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SRX10445173: T_brev_F2
1 ILLUMINA (Illumina HiSeq 4000) run: 58.4M spots, 11.8G bases, 3.3Gb downloads

Design: Differential Expression between males and females for X chromosome to understand sex chromosome dosage compensation in males
Submitted by: University of Texas at Arlington
Study: Evolution of Sex Chromosome Dosage Compensation using Flour Beetles
show Abstracthide Abstract
Ohno (1967) originally proposed that the sex difference in X-linked gene dose caused by the decay of Y-linked genes may impose a "peril of hemizygosity" and that regulatory mechanisms must compensate to make X=XX=AA at the level of expression. Recent evidence suggests that Ohno's paradigm is not universal, but our understanding remains unclear because estimating the ancestral expression of X-linked genes is difficult or impossible in many systems. Many studies assess dosage compensation (DC) by comparing X to Autosome (AA) expression ratios, thereby implicitly assuming that the current average AA expression is a good proxy for the average ancestral expression of X-linked genes. A more appropriate test would be whether X=XX=Ancestral expression, where "Ancestral" is the inferred expression level of each X-linked gene before becoming X-linked. The few studies that have attempted to compare X (or Z) linked gene expression to corresponding ancestral levels have relied on distantly related taxa that include changes in chromosome number and sex-determination system. Here, we study the evolution of dosage compensation by comparing the expression of neo-X chromosome genes in Tribolium confusum to their inferred ancestral, autosomal expression state. The ancestral expression is estimated by analyzing RNA-Seq data across a time-calibrated phylogeny that includes four additional closely related species that all share an ancestral karyotype where the neo-X genes of T. confusum remain autosomal. We find that the neo-X in T. confusum is dosage balanced (X=XX) and dosage compensated (X=Ancestral), suggesting a chromosome-wide dosage compensation mechanism as envisioned by Ohno. Further, we observe that DC in T. castaneum, which was previously contentious, is fully balanced and compensated (X=XX=Ancestral). The conservation of dosage compensation mechanism of flour beetles suggests mammalian-like X chromosome inactivation in somatic tissues, which has important implications in understanding sex chromosome dosage compensation.
Sample: T_brev_F2
SAMN18445599 • SRS8577223 • All experiments • All runs
Library:
Name: T_brev_F2
Instrument: Illumina HiSeq 4000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Runs: 1 run, 58.4M spots, 11.8G bases, 3.3Gb
Run# of Spots# of BasesSizePublished
SRR1407086658,381,58311.8G3.3Gb2021-09-17

ID:
13851898

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