Dataset Information

Natural selection in a bangladeshi population from the cholera-endemic ganges river delta.

ABSTRACT: As an ancient disease with high fatality, cholera has likely exerted strong selective pressure on affected human populations. We performed a genome-wide study of natural selection in a population from the Ganges River Delta, the historic geographic epicenter of cholera. We identified 305 candidate selected regions using the composite of multiple signals (CMS) method. The regions were enriched for potassium channel genes involved in cyclic adenosine monophosphate-mediated chloride secretion and for components of the innate immune system involved in nuclear factor ?B (NF-?B) signaling. We demonstrate that a number of these strongly selected genes are associated with cholera susceptibility in two separate cohorts. We further identify repeated examples of selection and association in an NF-?B/inflammasome-dependent pathway that is activated in vitro by Vibrio cholerae. Our findings shed light on the genetic basis of cholera resistance in a population from the Ganges River Delta and present a promising approach for identifying genetic factors influencing susceptibility to infectious diseases.

SUBMITTER: Karlsson EK

PROVIDER: S-EPMC4367964 | biostudies-literature | 2013 Jul

REPOSITORIES: biostudies-literature

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Natural selection in a bangladeshi population from the cholera-endemic ganges river delta.

Karlsson Elinor K EK Harris Jason B JB Tabrizi Shervin S Rahman Atiqur A Shlyakhter Ilya I Patterson Nick N O'Dushlaine Colm C Schaffner Stephen F SF Gupta Sameer S Chowdhury Fahima F Sheikh Alaullah A Shin Ok Sarah OS Ellis Crystal C Becker Christine E CE Stuart Lynda M LM Calderwood Stephen B SB Ryan Edward T ET Qadri Firdausi F Sabeti Pardis C PC Larocque Regina C RC

Science translational medicine 20130701 192

As an ancient disease with high fatality, cholera has likely exerted strong selective pressure on affected human populations. We performed a genome-wide study of natural selection in a population from the Ganges River Delta, the historic geographic epicenter of cholera. We identified 305 candidate selected regions using the composite of multiple signals (CMS) method. The regions were enriched for potassium channel genes involved in cyclic adenosine monophosphate-mediated chloride secretion and f ...[more]

PMID: 23825302

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Project description:The hydrochemical characterization and irrigation suitability assessment of the Ganges-Brahmaputra River System (GBRS) has immense importance for the livelihoods of people and ecosystem sustainability in the region. This study aims to assess the hydrochemical characteristics and evaluate the irrigation suitability of water in the GBRS by reviewing published literature of the major tributaries. The studied rivers were categorized into two groups namely Group-1 and Group-2 considering the similarities of climatic patterns, hydrochemical attributes, and drainage characteristics. The hydrochemistry of the river water was characterized by the Piper diagram, Gibbs plot, mixing plots, and ionic ratios. Furthermore, irrigation water qualities were evaluated by electrical conductivity (EC), sodium percentage (Na%), sodium adsorption ratio (SAR), magnesium hazard (MH), and Wilcox diagram. The results indicated that the hydrochemistry of the GBRS was slightly alkaline to alkaline (7.42-8.78) in nature. The average concentrations of most of the chemical attributes showed higher in Group-1, whereas the average concentrations of K+ and NO3 - were found higher in Group-2. The average concentration of the major ions followed the dominancy order Ca2+ > Mg2+ > Na+ > K+ for cations and HCO3 - >SO4 2- > Cl- > NO3 - for anions in both groups. Gibbs plot and mixing plot indicated that carbonate rock weathering dominates the hydrochemical process, which was further confirmed by the Piper diagram and the ionic ratios. From the analyses of irrigational water quality, almost all the rivers (except Gomti River in terms of MH and Rangit River in terms of Na%) in the GBRS were found to be suitable based on EC, SAR, Na%, MH, and Wilcox diagram. Finally, the majority of river systems in the GBRS were characterized by carbonate dominated lithology and irrigational water quality is mostly suitable for utilization. This study could be useful for water quality management in the glacial-fed Himalayan river under the context of global climate change.

Dataset Information

Natural selection in a bangladeshi population from the cholera-endemic ganges river delta.

Publications

Natural selection in a bangladeshi population from the cholera-endemic ganges river delta.

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