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Accession: PRJNA647389 ID: 647389

Ictidomys tridecemlineatus (thirteen-lined ground squirrel)

Ictidomys tridecemlineatus Hi-C Genome sequencing, assembly and annotation

See Genome Information for Ictidomys tridecemlineatus
The goal of this project is to increase the contiguity of the 13-lined ground squirrel genome assembly to near chromosome level, coupled with transcriptome-based annotations, in order to provide an enabling resource for researchers this model "hibernator" system.
AccessionPRJNA647389
Data TypeGenome sequencing and assembly
ScopeMonoisolate
OrganismIctidomys tridecemlineatus[Taxonomy ID: 43179]
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Sciuromorpha; Sciuridae; Xerinae; Marmotini; Ictidomys; Ictidomys tridecemlineatus
Publications
  • Fu R et al., "Dynamic RNA Regulation in the Brain Underlies Physiological Plasticity in a Hibernating Mammal.", Front Physiol, 2020;11:624677
  • Zhang L et al., "The complete mitochondrial genome of Ictidomys tridecemlineatus (Rodentia: Sciuridae).", Mitochondrial DNA A DNA Mapp Seq Anal, 2016 Jul;27(4):2608-9
Grants
  • "Exploiting RNA analyses to reveal novel mechanisms underlying natural resistance to I/R injury and low body temperature in the hibernating ground squirrel" (Grant ID 2017BI, RNA Biosciences Initiative, University of Colorado School of Medicine)
  • "EAGER: Establishing the genetic basis of hibernation by building and utilizing a next-generation genomics resource for the model hibernator, the thirteen-lined ground squirrel" (Grant ID 1642184, National Science Foundation)
  • "Examining the hibernating brain for temperature-sensitive RNA editing" (Grant ID R21 NS088315, National Institute of Neurological Disorders and Stroke)
SubmissionRegistration date: 12-Feb-2021
Stanford University School of Medicine
Related Resources
RelevanceModel Organism
Locus Tag PrefixH1C71
Project Data:
Resource NameNumber
of Links
Sequence data
Nucleotide (total)182
WGS master1
Protein Sequences39758
Publications
PubMed2
PMC1
Other datasets
BioSample1
Assembly1
Related RefSeq Project
PRJNA714113 : Ictidomys tridecemlineatus RefSeq Genome sequencing and assembly

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