of efflorescent sulfate salts from Iron Mountain Mine Superfund Site, California.

PubMed

Sobron, Pablo; Alpers, Charles N

2013-03-01

The Iron Mountain Mine Superfund Site near Redding, California, is a massive sulfide ore deposit that was mined for iron, silver, gold, copper, zinc, and pyrite intermittently for nearly 100 years. As a result, both water and air reached the sulfide deposits deep within the mountain, producing acid mine drainage consisting of sulfuric acid and heavy metals from the ore. Particularly, the drainage water from the Richmond Mine at Iron Mountain is among the most acidic waters naturally found on Earth. The mineralogy at Iron Mountain can serve as a proxy for understanding sulfate formation on Mars. Selected sulfate efflorescent salts from Iron Mountain, formed from extremely acidic waters via drainage from sulfide mining, have been characterized by means of Raman spectroscopy. Gypsum, ferricopiapite, copiapite, melanterite, coquimbite, and voltaite are found within the samples. This work has implications for Mars mineralogical and geochemical investigations as well as for terrestrial environmental investigations related to acid mine drainage contamination.

Raman spectroscopy of efflorescent sulfate salts from Iron Mountain Mine Superfund Site, California

USGS Publications Warehouse

Sobron, Pablo; Alpers, Charles N.

2013-01-01

The Iron Mountain Mine Superfund Site near Redding, California, is a massive sulfide ore deposit that was mined for iron, silver, gold, copper, zinc, and pyrite intermittently for nearly 100 years. As a result, both water and air reached the sulfide deposits deep within the mountain, producing acid mine drainage consisting of sulfuric acid and heavy metals from the ore. Particularly, the drainage water from the Richmond Mine at Iron Mountain is among the most acidic waters naturally found on Earth. The mineralogy at Iron Mountain can serve as a proxy for understanding sulfate formation on Mars. Selected sulfate efflorescent salts from Iron Mountain, formed from extremely acidic waters via drainage from sulfide mining, have been characterized by means of Raman spectroscopy. Gypsum, ferricopiapite, copiapite, melanterite, coquimbite, and voltaite are found within the samples. This work has implications for Mars mineralogical and geochemical investigations as well as for terrestrial environmental investigations related to acid mine drainage contamination.

Alkahest NuclearBLAST : a user-friendly BLAST management and analysis system

PubMed Central

Diener, Stephen E; Houfek, Thomas D; Kalat, Sam E; Windham, DE; Burke, Mark; Opperman, Charles; Dean, Ralph A

2005-01-01

Background - Sequencing of EST and BAC end datasets is no longer limited to large research groups. Drops in per-base pricing have made high throughput sequencing accessible to individual investigators. However, there are few options available which provide a free and user-friendly solution to the BLAST result storage and data mining needs of biologists. Results - Here we describe NuclearBLAST, a batch BLAST analysis, storage and management system designed for the biologist. It is a wrapper for NCBI BLAST which provides a user-friendly web interface which includes a request wizard and the ability to view and mine the results. All BLAST results are stored in a MySQL database which allows for more advanced data-mining through supplied command-line utilities or direct database access. NuclearBLAST can be installed on a single machine or clustered amongst a number of machines to improve analysis throughput. NuclearBLAST provides a platform which eases data-mining of multiple BLAST results. With the supplied scripts, the program can export data into a spreadsheet-friendly format, automatically assign Gene Ontology terms to sequences and provide bi-directional best hits between two datasets. Users with SQL experience can use the database to ask even more complex questions and extract any subset of data they require. Conclusion - This tool provides a user-friendly interface for requesting, viewing and mining of BLAST results which makes the management and data-mining of large sets of BLAST analyses tractable to biologists. PMID:15958161

A Deep Learning Framework for Robust and Accurate Prediction of ncRNA-Protein Interactions Using Evolutionary Information.

PubMed

Yi, Hai-Cheng; You, Zhu-Hong; Huang, De-Shuang; Li, Xiao; Jiang, Tong-Hai; Li, Li-Ping

2018-06-01

The interactions between non-coding RNAs (ncRNAs) and proteins play an important role in many biological processes, and their biological functions are primarily achieved by binding with a variety of proteins. High-throughput biological techniques are used to identify protein molecules bound with specific ncRNA, but they are usually expensive and time consuming. Deep learning provides a powerful solution to computationally predict RNA-protein interactions. In this work, we propose the RPI-SAN model by using the deep-learning stacked auto-encoder network to mine the hidden high-level features from RNA and protein sequences and feed them into a random forest (RF) model to predict ncRNA binding proteins. Stacked assembling is further used to improve the accuracy of the proposed method. Four benchmark datasets, including RPI2241, RPI488, RPI1807, and NPInter v2.0, were employed for the unbiased evaluation of five established prediction tools: RPI-Pred, IPMiner, RPISeq-RF, lncPro, and RPI-SAN. The experimental results show that our RPI-SAN model achieves much better performance than other methods, with accuracies of 90.77%, 89.7%, 96.1%, and 99.33%, respectively. It is anticipated that RPI-SAN can be used as an effective computational tool for future biomedical researches and can accurately predict the potential ncRNA-protein interacted pairs, which provides reliable guidance for biological research. Copyright © 2018 The Author(s). Published by Elsevier Inc. All rights reserved.

A deep learning method for lincRNA detection using auto-encoder algorithm.

PubMed

Yu, Ning; Yu, Zeng; Pan, Yi

2017-12-06

RNA sequencing technique (RNA-seq) enables scientists to develop novel data-driven methods for discovering more unidentified lincRNAs. Meantime, knowledge-based technologies are experiencing a potential revolution ignited by the new deep learning methods. By scanning the newly found data set from RNA-seq, scientists have found that: (1) the expression of lincRNAs appears to be regulated, that is, the relevance exists along the DNA sequences; (2) lincRNAs contain some conversed patterns/motifs tethered together by non-conserved regions. The two evidences give the reasoning for adopting knowledge-based deep learning methods in lincRNA detection. Similar to coding region transcription, non-coding regions are split at transcriptional sites. However, regulatory RNAs rather than message RNAs are generated. That is, the transcribed RNAs participate the biological process as regulatory units instead of generating proteins. Identifying these transcriptional regions from non-coding regions is the first step towards lincRNA recognition. The auto-encoder method achieves 100% and 92.4% prediction accuracy on transcription sites over the putative data sets. The experimental results also show the excellent performance of predictive deep neural network on the lincRNA data sets compared with support vector machine and traditional neural network. In addition, it is validated through the newly discovered lincRNA data set and one unreported transcription site is found by feeding the whole annotated sequences through the deep learning machine, which indicates that deep learning method has the extensive ability for lincRNA prediction. The transcriptional sequences of lincRNAs are collected from the annotated human DNA genome data. Subsequently, a two-layer deep neural network is developed for the lincRNA detection, which adopts the auto-encoder algorithm and utilizes different encoding schemes to obtain the best performance over intergenic DNA sequence data. Driven by those newly annotated lincRNA data, deep learning methods based on auto-encoder algorithm can exert their capability in knowledge learning in order to capture the useful features and the information correlation along DNA genome sequences for lincRNA detection. As our knowledge, this is the first application to adopt the deep learning techniques for identifying lincRNA transcription sequences.

Genome Sequence of Carbon Dioxide-Sequestering Serratia sp. Strain ISTD04 Isolated from Marble Mining Rocks.

PubMed

Kumar, Manish; Gazara, Rajesh Kumar; Verma, Sandhya; Kumar, Madan; Verma, Praveen Kumar; Thakur, Indu Shekhar

2016-10-20

The Serratia sp. strain ISTD04 has been identified as a carbon dioxide (CO 2 )-sequestering bacterium isolated from marble mining rocks in the Umra area, Rajasthan, India. This strain grows chemolithotrophically on media that contain sodium bicarbonate (NaHCO 3 ) as the sole carbon source. Here, we report the genome sequence of 5.07 Mb Serratia sp. ISTD04. Copyright © 2016 Kumar et al.

Mining of Microbial Genomes for the Novel Sources of Nitrilases.

PubMed

Sharma, Nikhil; Thakur, Neerja; Raj, Tilak; Savitri; Bhalla, Tek Chand

2017-01-01

Next-generation DNA sequencing (NGS) has made it feasible to sequence large number of microbial genomes and advancements in computational biology have opened enormous opportunities to mine genome sequence data for novel genes and enzymes or their sources. In the present communication in silico mining of microbial genomes has been carried out to find novel sources of nitrilases. The sequences selected were analyzed for homology and considered for designing motifs. The manually designed motifs based on amino acid sequences of nitrilases were used to screen 2000 microbial genomes (translated to proteomes). This resulted in identification of one hundred thirty-eight putative/hypothetical sequences which could potentially code for nitrilase activity. In vitro validation of nine predicted sources of nitrilases was done for nitrile/cyanide hydrolyzing activity. Out of nine predicted nitrilases, Gluconacetobacter diazotrophicus , Sphingopyxis alaskensis , Saccharomonospora viridis , and Shimwellia blattae were specific for aliphatic nitriles, whereas nitrilases from Geodermatophilus obscurus , Nocardiopsis dassonvillei , Runella slithyformis , and Streptomyces albus possessed activity for aromatic nitriles. Flavobacterium indicum was specific towards potassium cyanide (KCN) which revealed the presence of nitrilase homolog, that is, cyanide dihydratase with no activity for either aliphatic, aromatic, or aryl nitriles. The present study reports the novel sources of nitrilases and cyanide dihydratase which were not reported hitherto by in silico or in vitro studies.

The effects of different representations on static structure analysis of computer malware signatures.

PubMed

Narayanan, Ajit; Chen, Yi; Pang, Shaoning; Tao, Ban

2013-01-01

The continuous growth of malware presents a problem for internet computing due to increasingly sophisticated techniques for disguising malicious code through mutation and the time required to identify signatures for use by antiviral software systems (AVS). Malware modelling has focused primarily on semantics due to the intended actions and behaviours of viral and worm code. The aim of this paper is to evaluate a static structure approach to malware modelling using the growing malware signature databases now available. We show that, if malware signatures are represented as artificial protein sequences, it is possible to apply standard sequence alignment techniques in bioinformatics to improve accuracy of distinguishing between worm and virus signatures. Moreover, aligned signature sequences can be mined through traditional data mining techniques to extract metasignatures that help to distinguish between viral and worm signatures. All bioinformatics and data mining analysis were performed on publicly available tools and Weka.

The Effects of Different Representations on Static Structure Analysis of Computer Malware Signatures

PubMed Central

Narayanan, Ajit; Chen, Yi; Pang, Shaoning; Tao, Ban

2013-01-01

The continuous growth of malware presents a problem for internet computing due to increasingly sophisticated techniques for disguising malicious code through mutation and the time required to identify signatures for use by antiviral software systems (AVS). Malware modelling has focused primarily on semantics due to the intended actions and behaviours of viral and worm code. The aim of this paper is to evaluate a static structure approach to malware modelling using the growing malware signature databases now available. We show that, if malware signatures are represented as artificial protein sequences, it is possible to apply standard sequence alignment techniques in bioinformatics to improve accuracy of distinguishing between worm and virus signatures. Moreover, aligned signature sequences can be mined through traditional data mining techniques to extract metasignatures that help to distinguish between viral and worm signatures. All bioinformatics and data mining analysis were performed on publicly available tools and Weka. PMID:23983644

Pillar size optimization design of isolated island panel gob-side entry driving in deep inclined coal seam—case study of Pingmei No. 6 coal seam

NASA Astrophysics Data System (ADS)

Zhang, Shuai; Wang, Xufeng; Fan, Gangwei; Zhang, Dongsheng; Jianbin, Cui

2018-06-01

There is a perception that deep roadways are difficult to maintain. To reverse this and to improve the recovery rate of coal resources, gob-side entry driving is widely used in coal mines, especially deep-mining coal mines, in China. Determination of the reasonable pillar size through in situ observation and experimentation plays a vital role for roadway maintenance. Based on the geological conditions of Pingmei No.6 coal seam, a theoretical analysis, numerical simulation, and industrial experiments are carried out to calculate the reasonable width of chain pillars, analyze the lateral support stress distribution law near the gob side, investigate the relationship between the coal pillar stress distribution, roadway surrounding rock stress distribution, roadway surrounding rock deformation and the coal pillar width. The results indicate that 5 m wide coal pillars can ensure that the chain pillars are at a lower stress level and the deformation of roadway surrounding rock is in a more reasonable range. Industrial experiments show that when the chain pillar width is 5 m, the deformation of roadway surrounding rock can meet the requirements of working face safe production. The numerical results agreed well with field measurement and observations, and the industrial experiments results further validated the results of the numerical simulation.

