AIMTo assess KRAS G12D mutation detection by droplet digital PCR (ddPCR) in stool-derived DNA from colorectal cancer (CRC) patients.METHODSIn this study, tumor tissue and stool samples were collected from 70 patients ...AIMTo assess KRAS G12D mutation detection by droplet digital PCR (ddPCR) in stool-derived DNA from colorectal cancer (CRC) patients.METHODSIn this study, tumor tissue and stool samples were collected from 70 patients with stage I-IV CRC diagnosed by preoperative biopsy. KRAS mutational status was determined by pyrosequencing analysis of DNA obtained from formalin-fixed paraffin-embedded (FFPE) tumor tissues. The KRAS G12D mutation was then analyzed by ddPCR in FFPE tumors and stool-derived DNA from patients with this point mutation. Wild-type (WT) tumors, as determined by pyrosequencing, were included as controls; analysis of FFPE tissue and stool-derived DNA by ddPCR was performed for these patients as well.RESULTSAmong the total 70 patients included, KRAS mutations were detected by pyrosequencing in 32 (45.71%), whereas 38 (54.29%) had WT tumors. The frequency of KRAS mutations was higher in left-sided tumors (11 located in the right colon, 15 in the left, and 6 in the rectum). The predominant point mutation was KRAS G12D (14.29%, n = 10), which was more frequent in early-stage tumors (I-IIA, n = 7). In agreement with pyrosequencing results, the KRAS G12D mutation was detected by ddPCR in FFPE tumor-derived DNA, and only a residual number of mutated copies was found in WT controls. The KRAS G12D mutation was also detected in stool-derived DNA in 80% of all fecal samples from CRC patients with this point mutation.CONCLUSIONddPCR is a reliable and sensitive method to analyze KRAS G12D mutation in stool-derived DNA from CRC patients, especially at early stages. This non-invasive approach is potentially applicable to other relevant biomarkers for CRC management.展开更多
Sediment is a sink for organic materials, nutrients and heavy metals and sediment condition affects the overlying water Though Serin River is a source of drinking water, agricultural and waste disposal activities in t...Sediment is a sink for organic materials, nutrients and heavy metals and sediment condition affects the overlying water Though Serin River is a source of drinking water, agricultural and waste disposal activities in the watershed may impact the sediment of the river. Therefore, the objective of this study was to investigate the organic matter, nutrients and heavy metals in the sediment of the Serin River. Five stations were selected for sediment sample collection. Results of the study show that organic matter (OM) ranged from 0.7% to 5.9%, TP was 100 -366 (mg/kg), TAN was 16-141 (mg/kg), TON was 550-3019(mg/kg), and TKN was 566-3160 (mg/kg). Sediment oxygen demand (SOD20) ranged from 5.6 to 14.2 (g O2/m^2/d). Among the five stations OM, TKN, and SOD of the sediment were second highest at the two stations downstream of animal (fish, chicken and pig) farming. TP and TAN were the second highest at the station downstream of fish farming and third highest at the station downstream of pig farming. Zn, Cu and Cd ranged from 132-357 (mg/kg), 26.7-96.7 (mg/kg) and 4.0-19.3(mg/kg). According to USEPA guideline, sediments at four stations were heavily polluted with Zn, Cu and Cd whereas the station that was farthest upstream, near a village, was slightly polluted with Zn and Cu. This study indicates that animal farming has an impact on the organic matter content, nutrients (N and P), oxygen demand and heavy metals of the sediment. Motor vehicles and discarded e-waste also contributed to the heavy metals in the sediment. Farm effluents and storm water should be treated and e-waste recycled to protect the water quality of the river for its designated use.展开更多
Aims To explain how plant community copes with a recurring anthropogenic forest fire in Himalayan Chir pine forest,it is important to understand their postfire regeneration strategies.The primary aim of the study was ...Aims To explain how plant community copes with a recurring anthropogenic forest fire in Himalayan Chir pine forest,it is important to understand their postfire regeneration strategies.The primary aim of the study was to know:(i)how fire impact soil seed bank composition and(ii)how much soil seed bank composition differs with standing vegetation after the forest fire.Methods Soil samples were collected from burned and adjoining unburned sites in blocks using three layers down to 9 cm depth immediately after a forest fire and incubated in the net-house for seedling emergence.Same sites were revisited during late monsoon/early autumn season to know the species composition of standing vegetation recovered after a forest fire.Important Findings Soil contained viable seeds of>70 species.The average seed bank density was 8417 and 14217 seeds/m^(2) in the burned and unburned site,respectively.In both sites,it decreased with increasing soil depth.Overall fire had no significant impact on seed density;however,taking individual layers into consideration,fire had a significant impact on seed density only in the uppermost soil layer.The species richness of soil seed bank and standing vegetation was 73 and 100,respectively(with 35 shared species),resulting in a similarity of about 40%.In contrast,>80%species in soil seed bank was found similar between burned and unburned sites.Further,there were no significant differences in species richness of standing vegetation in burned(87 spp.)and unburned(78 spp.)sites.Our results showed that fire had an insignificant impact on soil seed bank composition and restoration potential of a plant species from seeds.The understory herb and shrub plant community’s ability to form a fire-resistant viable soil seed bank and capable to recover in the postfire rainy season,explains how they reduce the risk of recurring fire damage in maintaining their population.展开更多
