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Transgressive and parental dominant gene expression and cytosine methylation during seed development in Brassica napus hybrids

ABSTRACT: Transgressive and parental dominant gene expression and cytosine methylation during seed development in Brassica napus hybrids

PROVIDER: PRJNA836769 | ENA |

REPOSITORIES: ENA

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Transgressive and parental dominant gene expression and cytosine methylation during seed development in Brassica napus hybrids [RNA-seq]

Project description:Transgressive and parental dominant gene expression and cytosine methylation during seed development in Brassica napus hybrids [RNA-seq]

| PRJNA836775 | ENA

Transgressive and parental dominant gene expression and cytosine methylation during seed development in Brassica napus hybrids [Bisulfite-seq]

Project description:Transgressive and parental dominant gene expression and cytosine methylation during seed development in Brassica napus hybrids [Bisulfite-seq]

| PRJNA836773 | ENA

Transgressive and parental dominant gene expression and cytosine methylation during seed development in Brassica napus hybrids [miRNA-seq]

Project description:Transgressive and parental dominant gene expression and cytosine methylation during seed development in Brassica napus hybrids [miRNA-seq]

| PRJNA836774 | ENA

Transgressive and parental dominant gene expression and cytosine methylation during seed development in Brassica napus hybrids

Project description:This SuperSeries is composed of the SubSeries listed below.

2023-03-13 | GSE202610 | GEO

Transgressive and parental dominant gene expression and cytosine methylation during seed development in Brassica napus hybrids [Bisulfite-seq]

Project description:To investigate the expression and methylation patterns of hybrid embryo development in Brassica napus, we performed pattern analysis on different developmental stages of parental and hybrid embryos

2023-03-14 | GSE202609 | GEO

Transgressive and parental dominant gene expression and cytosine methylation during seed development in Brassica napus hybrids [miRNA-seq]

2023-03-14 | GSE202608 | GEO

Transgressive and parental dominant gene expression and cytosine methylation during seed development in Brassica napus hybrids [RNA-seq]

2023-03-14 | GSE202607 | GEO

Environmental dependent heterosis and transgressive gene expression in reciprocal hybrids between the channel catfish Ictalurus punctatus and the blue catfish Ictalurus furcatus

Project description:The hybrid between female channel catfish (Ictalurus punctatus) and male blue catfish (Ictalurus furcatus) is superior in feed conversion, disease resistance, carcass yield, and harvestability compared to both parental species. However, heterosis and heterobeltiosis only occur in pond culture, and channel catfish grow much faster than the other genetic types in small culture units. This environment-dependent heterosis is intriguing, but the underlying genetic mechanisms are not well understood. In this study, phenotypic characterization and transcriptomic analyses were performed in the channel catfish, blue catfish, and their reciprocal F1s reared in tanks. The results showed that the channel catfish is superior in growth-related morphometrics, presumably due to significantly lower innate immune function, as investigated by reduced lysozyme activity and alternative complement activity. RNA-seq analysis revealed that genes involved in fatty acid metabolism/transport are significantly upregulated in channel catfish compared to blue catfish and hybrids, which also contributes to the growth phenotype. Interestingly, hybrids have a 40-80% elevation in blood glucose than the parental species, which can be explained by a phenomenon called transgressive expression (overexpression/underexpression in F1s than the parental species). A total of 1,140 transgressive genes were identified in F1 hybrids, indicating that 8.5% of the transcriptome displayed transgressive expression. Transgressive genes upregulated in F1s are enriched for glycan degradation function, directly related to the increase in blood glucose level. This study is the first to explore molecular mechanisms of environment-dependent hetero-sis/heterobeltiosis in a vertebrate species and sheds light on the regulation and evolution of heterosis vs. hybrid incompatibility.

2022-01-05 | GSE186603 | GEO

Allele specific expression and gene regulation help explain transgressive thermal tolerance in non-native hybrids of the endangered California tiger salamander (Ambystoma californiense)

Project description:Hybridization between native and non-native species is an ongoing global conservation threat. Hybrids that exhibit traits and tolerances that surpass parental values are of particular concern, given their potential to outperform native species. Effective management of hybrid populations requires an understanding of both physiological performance and the underlying mechanisms that drive transgressive hybrid traits. Here, we explore several aspects of the hybridization between the endangered California tiger salamander (Ambystoma californiense; CTS) and the introduced barred tiger salamander (Ambystoma mavortium; BTS). We assayed critical thermal maximum (CTMax) to compare the ability of CTS, BTS and F1 hybrids to tolerate acute thermal stress, and found that hybrids exhibit a wide range of CTMax values, with 33% (4/12) able to tolerate temperatures greater than either parent. We then quantified the genomic response, measured at the RNA transcript level, of each salamander, to explore the mechanisms underlying thermal tolerance strategies. We found that CTS and BTS have strikingly different values and tissue-specific patterns of overall gene expression, with hybrids expressing intermediate values. F1 hybrids display abundant and variable degrees of allele specific expression (ASE), likely arising from extensive compensatory evolution in gene regulatory mechanisms between CTS and BTS. We found evidence that the proportion of genes with allelic imbalance in individual hybrids correlates with their CTMax, suggesting a link between ASE and expanded thermal tolerance that may contribute to the success of hybrid salamanders in California. Future climate change may further complicate management of CTS if hybrid salamanders are better equipped to deal with rising temperatures.

2020-12-12 | GSE137607 | GEO

Brassica napus isolate:20N1067_Rep1 | cultivar:G3D001

Project description:Transgressive and parental dominant gene expression and cytosine methylation during seed development in Brassica napus hybrids

| PRJNA850551 | ENA

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