The Megafaunal Communities of Mn-crusted Guyots in the Central and Western Pacific

NASA Astrophysics Data System (ADS)

Kelley, C.; France, S.; Gerringer, M.; Pomponi, S. A.; Amon, D.; Mundy, B.; Molodtsova, T.; Matsumoto, A. K.; Watling, L.; Baco-Taylor, A.

2016-12-01

The NOAA Office of Ocean Exploration and Research (OER) recently completed the second year of its 3 year CAPSTONE initiative to explore the deep waters of the U.S Pacific Monuments. At the preparation of this abstract, six ROV cruises were completed in the Papahanaumokuakea Marine National Monument (PMNM), the Mariana Trench Marine National Monument (MTMNM) and the Johnston Atoll unit of the Pacific Remote Islands Marine National Monument (PRIMNM). A seventh ROV cruise is scheduled for July 27 through August 9 in the Wake unit of PRIMNM. Manganese (Mn)-crusted guyots have been one of the priorities of these cruises. Sixteen guyots have been surveyed to date with 11 more targeted for the dives around Wake. A major science objective has been to gain a better understanding of the megafaunal communities on this type of seamount because interest is building in mining manganese crusts in the Central and Western Pacific, an area referred to as the Prime Crust Zone (PCZ). These surveys revealed the presence of unique animals and in some locations, high density communities of deepwater corals and sponges living on Mn crusts that could be severely impacted by deep sea mining operations. This presentation will summarize the initial findings from the surveys on all 27 guyots and will hopefully raise awareness of the need for cautious and responsible development of the deep sea mining industry.

Sand dune of Ruby, Arizona, an anthropogenically created biodiversity hotspot for wasps and their velvet ant parasitoids

Treesearch

Justin O. Schmidt

2013-01-01

A large artificial sand dune composed of finely crushed mine tailings was produced by deep mining operations at Ruby, Arizona. Today, the ghost town of Ruby is an important historical location and biodiversity refuge, with the newly formed dune forming the core of the refuge. The dune provides ideal nesting habitat for at least 13 species of sand-loving wasps,...

Rock Burst Monitoring by Integrated Microseismic and Electromagnetic Radiation Methods

NASA Astrophysics Data System (ADS)

Li, Xuelong; Wang, Enyuan; Li, Zhonghui; Liu, Zhentang; Song, Dazhao; Qiu, Liming

2016-11-01

For this study, microseismic (MS) and electromagnetic radiation (EMR) monitoring systems were installed in a coal mine to monitor rock bursts. The MS system monitors coal or rock mass ruptures in the whole mine, whereas the EMR equipment monitors the coal or rock stress in a small area. By analysing the MS energy, number of MS events, and EMR intensity with respect to rock bursts, it has been shown that the energy and number of MS events present a "quiet period" 1-3 days before the rock burst. The data also show that the EMR intensity reaches a peak before the rock burst and this EMR intensity peak generally corresponds to the MS "quiet period". There is a positive correlation between stress and EMR intensity. Buckling failure of coal or rock depends on the rheological properties and occurs after the peak stress in the high-stress concentration areas in deep mines. The MS "quiet period" before the rock burst is caused by the heterogeneity of the coal and rock structures, the transfer of high stress into internal areas, locked patches, and self-organized criticality near the stress peak. This study increases our understanding of coal and rock instability in deep mines. Combining MS and EMR to monitor rock burst could improve prediction accuracy.

15 CFR 971.400 - General.

Code of Federal Regulations, 2010 CFR

2010-01-01

... SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Issuance/Transfer: Terms... on that action, within 180 days (or such longer period of time as the Administrator may establish for...

15 CFR 971.302 - Denial of certification.

Code of Federal Regulations, 2010 CFR

2010-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Certification of...) The action believed necessary to correct the deficiency; and (ii) The time within which any...

Impacts of gold mine waste disposal on deepwater fish in a pristine tropical marine system.

PubMed

Brewer, D T; Milton, D A; Fry, G C; Dennis, D M; Heales, D S; Venables, W N

2007-03-01

Little is known about the impacts of mine waste disposal, including deep-sea tailings, on tropical marine environments and this study presents the first account of this impact on deepwater fish communities. The Lihir gold mine in Papua New Guinea has deposited both excavated overburden and processed tailings slurry into the coastal environment since 1997. The abundances of fish species and trace metal concentrations in their tissues were compared between sites adjacent to and away from the mine. In this study (1999-2002), 975 fish of 98 species were caught. Significantly fewer fish were caught close to the mine than in neighbouring regions; the highest numbers were in regions distant from the mine. The catch rates of nine of the 17 most abundant species were lowest, and in three species were highest, close to the mine. There appears to be limited contamination in fish tissues caused by trace metals disposed as mine waste. Although arsenic (several species) and mercury (one species) were found in concentrations above Australian food standards. However, as in the baseline (pre-mine) sampling, it appears they are accumulating these metals mostly from naturally-occurring sources rather than the mine waste.

Towards comprehensive structural motif mining for better fold annotation in the "twilight zone" of sequence dissimilarity

PubMed Central

Jia, Yi; Huan, Jun; Buhr, Vincent; Zhang, Jintao; Carayannopoulos, Leonidas N

2009-01-01

Background Automatic identification of structure fingerprints from a group of diverse protein structures is challenging, especially for proteins whose divergent amino acid sequences may fall into the "twilight-" or "midnight-" zones where pair-wise sequence identities to known sequences fall below 25% and sequence-based functional annotations often fail. Results Here we report a novel graph database mining method and demonstrate its application to protein structure pattern identification and structure classification. The biologic motivation of our study is to recognize common structure patterns in "immunoevasins", proteins mediating virus evasion of host immune defense. Our experimental study, using both viral and non-viral proteins, demonstrates the efficiency and efficacy of the proposed method. Conclusion We present a theoretic framework, offer a practical software implementation for incorporating prior domain knowledge, such as substitution matrices as studied here, and devise an efficient algorithm to identify approximate matched frequent subgraphs. By doing so, we significantly expanded the analytical power of sophisticated data mining algorithms in dealing with large volume of complicated and noisy protein structure data. And without loss of generality, choice of appropriate compatibility matrices allows our method to be easily employed in domains where subgraph labels have some uncertainty. PMID:19208148

Robotic Mining Competition - Opening Ceremony

NASA Image and Video Library

2018-05-15

On the second day of NASA's 9th Robotic Mining Competition, May 15, team members from the South Dakota School of Mines & Engineering work on their robot miner in the RobotPits in the Educator Resource Center at Kennedy Space Center Visitor Complex in Florida. Second from right is Kennedy Space Center Director Bob Cabana. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Martian soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-16

During the third day of NASA's 9th Robotic Mining Competition, May 16, Al Feinberg, left, with Kennedy Space Center's Communication and Public Engagement, and Kurt Leucht, with Kennedy's Engineering Directorate, provide commentary as robot miners dig in the dirt in the mining arena at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-17

Team members from the University of Arkansas make adjustments to their robot miner for its turn in the mining arena on the fourth day of NASA's 9th Robotic Mining Competition, May 17, at NASA's Kennedy Space Center Visitor Complex in Florida. They are in the RobotPits inside the Educator Resource Center. More than 40 student teams from colleges and universities around the U.S. are using their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Hydrochemical characterization of a mine water geothermal energy resource in NW Spain.

PubMed

Loredo, C; Ordóñez, A; Garcia-Ordiales, E; Álvarez, R; Roqueñi, N; Cienfuegos, P; Peña, A; Burnside, N M

2017-01-15

Abandoned and flooded mine networks provide underground reservoirs of mine water that can be used as a renewable geothermal energy source. A complete hydrochemical characterization of mine water is required to optimally design the geothermal installation, understand the hydraulic behavior of the water in the reservoir and prevent undesired effects such as pipe clogging via mineral precipitation. Water pumped from the Barredo-Figaredo mining reservoir (Asturias, NW Spain), which is currently exploited for geothermal use, has been studied and compared to water from a separate, nearby mountain mine and a river that receives mine water discharge and partially infiltrates into the mine workings. Although the hydrochemistry was altered during the flooding process, the deep mine waters are currently near neutral, net alkaline, high metal waters of Na-HCO 3 type. Isotopic values suggest that mine waters are closely related to modern meteoric water, and likely correspond to rapid infiltration. Suspended and dissolved solids, and particularly iron content, of mine water results in some scaling and partial clogging of heat exchangers, but water temperature is stable (22°C) and increases with depth, so, considering the available flow (>100Ls -1 ), the Barredo-Figaredo mining reservoir represents a sustainable, long-term resource for geothermal use. Copyright © 2016 Elsevier B.V. All rights reserved.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-17

Team members from Case Western Reserve University pause with their robot miner in the RobotPits on the fourth day of NASA's 9th Robotic Mining Competition, May 17, at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. are using their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-17

Team members from The University of Utah pause with their robot miner in the RobotPits on the fourth day of NASA's 9th Robotic Mining Competition, May 17, at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. are using their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-17

First-time participants from Saginaw Valley State University pause with their robot miner in the RobotPits on the fourth day of NASA's 9th Robotic Mining Competition, May 17, at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. are using their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Opening Ceremony

NASA Image and Video Library

2018-05-15

On the second day of NASA's 9th Robotic Mining Competition, May 15, team members from Temple University work on their robot miner in the RobotPits in the Educator Resource Center at Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Martian soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-17

Team members from The University of Alabama pause with their robot miner in the RobotPits on the fourth day of NASA's 9th Robotic Mining Competition, May 17, at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Opening Ceremony

NASA Image and Video Library

2018-05-15

Team members from Iowa State University prepare their robot miner on the second day of NASA's 9th Robotic Mining Competition, May 15, in the RobotPits in the Educator Resource Center at Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Martian soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Setup

NASA Image and Video Library

2018-05-14

On the first day of NASA's 9th Robotic Mining Competition, set-up day on May 14, college team members work on their robot miner in the RobotPits in the Educator Resource Center at Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Martian soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-17

Team members from New York University work on their robot miner in the RobotPits on the fourth day of NASA's 9th Robotic Mining Competition, May 17, at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. are using their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-17

Team members from York College CUNY are with their robot miner in the RobotPits on the fourth day of NASA's 9th Robotic Mining Competition, May 17, at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. are using their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-17

Team members from the University of Arkansas pause with their robot miner in the RobotPits on the fourth day of NASA's 9th Robotic Mining Competition, May 17, at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. are using their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

15 CFR 971.601 - Environmental requirements.

Code of Federal Regulations, 2013 CFR

2013-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Environmental Effects... will give consideration to the following Ocean Discharge Criteria of the Clean Water Act (40 CFR part...

15 CFR 970.2402 - Notice of pre-enactment exploration.

Code of Federal Regulations, 2011 CFR

2011-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Pre... Director, Office of Ocean Minerals and Energy, National Oceanic and Atmospheric Administration, Department...

15 CFR 970.2402 - Notice of pre-enactment exploration.

Code of Federal Regulations, 2014 CFR

2014-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Pre... Director, Office of Ocean Minerals and Energy, National Oceanic and Atmospheric Administration, Department...

15 CFR 970.2402 - Notice of pre-enactment exploration.

Code of Federal Regulations, 2012 CFR

2012-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Pre... Director, Office of Ocean Minerals and Energy, National Oceanic and Atmospheric Administration, Department...

15 CFR 970.2402 - Notice of pre-enactment exploration.

Code of Federal Regulations, 2013 CFR

2013-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Pre... Director, Office of Ocean Minerals and Energy, National Oceanic and Atmospheric Administration, Department...

15 CFR 971.601 - Environmental requirements.

Code of Federal Regulations, 2011 CFR

2011-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Environmental Effects... will give consideration to the following Ocean Discharge Criteria of the Clean Water Act (40 CFR part...

15 CFR 970.2402 - Notice of pre-enactment exploration.

Code of Federal Regulations, 2010 CFR

2010-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Pre... Director, Office of Ocean Minerals and Energy, National Oceanic and Atmospheric Administration, Department...

