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SRX9775684: GSM5004222: P.for #11, Brain; Poecilia formosa; RNA-Seq
1 BGISEQ (BGISEQ-500) run: 75M spots, 7.5G bases, 4.2Gb downloads

Submitted by: NCBI (GEO)
Study: Transcriptome profiling of Amazon molly and F1 interspecies hybrid
show Abstracthide Abstract
The Amazon molly is a unique clonal fish species that originated from an interspecies hybrid between Poecilia species P. mexicana and P. latipinna. It reproduces by gynogenesis, which eliminates paternal genomic contribution to offspring. Earlier study showed that Amazon molly exhibits bi-allelic expression for a large portion of the genome, leading to two main questions: 1. Are the allelic expression patterns from the initial hybridization event stabilized or changed during establishment of the asexual species and its further evolution? 2. Is allelic expression biased toward one parental allele a stochastic or adaptive process? To answer these questions, the allelic expression of P. formosa siblings was assessed to investigate intra- and inter-cohort allelic expression variability. For comparison, interspecies hybrids between P. mexicana and P. latipinna were produced in the laboratory to represent the P. formosa ancestor. We have identified inter-cohort and intra-cohort variation in parental allelic expression. The existence of inter-cohort divergence suggests functional P. formosa allelic expression patterns do not simply reflect the atavistic situation of the first interspecies hybrid but potentially result from long-term selection of transcriptional fitness. In addition, clonal fish exhibit a transcriptional trend representing minimal intra-clonal variability in allelic expression patterns compared to the corresponding hybrids. The intra-clonal similarity in gene expression translates to sophisticated genetic functional regulation at the individuum level. These findings suggest the parental alleles inherited by P. formosa form tightly regulated genetic networks that lead to a stable transcriptomic landscape within clonal individuals. Overall design: Brain, liver and ovary transcriptome profiling were assessed in siblings of clonal Amazon molly, and siblings of one brood of F1 hybrid between P. mexicana and P. latipinna.
Sample: P.for #11, Brain
SAMN17211842 • SRS7963130 • All experiments • All runs
Library:
Instrument: BGISEQ-500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: Total RNA was isolated using TRIzol Reagent (Thermo Fisher Scientific, Waltham, USA) according to the supplier's recommendation. All samples were treated with DNase. Total RNA concentration was determined using a Qubit 2.0 fluorometer (Life Technologies, Grand Island, NY, USA). RNA quality was verified on an Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA) to confirm that RIN scores were above 8.0 prior to sequencing. Library construction follows Illumina TruSeq mRNA sequencing library preparation protocol
Experiment attributes:
GEO Accession: GSM5004222
Links:
Runs: 1 run, 75M spots, 7.5G bases, 4.2Gb
Run# of Spots# of BasesSizePublished
SRR1334968875,041,5167.5G4.2Gb2021-01-06

ID:
12778542

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