H12/BFS/2/4

This page describes a signal of selection found in the Burkina Faso An. gambiae populationusing the H12 (Garud et al. 20XX) statistic.The focus of this signal is on chromosome arm 2R between positions 40,640,000 and 41,060,000. The evidence supporting this signal is strong (\Delta_{i} >= 100 on both flanks).

Signal location. Blue markers show the values of the selection statistic. The dashed black line shows the fitted peak model. The shaded red area shows the focus of the selection signal. The shaded blue area shows the genomic region in linkage with the selection event. Use the mouse wheel or the controls at the top right of the plot to zoom in, and hover over genes to see gene names and descriptions.

Genes

The following 31 genes overlap the focal region: AGAP003624, AGAP029110, AGAP003626, AGAP013221, AGAP012946, AGAP003627, AGAP003629, AGAP003630, AGAP003631 (GPRGRP2 - putative gastrin/bombesin receptor 2), AGAP003632 (U3 small nucleolar RNA-associated protein 14), AGAP003633, AGAP003635, AGAP0036361 (inositol oxygenase), AGAP003638, AGAP003639 (Prolylcarboxypeptidase), AGAP0036401 (SP8905), AGAP0036411 (SP8907), AGAP0036421 (SP8898), AGAP003643 (ubiquitin carboxyl-terminal hydrolase 34), AGAP003644 (mRpS11 - 28S ribosomal protein S11, mitochondrial), AGAP003645 (kelch-like protein 19), AGAP013307, AGAP003646, AGAP003647, AGAP003648 (DNA-directed RNA polymerase II subunit RPB2), AGAP003649, AGAP003650 (translation initiation factor eIF-2B subunit alpha), AGAP003651 (Tyrosine-protein kinase Fes/Fps), AGAP012992, AGAP013502, AGAP0036521 (aldehyde dehydrogenase (NAD )).

The following 6 genes are within 50 kbp of the focal region: AGAP003620, AGAP003621 (coiled-coil domain-containing protein 25), AGAP003622 (Queuine tRNA-ribosyltransferase catalytic subunit 1), AGAP003623 (long-chain acyl-CoA synthetase), AGAP003654 (GPRCAL3 - putative calcitonin receptor 3), AGAP003655 (RNA methyltransferase like 1).

Key to insecticide resistance candidate gene types: 1 metabolic; 2 target-site; 3 behavioural; 4 cuticular.

Overlapping selection signals

The following selection signals have a focus which overlaps with the focus of this signal.

Signal Statistic Population Focus Peak model \Delta_{i} Max. percentile Known locus
XPEHH/BFS.UGS/2/2 XPEHH Burkina Faso An. gambiae 2R:40,880,000-40,940,000 1,181 99.6% nan
XPEHH/CMS.UGS/2/1 XPEHH Cameroon An. gambiae 2R:41,020,000-41,400,000 943 99.7% nan
IHS/CMS/2/2 IHS Cameroon An. gambiae 2R:40,060,000-40,780,000 643 100.0% nan
H12/BFM/2/3 H12 Burkina Faso An. coluzzii 2R:40,920,000-40,960,000 512 97.6% nan
H12/CMS/2/3 H12 Cameroon An. gambiae 2R:40,300,000-40,740,000 501 98.7% nan
IHS/BFM/2/2 IHS Burkina Faso An. coluzzii 2R:40,880,000-41,160,000 312 99.7% nan
XPEHH/BFS.GWA/2/5 XPEHH Burkina Faso An. gambiae 2R:40,780,000-40,820,000 195 94.0% nan
XPEHH/CMS.GWA/2/3 XPEHH Cameroon An. gambiae 2R:40,680,000-40,760,000 100 96.5% nan

Diagnostics

The information below provides some diagnostics from the Peak modelling algorithm.

Selection signal in context. @@TODO

Peak targetting. @@TODO

Peak fitting diagnostics. @@TODO

Model fit reports

Peak model:

[[Model]]
    Model(skewed_exponential_peak)
[[Fit Statistics]]
    # function evals   = 48
    # data points      = 396
    # variables        = 4
    chi-square         = 0.136
    reduced chi-square = 0.000
    Akaike info crit   = -3150.494
    Bayesian info crit = -3134.568
[[Variables]]
    center:      0 (fixed)
    amplitude:   0.11629361 +/- 0.005495 (4.73%) (init= 0.5)
    decay:       0.87729857 +/- 0.071284 (8.13%) (init= 0.5)
    skew:       -0.46214774 +/- 0.071846 (15.55%) (init= 0)
    baseline:    0.03180019 +/- 0.001268 (3.99%) (init= 0.03)
    ceiling:     1 (fixed)
    floor:       0 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(amplitude, decay)          = -0.581
    C(decay, baseline)           = -0.532
    C(decay, skew)               =  0.183

Null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 10
    # data points      = 395
    # variables        = 1
    chi-square         = 0.357
    reduced chi-square = 0.001
    Akaike info crit   = -2766.177
    Bayesian info crit = -2762.198
[[Variables]]
    c:   0.04489648 +/- 0.001515 (3.37%) (init= 0.03)

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