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  • gene expression  (2)
  • RNA  (1)
  • Shelf waters  (1)
  • 1
    Electronic Resource
    Electronic Resource
    Springer
    Digestive diseases and sciences 43 (1998), S. 2652-2658 
    ISSN: 1573-2568
    Keywords: RNA ; STOOL ; REVERSE TRANSCRIPTION-POLYMERASE CHAINREACTION ; GENE EXPRESSION ; COLON CANCER
    Source: Springer Online Journal Archives 1860-2000
    Topics: Medicine
    Notes: Abstract While colonoscopy may detect early-stage colontumors, a less invasive and more costeffective techniquewould be beneficial. Stool, which picks up sloughed-offcolonic epithelial cells, would be ideal for sampling the mucosa; shed tumor cells maydisplay alterations in gene expression observed inintact tumors. It is first necessary, however, to showthat RNA can be isolated from human feces and that this RNA contains human gene transcripts. We havetherefore developed a method for the isolation of totalRNA from freshly passed human stool, consisting of lysisin chaotropic agents, repeated extraction with phenol and phenolchloroform, and absorptionwith an RNA-binding resin. After treatment withRNase-free DNase I, we assayed these preparations forthe presence of human RNA by quantitative slot blotting, northern blotting, and reversetranscription-polymerase chain reaction (RT-PCR). Weobtained 5-30 μg RNA per gram of stool from cancerpatients, and about 5 μg RNA per gram of controlstool. Quantitative slot blotting showed that about 10% of this RNAwas of human origin. Both northern blotting and RT-PCRdemonstrated the presence of human RNA in these samples.To unambiguously demonstrate the isolation of RNA from stool, we incubated a mixture ofrat cells and control human stool at 37°C for up to24 hr. RT-PCR of the RNA isolated from this sampleclearly revealed the presence of rat-specific mRNA.These experiments indicate that RNA can be isolatedfrom human stool and that message encoded by human genescan be assayed in these preparations. This procedure mayprovide a powerful tool to identify patients at risk for colon cancer.
    Type of Medium: Electronic Resource
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  • 2
    ISSN: 1573-2568
    Keywords: inflammatory bowel disease ; ulcerative colitis ; protooncogenes ; gene expression ; c-fos ; c-abl ; c-yes
    Source: Springer Online Journal Archives 1860-2000
    Topics: Medicine
    Notes: Abstract Protooncogenes are cell cycle-related genes that are involved in cell growth or proliferation. Alterations in the level of expression of these genes, or expression of aberrant gene products, have been observed in tumors and precancerous conditions. To determine if expression of these genes is altered in patients with inflammatory bowel disease (IBD)-who are at risk for development of colon cancer—we assayed transcripts of 15 protooncogenes in colonic epithelial cells of IBD patients and controls. Nine, of these genes (H-ras, c-myc, c-fos, c-jun, junB, N-myc, c-abl, c-yes, andp53) were expressed in epithelial cells, whereas two (RB1 and N-ras) were not. Expression of four other genes (c-src, K-ras, c-raf and c-myb) was observed, but the intensity of these bands was too low for densitometric analysis. The steady-state levels of transcripts of H-ras and five nuclear protooncogenes (c-myc, c-fos, c-jun, junB, and N-myc) were lower in epithelial cells from involved or uninvolved IBD samples than in normal epithelial cells from either sporadic colon cancer or diverticulitis patients. The level of c-fos mRNA was two-to threefold higher in involved than in uninvolved areas of the colons of two ulcerative colitis (UC) patients, but not in one Crohn's disease (CD) patient. Message abundance of c-abl transcripts was two-to threefold lower in UC epithelial cells than in either the CD or control samples. The steady-state level of c-yes-encoded mRNA was considerably higher in IBD patients resected for colon cancer than in patients resected for active chronic IBD or in controls. The level ofp53 message was constant in these samples. Increased levels of c-fos mRNA in involved UC relative to uninvolved, UC may be related to the disease process. Decreased expression of c-abl transcripts in UC may be a diagnostic marker for UC and may be related to the rate of cell turnover in these diseases. Enhanced expression of c-yes in IBD patients with tumors compared to active chronic IBD and controls suggests that expression of this gene may be a marker for development of colon cancer in IBD.