15 CFR 971.601 - Environmental requirements.

Code of Federal Regulations, 2012 CFR

2012-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Environmental Effects... will give consideration to the following Ocean Discharge Criteria of the Clean Water Act (40 CFR part...

15 CFR 971.601 - Environmental requirements.

Code of Federal Regulations, 2014 CFR

2014-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Environmental Effects... will give consideration to the following Ocean Discharge Criteria of the Clean Water Act (40 CFR part...

15 CFR 971.420 - Resource conservation requirements.

Code of Federal Regulations, 2010 CFR

2010-01-01

... opportunity for the commercial recovery of the unrecovered balance of the hard mineral resources in the... THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Issuance...

15 CFR 970.900 - Other applicable regulations.

Code of Federal Regulations, 2010 CFR

2010-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Miscellaneous § 970.900 Other... surrender of licenses and permits, amendment of regulations, competition of time, uniform hearing procedures...

15 CFR 971.416 - Approval of permit transfers.

Code of Federal Regulations, 2010 CFR

2010-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Issuance/Transfer... transferee is a United States citizen and proposed commercial recovery activities meet the requirements of...

Opinion mining on book review using CNN-L2-SVM algorithm

NASA Astrophysics Data System (ADS)

Rozi, M. F.; Mukhlash, I.; Soetrisno; Kimura, M.

2018-03-01

Review of a product can represent quality of a product itself. An extraction to that review can be used to know sentiment of that opinion. Process to extract useful information of user review is called Opinion Mining. Review extraction model that is enhancing nowadays is Deep Learning model. This Model has been used by many researchers to obtain excellent performance on Natural Language Processing. In this research, one of deep learning model, Convolutional Neural Network (CNN) is used for feature extraction and L2 Support Vector Machine (SVM) as classifier. These methods are implemented to know the sentiment of book review data. The result of this method shows state-of-the art performance in 83.23% for training phase and 64.6% for testing phase.

Geoseq: a tool for dissecting deep-sequencing datasets.

PubMed

Gurtowski, James; Cancio, Anthony; Shah, Hardik; Levovitz, Chaya; George, Ajish; Homann, Robert; Sachidanandam, Ravi

2010-10-12

Datasets generated on deep-sequencing platforms have been deposited in various public repositories such as the Gene Expression Omnibus (GEO), Sequence Read Archive (SRA) hosted by the NCBI, or the DNA Data Bank of Japan (ddbj). Despite being rich data sources, they have not been used much due to the difficulty in locating and analyzing datasets of interest. Geoseq http://geoseq.mssm.edu provides a new method of analyzing short reads from deep sequencing experiments. Instead of mapping the reads to reference genomes or sequences, Geoseq maps a reference sequence against the sequencing data. It is web-based, and holds pre-computed data from public libraries. The analysis reduces the input sequence to tiles and measures the coverage of each tile in a sequence library through the use of suffix arrays. The user can upload custom target sequences or use gene/miRNA names for the search and get back results as plots and spreadsheet files. Geoseq organizes the public sequencing data using a controlled vocabulary, allowing identification of relevant libraries by organism, tissue and type of experiment. Analysis of small sets of sequences against deep-sequencing datasets, as well as identification of public datasets of interest, is simplified by Geoseq. We applied Geoseq to, a) identify differential isoform expression in mRNA-seq datasets, b) identify miRNAs (microRNAs) in libraries, and identify mature and star sequences in miRNAS and c) to identify potentially mis-annotated miRNAs. The ease of using Geoseq for these analyses suggests its utility and uniqueness as an analysis tool.

Detection of Emerging Vaccine-Related Polioviruses by Deep Sequencing.

PubMed

Sahoo, Malaya K; Holubar, Marisa; Huang, ChunHong; Mohamed-Hadley, Alisha; Liu, Yuanyuan; Waggoner, Jesse J; Troy, Stephanie B; Garcia-Garcia, Lourdes; Ferreyra-Reyes, Leticia; Maldonado, Yvonne; Pinsky, Benjamin A

2017-07-01

Oral poliovirus vaccine can mutate to regain neurovirulence. To date, evaluation of these mutations has been performed primarily on culture-enriched isolates by using conventional Sanger sequencing. We therefore developed a culture-independent, deep-sequencing method targeting the 5' untranslated region (UTR) and P1 genomic region to characterize vaccine-related poliovirus variants. Error analysis of the deep-sequencing method demonstrated reliable detection of poliovirus mutations at levels of <1%, depending on read depth. Sequencing of viral nucleic acids from the stool of vaccinated, asymptomatic children and their close contacts collected during a prospective cohort study in Veracruz, Mexico, revealed no vaccine-derived polioviruses. This was expected given that the longest duration between sequenced sample collection and the end of the most recent national immunization week was 66 days. However, we identified many low-level variants (<5%) distributed across the 5' UTR and P1 genomic region in all three Sabin serotypes, as well as vaccine-related viruses with multiple canonical mutations associated with phenotypic reversion present at high levels (>90%). These results suggest that monitoring emerging vaccine-related poliovirus variants by deep sequencing may aid in the poliovirus endgame and efforts to ensure global polio eradication. Copyright © 2017 Sahoo et al.

A phylogenetic approach to octocoral community structure in the deep Gulf of Mexico

NASA Astrophysics Data System (ADS)

Quattrini, Andrea M.; Etnoyer, Peter J.; Doughty, Cheryl; English, Lisa; Falco, Rosalia; Remon, Natasha; Rittinghouse, Matthew; Cordes, Erik E.

2014-01-01

Deep-sea communities are becoming increasingly vulnerable to anthropogenic disturbances, as fishing, hydrocarbon exploration and extraction, and mining activities extend into deeper water. Negative impacts from such activities were recently documented in the Gulf of Mexico (GoM), where the Deepwater Horizon oil spill caused substantial damage to a deep-water octocoral community. Although a faunal checklist and numerous museum records are currently available for the entire GoM, local-scale diversity and assemblage structure of octocoral communities remains unknown, particularly in deep water. On a series of recent cruises (2008-2011) using remotely operated vehicles, 435 octocorals were collected from 33 deep-water sites (250-2500 m) in the northern GoM. To elucidate species boundaries, the extended mitochondrial barcode (COI+igr1+msh) was successfully amplified and sequenced for 422 of these specimens, yielding a total of 64 haplotypes representing at least 52 species. Further, at least 29% of the species collected were either previously not known to occur in the GoM (12 species) or represent new species (at least three species). Overall, species richness at each site was fairly low (1-12 spp.). The greatest species richness occurred at the shallowest (<325 m: GC140, n=8 spp.) and the deepest (2100-2500 m: DC673, n=12 spp., DC583, n=10 spp.) sites, and minimum taxonomic and phylogenetic (Faith's Index) diversity was evident at 600-950 m. This pattern is the opposite of the typical pattern of deep-sea diversity in the GoM, which normally peaks at mid-slope depths. Sorensen's Index of taxonomic β-diversity indicated that six distinct (65-95% dissimilarity) species assemblages corresponded with five depth breaks at ~325, 425, 600, 1100, and 2100 m. Further assemblage structure was observed within certain depth zones. Of note, within the 425-600 m depth range, species assemblages at the West Florida Slope differed from the other sites, corresponding to an established biogeographic barrier. The phylogenetic approach used in this study provided important insights into the species boundaries of many taxa while demonstrating that evolutionary history plays a critical role in community structure of deep-sea octocorals.

Rational Protein Engineering Guided by Deep Mutational Scanning

PubMed Central

Shin, HyeonSeok; Cho, Byung-Kwan

2015-01-01

Sequence–function relationship in a protein is commonly determined by the three-dimensional protein structure followed by various biochemical experiments. However, with the explosive increase in the number of genome sequences, facilitated by recent advances in sequencing technology, the gap between protein sequences available and three-dimensional structures is rapidly widening. A recently developed method termed deep mutational scanning explores the functional phenotype of thousands of mutants via massive sequencing. Coupled with a highly efficient screening system, this approach assesses the phenotypic changes made by the substitution of each amino acid sequence that constitutes a protein. Such an informational resource provides the functional role of each amino acid sequence, thereby providing sufficient rationale for selecting target residues for protein engineering. Here, we discuss the current applications of deep mutational scanning and consider experimental design. PMID:26404267

Deep Sequencing in Infectious Diseases: Immune and Pathogen Repertoires for the Improvement of Patient Outcomes.

PubMed

Burkholder, William F; Newell, Evan W; Poidinger, Michael; Chen, Swaine; Fink, Katja

2017-01-01

The inaugural workshop "Deep Sequencing in Infectious Diseases: Immune and Pathogen Repertoires for the Improvement of Patient Outcomes" was held in Singapore on 13-14 October 2016. The aim of the workshop was to discuss the latest trends in using high-throughput sequencing, bioinformatics, and allied technologies to analyze immune and pathogen repertoires and their interplay within the host, bringing together key international players in the field and Singapore-based researchers and clinician-scientists. The focus was in particular on the application of these technologies for the improvement of patient diagnosis, prognosis and treatment, and for other broad public health outcomes. The presentations by scientists and clinicians showed the potential of deep sequencing technology to capture the coevolution of adaptive immunity and pathogens. For clinical applications, some key challenges remain, such as the long turnaround time and relatively high cost of deep sequencing for pathogen identification and characterization and the lack of international standardization in immune repertoire analysis.

Deep Sequencing in Infectious Diseases: Immune and Pathogen Repertoires for the Improvement of Patient Outcomes

PubMed Central

Burkholder, William F.; Newell, Evan W.; Poidinger, Michael; Chen, Swaine; Fink, Katja

2017-01-01

The inaugural workshop “Deep Sequencing in Infectious Diseases: Immune and Pathogen Repertoires for the Improvement of Patient Outcomes” was held in Singapore on 13–14 October 2016. The aim of the workshop was to discuss the latest trends in using high-throughput sequencing, bioinformatics, and allied technologies to analyze immune and pathogen repertoires and their interplay within the host, bringing together key international players in the field and Singapore-based researchers and clinician-scientists. The focus was in particular on the application of these technologies for the improvement of patient diagnosis, prognosis and treatment, and for other broad public health outcomes. The presentations by scientists and clinicians showed the potential of deep sequencing technology to capture the coevolution of adaptive immunity and pathogens. For clinical applications, some key challenges remain, such as the long turnaround time and relatively high cost of deep sequencing for pathogen identification and characterization and the lack of international standardization in immune repertoire analysis. PMID:28620372

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

PubMed

Wedding, L M; Friedlander, A M; Kittinger, J N; Watling, L; Gaines, S D; Bennett, M; Hardy, S M; Smith, C R

2013-12-22

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 km(2)) 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.

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

PubMed Central

Wedding, L. M.; Friedlander, A. M.; Kittinger, J. N.; Watling, L.; Gaines, S. D.; Bennett, M.; Hardy, S. M.; Smith, C. R.

2013-01-01

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. PMID:24197407

Microbial N and P mining regulates the effect of N deposition on soil organic matter turnover

NASA Astrophysics Data System (ADS)

Meyer, Nele; Welp, Gerhard; Rodionov, Andrei; Borchard, Nils; Martius, Christopher; Amelung, Wulf

2017-04-01

Nitrogen (N) deposition to soils has become a global issue during the last decades. Its effect on mineralization of soil organic carbon (SOC), however, is still debated. Common theories based on Liebig's law predict higher SOC mineralization rates in nutrient-rich than in nutrient-poor soils. Contrastingly, the concept of microbial N mining predicts lower mineralization rates after N deposition. The latter is explained by ceased decomposition of recalcitrant soil organic matter (SOM) as the need of microbes to acquire N from this pool decreases. As N deposition might shift the nutrient balance towards relative phosphorus (P) deficiency, it is also necessary to consider P mining in this context. Due to limited knowledge about microbial nutrient mining, any predictions of N deposition effects are difficult. This study aims at elucidating the preconditions under which microbial nutrient mining occurs in soil. We hypothesized that the occurrence of N and P mining is controlled by the current nutrient status of the soil. Likewise, soils might respond differently to N additions. To investigate this hypothesis, we conducted substrate-induced respiration measurements on soils with pronounced gradients of N and P availability. We used topsoil samples taken repeatedly from a site which was up to 7 years under bare fallow (Selhausen, Germany) and up to 4 m deep tropical forest soils (Kalimantan, Indonesia). Additional nutrient manipulations (glucose, glucose+N, glucose+P, glucose+N+P additions) were conducted to study the effect of nutrient additions. Samples were incubated for one month. We further conducted 13C labeling experiments to trace the sources of CO2 (sugar vs. SOM derived CO2) for further hints on nutrient mining. Mineralization of glucose was limited by a lack of available N in the bare fallow soil but microbes were able to slowly acquire N from previously unavailable pools. This resulted in a slightly higher release of native SOM-derived CO2 compared to N-fertilized treatments. Nutrient additions had no effect on cumulative CO2 evolution in tropical topsoils. Subsoils of the tropical sites (20 - 100 cm depth) were co-limited by N and P. Here, alleviation of either N or P deficiency was necessary to stimulate the mineralization of glucose. In the deep subsoil (>150 cm depth) only the combined additions of N+P induced any CO2 release. Our results reveal that mining of both N and P potentially occurs but is restricted by multiple nutrient limitations, by the absence of potentially accessible nutrients (e.g., in the deep subsoil), and by full nutrient supply (e.g., high nutrient contents make mining unnecessary). The results suggest several implications for N deposition effects: 1) N deposition decreases (recalcitrant) SOC mineralization in former N-deficient soils, 2) N deposition increases SOC mineralization in former co-limited soils as it facilitates mining of the required P, 3) N deposition has no effect in nutrient rich topsoils.

