A new functional gene database, FOAM (Functional
Ontology Assignments for Metagenomes), was developed
to screen environmental metagenomic sequence
datasets. FOAM provides a new functional
ontology dedicated to classify gene functions relevant
to environmental microorganisms based on Hidden
Markov Models (HMMs). Sets of aligned protein
sequences (i.e. ‘profiles’) were tailored to...
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monooxygenase). Step 1––find Pfam(s) combination assigned to the KO of interest
(a) and (b) check for redundancy
The terrestrial biosphere sequesters up to a
third of annual anthropogenic carbon dioxide emissions,
offsetting a substantial portion of greenhouse
gas forcing of the climate system. Although a number
of factors are responsible for this terrestrial carbon
sink, atmospheric nitrogen deposition contributes by
enhancing tree productivity and promoting carbon
storage...
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sequester soil
carbon in temperate forests
Frey, S. D., Ollinger, S., Nadelhoffer, K., Bowden, R
Background
In the weeks following the first imported case of Ebola in the U. S. on September 29, 2014, coverage of the very limited outbreak dominated the news media, in a manner quite disproportionate to the actual threat to national public health; by the end of October, 2014, there were...
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America
Mass Media and the Contagion of Fear: The Case of Ebola in America
Towers, S., Afzal, S
To determine how well DNA barcodes from the chloroplast region perform in forest dynamics plots
(FDPs) from global CTFS-ForestGEO network, we analyzed DNA barcoding sequences of 1277 plant
species from a wide phylogenetic range (3 FDPs in tropics, 5 in subtropics and 5 in temperate zone)
and compared the rates...
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).
We defined two indexes of closely-related taxa (Gm/Gt and S/G ratios) and correlated these ratios
The Luzon Strait is the generation region for strong internal tides that radiate westward into the South China Sea and eastward into the western Pacific. Intrusions of the Kuroshio and strong mesoscale variability in the Luzon Strait can influence their generation and propagation. Here, the authors use eight moorings and...
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., Rainville, L., Buijsman, M., Ko, D. S., & Lim, B.
(2015). Structure and Variability of Internal Tides in
The filamentous fungus Neurospora crassa responds to light in complex ways. To thoroughly
study the transcriptional response of this organism to light, RNA-seq was used to analyze capped and
polyadenylated mRNA prepared from mycelium grown for 24 hr in the dark and then exposed to light for
0 (control) 15,...
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Wu, C., Yang, F., Smith, K. M., Peterson, M., Dekhang, R., Zhang, Y., ... & Sachs,
M. S. (2014
Environmental contributions to cancer development are widely accepted, but only a fraction of all pertinent exposures
have probably been identified. Traditional toxicological approaches to the problem have largely focused on the effects of
individual agents at singular endpoints. As such, they have incompletely addressed both the pro-carcinogenic contributions
of environmentally...
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Exposome
Genome
Carcinogenesis:(Path(s)(to(Cancer(Genesis(
&(Progression(
✪
Cancer
!
Normal
Accessions of common wheat (Triticum aestivum
L. subsp. aestivum) from the USDA–ARS
National Small Grains Collection (NSGC) are a
resource for wheat scientists worldwide. The
genetic diversity of the wheat core subset, representing
approximately 10% of the collection’s
42,138 T. aestivum accessions, was examined
using 390 diversity arrays technology (DArT)...
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., Chao, S., ... & Gordon, T. C. (2015). Genetic Diversity among
Wheat Accessions from the USDA National
The goal of this project was to investigate the effects and possible developmental disease implication of chronic dietary
TCDD exposure on global gene expression anchored to histopathologic analysis in juvenile zebrafish by functional genomic,
histopathologic and analytic chemistry methods. Specifically, juvenile zebrafish were fed Biodiet starter with TCDD added at...
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genetic dysregulation leading to a better
understanding of the molecular mechanism (s) involved in the
Polycomb Repressive Complex 2 (PRC2) function and DNA methylation (DNAme) are typically correlated with gene repression. Here, we show that PRC2 is required to maintain expression of maternal microRNAs (miRNAs) and long non-coding RNAs (lncRNAs) from the Gtl2-Rian-Mirg locus, which is essential for full pluripotency of iPSCs. In the absence...
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. C., Beyaz,
S., ... & Orkin, S. H. (2015). PRC2 Is Required to Maintain Expression of the
Maternal