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  • 3
    ISSN: 1573-2568
    Keywords: IBD ; ulcerative colitis ; growth factors ; growth factor receptors ; gene expression ; PDGF-R-β
    Source: Springer Online Journal Archives 1860-2000
    Topics: Medicine
    Notes: Abstract A link between inflammation of the colon in inflammatory bowel disease (IBD) and the increased risk of colon cancer in ulcerative colitis (UC) may be provided by growth factor receptor genes. Their expression may be altered in response to growth factors present in the mucosa, and this, in turn, may induce further genetic changes, linked to carcinogenesis, in the cells of the colonic epithelium. To test this hypothesis, we assayed steady-state levels of eight growth factor receptor mRNAs in colonic epithelial cells of IBD patients and controls. Four of these genes (EGF-R, IGFI-R, CSF1-R, andPDGF-R-β) were expressed in epithelial cells, whereas four (erbB-2, erbB-3, NGF-R, andmet) were not. The level of the former in involved or uninvolved IBD was considerably lower than in normal epithelial cells from either sporadic colon cancer or diverticulitis patients. In contrast, expression was much higher in IBD patients with colon tumors than in active chronic IBD. The level of PDGF-R-β mRNA was two- to fourfold higher in involved than in uninvolved areas of the colons of two UC patients, but not in one Crohn's disease patient. Message abundance of its ligand,PDGF-β, however, was the same in paired UC samples. The pattern of expression ofPDGF-β andcripto was identical to that ofEGF-R, whereas the level of mRNA of amphiregulin was the same in active chronic IBD and IBD patients with tumors. A fourth growth factor,Kfgf, was not expressed. Increased levels of PDGF-R-β mRNA in involved UC relative to uninvolved UC may be related to the disease process in UC. Decreased expression of growth factor- and growth factor receptor-encoded mRNA in active chronic IBD may be related to the disease process, or it may be an effect of steroid therapy undergone by these patients. Enhanced expression of these genes in IBD patients with tumors compared to those without tumors suggests that this may be a marker for development of colon cancer in IBD.
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  • 4
    Publication Date: 2022-05-25
    Description: Author Posting. © American Geophysical Union, 2018. This article is posted here by permission of American Geophysical Union for personal use, not for redistribution. The definitive version was published in Global Biogeochemical Cycles 32 (2018): 389-416, doi:10.1002/2017GB005790.
    Description: Carbon cycling in the coastal zone affects global carbon budgets and is critical for understanding the urgent issues of hypoxia, acidification, and tidal wetland loss. However, there are no regional carbon budgets spanning the three main ecosystems in coastal waters: tidal wetlands, estuaries, and shelf waters. Here we construct such a budget for eastern North America using historical data, empirical models, remote sensing algorithms, and process‐based models. Considering the net fluxes of total carbon at the domain boundaries, 59 ± 12% (± 2 standard errors) of the carbon entering is from rivers and 41 ± 12% is from the atmosphere, while 80 ± 9% of the carbon leaving is exported to the open ocean and 20 ± 9% is buried. Net lateral carbon transfers between the three main ecosystem types are comparable to fluxes at the domain boundaries. Each ecosystem type contributes substantially to exchange with the atmosphere, with CO2 uptake split evenly between tidal wetlands and shelf waters, and estuarine CO2 outgassing offsetting half of the uptake. Similarly, burial is about equal in tidal wetlands and shelf waters, while estuaries play a smaller but still substantial role. The importance of tidal wetlands and estuaries in the overall budget is remarkable given that they, respectively, make up only 2.4 and 8.9% of the study domain area. This study shows that coastal carbon budgets should explicitly include tidal wetlands, estuaries, shelf waters, and the linkages between them; ignoring any of them may produce a biased picture of coastal carbon cycling.
    Description: NASA Interdisciplinary Science program Grant Number: NNX14AF93G; NASA Carbon Cycle Science Program Grant Number: NNX14AM37G; NASA Ocean Biology and Biogeochemistry Program Grant Number: NNX11AD47G; National Science Foundation's Chemical Oceanography Program Grant Number: OCE‐1260574
    Description: 2018-10-04
    Keywords: Carbon cycle ; Coastal zone ; Tidal wetlands ; Estuaries ; Shelf waters
    Repository Name: Woods Hole Open Access Server
    Type: Article
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