Additional file 2 of GhWDL3 is involved in the formation and development of fiber cell morphology in upland cotton (Gossypium hirsutum L.)

Additional file 2: Fig. S2. The phenotypes of wild-type and GhWDL2 transgenic Arabidopsis at the initial bolting period stage (4 weeks). Bars = 1 cm

Additional file 6 of GhWDL3 is involved in the formation and development of fiber cell morphology in upland cotton (Gossypium hirsutum L.)

Additional file 6

Additional file 1 of GhWDL3 is involved in the formation and development of fiber cell morphology in upland cotton (Gossypium hirsutum L.)

Additional file 1: Fig. S1. Promoter elements analysis of the TPX2 family genes in upland cotton

Additional file 4 of GhWDL3 is involved in the formation and development of fiber cell morphology in upland cotton (Gossypium hirsutum L.)

Additional file 4: Fig. S4. Analysis the expression levels of the cell wall pathway related and down-regulated genes in CLCrV-GhWDL3 vs. WT. (A) The transcriptome data of candidate genes CESA8 and EXPA3/4/8/13. (B) qRT-PCR analyzed the expression levels of CESA8 and EXPA3/4/8/13. Statistical significance was determined using one-way ANOVA combined with Tukey’s test. **, P<0.01; ***, P<0.001

Additional file 3 of GhWDL3 is involved in the formation and development of fiber cell morphology in upland cotton (Gossypium hirsutum L.)

Additional file 3: Fig. S3. Comparison of protein sequences of GhWDL3 and AtWDL3

Additional file 5 of GhWDL3 is involved in the formation and development of fiber cell morphology in upland cotton (Gossypium hirsutum L.)

Additional file 5: Table S1. The primers used in this study

Identifying Human Genome-Wide CNV, LOH and UPD by Targeted Sequencing of Selected Regions

<div><p>Copy-number variations (CNV), loss of heterozygosity (LOH), and uniparental disomy (UPD) are large genomic aberrations leading to many common inherited diseases, cancers, and other complex diseases. An integrated tool to identify these aberrations is essential in understanding diseases and in designing clinical interventions. Previous discovery methods based on whole-genome sequencing (WGS) require very high depth of coverage on the whole genome scale, and are cost-wise inefficient. Another approach, whole exome genome sequencing (WEGS), is limited to discovering variations within exons. Thus, we are lacking efficient methods to detect genomic aberrations on the whole genome scale using next-generation sequencing technology. Here we present a method to identify genome-wide CNV, LOH and UPD for the human genome via selectively sequencing a small portion of genome termed Selected Target Regions (SeTRs). In our experiments, the SeTRs are covered by 99.73%~99.95% with sufficient depth. Our developed bioinformatics pipeline calls genome-wide CNVs with high confidence, revealing 8 credible events of LOH and 3 UPD events larger than 5M from 15 individual samples. We demonstrate that genome-wide CNV, LOH and UPD can be detected using a cost-effective SeTRs sequencing approach, and that LOH and UPD can be identified using just a sample grouping technique, without using a matched sample or familial information.</p></div

The Circos result of GM50275.

<p>In part II, CN can be predicted by dividing R_mi by 0.5 and a red line indicates a loss event and a green line displays a gain event.</p

Characteristics of preR_i and R_mi on Chromosome 5 of GM50275 individual.

<p>Characteristics of preR_i and R_mi on Chromosome 5 of GM50275 individual.</p

Data production and mapping results for the three samples used.

<p>Data production and mapping results for the three samples used.</p