基金Supported by“Fondo de Investigaciones Sanitarias(FIS)-FEDER”,Ministry of Health,Spain,No.PI13/01924 to García-Olmo DRETIC Program of ISCIII-FEDER,No.RD12/0019/0035 to Olmedillas-López S
文摘AIMTo assess KRAS G12D mutation detection by droplet digital PCR (ddPCR) in stool-derived DNA from colorectal cancer (CRC) patients.METHODSIn this study, tumor tissue and stool samples were collected from 70 patients with stage I-IV CRC diagnosed by preoperative biopsy. KRAS mutational status was determined by pyrosequencing analysis of DNA obtained from formalin-fixed paraffin-embedded (FFPE) tumor tissues. The KRAS G12D mutation was then analyzed by ddPCR in FFPE tumors and stool-derived DNA from patients with this point mutation. Wild-type (WT) tumors, as determined by pyrosequencing, were included as controls; analysis of FFPE tissue and stool-derived DNA by ddPCR was performed for these patients as well.RESULTSAmong the total 70 patients included, KRAS mutations were detected by pyrosequencing in 32 (45.71%), whereas 38 (54.29%) had WT tumors. The frequency of KRAS mutations was higher in left-sided tumors (11 located in the right colon, 15 in the left, and 6 in the rectum). The predominant point mutation was KRAS G12D (14.29%, n = 10), which was more frequent in early-stage tumors (I-IIA, n = 7). In agreement with pyrosequencing results, the KRAS G12D mutation was detected by ddPCR in FFPE tumor-derived DNA, and only a residual number of mutated copies was found in WT controls. The KRAS G12D mutation was also detected in stool-derived DNA in 80% of all fecal samples from CRC patients with this point mutation.CONCLUSIONddPCR is a reliable and sensitive method to analyze KRAS G12D mutation in stool-derived DNA from CRC patients, especially at early stages. This non-invasive approach is potentially applicable to other relevant biomarkers for CRC management.
文摘Sediment is a sink for organic materials, nutrients and heavy metals and sediment condition affects the overlying water Though Serin River is a source of drinking water, agricultural and waste disposal activities in the watershed may impact the sediment of the river. Therefore, the objective of this study was to investigate the organic matter, nutrients and heavy metals in the sediment of the Serin River. Five stations were selected for sediment sample collection. Results of the study show that organic matter (OM) ranged from 0.7% to 5.9%, TP was 100 -366 (mg/kg), TAN was 16-141 (mg/kg), TON was 550-3019(mg/kg), and TKN was 566-3160 (mg/kg). Sediment oxygen demand (SOD20) ranged from 5.6 to 14.2 (g O2/m^2/d). Among the five stations OM, TKN, and SOD of the sediment were second highest at the two stations downstream of animal (fish, chicken and pig) farming. TP and TAN were the second highest at the station downstream of fish farming and third highest at the station downstream of pig farming. Zn, Cu and Cd ranged from 132-357 (mg/kg), 26.7-96.7 (mg/kg) and 4.0-19.3(mg/kg). According to USEPA guideline, sediments at four stations were heavily polluted with Zn, Cu and Cd whereas the station that was farthest upstream, near a village, was slightly polluted with Zn and Cu. This study indicates that animal farming has an impact on the organic matter content, nutrients (N and P), oxygen demand and heavy metals of the sediment. Motor vehicles and discarded e-waste also contributed to the heavy metals in the sediment. Farm effluents and storm water should be treated and e-waste recycled to protect the water quality of the river for its designated use.
基金supported by University Grants Commission(UGC)New Delhi under a Major Research Project[grant number:39-925/2010(SR)]to SSP.
文摘Aims To explain how plant community copes with a recurring anthropogenic forest fire in Himalayan Chir pine forest,it is important to understand their postfire regeneration strategies.The primary aim of the study was to know:(i)how fire impact soil seed bank composition and(ii)how much soil seed bank composition differs with standing vegetation after the forest fire.Methods Soil samples were collected from burned and adjoining unburned sites in blocks using three layers down to 9 cm depth immediately after a forest fire and incubated in the net-house for seedling emergence.Same sites were revisited during late monsoon/early autumn season to know the species composition of standing vegetation recovered after a forest fire.Important Findings Soil contained viable seeds of>70 species.The average seed bank density was 8417 and 14217 seeds/m^(2) in the burned and unburned site,respectively.In both sites,it decreased with increasing soil depth.Overall fire had no significant impact on seed density;however,taking individual layers into consideration,fire had a significant impact on seed density only in the uppermost soil layer.The species richness of soil seed bank and standing vegetation was 73 and 100,respectively(with 35 shared species),resulting in a similarity of about 40%.In contrast,>80%species in soil seed bank was found similar between burned and unburned sites.Further,there were no significant differences in species richness of standing vegetation in burned(87 spp.)and unburned(78 spp.)sites.Our results showed that fire had an insignificant impact on soil seed bank composition and restoration potential of a plant species from seeds.The understory herb and shrub plant community’s ability to form a fire-resistant viable soil seed bank and capable to recover in the postfire rainy season,explains how they reduce the risk of recurring fire damage in maintaining their population.