Genes Under QTL for QCHLF3.19 (v3.0)


QTL Info

Version QTL Name Linkage Group bp_start bp_end Description
3.0 QCHLF3.19 3 16172595 16633283 Chlorophyll fluorescence_ФPSII_regression slope of temperature effects (Tb)

 

Genes Under QTL (total genes found: 17)

Selection signature information is provided based on Mace et al 2013 and Mace et al 2014, which identified signatures of purifying and balancing selection based on whole genome resequencing of 47 individuals categorised into three groups (1. Wild and Weedy genotypes, 2. Landraces, 3. Improved Inbreds).

Regions of the genome under purifying and balancing selection were identified using the population genetics summary statistics (θπ, θw, Tajima’s D and FST) in the following three population pairwise comparisons: (i) wild and weedy versus landraces to identify domestication events, (ii) landraces versus improved inbreds to identify improvement events, (iii) wild and weedy versus improved inbreds to identify both domestication and improvement events.

Version Gene Name LG bp_start bp_end Annotation Selection Signature Browse gene at JGI
3.0 Sobic.003G152300 3 16186119 16188121 expressed protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G152300
3.0 Sobic.003G152400 3 16188407 16200696 WD domain containing protein, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G152400
3.0 Sobic.003G152500 3 16215777 16219849 expressed protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G152500
3.0 Sobic.003G152600 3 16222031 16222840 40S ribosomal protein S27a, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G152600
3.0 Sobic.003G152700 3 16223028 16226470 craniofacial development protein 1, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G152700
3.0 Sobic.003G152800 3 16226898 16230422 cyclase/dehydrase family protein, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G152800
3.0 Sobic.003G152900 3 16230807 16234934 dihydrolipoyl dehydrogenase 1, mitochondrial precursor, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G152900
3.0 Sobic.003G153000 3 16237562 16252088 galactosyltransferase family protein, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G153000
3.0 Sobic.003G153100 3 16331922 16335887 retrotransposon protein, putative, unclassified, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G153100
3.0 Sobic.003G153150 3 16369493 16370779 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G153150
3.0 Sobic.003G153200 3 16371441 16374574 retrotransposon protein, putative, unclassified, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G153200
3.0 Sobic.003G153300 3 16374748 16379384 mitochondrial carrier protein, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G153300
3.0 Sobic.003G153400 3 16407827 16411662 GDSL-like lipase/acylhydrolase, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G153400
3.0 Sobic.003G153500 3 16420705 16425082 GDSL-like lipase/acylhydrolase, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G153500
3.0 Sobic.003G153600 3 16553626 16557800 GDSL-like lipase/acylhydrolase, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G153600
3.0 Sobic.003G153700 3 16617165 16621063 expressed protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G153700
3.0 Sobic.003G153800 3 16628710 16632600 neutral/alkaline invertase, putative, expressed Balancing (domestication) https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.003G153800