Table 1.
The primers of 16 selected PPR DYW deaminase genes for quantitative RT-PCR.
Fig 1.
a: The Logo of DYW domain in G. hirsutum. The higher the letter, the higher the conservation; b: The comparison of DYW domain consensus sequence in upland cotton, tomato and Arabidopsis. The capital letters represent highly conserved, lowercase letters indicate lower conservative.
Fig 2.
a: The alignment of the DYW deaminase domain in G. hirsutum; b: The Logo of DYW deaminase domain in G. hirsutum; c: The consensus sequence in G. hirsutum and comparison of DYW deaminase domain in Gossypium. The capital letters represent highly conserved, lowercase letters indicate lower conservative.
Fig 3.
Mapping of the DYW deaminase genes in the chromosomes.
Partial DYW deaminase genes localized in scaffolds.
Fig 4.
Genome wide synteny analysis of DYW deaminase genes.
a: Synteny analysis between G. hirsutum and two diploid cotton species; b: Synteny analysis between G. barbadense and two diploid cotton species; Blue lines indicate syntenic regions between G. arboretum and tetraploid cotton species, red lines between G. raimondii and tetraploid cotton species.
Table 2.
Summary of conserved tripeptides in cotton and other organisms.
Fig 5.
The GO analysis of DYW deaminase proteins in G. hirsutum.
Fig 6.
Phylogenetic tree of DYW deaminase genes in Gossypium.
Fig 7.
Expression profiles of DYW deaminase genes during fiber development and in different tissues.
The color bar represents the expression values.
Fig 8.
Expression analysis of 16 selected DYW deaminase genes in different tissues through qRT-PCR.
a: High expression in the flower; b: Expression peaks in the leaf; c: High expression in the stem; d: High expression in the root.
Fig 9.
Sequence alignment of the 14 repeats of Gh_D05G3392.
The residues at 2, 5 and 35 positions were predicted to be the molecular determinants for RNA binding specificity are red. The RNA sequences recognized are listed on the right, 5’ to 3’ from top to bottom.