Nucleic Acid-mediated Polymerase Chain Research Articles

Comparison of KRAS mutation analysis of primary tumors and matched circulating cell-free DNA in plasmas of patients with colorectal cancer

Colorectal cancer (CRC) patients with KRAS mutations do not benefit from epidermal growth factor receptor (EGFR) targeted therapy. In clinical practice, identifying patients with KRAS mutations is critical prior to EGFR targeting therapy, and gene testing is generally performed using the DNA extracted from tumor tissue. The aim of this study was to compare the presence of KRAS mutations in circulating cell-free DNA (cfDNA) and primary tumor tissue using a peptide nucleic acid mediated polymerase chain reaction. We extracted and analyzed the DNA from plasmas and corresponding primary tumor samples from 52 patients with CRC. The results demonstrated that the detection rate of KRAS sequence variations was 50% (26 of 52) in plasma samples and 28.8% (15 of 52) in resected primary tumor tissue samples. The majority of KRAS mutations detected in tumors were also found in matched plasma specimens with an agreement rate of 78.8%. Eleven plasma cfDNA were found positive for KRAS mutation but not in their corresponding tissue. In conclusion, our results suggest that circulating cfDNA provides a better representation of the malignant disease as a whole and could be a reliable source of diagnostic DNA to replace the tumor tissue in a diagnostic setting.

Krill feeding on sediment in the Gulf of Maine (North Atlantic)

MEPS Marine Ecology Progress Series Contact the journal Facebook Twitter RSS Mailing List Subscribe to our mailing list via Mailchimp HomeLatest VolumeAbout the JournalEditorsTheme Sections MEPS 455:157-172 (2012) - DOI: https://doi.org/10.3354/meps09632 Krill feeding on sediment in the Gulf of Maine (North Atlantic) Alison C. Cleary*, Edward G. Durbin, Tatiana A. Rynearson University of Rhode Island, Graduate School of Oceanography, Narragansett, Rhode Island, 02882, USA *Email: acleary@gso.uri.edu ABSTRACT: Krill are key members of many marine ecosystems, serving as a critical trophic link between microscopic organisms and large predators such as whales, fish, and seabirds. Krill feeding is thus important to ecosystem carbon cycling. Traditional approaches to determining in-situ krill feeding require a priori assumptions, and may have prey-type detection biases. We took a DNA-based approach to measuring in-situ feeding by northern krill Meganyctiphanes norvegica. The diversity of prey consumed by M. norvegica in situ was analyzed for 80 krill at 8 stations throughout the Gulf of Maine (North Atlantic) using peptide nucleic acid mediated polymerase chain reaction (PNA-PCR) clone library sequencing of 18S rDNA. Relative abundance of the 2 most common prey types was measured with quantitative PCR (qPCR) in the guts of 16 krill. The 245 prey sequences recovered from krill gut contents included copepods, salps, phytoplankton, and a poorly known organism found to be sediment associated. Calanus finmarchicus and the sediment-associated organism were found most commonly, at 7 and 8 stations, respectively, and their 18S rDNA was present in nearly equal quantities in individual krill guts. M. norvegica, like most krill, are typically considered planktivorous; thus krill feeding on sediment organisms represents an unrecognized pathway for carbon flow from the sediment to the pelagic. Calculations suggest that this unrecognized pathway could potentially bring over 100000 t of carbon annually back into the Gulf of Maine pelagic ecosystem, equivalent to 4% of annual primary production, or the energy demands of 80% of the region’s fin whale population. KEY WORDS: Meganyctiphanes norvegica · Gut contents · 18S rDNA · Benthic−pelagic coupling · PNA-PCR Full text in pdf format PreviousNextCite this article as: Cleary AC, Durbin EG, Rynearson TA (2012) Krill feeding on sediment in the Gulf of Maine (North Atlantic). Mar Ecol Prog Ser 455:157-172. https://doi.org/10.3354/meps09632 Export citation RSS - Facebook - Tweet - linkedIn Cited by Published in MEPS Vol. 455. Online publication date: May 30, 2012 Print ISSN: 0171-8630; Online ISSN: 1616-1599 Copyright © 2012 Inter-Research.