10.25387/g3.6626849.v2
Richard Odongo Magwanga
Richard Odongo
Magwanga
Pu Lu
Pu
Lu
Joy Nyangasi Kirungu
Joy Nyangasi
Kirungu
Qi Dong
Qi
Dong
Yangguang Hu
Yangguang
Hu
Zhongli Zhou
Zhongli
Zhou
Xiaoyan Cai
Xiaoyan
Cai
Xingxing Wang
Xingxing
Wang
Yuqing Hou
Yuqing
Hou
Kunbo Wang
Kunbo
Wang
Fang Liu
Fang
Liu
Supplemental Material for Magwanga et al., 2018
GSA Journals
2018
LEA2 proteins
miRNAs
Drought stress
Expression analysis
Transgenic plant
Oxidants
Antioxidants
Gene Expression (incl. Microarray and other genome-wide approaches)
Genetics
Genome Structure and Regulation
Genomics
Molecular Biology
2018-06-22 15:41:13
Dataset
https://gsajournals.figshare.com/articles/dataset/Supplemental_Material_for_Magwanga_Lu_et_al_2018_accepted_/6626849
<p><b>Supplementary </b><b>Fig. S1</b>: Phylogenetic tree, gene
structure and motif compositions of <i>LEA2</i>
genes in upland cotton. The phylogenetic tree was constructed using MEGA 7.0.
Exon/intron structures of <i>LEA </i>genes
in upland cotton, exons introns and up/down-stream were represented by yellow
boxes, black lines and blue boxes, respectively. Protein motif analysis
represented by different colours, and each motif represented by number</p><p><b>Supplementary
</b><b>Fig. </b><b>S2</b>:
conserved motifs in upland cotton, <i>G.
hirsutum</i> LEA2 proteins. The conserved motifs were obtained using MEME
program. The color scheme of the logo indicates amino acid types. Polar:
green=uncharged; blue=+vely charged; red=-vely charged; Non-polar:
violet/purple=aliphatic. As described by Dure, 2001; <b>Supplementary </b><b>Fig. </b><b>S3</b>: Alignment of the LEA2 protein sequences of Upland
cotton, <i>Gossypium hirsutum</i>. Amino
acid sequences were aligned using the ClustalW2 algorithm. Dashes indicate gaps
introduced for optimal alignment. The typical LEA2 sequence elements are bound
in boxes in different colours: K segment–red box; Y segment–green; S
segment–black; E segment–gray; R segment–purple; D segment–yellow</p><p><b>Supplementary </b><b>Fig. </b><b>S4</b>. <i>LEA2 </i>genes distribution in A and D
cotton chromosomes: Chromosomal position of each <i>LEA</i>2 genes was mapped according to the upland cotton genome. The chromosome number is indicated at the
top of each chromosome</p><p><b>Supplementary </b><b>Fig. </b><b>S5</b>: <i>LEA2</i> genes distribution in upland cotton
chromosomes. Chromosomal position of each<i>
LEA</i>2 genes was mapped according to the upland cotton genome. The chromosome number is indicated at the
top of each chromosome</p><p><b>Supplementary
Table S1</b>: List of primers used for upland cotton, <i>G. hirsutum</i> <i>LEA2</i> genes
expression analysis under drought stress</p><p><b>Supplementary
Table S2</b>: Conserved domain analysis of LEA2s proteins identified from
upland cotton using CDD tool from NCBI</p><p><b>Supplementary
Table S3</b>: Transmembrane domains in LEA2s identified from upland cotton,
using TMHMM and SOSUI servers. ExpAA: The expected number of amino acids in
transmembrane helices. First60: The expected number of amino acids in
transmembrane helices in the first 60 amino acids of the protein. MP: Membrane
protein; TMH: The number of predicted transmembrane helices; <b>Supplementary Table S4</b>: Subcellular
location as determined by TargetP and Pprowler prediction tools. SP-secretory
pathways; C-chloroplast;-any other location;<b> Supplementary</b> <b>Table S5</b>:
Cis element analysis of putative LEA 2 promoters related to drought stress </p><p><b>Supplementary Table S6</b>: <i>LEA2</i> genes and miRNA targets</p>