The use of sequence-based SSR mining for the development of a vast collection of microsatellites in Aquilegia Formosa

Treesearch

Brandon Schlautman; Vera Pfeiffer; Juan Zalapa; Johanne Brunet

2014-01-01

Numerous microsatellite markers were developed for Aquilegia formosafrom sequences deposited within the Expressed Sequence Tag (EST), Genomic Survey Sequence (GSS), and Nucleotide databases in NCBI. Microsatellites (SSRs) were identified and primers were designed for 9 SSR containing sequences in the Nucleotide database, 3803 sequences in the EST...

Microbiome composition and geochemical characteristics of deep subsurface high-pressure environment, Pyhäsalmi mine Finland

PubMed Central

Miettinen, Hanna; Kietäväinen, Riikka; Sohlberg, Elina; Numminen, Mikko; Ahonen, Lasse; Itävaara, Merja

2015-01-01

Pyhäsalmi mine in central Finland provides an excellent opportunity to study microbial and geochemical processes in a deep subsurface crystalline rock environment through near-vertical drill holes that reach to a depth of more than two kilometers below the surface. However, microbial sampling was challenging in this high-pressure environment. Nucleic acid yields obtained were extremely low when compared to the cell counts detected (1.4 × 104 cells mL−1) in water. The water for nucleic acid analysis went through high decompression (60–130 bar) during sampling, whereas water samples for detection of cell counts by microscopy could be collected with slow decompression. No clear cells could be identified in water that went through high decompression. The high-pressure decompression may have damaged part of the cells and the nucleic acids escaped through the filter. The microbial diversity was analyzed from two drill holes by pyrosequencing amplicons of the bacterial and archaeal 16S rRNA genes and from the fungal ITS regions from both DNA and RNA fractions. The identified prokaryotic diversity was low, dominated by Firmicute, Beta- and Gammaproteobacteria species that are common in deep subsurface environments. The archaeal diversity consisted mainly of Methanobacteriales. Ascomycota dominated the fungal diversity and fungi were discovered to be active and to produce ribosomes in the deep oligotrophic biosphere. The deep fluids from the Pyhäsalmi mine shared several features with other deep Precambrian continental subsurface environments including saline, Ca-dominated water and stable isotope compositions positioning left from the meteoric water line. The dissolved gas phase was dominated by nitrogen but the gas composition clearly differed from that of atmospheric air. Despite carbon-poor conditions indicated by the lack of carbon-rich fracture fillings and only minor amounts of dissolved carbon detected in formation waters, some methane was found in the drill holes. No dramatic differences in gas compositions were observed between different gas sampling methods tested. For simple characterization of gas composition the most convenient way to collect samples is from free flowing fluid. However, compared to a pressurized method a relative decrease in the least soluble gases may appear. PMID:26579109

QuadBase2: web server for multiplexed guanine quadruplex mining and visualization

PubMed Central

Dhapola, Parashar; Chowdhury, Shantanu

2016-01-01

DNA guanine quadruplexes or G4s are non-canonical DNA secondary structures which affect genomic processes like replication, transcription and recombination. G4s are computationally identified by specific nucleotide motifs which are also called putative G4 (PG4) motifs. Despite the general relevance of these structures, there is currently no tool available that can allow batch queries and genome-wide analysis of these motifs in a user-friendly interface. QuadBase2 (quadbase.igib.res.in) presents a completely reinvented web server version of previously published QuadBase database. QuadBase2 enables users to mine PG4 motifs in up to 178 eukaryotes through the EuQuad module. This module interfaces with Ensembl Compara database, to allow users mine PG4 motifs in the orthologues of genes of interest across eukaryotes. PG4 motifs can be mined across genes and their promoter sequences in 1719 prokaryotes through ProQuad module. This module includes a feature that allows genome-wide mining of PG4 motifs and their visualization as circular histograms. TetraplexFinder, the module for mining PG4 motifs in user-provided sequences is now capable of handling up to 20 MB of data. QuadBase2 is a comprehensive PG4 motif mining tool that further expands the configurations and algorithms for mining PG4 motifs in a user-friendly way. PMID:27185890

The fluid dynamics of deep-sea mining

NASA Astrophysics Data System (ADS)

Peacock, Thomas; Rzeznik, Andrew

2017-11-01

With vast mineral deposits on the ocean floor, deep-sea nodule mining operations are expected to commence in the next decade. Among several fundamental fluid dynamics problems, this could involve plans for dewatering plumes to be released into the water column by surface processing vessels. To study this scenario, we consider the effects of non-uniform, realistic stratifications on forced compressible plumes with finite initial size. The classical plume model is developed to take into account the influence of thermal conduction through the dewatering pipe and also compressibility effects, for which a dimensionless number is introduced to determine their importance compared to the background stratification. Among other things, our results show that small-scale features of a realistic stratification can have a large effect on plume dynamics compared to smoothed profiles and that for any given set of environmental parameters there is a discharge flow rate that minimizes the plume vertical extent. Our findings are put in the context of nodule mining plumes for which the rapid and efficient re-sedimentation of waste material has important environmental consequences.

Sequence Matters but How Exactly? A Method for Evaluating Activity Sequences from Data

ERIC Educational Resources Information Center

Doroudi, Shayan; Holstein, Kenneth; Aleven, Vincent; Brunskill, Emma

2016-01-01

How should a wide variety of educational activities be sequenced to maximize student learning? Although some experimental studies have addressed this question, educational data mining methods may be able to evaluate a wider range of possibilities and better handle many simultaneous sequencing constraints. We introduce Sequencing Constraint…

15 CFR 971.300 - General.

Code of Federal Regulations, 2010 CFR

2010-01-01

... SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Certification of Applications § 971... the pending unresolved issues, the efforts to resolve them, and an estimate of the time required to do...

15 CFR 971.413 - Revision of a permit.

Code of Federal Regulations, 2010 CFR

2010-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Issuance/Transfer... recognize at the time of filing the original permit application that, although the essential information for...

15 CFR 970.402 - Technological capability.

Code of Federal Regulations, 2010 CFR

2010-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Certification of Applications... possess or have access to, at the time of issuance or transfer of the license, the technology and...

15 CFR 971.700 - General.

Code of Federal Regulations, 2010 CFR

2010-01-01

... SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Safety of Life and Property at Sea... conformity with principles of international law, that vessels documented in the United States and used in...

15 CFR 971.430 - Other Federal requirements.

Code of Federal Regulations, 2010 CFR

2010-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Issuance/Transfer... requirements. Pursuant to § 971.211, another Federal agency, or a State acting under Federal authority, upon...

A deployment of broadband seismic stations in two deep gold mines, South Africa

USGS Publications Warehouse

McGarr, Arthur F.; Boettcher, Margaret S.; Fletcher, Jon Peter B.; Johnston, Malcolm J.; Durrheim, R.; Spottiswoode, S.; Milev, A.

2009-01-01

In-mine seismic networks throughout the TauTona and Mponeng gold mines provide precise locations and seismic source parameters of earthquakes. They also support small-scale experimental projects, including NELSAM (Natural Earthquake Laboratory in South African Mines), which is intended to record, at close hand, seismic rupture of a geologic fault that traverses the project region near the deepest part of TauTona. To resolve some questions regarding the in-mine and NELSAM networks, we deployed four portable broadband seismic stations at deep sites within TauTona and Mponeng for one week during September 2007 and recorded ground acceleration. Moderately large earthquakes within our temporary network were recorded with sufficiently high signal-to-noise that we were able to integrate the acceleration to ground velocity and displacement, from which moment tensors could be determined. We resolved the questions concerning the NELSAM and in-mine networks by using these moment tensors to calculate synthetic seismograms at various network recording sites for comparison with the ground motion recorded at the same locations. We also used the peak velocity of the S wave pulse, corrected for attenuation with distance, to estimate the maximum slip within the rupture zone of an earthquake. We then combined the maximum slip and seismic moment with results from laboratory friction experiments to estimate maximum slip rates within the same high-slip patches of the rupture zone. For the four largest earthquakes recorded within our network, all with magnitudes near 2, these inferred maximum slips range from 4 to 27 mm and the corresponding maximum slip rates range from 1 to 6 m/s. These results, in conjunction with information from previous ground motion studies, indicate that underground support should be capable of withstanding peak ground velocities of at least 5 m/s.

From protein sequence to dynamics and disorder with DynaMine.

PubMed

Cilia, Elisa; Pancsa, Rita; Tompa, Peter; Lenaerts, Tom; Vranken, Wim F

2013-01-01

Protein function and dynamics are closely related; however, accurate dynamics information is difficult to obtain. Here based on a carefully assembled data set derived from experimental data for proteins in solution, we quantify backbone dynamics properties on the amino-acid level and develop DynaMine--a fast, high-quality predictor of protein backbone dynamics. DynaMine uses only protein sequence information as input and shows great potential in distinguishing regions of different structural organization, such as folded domains, disordered linkers, molten globules and pre-structured binding motifs of different sizes. It also identifies disordered regions within proteins with an accuracy comparable to the most sophisticated existing predictors, without depending on prior disorder knowledge or three-dimensional structural information. DynaMine provides molecular biologists with an important new method that grasps the dynamical characteristics of any protein of interest, as we show here for human p53 and E1A from human adenovirus 5.

Characterization of microbial communities in subsurface nuclear blast cavities of the Nevada Test Site

DOE Office of Scientific and Technical Information (OSTI.GOV)

Moser, Duane P; Czerwinski, Ken; Russell, Charles E

2010-07-13

This US Department of Energy (DOE) Environmental Remediation Sciences Project (ERSP) was designed to test fundamental hypotheses concerning the existence and nature of indigenous microbial populations of Nevada Test Site subsurface nuclear test/detonation cavities. Now called Subsurface Biogeochemical Research (SBR), this program's Exploratory Research (ER) element, which funded this research, is designed to support high risk, high potential reward projects. Here, five cavities (GASCON, CHANCELLOR, NASH, ALEMAN, and ALMENDRO) and one tunnel (U12N) were sampled using bailers or pumps. Molecular and cultivation-based techniques revealed bacterial signatures at five sites (CHANCELLOR may be lifeless). SSU rRNA gene libraries contained diverse andmore » divergent microbial sequences affiliated with known metal- and sulfur-cycling microorganisms, organic compound degraders, microorganisms from deep mines, and bacteria involved in selenate reduction and arsenite oxidation. Close relatives of Desulforudis audaxviator, a microorganism thought to subsist in the terrestrial deep subsurface on H2 and SO42- produced by radiochemical reactions, was detected in the tunnel waters. NTS-specific media formulations were used to culture and quantify nitrate-, sulfate-, iron-reducing, fermentative, and methanogenic microorganisms. Given that redox manipulations mediated by microorganisms can impact the mobility of DOE contaminants, our results should have implications for management strategies at this and other DOE sites.« less

Characterization of Microbial Communities in Subsurface Nuclear Blast Cavities of the Nevada Test Site

DOE Office of Scientific and Technical Information (OSTI.GOV)

Moser, Duane P.; Bruckner, Jim; Fisher, Jen

2010-09-01

This U.S. Department of Energy (DOE) Environmental Remediation Sciences Project (ERSP) was designed to test fundamental hypotheses concerning the existence and nature of indigenous microbial populations of Nevada Test Site subsurface nuclear test/detonation cavities. Now called Subsurface Biogeochemical Research (SBR), this program’s Exploratory Research (ER) element, which funded this research, is designed to support high risk, high potential reward projects. Here, five cavities (GASCON, CHANCELLOR, NASH, ALEMAN, and ALMENDRO) and one tunnel (U12N) were sampled using bailers or pumps. Molecular and cultivation-based techniques revealed bacterial signatures at five sites (CHANCELLOR may be lifeless). SSU rRNA gene libraries contained diverse andmore » divergent microbial sequences affiliated with known metal- and sulfur-cycling microorganisms, organic compound degraders, microorganisms from deep mines, and bacteria involved in selenate reduction and arsenite oxidation. Close relatives of Desulforudis audaxviator, a microorganism thought to subsist in the terrestrial deep subsurface on H2 and SO42- produced by radiochemical reactions, was detected in the tunnel waters. NTS-specific media formulations were used to culture and quantify nitrate-, sulfate-, iron-reducing, fermentative, and methanogenic microorganisms. Given that redox manipulations mediated by microorganisms can impact the mobility of DOE contaminants, our results should have implications for management strategies at this and other DOE sites.« less

Viral activities and life cycles in deep subseafloor sediments.

