Diversity of Interneurons in the Dorsal Striatum Revealed by Single-Cell RNA Sequencing and PatchSeq
Open accessAbstract
Striatal locally projecting neurons, or interneurons, act on nearby circuits and shape functional output to the rest of the basal ganglia. We performed single-cell RNA sequencing of striatal cells enriching for interneurons. We find seven discrete interneuron types, six of which are GABAergic. In addition to providing specific markers for the populations previously described, including those expressing Sst/Npy, Th, Npy without Sst, and Chat, we identify two small populations of cells expressing Cck with or without Vip. Surprisingly, the Pvalb-expressing cells do not constitute a discrete cluster but rather are part of a larger group of cells expressing Pthlh with a spatial gradient of Pvalb expression. Using PatchSeq, we show that Pthlh cells exhibit a continuum of electrophysiological properties correlated with expression of Pvalb. Furthermore, we find significant molecular differences that correlate with differences in electrophysiological properties between Pvalb-expressing cells of the striatum and those of the cortex.
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
Concordance with six previously published scRNA-seq datasets showed that 98% of 139 previously published clusters were perfect or near-perfect matches to corresponding clusters in the new compendium.
“Of the 139 previously published clusters, 98% were perfect or near-perfect matches to corresponding clusters in the new compendium (84% perfect, 14% near perfect, 2% mismatches; see Table S2).”
From Molecular Architecture of the Mouse Nervous System (2018) · cites this paper as Muñoz-Manchado et al., 2018
The Results section, “scRNA-Seq of Interneurons of the Dorsolateral Striatum” (page unavailable), reports nine clusters in Dataset B and 97% precision and 96% recall for a classifier, not matches to previously published clusters. Searches for “139,” “near-perfect matches,” and comparisons with six published datasets found no passage reporting the claimed 98% concordance or its breakdown. (LLM, conf=0.77)
Experimental — accuracy not yet measuredRecent transcriptomic and anatomical studies have argued that neurons in hippocampus, striatum, and cerebellum can be better described as forming partially continuous manifolds.
“Consistent with our interpretation, recent transcriptomic and anatomical studies have argued that neurons in hippocampus, striatum, and cerebellum can be better described as forming partially continuous manifolds27,37–39.”
From Phenotypic variation of transcriptomic cell types in mouse motor cortex (2021) · cites this paper as [37]
The marmoset striatum contained, besides all major mouse striatal interneuron classes, an abundant transcriptionally distinct interneuron type with no apparent molecularly homologous mouse striatal population.
“the marmoset striatum revealed–in addition to all the major classes of striatal interneurons found in mice15,42–an abundant, transcriptionally distinct interneuron type that did not appear to have a molecularly homologous population among mouse striatal interneurons”
From Innovations present in the primate interneuron repertoire (2020) · cites this paper as [42]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
The citation lists haven’t been fetched yet
References 65 · Cited by 229
- Authors
- Muñoz-Manchado, A. B., Bengtsson Gonzales, C., Zeisel, A., Munguba, H., Bekkouche, B., Skene, N. G., Lönnerberg, P., Ryge, J., Harris, K. D., Linnarsson, S., & Hjerling-Leffler, J.
- Affiliations
- Karolinska Institutet (SE)
- École Polytechnique Fédérale de Lausanne (CH)
- National Hospital for Neurology and Neurosurgery (GB)
- Corresponding author
- Linnarsson, Sten
- Venue
- Cell Reports
- Publisher
- Elsevier BV
- Published
- 2018-08
- Volume
- 24
- Issue
- 8
- Pages
- 2179-2190.e7
- ISSN
- 2211-1247 (ISSN-L)
- PMC
- PMC6117871
- OpenAlex
- W2888747982
- Cited by
- 229
- References
- 65
- Citations by year
- 2026: 17 · 2025: 24 · 2024: 31 · 2023: 30 · 2022: 27 · 2021: 34 · 2020: 40 · 2019: 20 · 2018: 5
- FWCI
- 8.81
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- Locations
- Cell Reports (publishedVersion, cc-by)
- Europe PMC (PubMed Central) (publishedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- UCL Discovery (University College London) (submittedVersion)
- Infoscience (Ecole Polytechnique Fédérale de Lausanne) (submittedVersion, cc-by-nc-nd)
- RODIN (Universidad de Cádiz) (submittedVersion, cc-by-nc-nd)
- Spiral (Imperial College London) (submittedVersion, other-oa)
- Funders
- Wellcome Trust (108726/Z/15/Z)
- Vetenskapsrådet (2014-3863)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Single-cell and spatial transcriptomics
- Life Sciences › Neuroscience › Cellular and Molecular Neuroscience › Neuroscience and Neuropharmacology Research
- Health Sciences › Medicine › Neurology › Neurological disorders and treatments
- Keywords
- striatal interneurons, dorsal striatum, GABAergic interneurons, interneuron diversity, parvalbumin, PTHLH, cholecystokinin, VIP, Th, chat, electrophysiological properties, basal ganglia, cortical interneurons
- MeSH terms
- Animals, Corpus Striatum, Humans, Interneurons, Sequence Analysis, RNA, Mice
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
