Genotyping by Sequencing (GBS) in mapping of drought tolerance traits and functional characterization of key genes mined within the QTL regions in upland cotton

Figure S1: The physical map coverage of the cotton
genome. (I): Physical map of G. hirsutum
coverage on the tetraploid genome of G.
hirsutum, (II): Physical map coverage of the A_diploid cotton genome of G. arboreum and (III): Physical map
coverage of the D_diploid cotton of the G.
raimondii

Figure S2: Consistent QTLs mapped onto their specific
chromosomes

Figure S3: Clustered QTLs identified in chromosome A01
for physio-morphological drought related traits. Bars and lines on the upper
side of the linkage groups show the QTL likelihood intervals. Map distances in
centiMorgan (cM) are indicated on the lower side of the linkage groups.

Table S1: The BIL seedlings performance under drought and
controlled conditions in two different environments

Table S2: Phenotypic correlation analysis

Table S3: Genotypic correlation coefficient among different
component traits under drought stress

Table S4: Genome co-ordinates of all the SNPs with
physical positions (bp), genetic position (cM) and the alleles

Table S5: Characteristics of the high-density genetic
map;

Table S6: Consistent QTLs for physio-morphological
drought related traits detected in the semi wild BIL population

Table S7: Mined genes within 3 major QTl’s cluster
regions for physiological traits related to drought stress in cotton

Table S8: GO functional annotation of genes mined within
the three major QTL cluster regions

Table S9: miRNA targeting the mined genes within the
three major QTL cluster

Table S10: List of primers used for the qRT-PCR
validation for the mined genes within the major QTL cluster regions

Supplementary files: Newick structure and protein
sequences used in phylogenetic tree analysis