PubMed

Engelhardt, Tim; Orsi, William D; Jørgensen, Bo Barker

2015-12-01

Viruses are highly abundant in marine subsurface sediments and can even exceed the number of prokaryotes. However, their activity and quantitative impact on microbial populations are still poorly understood. Here, we use gene expression data from published continental margin subseafloor metatranscriptomes to qualitatively assess viral diversity and activity in sediments up to 159 metres below seafloor (mbsf). Mining of the metatranscriptomic data revealed 4651 representative viral homologues (RVHs), representing 2.2% of all metatranscriptome sequence reads, which have close translated homology (average 77%, range 60-97% amino acid identity) to viral proteins. Archaea-infecting RVHs are exclusively detected in the upper 30 mbsf, whereas RVHs for filamentous inoviruses predominate in the deepest sediment layers. RVHs indicative of lysogenic phage-host interactions and lytic activity, notably cell lysis, are detected at all analysed depths and suggest a dynamic virus-host association in the marine deep biosphere studied here. Ongoing lytic viral activity is further indicated by the expression of clustered, regularly interspaced, short palindromic repeat-associated cascade genes involved in cellular defence against viral attacks. The data indicate the activity of viruses in subsurface sediment of the Peruvian margin and suggest that viruses indeed cause cell mortality and may play an important role in the turnover of subseafloor microbial biomass. © 2015 Society for Applied Microbiology and John Wiley & Sons Ltd.

DNA Replication Profiling Using Deep Sequencing.

PubMed

Saayman, Xanita; Ramos-Pérez, Cristina; Brown, Grant W

2018-01-01

Profiling of DNA replication during progression through S phase allows a quantitative snap-shot of replication origin usage and DNA replication fork progression. We present a method for using deep sequencing data to profile DNA replication in S. cerevisiae.

15 CFR 970.2502 - Post voyage report.

Code of Federal Regulations, 2012 CFR

2012-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Pre-license Exploration § 970... citizen engaging in the voyage shall submit to NOAA a report containing any environmental data or...

15 CFR 971.409 - Denial of issuance or transfer.

Code of Federal Regulations, 2010 CFR

2010-01-01

... THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS Issuance... can correct: (i) The action believed necessary to correct the deficiency; and (ii) The time within...

15 CFR 970.2502 - Post voyage report.

Code of Federal Regulations, 2010 CFR

2010-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Pre-license Exploration § 970... citizen engaging in the voyage shall submit to NOAA a report containing any environmental data or...

15 CFR 970.2502 - Post voyage report.

Code of Federal Regulations, 2011 CFR

2011-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Pre-license Exploration § 970... citizen engaging in the voyage shall submit to NOAA a report containing any environmental data or...

15 CFR 970.518 - Environmental protection requirements.

Code of Federal Regulations, 2010 CFR

2010-01-01

... THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Issuance... Secretary of State and the Secretary of the department in which the Coast Guard is operating. He also will...

15 CFR 970.2503 - Suspension of exploration activities.

Code of Federal Regulations, 2010 CFR

2010-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Pre... environment. Upon receipt of notice of the emergency order, the United States citizen engaged in the...

DeepARG: a deep learning approach for predicting antibiotic resistance genes from metagenomic data.

PubMed

Arango-Argoty, Gustavo; Garner, Emily; Pruden, Amy; Heath, Lenwood S; Vikesland, Peter; Zhang, Liqing

2018-02-01

Growing concerns about increasing rates of antibiotic resistance call for expanded and comprehensive global monitoring. Advancing methods for monitoring of environmental media (e.g., wastewater, agricultural waste, food, and water) is especially needed for identifying potential resources of novel antibiotic resistance genes (ARGs), hot spots for gene exchange, and as pathways for the spread of ARGs and human exposure. Next-generation sequencing now enables direct access and profiling of the total metagenomic DNA pool, where ARGs are typically identified or predicted based on the "best hits" of sequence searches against existing databases. Unfortunately, this approach produces a high rate of false negatives. To address such limitations, we propose here a deep learning approach, taking into account a dissimilarity matrix created using all known categories of ARGs. Two deep learning models, DeepARG-SS and DeepARG-LS, were constructed for short read sequences and full gene length sequences, respectively. Evaluation of the deep learning models over 30 antibiotic resistance categories demonstrates that the DeepARG models can predict ARGs with both high precision (> 0.97) and recall (> 0.90). The models displayed an advantage over the typical best hit approach, yielding consistently lower false negative rates and thus higher overall recall (> 0.9). As more data become available for under-represented ARG categories, the DeepARG models' performance can be expected to be further enhanced due to the nature of the underlying neural networks. Our newly developed ARG database, DeepARG-DB, encompasses ARGs predicted with a high degree of confidence and extensive manual inspection, greatly expanding current ARG repositories. The deep learning models developed here offer more accurate antimicrobial resistance annotation relative to current bioinformatics practice. DeepARG does not require strict cutoffs, which enables identification of a much broader diversity of ARGs. The DeepARG models and database are available as a command line version and as a Web service at http://bench.cs.vt.edu/deeparg .

A SSR-based genetic linkage map of cultivated peanut (Arachis hypogaea L.)

USDA-ARS?s Scientific Manuscript database

The objective of this study was to construct a molecular linkage map of cultivated tetraploid peanut using simple sequence repeat (SSR) markers derived primarily from peanut genomic sequences, expressed sequence tags (ESTs), and by "data mining" sequences released in GenBank. Three recombinant inbre...

An Evolutionary Machine Learning Framework for Big Data Sequence Mining

ERIC Educational Resources Information Center

Kamath, Uday Krishna

2014-01-01

Sequence classification is an important problem in many real-world applications. Unlike other machine learning data, there are no "explicit" features or signals in sequence data that can help traditional machine learning algorithms learn and predict from the data. Sequence data exhibits inter-relationships in the elements that are…

Understanding the complex evolution of rapidly mutating viruses with deep sequencing: Beyond the analysis of viral diversity.

PubMed

Leung, Preston; Eltahla, Auda A; Lloyd, Andrew R; Bull, Rowena A; Luciani, Fabio

2017-07-15

With the advent of affordable deep sequencing technologies, detection of low frequency variants within genetically diverse viral populations can now be achieved with unprecedented depth and efficiency. The high-resolution data provided by next generation sequencing technologies is currently recognised as the gold standard in estimation of viral diversity. In the analysis of rapidly mutating viruses, longitudinal deep sequencing datasets from viral genomes during individual infection episodes, as well as at the epidemiological level during outbreaks, now allow for more sophisticated analyses such as statistical estimates of the impact of complex mutation patterns on the evolution of the viral populations both within and between hosts. These analyses are revealing more accurate descriptions of the evolutionary dynamics that underpin the rapid adaptation of these viruses to the host response, and to drug therapies. This review assesses recent developments in methods and provide informative research examples using deep sequencing data generated from rapidly mutating viruses infecting humans, particularly hepatitis C virus (HCV), human immunodeficiency virus (HIV), Ebola virus and influenza virus, to understand the evolution of viral genomes and to explore the relationship between viral mutations and the host adaptive immune response. Finally, we discuss limitations in current technologies, and future directions that take advantage of publically available large deep sequencing datasets. Copyright © 2016 Elsevier B.V. All rights reserved.

DEEP MOTIF DASHBOARD: VISUALIZING AND UNDERSTANDING GENOMIC SEQUENCES USING DEEP NEURAL NETWORKS.

PubMed

Lanchantin, Jack; Singh, Ritambhara; Wang, Beilun; Qi, Yanjun

2017-01-01

Deep neural network (DNN) models have recently obtained state-of-the-art prediction accuracy for the transcription factor binding (TFBS) site classification task. However, it remains unclear how these approaches identify meaningful DNA sequence signals and give insights as to why TFs bind to certain locations. In this paper, we propose a toolkit called the Deep Motif Dashboard (DeMo Dashboard) which provides a suite of visualization strategies to extract motifs, or sequence patterns from deep neural network models for TFBS classification. We demonstrate how to visualize and understand three important DNN models: convolutional, recurrent, and convolutional-recurrent networks. Our first visualization method is finding a test sequence's saliency map which uses first-order derivatives to describe the importance of each nucleotide in making the final prediction. Second, considering recurrent models make predictions in a temporal manner (from one end of a TFBS sequence to the other), we introduce temporal output scores, indicating the prediction score of a model over time for a sequential input. Lastly, a class-specific visualization strategy finds the optimal input sequence for a given TFBS positive class via stochastic gradient optimization. Our experimental results indicate that a convolutional-recurrent architecture performs the best among the three architectures. The visualization techniques indicate that CNN-RNN makes predictions by modeling both motifs as well as dependencies among them.

Coastal mining

NASA Astrophysics Data System (ADS)

Bell, Peter M.

The Exclusive Economic Zone (EEZ) declared by President Reagan in March 1983 has met with a mixed response from those who would benefit from a guaranteed, 200-nautical-mile (370-km) protected underwater mining zone off the coasts of the United States and its possessions. On the one hand, the U.S. Department of the Interior is looking ahead and has been very successful in safeguarding important natural resources that will be needed in the coming decades. On the other hand, the mining industry is faced with a depressed metals and mining market.A report of the Exclusive Economic Zone Symposium held in November 1983 by the U.S. Geological Survey, the Mineral Management Service, and the Bureau of Mines described the mixed response as: “ … The Department of Interior … raring to go into promotion of deep-seal mining but industrial consortia being very pessimistic about the program, at least for the next 30 or so years.” (Chemical & Engineering News, February 5, 1983).

Robotic Mining Competition - Awards Ceremony

NASA Image and Video Library

2018-05-18

NASA's 9th Annual Robotic Mining Competition concludes with an awards ceremony May 18, 2018, at the Apollo/Saturn V Center at the Kennedy Space Center Visitor Complex in Florida. The team from North Dakota University in collaboration with James Madison University received second place in the On-Site Mining Award. At left is retired NASA astronaut Jerry Ross. At right is Rob Mueller, lead mining judge. More than 40 student teams from colleges and universities around the U.S. participated in the competition, May 14-18, by using their mining robots to dig in a supersized sandbox filled with BP-1, or simulated lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Awards Ceremony

NASA Image and Video Library

2018-05-18

NASA's 9th Annual Robotic Mining Competition concludes with an awards ceremony May 18, 2018, at the Apollo/Saturn V Center at the Kennedy Space Center Visitor Complex in Florida. The team from North Dakota State University in collaboration with James Madison University received the IEEE Judges' Innovation Award for the most innovative design of a mining robot. At left is retired NASA astronaut Jerry Ross. At right is Michael Johansen, mining judge. More than 40 student teams from colleges and universities around the U.S. participated in the competition, May 14-18, by using their mining robots to dig in a supersized sandbox filled with BP-1, or simulated lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

15 CFR 970.515 - Duration of a license.

Code of Federal Regulations, 2010 CFR

2010-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Issuance/Transfer/Terms... Administrator, based on the criteria, and for the length of time, specified in paragraph (b) of this section. ...

