Nathan Donley

Nathan Donley
Center for Biological Diversity · Environmental Health Program

PhD

About

32
Publications
3,687
Reads
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508
Citations
Additional affiliations
September 2007 - June 2013
Oregon Health and Science University
Position
  • PhD Student

Publications

Publications (32)
Article
Full-text available
Many environmental pollutants are known to have disproportionate effects on Black, Indigenous and People of Color (BIPOC) as well as communities of low-income and wealth. The reasons for these disproportionate effects are complex and involve hundreds of years of systematic oppression kept in place through structural racism and classism in the USA....
Article
Full-text available
Agricultural pesticide use and its associated environmental harms is widespread throughout much of the world. Efforts to mitigate this harm have largely been focused on reducing pesticide contamination of the water and air, as runoff and pesticide drift are the most significant sources of offsite pesticide movement. Yet pesticide contamination of t...
Technical Report
Full-text available
More than 1 billion pounds of pesticides are sprayed on American landscapes every year, which can hurt both human health and the environment. The U.S. Environmental Protection Agency is tasked with ensuring that every pesticide product sold in the United States is safe. New research is regularly published detailing the harms associated with using...
Article
Full-text available
Background: The United States of America (USA), European Union (EU), Brazil and China are four of the largest agricultural producers and users of agricultural pesticides in the world. Comparing the inclination and ability of different regulatory agencies to ban or eliminate pesticides that have the most potential for harm to humans and the environ...
Technical Report
Full-text available
Already imperiled by escalating pesticide use and other human activities, the monarch butterfly’s epic annual migration across North America now faces a dangerous new threat. For this analysis we examined monarch habitat and projected usage rates for dicamba, a drift-prone, weed-killing pesticide applied to genetically engineered cotton and soybean...
Technical Report
Full-text available
For years the U.S. Environmental Protection Agency has routinely issued “emergency” exemptions for the use of certain pesticides across millions of acres in the United States, in ways that are known to be harmful to wildlife and in cases where the potential harmful effects haven’t been properly investigated. These exemptions allow pesticide manufac...
Article
Full-text available
Apurinic/apyrimidinic (AP) sites are constantly formed in cellular DNA due to instability of the glycosidic bond, particularly at purines and various oxidized, alkylated, or otherwise damaged nucleobases. AP sites are also generated by DNA glycosylases that initiate DNA base excision repair. These lesions represent a significant block to DNA replic...
Technical Report
Full-text available
More than 1 billion pounds of pesticides are used in the United States each year, applied to agricultural fields and orchards, residential lawns, playgrounds and parks. Pesticides are often mixed with other pesticides and chemicals before application or after, and the individual ingredients in these mixtures can interact in such a way as to enhance...
Technical Report
Full-text available
Glyphosate, the active ingredient in Monsanto’s Roundup and other weedkillers, is the most widely used pesticide in the United States and has been designated as a probable human carcinogen by the World Health Organization. More than 280 million pounds were used in the United States agricultural sector in 2012. While the majority of glyphosate was a...
Article
The DNA base excision repair (BER) pathway, which utilizes DNA glycosylases to initiate repair of specific DNA lesions, is the major pathway for the repair of DNA damage induced by oxidation, alkylation, and deamination. Early results from clinical trials suggest that inhibiting certain enzymes in the BER pathway can be a useful anti-cancer strateg...
Article
Bone morphogenetic proteins 4 and 7 (BMP4 and BMP7) are morphogens that signal as either homodimers or heterodimers to regulate embryonic development and adult homeostasis. BMP4/7 heterodimers exhibit markedly higher signaling activity than either homodimer, but the mechanism underlying the enhanced activity is unknown. BMPs are synthesized as inac...
Article
Full-text available
DNA replication initiates at multiple sites along each mammalian chromosome at different times during each S phase, following a temporal replication program. We have used a Cre/loxP-based strategy to identify cis-acting elements that control this replication-timing program on individual human chromosomes. In this report, we show that rearrangements...
Article
Full-text available
ProBMP4 is generated as a latent precursor that is sequentially cleaved at two sites within the prodomain to generate an active ligand. An initial cleavage occurs adjacent to the ligand domain, which generates a non-covalently associated prodomain/ligand complex that is subsequently dissociated by cleavage at an upstream site. An outstanding questi...
