MicroRNA processing machinery in the developing chick embryo

Carraco, Gil; Gonçalves, Ana N.; Serra, Carlos; Andrade, Raquel P.

doi:10.1016/j.gep.2014.09.002

Cited by 4 publications

(3 citation statements)

References 45 publications

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“…Namely, miR-125a-5p is required for cyclic LFNG expression in the chick PSM 11 and miR-9 drives Hes1 oscillations in mouse neural progenitor cells 12 . Additionally, we previously showed that the genes encoding the enzymatic machinery for miRNA biogenesis are expressed in both the chick PSM and forelimb bud 13 , tissues where the EC is oscillating.…”

Section: Background and Summarymentioning

confidence: 99%

gga-miRNOME, a microRNA-sequencing dataset from chick embryonic tissues

et al. 2022

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MicroRNAs (miRNAs) are small non-coding RNA molecules, with sizes ranging from 18 to 25 nucleotides, which are key players in gene expression regulation. These molecules play an important role in fine-tuning early vertebrate embryo development. However, there are scarce publicly available miRNA datasets from non-mammal embryos, such as the chicken (Gallus gallus), which is a classical model system to study vertebrate embryogenesis. Here, we performed microRNA-sequencing to characterize the early stages of trunk and limb development in the chick embryo. For this, we profiled three chick embryonic tissues, namely, Undetermined Presomitic Mesoderm (PSM_U), Determined Presomitic Mesoderm (PSM_D) and Forelimb Distal Cyclic Domain (DCD). We identified 926 known miRNAs, and 1,141 novel candidate miRNAs, which nearly duplicates the number of Gallus gallus entries in the miRBase database. These data will greatly benefit the avian research community, particularly by highlighting new miRNAs potentially involved in the regulation of early vertebrate embryo development, that can be prioritized for further experimental testing.

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Section: Background and Summarymentioning

confidence: 99%

gga-miRNOME, a microRNA-sequencing dataset from chick embryonic tissues

et al. 2022

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“…Each set of lungs/probe was processed simultaneously and developed for the same amount of time, and then photographed with an Olympus U-LH100HG camera coupled to an Olympus SZX16 stereomicroscope. Antisense digoxigenin-labeled RNA probes for drosha, dgcr8, exportin-5 and dicer1 were produced as previously described (Carraco et al 2014). …”

Section: In Situ Hybridizationmentioning

confidence: 99%

Characterization of miRNA processing machinery in the embryonic chick lung

et al. 2015

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Lung development is a very complex process that relies on the interaction of several signaling pathways that are controlled by precise regulatory mechanisms. Recently, microRNAs (miRNAs), small non-coding regulatory RNAs, have emerged as new players involved in gene expression regulation controlling several biological processes, such as cellular differentiation, apoptosis and organogenesis, in both developmental and disease processes. Failure to correctly express some specific miRNAs or a component of their biosynthetic machinery during embryonic development is disastrous, resulting in severe abnormalities. Several miRNAs have already been identified as modulators of lung development. Regarding the spatial distribution of the processing machinery of miRNAs, only two of its members (dicer1 and argonaute) have been characterized. The present work characterizes the expression pattern of drosha, dgcr8, exportin-5 and dicer1 in early stages of the embryonic chick lung by whole mount in situ hybridization and cross-section analysis. Overall, these genes are co-expressed in dorsal and distal mesenchyme and also in growing epithelial regions. The expression pattern of miRNA processing machinery supports the previously recognized regulatory role of this mechanism in epithelial and mesenchymal morphogenesis.

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“…For example, Santarelli et al found that elevated miRNA levels occurred with a schizophreniaassociated increase in Dicer expression that facilitated pre-miRNA processing (Santarelli et al, 2011). For miRBGs in animals, relevant research also certified their profound effects on diverse cellular processes (Byon et al, 2014;Carraco et al, 2014;Li et al, 2014). Although we have little evidence in plants, research in model plants such as Arabidopsis thaliana has produced major advances in understanding the relationship between miRBGs and variations in phenotype.…”

Section: Introductionmentioning

confidence: 99%

Genetic variants in microRNA biogenesis genes as novel indicators for secondary growth in Populus

Chen

et al. 2018

New Phytologist

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MicroRNAs (miRNAs) function as key regulators of complex traits, but how genetic alterations in miRNA biogenesis genes (miRBGs) affect quantitative variation has not been elucidated. We conducted transcript analyses and association genetics to investigate how miRBGs, miRNA genes (MIRNAs) and their respective targets contribute to secondary growth in a natural population of 435 Populus tomentosa individuals. This analysis identified 29 843 common single-nucleotide polymorphisms (SNPs; frequency > 0.10) within 682 genes (80 miRBGs, 152 MIRNAs, and 457 miRNA targets). Single-SNP association analysis found SNPs in 234 candidate genes exhibited significant additive/dominant effects on phenotypes. Among these, specific candidates that associated with the same traits produced 791 miRBG-MIRNA-target combinations, suggesting possible genetic miRBG-MIRNA and MIRNA-target interactions, providing an important clue for the regulatory mechanisms of miRBGs. Multi-SNP association found 4672 epistatic pairs involving 578 genes that showed significant associations with traits and identified 106 miRBG-MIRNA-target combinations. Two multi-hierarchical networks were constructed based on correlations of miRBG-miRNA and miRNA-target expression to further probe the mechanisms of trait diversity underlying changes in miRBGs. Our study opens avenues for the investigation of miRNA function in perennial plants and underscored miRBGs as potentially modulating quantitative variation in traits.

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MicroRNA processing machinery in the developing chick embryo

Cited by 4 publications

References 45 publications

gga-miRNOME, a microRNA-sequencing dataset from chick embryonic tissues

gga-miRNOME, a microRNA-sequencing dataset from chick embryonic tissues

Characterization of miRNA processing machinery in the embryonic chick lung

Genetic variants in microRNA biogenesis genes as novel indicators for secondary growth in Populus

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