15 CFR 970.2601 - Additional information.

Code of Federal Regulations, 2010 CFR

2010-01-01

... ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR EXPLORATION LICENSES Miscellaneous § 970.2601 Additional information. Any United States citizen filing notice under § 970.2402 or § 970.2501 of this part...

Biomining goes underground

NASA Astrophysics Data System (ADS)

Johnson, D. Barrie

2015-03-01

Ore bodies buried deep in Earth's crust could meet increasing global demands for metals, but mining them would be costly and could damage the environment. Reinventing an ancient technology for bioleaching metals could provide a solution.

Improved detection of CXCR4-using HIV by V3 genotyping: application of population-based and "deep" sequencing to plasma RNA and proviral DNA.

PubMed

Swenson, Luke C; Moores, Andrew; Low, Andrew J; Thielen, Alexander; Dong, Winnie; Woods, Conan; Jensen, Mark A; Wynhoven, Brian; Chan, Dennison; Glascock, Christopher; Harrigan, P Richard

2010-08-01

Tropism testing should rule out CXCR4-using HIV before treatment with CCR5 antagonists. Currently, the recombinant phenotypic Trofile assay (Monogram) is most widely utilized; however, genotypic tests may represent alternative methods. Independent triplicate amplifications of the HIV gp120 V3 region were made from either plasma HIV RNA or proviral DNA. These underwent standard, population-based sequencing with an ABI3730 (RNA n = 63; DNA n = 40), or "deep" sequencing with a Roche/454 Genome Sequencer-FLX (RNA n = 12; DNA n = 12). Position-specific scoring matrices (PSSMX4/R5) (-6.96 cutoff) and geno2pheno[coreceptor] (5% false-positive rate) inferred tropism from V3 sequence. These methods were then independently validated with a separate, blinded dataset (n = 278) of screening samples from the maraviroc MOTIVATE trials. Standard sequencing of HIV RNA with PSSM yielded 69% sensitivity and 91% specificity, relative to Trofile. The validation dataset gave 75% sensitivity and 83% specificity. Proviral DNA plus PSSM gave 77% sensitivity and 71% specificity. "Deep" sequencing of HIV RNA detected >2% inferred-CXCR4-using virus in 8/8 samples called non-R5 by Trofile, and <2% in 4/4 samples called R5. Triplicate analyses of V3 standard sequence data detect greater proportions of CXCR4-using samples than previously achieved. Sequencing proviral DNA and "deep" V3 sequencing may also be useful tools for assessing tropism.

Biodiversity and phylogenetic analysis of culturable bacteria indigenous to Khewra salt mine of pakistan and their industrial importance

PubMed Central

Akhtar, Nasrin; Ghauri, Muhammad A.; Iqbal, Aamira; Anwar, Munir A.; Akhtar, Kalsoom

2008-01-01

Culturable bacterial biodiversity and industrial importance of the isolates indigenous to Khewra salt mine, Pakistan was assessed. PCR Amplification of 16S rDNA of isolates was carried out by using universal primers FD1 and rP1and products were sequenced commercially. These gene sequences were compared with other gene sequences in the GenBank databases to find the closely related sequences. The alignment of these sequences with sequences available from GenBank database was carried out to construct a phylogenetic tree for these bacteria. These genes were deposited to GenBank and accession numbers were obtained. Most of the isolates belonged to different species of genus Bacillus, sharing 92-99% 16S rDNA identity with the respective type strain. Other isolates had close similarities with Escherichia coli, Staphylococcus arlettae and Staphylococcus gallinarum with 97%, 98% and 99% 16S rDNA similarity respectively. The abilities of isolates to produce industrial enzymes (amylase, carboxymethylcellulase, xylanase, cellulase and protease) were checked. All isolates were tested against starch, carboxymethylcellulose (CMC), xylane, cellulose, and casein degradation in plate assays. BPT-5, 11,18,19 and 25 indicated the production of copious amounts of carbohydrates and protein degrading enzymes. Based on this study it can be concluded that Khewra salt mine is populated with diverse bacterial groups, which are potential source of industrial enzymes for commercial applications. PMID:24031194

Potash—A vital agricultural nutrient sourced from geologic deposits

USGS Publications Warehouse

Yager, Douglas B.

2016-11-15

This report summarizes the primary sources of potash in the United States. Potash is an essential nutrient that, along with phosphorus and nitrogen, is used as fertilizer for growing crops. Plants require sufficient potash to activate enzymes, which in turn catalyze chemical reactions important for water uptake and photosynthesis. When potassium is available in quantities necessary for healthy plant growth, disease resistance and physical quality are improved and crop yield and shelf life are increased. Potash is a water-soluble compound of potassium formed by geologic and hydrologic processes. The principal potash sources discussed are the large, stratiform deposits that formed during retreat and evaporation of intracontinental seas. The Paradox, Delaware, Holbrook, Michigan, and Williston sedimentary basins in the United States are examples where extensive potash beds were deposited. Ancient marine-type potash deposits that are close to the surface can be mined using conventional underground mining methods. In situ solution mining can be used where beds are too deep, making underground mining cost-prohibitive, or where underground mines are converted to in situ solution mines. Quaternary brine is another source of potash that is recovered by solar evaporation in manmade ponds. Groundwater from Pleistocene Lake Bonneville (Wendover, Utah) and the present-day Great Salt Lake in Utah are sources of potashbearing brine. Brine from these sources pumped to solar ponds is evaporated and potash concentrated for harvesting, processing, and refinement. Although there is sufficient potash to meet near-term demand, the large marine-type deposits are either geographically restricted to a few areas or are too deep to easily mine. Other regions lack sources of potash brine from groundwater or surface water. Thus, some areas of the world rely heavily on potash imports. Political, economic, and global population pressures may limit the ability of some countries from securing potash resources in the future. In this context, a historical perspective on U.S. potash production in a global framework is discussed.

Trace metals associated with deep-sea tailings placement at the Batu Hijau copper-gold mine, Sumbawa, Indonesia.

PubMed

Angel, Brad M; Simpson, Stuart L; Jarolimek, Chad V; Jung, Rob; Waworuntu, Jorina; Batterham, Grant

2013-08-15

The Batu Hijau copper-gold mine on the island of Sumbawa, Indonesia operates a deep-sea tailings placement (DSTP) facility to dispose of the tailings within the offshore Senunu Canyon. The concentrations of trace metals in tailings, waters, and sediments from locations in the vicinity of the DSTP were determined during surveys in 2004 and 2009. In coastal and deep seawater samples from Alas Strait and the South Coast of Sumbawa, the dissolved concentrations of Ag, As, Cd, Cr, Hg, Pb and Zn were in the sub μg/L range. Dissolved copper concentrations ranged from 0.05 to 0.65 μg/L for all depths at these sites. Dissolved copper concentrations were the highest in the bottom-water from within the tailings plume inside Senunu Canyon, with up to 6.5 μg Cu/L measured in close proximity to the tailings discharge. In general, the concentrations of dissolved and particulate metals were similar in 2004 and 2009. Copyright © 2013 Elsevier Ltd. All rights reserved.

Assessment and uncertainty analysis of groundwater risk.

PubMed

Li, Fawen; Zhu, Jingzhao; Deng, Xiyuan; Zhao, Yong; Li, Shaofei

2018-01-01

Groundwater with relatively stable quantity and quality is commonly used by human being. However, as the over-mining of groundwater, problems such as groundwater funnel, land subsidence and salt water intrusion have emerged. In order to avoid further deterioration of hydrogeological problems in over-mining regions, it is necessary to conduct the assessment of groundwater risk. In this paper, risks of shallow and deep groundwater in the water intake area of the South-to-North Water Transfer Project in Tianjin, China, were evaluated. Firstly, two sets of four-level evaluation index system were constructed based on the different characteristics of shallow and deep groundwater. Secondly, based on the normalized factor values and the synthetic weights, the risk values of shallow and deep groundwater were calculated. Lastly, the uncertainty of groundwater risk assessment was analyzed by indicator kriging method. The results meet the decision maker's demand for risk information, and overcome previous risk assessment results expressed in the form of deterministic point estimations, which ignore the uncertainty of risk assessment. Copyright © 2017 Elsevier Inc. All rights reserved.

Reuse and Securing of Mining Waste : Need of the hour

NASA Astrophysics Data System (ADS)

Mehta, Neha; Dino, Giovanna; Ajmone-Marsan, Franco; De Luca, Domenico Antonio

2016-04-01

With recent advancements in technology and rising standards of living the demand for minerals has increased drastically. Increased reliance on mining industry has led to unmanageable challenges of Mining waste generated out of Mining and Quarrying activities. According to Statistics from EuroStat Mining and Quarrying generated 734 million Tons in Europe in 2012 which accounted for 29.19 % of the total waste, becoming second most important sector in terms of waste generation after Construction Industry. Mining waste can be voluminous and/ or chemically active and can cause environmental threats like groundwater pollution due to leaching of pollutants, surface water pollution due to runoffs during rainy season, river and ocean pollution due to intentional dumping of tailings by mining companies. Most of the big mining companies have not adopted policies against dumping of tailings in rivers and oceans. Deep Sea Tailings Placement (DSTP) is creating havoc in remote and pristine environment of deep-sea beds e.g. Bismarck Sea. Furthermore, mining waste is contaminating soil in nearby areas by disturbing soil microbial activity and other physio-chemical and biological properties of soil (e.g. Barruecopardo village - Spain). Mining waste stored in heaps and dams has led to many accidents and on an average, worldwide, there is one major accident in a year involving tailings dams (e.g. Myanmar, Brazil, 2015). Pollution due to tailings is causing local residents to relocate and become 'ecological migrants'. The above issues linked to mining waste makes reuse and securing of mining waste one of the urgent challenge to deal with. The studies done previously on mining show that most of the researches linked with mining waste reuse and securing are very site specific. For instance, the type of recovery method should not only provide environmental clean-up but also economic benefits to promise sustainability of the method. Environmental risk assessment of using mining waste as agricultural soils can depend on Bio-accumulation factor, Translocation factor of heavy metals, species of plant grown and type of the natural biota of the surroundings and effect of different exposure routes. This also leads to the fact that more research is required in this area. Accordingly the same problem statement was chosen as part of a PhD research Project. The PhD research is part of REMEDIATE project (A Marie Sklodowska-Curie Action Initial Training Network for Improved decision making in contaminated land site investigation and risk assessment, Grant Agreement No. 643087). In this project the researcher will select a mining site in Italy to find possible solutions to the environmental impact of mining waste collected there. The project will focus on 1) physical and chemical characterization of waste 2)environmental risk assessment study of the mining waste 3) impact of mining waste on water bodies and soil 4) to discover possible routes of reuse and recovery of minerals from the waste. Thus project focuses on environmental sustainability of mining waste reuse and clean up. Keywords : Mining waste ; environmental risk assessment ;reuse and recovery.