Thesis
Full-text available
The majority of human cancers display a wide range of genetic abnormalities, including changes in chromosome number and structure, that are essentially nonexistent in normal tissue. While some of these abnormalities directly affect genes involved in cell growth and survival, the vast majority play an unknown role in carcinogenesis. It has been show...
Data
ReTiSH assay on rDNA loci in primary blood lymphocytes. Human lymphocytes were obtained from normal individuals and cultured for less than one week. Cells were labeled with BrdU for 14 or 6 hours, arrested in metaphase, and subjected to ReTiSH using an rDNA probe (red). The replicated rDNA alleles were detected using a PCR fragment representing 18S...
Data
Schematic illustration of the ASAR6 locus. The locations of MANEA, ASAR6, BAC RP11-767E7, the original loxP integration site [loxP(red triangle)RT] and 6 different deletions in P175 cells [9] are depicted above a screenshot of the UCSC Genome Browser of this region of chromosome 6. A) A set of nested deletions was generated in P175 cells, all excep...
Data
Model for structural instability of individual chromosomes. Disruption of an inactivation/stability center leads to delayed replication timing of an individual chromosome. A human chromosome is depicted as a banded cylinder, and the original order of loci along the chromosome are indicated by the letters A–E. Delayed replication timing leads to del...
Data
RNA-DNA FISH for expression of ASAR6. PBLs were subjected to RNA FISH (green) using a Fosmid (G248P86031A6) probe for ASAR6. Slides were subsequently re-fixed and processed for DNA FISH (red) using BAC RP11-959I6, located distal to FUT9 (BAC#4 in Figure 1H). The four sets of panels (A–I) show the same cells used in Figure 4A–4I, except that each co...
Data
rAAV strategy for generating the ∼47 kb deletion upstream of ASAR6. A) Left and right arms of homology upstream of ASAR6 were cloned into the pAAV-MCS vector (Stratagene). In addition, a loxP cassette containing the 5′ portion of the APRT gene (AP) plus the blasticidin resistance gene (blasr) are shown. B) Southern blot hybridization scheme includi...
Data
Schematic diagram of chromosome 6 showing the location of the genes and loci assayed for asynchronous replication. The ∼1.2 mb region of chromosome 6 between MANEA and FHL5/FHL5OST is expanded on the right. The coordination in asynchronous replication of chromosome 6 mono-allelically expressed genes with ASAR6 was found to be either in cis or in tr...
Data
ReTiSH assay in P175 cells. A) Conventional DNA FISH on P175 cells using the rDNA as probe. Note that P175 cells contain 9 chromosomes that contain rDNA clusters. This is because one of the chromosome 14 s became an isochromosome [iso(14q)] and during this process a deletion of the rDNA cluster occurred. Arrows mark the chromosomes containing rDNA...
Article
Full-text available
Mammalian chromosomes initiate DNA replication at multiple sites along their length during each S phase following a temporal replication program. The majority of genes on homologous chromosomes replicate synchronously. However, mono-allelically expressed genes such as imprinted genes, allelically excluded genes, and genes on female X chromosomes re...
Article
Full-text available
Mammalian DNA replication initiates at multiple sites along chromosomes at different times, following a temporal replication program. Homologous alleles typically replicate synchronously; however, mono-allelically expressed genes such as imprinted genes, allelically excluded genes and genes on the female X chromosome replicate asynchronously. We ha...
Article
Vertebrate Bmp2 and Bmp4 diverged from a common ancestral gene and encode closely related proteins. Mice homozygous for null mutations in either gene show early embryonic lethality, thereby precluding analysis of shared functions. In the current studies, we present phenotypic analysis of compound mutant mice heterozygous for a null allele of Bmp2 i...
Article
Full-text available
In Xenopus, primitive blood originates from the mesoderm, but extrinsic signals from the ectoderm are required during gastrulation to enable these cells to differentiate as erythrocytes. The nature of these signals, and how they are transcriptionally regulated, is not well understood. We have previously shown that bone morphogenetic proteins (BMPs)...

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Projects

Projects (2)
Project
To identify areas where pesticide policy and regulation in the USA can be strengthened to adequately protect humans and the environment
Project
Our past research (utilizing chromosome engineering strategies, combined with somatic cell and molecular genetics, to generate and characterize chromosomes with DMC/DRT) has revealed that disruptions in lincRNA genes causes DMC/DRT on chromosome 6 and 15. We are continuing to study the mechanisms involved with this abnormal chromosomal replication. We believe that each chromosome has lincRNA genes that control replication in cis along the entire length of that chromosome.