ArticleScientific reports2017
De novo transcriptome assembly for the spiny mouse (Acomys cahirinus).
Article in Scientific reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed, 60 citations in OpenAlex.
- Histological and Gene Expression Analyses of the Arm and Finger Macroglands of Two Hyloxalus Frogs (Dendrobatidae).Molecular ecology · 2025Article
- Distinct Transcriptomic Profile Underlying High COCurrent issues in molecular biology · 2025Article
- ECM-Focused Proteomic Analysis of Ear Punch Regeneration inJournal of proteome research · 2025Article
- De novo assembly of plasmodium interspersed repeat (pir) genes from Plasmodium vivax RNAseq data suggests geographic conservation of sub-family transcription.BMC genomics · 2025Article
- Osteogenic shift in the adipose-derived stem cells ofFrontiers in cell and developmental biology · 2025Article
- Transcriptomic landscape of posterior regeneration in the annelid Platynereis dumerilii.BMC genomics · 2023Article
- An ERK-dependent molecular switch antagonizes fibrosis and promotes regeneration in spiny mice (Science advances · 2023Article
- Optimization and application of non-native Phragmites australis transcriptome assemblies.PloS one · 2023Article
- An Emerging Frontier in Intercellular Communication: Extracellular Vesicles in Regeneration.Frontiers in cell and developmental biology · 2022Review
- Spiny mice activate unique transcriptional programs after severe kidney injury regenerating organ function without fibrosis.iScience · 2021Article
- Ischemic tolerance and cardiac repair in the spiny mouse (Acomys).NPJ Regenerative medicine · 2021Article
- Computational screening of miRNAs and their targets in saffron (Crocus sativus L.) by transcriptome mining.Planta · 2021Article
- Adaptations in Hippo-Yap signaling and myofibroblast fate underlie scar-free ear appendage wound healing in spiny mice.Developmental cell · 2021Article
- Postpartum ovulation and early pregnancy in the menstruating spiny mouse, Acomys cahirinus.Scientific reports · 2021Article
- Distinct organization of adaptive immunity in the long-lived rodent Spalax galili.Nature aging · 2021Article
- Ion channel profiling of the Lymnaea stagnalis ganglia via transcriptome analysis.BMC genomics · 2021Article
- Transcriptomic Analysis of Resistant and Susceptible Responses in a New Model Root-Knot Nematode Infection System UsingFrontiers in plant science · 2021Article
- Liver transcriptome resources of four commercially exploited teleost species.Scientific data · 2020Article
- Reporting animal research: Explanation and elaboration for the ARRIVE guidelines 2.0.PLoS biology · 2020Article
- Combining independent de novo assemblies to optimize leaf transcriptome of Persian walnut.PloS one · 2020Article
Corrections and comments
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Authors and funding
11 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Spiny mice of the genus Acomys display several unique physiological traits, including menstruation and scar-free wound healing; characteristics that are exceedingly rare in mammals, and of considerable interest to the scientific community. These unique attributes, and the potential for spiny mice to accurately model human diseases, are driving increased use of this genus in biomedical research, however little genetic information is accessible for this species. This project aimed to generate a draft transcriptome for the Common spiny mouse (Acomys cahirinus). Illumina sequencing of RNA from 15 organ types (male and female) produced 451 million, 150 bp paired-end reads (92.4Gbp). An extensive survey of de novo transcriptome assembly approaches using Trinity, SOAPdenovo-Trans, and Oases at multiple kmer lengths was conducted, producing 50 single-kmer assemblies from this dataset. Non-redundant transcripts from all assemblies were merged into a meta-assembly using the EvidentialGene tr2aacds pipeline, producing the largest gene catalogue to date for Acomys cahirinus. This study provides the first detailed characterization of the spiny mouse transcriptome. It validates use of the EvidentialGene tr2aacds pipeline in mammals to augment conventional de novo assembly approaches, and provides a valuable scientific resource for further investigation into the unique physiological characteristics inherent in the genus Acomys.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.