Robotic Mining Competition - Opening Ceremony

NASA Image and Video Library

2018-05-15

NASA Kennedy Space Center Director Bob Cabana welcomes college and university teams to NASA's 9th Robotic Mining Competition, May 15, during the opening ceremony in the RobotPits in the Educator Resource Center at Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Martian soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Opening Ceremony

NASA Image and Video Library

2018-05-15

A flag presentation and singing of the National Anthem are part of the opening ceremony of NASA's 9th Robotic Mining Competition, May 15, in the RobotPits in the Educator Resource Center at Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their uniquely designed mining robots to dig in a supersized sandbox filled with BP-1, or simulated Martian soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Setup

NASA Image and Video Library

2018-05-14

On the first day of NASA's 9th Robotic Mining Competition, set-up day on May 14, team members from the University of Minnesota-Twin Cities work on their robot miner in the RobotPits in the Educator Resource Center at Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Martian soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Opening Ceremony

NASA Image and Video Library

2018-05-15

On the second day of NASA's 9th Robotic Mining Competition, May 15, the RoboPits in the Educatory Resource Center at Kennedy Space Center Visitor Complex in Florida is filled with teams of students working on their uniquely designed robot miners. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Martian soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Opening Ceremony

NASA Image and Video Library

2018-05-15

On the second day of NASA's 9th Robotic Mining Competition, May 15, team members from the University of Tulsa work on their robot miner in the RobotPits in the Educator Resource Center at Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Martian soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Setup

NASA Image and Video Library

2018-05-14

On the first day of NASA's 9th Robotic Mining Competition, set-up day on May 14, team members from Montana Tech of the University of Montana work on their robot miner in the RobotPits in the Educator Resource Center at Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Martian soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Setup

NASA Image and Video Library

2018-05-14

On the first day of NASA's 9th Robotic Mining Competition, set-up day on May 14, team members from the Illinois Institute of Technology work on their robot miner in the RobotPits in the Educator Resource Center at Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Martian soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Setup

NASA Image and Video Library

2018-05-14

On the first day of NASA's 9th Robotic Mining Competition, set-up day on May 14, team members from the University of North Carolina at Charlotte work on their robot miner in the RobotPits in the Educator Resource Center at Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Martian soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Setup

NASA Image and Video Library

2018-05-14

On the first day of NASA's 9th Robotic Mining Competition, set-up day on May 14, team members from Temple University work on their robot miner in the RobotPits in the Educator Resource Center at Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Martian soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-17

Team members and their faculty advisor, far left, from The University of North Carolina at Charlotte pause with their robot miner in the RobotPits on the fourth day of NASA's 9th Robotic Mining Competition, May 17, at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-17

Team members from the University of Colorado Boulder work on their robot miner in the RobotPits in the Educator Resource Center on the fourth day of NASA's 9th Robotic Mining Competition, May 17, at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. are using their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Activities

NASA Image and Video Library

2018-05-17

First-time participants from the University of Maine, along with their faculty advisor, at far right, are with their robot miner in the RobotPits on the fourth day of NASA's 9th Robotic Mining Competition, May 17, at NASA's Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. are using their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Lunar soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Opening Ceremony

NASA Image and Video Library

2018-05-15

On the second day of NASA's 9th Robotic Mining Competition, May 15, team members from Saginaw Valley State University in Michigan work on their robot miner in the RobotPits in the Educator Resource Center at Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Martian soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

Robotic Mining Competition - Opening Ceremony

NASA Image and Video Library

2018-05-15

Team members and their advisor, far right, from Montana Tech of the University of Montana, prepare their robot miner on the second day of NASA's 9th Robotic Mining Competition, May 15, in the RobotPits in the Educator Resource Center at Kennedy Space Center Visitor Complex in Florida. More than 40 student teams from colleges and universities around the U.S. will use their mining robots to dig in a supersized sandbox filled with BP-1, or simulated Martian soil, gravel and rocks, and participate in other competition requirements. The Robotic Mining Competition is a NASA Human Exploration and Operations Mission Directorate project designed to encourage students in science, technology, engineering and math, or STEM fields. The project provides a competitive environment to foster innovative ideas and solutions that could be used on NASA's deep space missions.

15 CFR 971.1004 - Remission or mitigation of forfeitures.

Code of Federal Regulations, 2012 CFR

2012-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS....506(b) shall be addressed to the Administrator and filed with the Ocean Minerals and Energy Division...

15 CFR 971.1004 - Remission or mitigation of forfeitures.

Code of Federal Regulations, 2014 CFR

2014-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS....506(b) shall be addressed to the Administrator and filed with the Ocean Minerals and Energy Division...

15 CFR 971.1004 - Remission or mitigation of forfeitures.

Code of Federal Regulations, 2013 CFR

2013-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS....506(b) shall be addressed to the Administrator and filed with the Ocean Minerals and Energy Division...

15 CFR 971.1004 - Remission or mitigation of forfeitures.

Code of Federal Regulations, 2011 CFR

2011-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS....506(b) shall be addressed to the Administrator and filed with the Ocean Minerals and Energy Division...

15 CFR 971.1004 - Remission or mitigation of forfeitures.

Code of Federal Regulations, 2010 CFR

2010-01-01

... REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS....506(b) shall be addressed to the Administrator and filed with the Ocean Minerals and Energy Division...

15 CFR 971.803 - Relinquishment and surrender of licenses and permits.

Code of Federal Regulations, 2010 CFR

2010-01-01

... GENERAL REGULATIONS OF THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL... licensee or permittee may at any time, without penalty: (1) Surrender to the Administrator a license or...

15 CFR 971.212 - Public notice, hearing and comment.

Code of Federal Regulations, 2010 CFR

2010-01-01

... THE ENVIRONMENTAL DATA SERVICE DEEP SEABED MINING REGULATIONS FOR COMMERCIAL RECOVERY PERMITS... comments thereon. A hearing will be conducted in any State in which a processing plant or any of its...

Long term seismic noise acquisition and analysis in the Homestake mine with tunable monolithic sensors

NASA Astrophysics Data System (ADS)

Acernese, Fausto; De Rosa, Rosario; De Salvo, Riccardo; Giordano, Gerardo; Harms, Jan; Mandic, Vuk; Sajeva, Angelo; Trancynger, Thomas; Barone, Fabrizio

2009-09-01

In this paper we describe the scientific data recorded along one month of data taking of two mechanical monolithic horizontal sensor prototypes located in a blind-ended (side) tunnel 2000 ft deep in the Homestake (South Dakota, USA) mine chosen to host the Deep Underground Science and Engineering Laboratory (DUSEL). The two mechanical monolithic sensors, developed at the University of Salerno, are placed, in thermally insulating enclosures, onto concrete slabs connected to the bedrock, and behind a sound-proofing wall. The main goal of this experiment is to characterize the Homestake site in the frequency band 10-4 ÷ 30 H z and to estimate the level of Newtonian noise, providing also the necessary preliminary information to understand the feasibility of underground gravitational-wave interferometers sensitive at 1 H z and below.

Enhanced sensitivity for detection of low-level germline mosaic RB1 mutations in sporadic retinoblastoma cases using deep semiconductor sequencing.

PubMed

Chen, Zhao; Moran, Kimberly; Richards-Yutz, Jennifer; Toorens, Erik; Gerhart, Daniel; Ganguly, Tapan; Shields, Carol L; Ganguly, Arupa

2014-03-01

Sporadic retinoblastoma (RB) is caused by de novo mutations in the RB1 gene. Often, these mutations are present as mosaic mutations that cannot be detected by Sanger sequencing. Next-generation deep sequencing allows unambiguous detection of the mosaic mutations in lymphocyte DNA. Deep sequencing of the RB1 gene on lymphocyte DNA from 20 bilateral and 70 unilateral RB cases was performed, where Sanger sequencing excluded the presence of mutations. The individual exons of the RB1 gene from each sample were amplified, pooled, ligated to barcoded adapters, and sequenced using semiconductor sequencing on an Ion Torrent Personal Genome Machine. Six low-level mosaic mutations were identified in bilateral RB and four in unilateral RB cases. The incidence of low-level mosaic mutation was estimated to be 30% and 6%, respectively, in sporadic bilateral and unilateral RB cases, previously classified as mutation negative. The frequency of point mutations detectable in lymphocyte DNA increased from 96% to 97% for bilateral RB and from 13% to 18% for unilateral RB. The use of deep sequencing technology increased the sensitivity of the detection of low-level germline mosaic mutations in the RB1 gene. This finding has significant implications for improved clinical diagnosis, genetic counseling, surveillance, and management of RB. © 2013 WILEY PERIODICALS, INC.

Conceptual overview and preliminary risk assessment of cryogen use in deep underground mine production

NASA Astrophysics Data System (ADS)

Sivret, J.; Millar, D. L.; Lyle, G.

2017-12-01

This research conducts a formal risk assessment for cryogenic fueled equipment in underground environments. These include fans, load haul dump units, and trucks. The motivating advantage is zero-emissions production in the subsurface and simultaneous provision of cooling for ultra deep mine workings. The driving force of the engine is the expansion of the reboiled cryogen following flash evaporation using ambient temperature heat. The cold exhaust mixes with warm mine air and cools the latter further. The use of cryogens as ‘fuel’ leads to much increased fuel transport volumes and motivates special considerations for distribution infrastructure and process including: cryogenic storage, distribution, handling, and transfer systems. Detailed specification of parts and equipment, numerical modelling and preparation of design drawings are used to articulate the concept. The conceptual design process reveals new hazards and risks that the mining industry has not yet encountered, which may yet stymie execution. The major unwanted events include the potential for asphyxiation due to oxygen deficient atmospheres, or physical damage to workers due to exposure to sub-cooled liquids and cryogenic gases. The Global Minerals Industry Risk Management (GMIRM) framework incorporates WRAC and Bow-Tie techniques and is used to identify, assess and mitigate risks. These processes operate upon the competing conceptual designs to identify and eliminate high risk options and improve the safety of the lower risk designs.

Mining SNPs in extracellular vesicular transcriptome of Trypanosoma cruzi: a step closer to early diagnosis of neglected Chagas disease.

PubMed

Gaur, Pallavi; Chaturvedi, Anoop

2016-01-01

One of the newest and strongest members of intercellular communicators, the Extracellular vesicles (EVs) and their enclosed RNAs; Extracellular RNAs (exRNAs) have been acknowledged as putative biomarkers and therapeutic targets for various diseases. Although a very deep insight has not been possible into the physiology of these vesicles, they are believed to be involved in cell-to-cell communication and host-pathogen interactions. EVs might be significantly helpful in discovering biomarkers for possible target identification as well as prognostics, diagnostics and developing vaccines. In recent studies, highly bioactive EVs have drawn attention of parasitologists for being able to communicate between different cells and having likeliness of reflecting both source and target environments. Next-generation sequencing (NGS) has eased the way to have a deeper insight into these vesicles and their roles in various diseases. This article arises from bioinformatics-based analysis and predictive data mining of transcriptomic (RNA-Seq) data of EVs, derived from different life stages of Trypanosoma cruzi ; a causing agent of neglected Chagas disease. Variants (Single Nucleotide Polymorphisms (SNPs)) were mined from Extracellular vesicular transcriptomic data and functionally analyzed using different bioinformatics based approaches. Functional analysis showed the association of these variants with various important factors like Trans-Sialidase (TS), Alpha Tubulin, P-Type H+-ATPase, etc. which, in turn, are associated with disease in different ways. Some of the 'candidate SNPs' were found to be stage-specific, which strengthens the probability of finding stage-specific biomarkers. These results may lead to a better understanding of Chagas disease, and improved knowledge may provide further development of the biomarkers for prognosis, diagnosis and drug development for treating Chagas disease.

Promoter Sequences Prediction Using Relational Association Rule Mining

PubMed Central

Czibula, Gabriela; Bocicor, Maria-Iuliana; Czibula, Istvan Gergely

2012-01-01

In this paper we are approaching, from a computational perspective, the problem of promoter sequences prediction, an important problem within the field of bioinformatics. As the conditions for a DNA sequence to function as a promoter are not known, machine learning based classification models are still developed to approach the problem of promoter identification in the DNA. We are proposing a classification model based on relational association rules mining. Relational association rules are a particular type of association rules and describe numerical orderings between attributes that commonly occur over a data set. Our classifier is based on the discovery of relational association rules for predicting if a DNA sequence contains or not a promoter region. An experimental evaluation of the proposed model and comparison with similar existing approaches is provided. The obtained results show that our classifier overperforms the existing techniques for identifying promoter sequences, confirming the potential of our proposal. PMID:22563233

A web-based genomic sequence database for the Streptomycetaceae: a tool for systematics and genome mining

USDA-ARS?s Scientific Manuscript database

The ARS Microbial Genome Sequence Database (http://199.133.98.43), a web-based database server, was established utilizing the BIGSdb (Bacterial Isolate Genomics Sequence Database) software package, developed at Oxford University, as a tool to manage multi-locus sequence data for the family Streptomy...

Draft Genome Sequence of Deep-Sea Alteromonas sp. Strain V450 Isolated from the Marine Sponge Leiodermatium sp.

PubMed Central

Barrett, Nolan H.; McCarthy, Peter J.

2017-01-01

ABSTRACT The proteobacterium Alteromonas sp. strain V450 was isolated from the Atlantic deep-sea sponge Leiodermatium sp. Here, we report the draft genome sequence of this strain, with a genome size of approx. 4.39 Mb and a G+C content of 44.01%. The results will aid deep-sea microbial ecology, evolution, and sponge-microbe association studies. PMID:28153886

Deep and Ultra-deep Underground Observatory for In Situ Stress, Fluids, and Life

NASA Astrophysics Data System (ADS)

Boutt, D. F.; Wang, H.; Kieft, T. L.

