MicroRNAs: from mechanism to organism

PJ Dexheimer, L Cochella - Frontiers in cell and developmental …, 2020 - frontiersin.org
MicroRNAs (miRNAs) are short, regulatory RNAs that act as post-transcriptional repressors
of gene expression in diverse biological contexts. The emergence of small RNA-mediated …

A renaissance of microRNAs as taxonomic and phylogenetic markers in animals

B Fromm - Zoologica Scripta, 2024 - Wiley Online Library
Molecular markers for tracing animal sample origins and compositions are critical for
applications such as parasite detection, contamination screening, and sample …

MirGeneDB 2.1: toward a complete sampling of all major animal phyla

B Fromm, E Høye, D Domanska, X Zhong… - Nucleic acids …, 2022 - academic.oup.com
We describe an update of MirGeneDB, the manually curated microRNA gene database.
Adhering to uniform and consistent criteria for microRNA annotation and nomenclature, we …

MirGeneDB 2.0: the metazoan microRNA complement

B Fromm, D Domanska, E Høye… - Nucleic Acids …, 2020 - academic.oup.com
Small non-coding RNAs have gained substantial attention due to their roles in animal
development and human disorders. Among them, microRNAs are special because …

Taxonomic sampling and rare genomic changes overcome long-branch attraction in the phylogenetic placement of pseudoscorpions

AZ Ontano, G Gainett, S Aharon… - Molecular Biology …, 2021 - academic.oup.com
Long-branch attraction is a systematic artifact that results in erroneous groupings of fast-
evolving taxa. The combination of short, deep internodes in tandem with long-branch …

Lack of support for Deuterostomia prompts reinterpretation of the first Bilateria

P Kapli, P Natsidis, DJ Leite, M Fursman, N Jeffrie… - Science …, 2021 - science.org
The bilaterally symmetric animals (Bilateria) are considered to comprise two monophyletic
groups, Protostomia (Ecdysozoa and the Lophotrochozoa) and Deuterostomia (Chordata …

ncOrtho: efficient and reliable identification of miRNA orthologs

F Langschied, MS Leisegang, RP Brandes… - Nucleic Acids …, 2023 - academic.oup.com
MicroRNAs (miRNAs) are post-transcriptional regulators that finetune gene expression via
translational repression or degradation of their target mRNAs. Despite their functional …

Convergent and divergent evolution of microRNA‐mediated regulation in metazoans

Y Wang, X Tang, J Lu - Biological Reviews, 2024 - Wiley Online Library
The evolution of microRNAs (miRNAs) has been studied extensively to understand their
roles in gene regulation and evolutionary processes. This review focuses on how miRNA …

miRTrace reveals the organismal origins of microRNA sequencing data

W Kang, Y Eldfjell, B Fromm, X Estivill, I Biryukova… - Genome biology, 2018 - Springer
We present here miRTrace, the first algorithm to trace microRNA sequencing data back to
their taxonomic origins. This is a challenge with profound implications for forensics …

Small RNA profiling reveals that an ovule-specific microRNA, cja-miR5179, targets a B-class MADS-box gene in Camellia japonica

X Ma, Z Nie, H Huang, C Yan, S Li, Z Hu… - Annals of …, 2023 - academic.oup.com
Abstract Background and Aims The functional specialization of microRNA and its target
genes is often an important factor in the establishment of spatiotemporal patterns of gene …