2008-12-01

The question 'How deeply does life extend into the Earth?' forms a single, compelling vision for multidisciplinary science opportunities associated with physical and biological processes occurring naturally or in response to construction in the deep and ultra-deep subsurface environment of the Deep Underground Science and Engineering Laboratory (DUSEL) in the former Homestake mine. The scientific opportunity is to understand the interaction between the physical environment and microbial life, specifically, the coupling among (1) stress state and deformation; (2) flow and transport and origin of fluids; and (3) energy and nutrient sources for microbial life; and (4) microbial identity, diversity and activities. DUSEL-Homestake offers the environment in which these questions can be addressed unencumbered by competing human activities. Associated with the interaction among these variables are a number of questions that will be addressed at variety of depths and scales in the facility: What factors control the distribution of life as a function of depth and temperature? What patterns in microbial diversity, microbial activity and nutrients are found along this gradient? How do state variables (stress, strain, temperature, and pore pressure) and constitutive properties (permeability, porosity, modulus, etc.) vary with scale (space, depth, time) in a large 4D heterogeneous system: core - borehole - drift - whole mine - regional? How are fluid flow and stress coupled in a low-permeability, crystalline environment dominated by preferential flow paths? How does this interaction influence the distribution of fluids, solutes, gases, colloids, and biological resources (e.g. energy and nutritive substrates) in the deep continental subsurface? What is the interaction between geomechanics/geohydrology and microbiology (microbial abundance, diversity, distribution, and activities)? Can relationships elucidated within the mechanically and hydrologically altered subsurface habitat of the Homestake DUSEL be extrapolated to the pristine subsurface biosphere? In the absence of extensive intrusive investigations (drifts, mines, etc), can we characterize hydrogeologic and geomechanical processes in the subsurface? To what depth can we effectively characterize such processes, and what is the confidence in our interpretations? In addition to addressing these question in the 10-km3 of mine volume, the Homestake facility offers the deepest drilling platform in North America. The extant depth of 8000 feet can be doubled by drilling. An array of three or more 8,200 ft. boreholes, wire-line drilled from the 8,000 ft. level at Homestake will probe to at least 16,200 ft. below land surface, a depth at this location approaching the expected lower biosphere limit (e.g. the 120°C isotherm). Cores will be collected aseptically and then fracture patterns (e.g., orientation, aperture, etc.) will be determined and fracture fluids will be intensively sampled over time. Cores and fracture fluids will be analyzed for indigenous microbial communities, including their genetic elements, metabolic processes, and biosignatures.

Genomic Evidence of Chemotrophic Metabolisms in Deep-Dwelling Chloroflexi Conferred by Ancient Horizontal Gene Transfer Events

NASA Astrophysics Data System (ADS)

Momper, L. M.; Magnabosco, C.; Amend, J.; Osburn, M. R.; Fournier, G. P.

2017-12-01

The marine and terrestrial subsurface biospheres represent quite likely the largest reservoirs for life on Earth, directly impacting surface processes and global cycles throughout Earth's history. In the deep subsurface biosphere (DSB) organic carbon and energy are often extremely scarce. However, archaea and bacteria are able to persist in the DSB to at least 3.5 km below surface [1]. Understanding how they persist, and by what metabolisms they subsist, are key questions in this biosphere. To address these questions we investigated 5 global DSB environments: one legacy mine in South Dakota, USA, 3 mines in South Africa and marine fluids circulating beneath the Juan de Fuca Ridge. Boreholes within these mines provided access to fluids buried beneath the earth's surface and sampled depths down to 3.1 km. Geochemical data were collected concomitantly with DNA for metagenomic sequencing. We examined genomes of the ancient and deeply branching Chloroflexi for metabolic capabilities and interrogated the geochemical drivers behind those metabolisms with in situ thermodynamic modeling of reaction energetics. In total, 23 Chloroflexi genomes were identified and analyzed from the 5 subsurface sites. Genes for nitrate reduction (nar) and sulfite reduction (dsr) were found in many of the South Africa Chloroflexi but were absent from genomes collected in South Dakota. Indeed, nitrate reduction was among the most energetically favorable reactions in South African fluids (10-14 kJ cell-1 sec -1 per mol of reactant) and sulfur reduction with Fe2+ or H2 was also exergonic [2]. Conversely, genes for nitrite and nitrous oxide reduction (nrf, nir and nos) were found in genomes collected in South Dakota and Juan de Fuca, but not South Africa. We examined the origin of genes conferring these metabolisms in the Chloroflexi genomes. We discovered evidence for horizontal gene transfer (HGT) for all of these putative metabolisms. Retention of these genes in Chloroflexi lineages indicates HGT may have conferred an advantageous metabolism in DSB environments. We are using molecular dating techniques to constrain the timing of these HGT events on geologic timescales. [1] Baker J. B. et al. (2003) Environ Microbiol., 5, 267-277. [2] Magnabosco C. et al. (2016) ISME J, 10(3), 730-741.

The 1.1-Ga Midcontinent Rift System, central North America: sedimentology of two deep boreholes, Lake Superior region

NASA Astrophysics Data System (ADS)

Ojakangas, Richard W.; Dickas, Albert B.

2002-03-01

The Midcontinent Rift System (MRS) of central North America is a 1.1-Ga, 2500-km long structural feature that has been interpreted as a triple-junction rift developed over a mantle plume. As much as 20 km of subaerial lava flows, mainly flood basalts, are overlain by as much as 10 km of sedimentary rocks that are mostly continental fluvial red beds. This rock sequence, known as the Keweenawan Supergroup, has been penetrated by a few deep boreholes in the search for petroleum. In this paper, two deep boreholes in the Upper Peninsula of Michigan are described in detail for the first time. Both the Amoco Production #1-29R test, herein referred to as the St. Amour well, and the nearby Hickey Creek well drilled by Cleveland Cliffs Mining Services, were 100% cored. The former is 7238 ft (2410 m) deep and the latter is 5345 ft (1780 m) deep. The entirety of the stratigraphic succession of the Hickey Creek core correlates very well with the upper portion of the St. Amour core, as determined by core description and point-counting of 43 thin sections selected out of 100 studied thin sections. Two Lower Paleozoic units and two Keweenawan red bed units—the Jacobsville Sandstone and the underlying Freda Sandstone—are described. The Jacobsville is largely a feldspatholithic sandstone and the Freda is largely a lithofeldspathic sandstone. Below the Freda, the remaining footage of the St. Amour core consists of a thick quartzose sandstone unit that overlies a heterogenous unit of intercalated red bed units of conglomerate, sandstone, siltstone, and shale; black shale; individual basalt flows; and a basal ignimbritic rhyolite. This lower portion of the St. Amour core presents an enigma, as it correlates very poorly with other key boreholes located to the west and southwest. While a black shale sequence is similar to the petroleum-bearing Nonesuch Formation farther west, there is no conglomerate unit to correlate with the Copper Harbor Conglomerate. Other key boreholes are distributed over a 1300-km distance along the better known southwest arm of the triple-junction MRS, and can be correlated rather well with the units that are exposed in the Lake Superior region. However, a definitive explanation of the anomalous, deeper St. Amour stratigraphy is elusive and any explanation is tenuous. A possible explanation for this anomalous stratigraphy may be the geographic proximity of the St. Amour borehole to the Keweenawan Hot Spot (mantle plume), the suggested thermal force behind the development of the MRS. Similarly, a drastic change in structural architecture may be explained by this geographic relationship. Thus, within the locale of this rifting center, complexities of expansion tectonics may well be responsible for igneous and sedimentary sequences that differ considerably from those found farther west along the rift arm.

Air pollutant intrusion into the Wieliczka Salt Mine

USGS Publications Warehouse

Salmon, L.G.; Cass, G.R.; Kozlowski, R.; Hejda, A.; Spiker, E. C.; Bates, A.L.

1996-01-01

The Wieliczka Salt Mine World Cultural Heritage Site contains many rock salt sculptures that are threatened by water vapor condensation from the mine ventilation air. Gaseous and particulate air pollutant concentrations have been measured both outdoors and within the Wieliczka Salt Mine, along with pollutant deposition fluxes to surfaces within the mine. One purpose of these measurements was to determine whether or not low deliquescence point ionic materials (e.g., NH4NO3) are accumulating on surfaces to an extent that would exacerbate the water vapor condensation problems in the mine. It was found that pollutant gases including SO2 and HNO3 present in outdoor air are removed rapidly and almost completely from the air within the mine by deposition to surfaces. Sulfur isotope analyses confirm the accumulation of air pollutant-derived sulfur in liquid dripping from surfaces within the mine. Particle deposition onto interior surfaces in the mine is apparent, with resulting soiling of some of those sculptures that have been carved from translucent rock salt. Water accumulation by salt sculpture surfaces was studied both experimentally and by approximate thermodynamic calculations. Both approaches suggest that the pollutant deposits on the sculpture surfaces lower the relative humidity (RH) at which a substantial amount of liquid water will accumulate by 1% to several percent. The extraordinarily low SO2 concentrations within the mine may explain the apparent success of a respiratory sanatorium located deep within the mine.

Prediction and assessment of the disturbances of the coal mining in Kailuan to karst groundwater system

NASA Astrophysics Data System (ADS)

Sun, Wenjie; Wu, Qiang; Liu, Honglei; Jiao, Jian

Coal resources and water resources play an essential and strategic role in the development of China's social and economic development, being the priority for China's medium and long technological development. As the mining of the coal extraction is increasingly deep, the mine water inrush of high-pressure confined karst water becomes much more a problem. This paper carried out research on the hundred-year old Kailuan coal mine's karst groundwater system. With the help of advanced Visual Modflow software and numerical simulation method, the paper assessed the flow field of karst water area under large-scale exploitation. It also predicted the evolution ofgroundwaterflow field under different mining schemes of Kailuan Corp. The result shows that two cones of depression are formed in the karst flow field of Zhaogezhuang mining area and Tangshan mining area, and the water levels in two cone centers are -270 m and -31 m respectively, and the groundwater generally flows from the northeast to the southwest. Given some potential closed mines in the future, the mine discharge will decrease and the water level of Ordovician limestone will increase slightly. Conversely, given increase of coal yield, the mine drainage will increase, falling depression cone of Ordovician limestone flow field will enlarge. And in Tangshan's urban district, central water level of the depression cone will move slightly towards north due to pumping of a few mines in the north.

Efficient Mining of Interesting Patterns in Large Biological Sequences

PubMed Central

Rashid, Md. Mamunur; Karim, Md. Rezaul; Jeong, Byeong-Soo

2012-01-01

Pattern discovery in biological sequences (e.g., DNA sequences) is one of the most challenging tasks in computational biology and bioinformatics. So far, in most approaches, the number of occurrences is a major measure of determining whether a pattern is interesting or not. In computational biology, however, a pattern that is not frequent may still be considered very informative if its actual support frequency exceeds the prior expectation by a large margin. In this paper, we propose a new interesting measure that can provide meaningful biological information. We also propose an efficient index-based method for mining such interesting patterns. Experimental results show that our approach can find interesting patterns within an acceptable computation time. PMID:23105928

Efficient mining of interesting patterns in large biological sequences.

PubMed

Rashid, Md Mamunur; Karim, Md Rezaul; Jeong, Byeong-Soo; Choi, Ho-Jin

2012-03-01

Pattern discovery in biological sequences (e.g., DNA sequences) is one of the most challenging tasks in computational biology and bioinformatics. So far, in most approaches, the number of occurrences is a major measure of determining whether a pattern is interesting or not. In computational biology, however, a pattern that is not frequent may still be considered very informative if its actual support frequency exceeds the prior expectation by a large margin. In this paper, we propose a new interesting measure that can provide meaningful biological information. We also propose an efficient index-based method for mining such interesting patterns. Experimental results show that our approach can find interesting patterns within an acceptable computation time.

Identification of Prostate Cancer-Specific microDNAs

DTIC Science & Technology

2016-02-01

circular DNA by rolling circle amplification (RCA) and then amplified DNA fragments were subject to deep sequencing. Deep sequencing of the...demonstrate the existence of microDNAs in prostate cancer. We adopted multiple displacement amplification (MDA) with random 2 primers for enriched...prostate cancer cells through multiple displacement amplification and next generation sequencing. R e la ti v e c e ll g ro w th ( % ) 0 20