{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,22]],"date-time":"2026-10-22T05:11:59Z","timestamp":1792645919122,"version":"4.5.0"},"reference-count":29,"publisher":"MDPI AG","issue":"6","license":[{"start":{"date-parts":[[2022,6,18]],"date-time":"2022-06-18T00:00:00Z","timestamp":1655510400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100004281","name":"National Science Centre","doi-asserted-by":"publisher","award":["2017\/27\/B\/NZ2\/02796"],"award-info":[{"award-number":["2017\/27\/B\/NZ2\/02796"]}],"id":[{"id":"10.13039\/501100004281","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Brain Sciences"],"abstract":"<jats:p>Many research methods applied in molecular neuroscience require the collection of hippocampal samples, but a still poorly recognized problem is contamination with the choroid plexus during brain dissection. Because of a distinct pattern of gene expression, its inclusion in brain samples can obscure or even confound conclusions drawn from molecular studies. Therefore, we tested our dissection method designed for removal of tissue contamination using expression of the transthyretin gene (Ttr) as a marker of the choroid plexus. Additionally, we also validated dissection of the entire hippocampus into its dorsal, intermediate and ventral subdivisions using the expression of Trhr and Lct genes as molecular markers of anatomical subdivisions. The PCR analysis showed that Ttr is expressed at a residual level in hippocampal samples that display an mRNA level several hundred lower than the adjacent control tissue colocalized with the choroid plexus. This indicates that the applied method for dissecting the hippocampus from a fresh brain allows for replicable removal of the majority of choroid plexus from hippocampal samples. In turn, differences in expression of Lct and Trhr confirmed the proper dissection of dorsal, intermediate and ventral subdivisions from fresh brain tissue. Therefore, a special emphasis on the removal of tissue contamination and avoidance of tissue distortions makes our protocol especially suitable for molecular experiments performed either on the entire hippocampus or its subdivisions.<\/jats:p>","DOI":"10.3390\/brainsci12060799","type":"journal-article","created":{"date-parts":[[2022,6,19]],"date-time":"2022-06-19T10:14:52Z","timestamp":1655633692000},"page":"799","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":30,"title":["Dissection of Mouse Hippocampus with Its Dorsal, Intermediate and Ventral Subdivisions Combined with Molecular Validation"],"prefix":"10.3390","volume":"12","author":[{"given":"Aneta","family":"Jaszczyk","sequence":"first","affiliation":[{"name":"Department of Animal Behavior and Welfare, Institute of Genetics and Animal Biotechnology, Polish Academy of Sciences, 05-552 Jastrzebiec, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Adrian M.","family":"Stankiewicz","sequence":"additional","affiliation":[{"name":"Department of Molecular Biology, Institute of Genetics and Animal Biotechnology, Polish Academy of Sciences, 05-552 Jastrzebiec, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0976-6905","authenticated-orcid":false,"given":"Grzegorz R.","family":"Juszczak","sequence":"additional","affiliation":[{"name":"Department of Animal Behavior and Welfare, Institute of Genetics and Animal Biotechnology, Polish Academy of Sciences, 05-552 Jastrzebiec, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2022,6,18]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"7","DOI":"10.1016\/j.neuron.2009.11.031","article-title":"Are the dorsal and ventral hippocampus functionally distinct structures?","volume":"65","author":"Fanselow","year":"2010","journal-title":"Neuron"},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"113","DOI":"10.1016\/j.neubiorev.2021.03.007","article-title":"Glucocorticoids, metabolism and brain activity","volume":"126","author":"Jaszczyk","year":"2021","journal-title":"Neurosci. Biobehav. Rev."},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"487","DOI":"10.1016\/j.biopsych.2018.08.021","article-title":"The Hippocampus in Depression: More Than the Sum of Its Parts? Advanced Hippocampal Substructure Segmentation in Depression","volume":"85","author":"Roddy","year":"2018","journal-title":"Biol. Psychiatry"},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"116","DOI":"10.1097\/HRP.0000000000000185","article-title":"Functional Neuroanatomy of Emotion and Its Regulation in PTSD","volume":"26","author":"Fitzgerald","year":"2018","journal-title":"Harv. Rev. Psychiatry"},{"key":"ref_5","doi-asserted-by":"crossref","first-page":"1764","DOI":"10.1038\/mp.2017.249","article-title":"Hippocampal dysfunction in the pathophysiology of schizophrenia: A selective review and hypothesis for early detection and intervention","volume":"23","author":"Lieberman","year":"2018","journal-title":"Mol. Psychiatry"},{"key":"ref_6","doi-asserted-by":"crossref","first-page":"121","DOI":"10.1159\/000356435","article-title":"Epilepsy and the hippocampus","volume":"34","author":"Chatzikonstantinou","year":"2014","journal-title":"Front. Neurol. Neurosci."},{"key":"ref_7","doi-asserted-by":"crossref","first-page":"95","DOI":"10.1159\/000356430","article-title":"The Hippocampus in Neurodegenerative Disease","volume":"34","author":"Moodley","year":"2014","journal-title":"Hippocampus Clin. Neurosci."},{"key":"ref_8","doi-asserted-by":"crossref","first-page":"713","DOI":"10.1016\/j.neurobiolaging.2006.03.015","article-title":"Transthyretin and Alzheimer\u2019s disease: Where in the brain?","volume":"28","author":"Sousa","year":"2007","journal-title":"Neurobiol. Aging"},{"key":"ref_9","doi-asserted-by":"crossref","unstructured":"Stankiewicz, A.M., Goscik, J., Majewska, A., Swiergiel, A.H., and Juszczak, G.R. (2015). The Effect of Acute and Chronic Social Stress on the Hippocampal Transcriptome in Mice. PLoS ONE, 10.","DOI":"10.1371\/journal.pone.0142195"},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"453","DOI":"10.1126\/science.aaf1288","article-title":"Comment on Multiple repressive mechanisms in the hippocampus during memory formation","volume":"353","author":"Mathew","year":"2016","journal-title":"Science"},{"key":"ref_11","doi-asserted-by":"crossref","unstructured":"Stankiewicz, A.M., Jaszczyk, A., Goscik, J., and Juszczak, G.R. (2022). Stress and the brain transcriptome: Identifying com-monalities and clusters in standardized data from published experiments. Prog. Neuro-Psychopharmacol. Biol. Psychiatry, 110558.","DOI":"10.1016\/j.pnpbp.2022.110558"},{"key":"ref_12","doi-asserted-by":"crossref","first-page":"e14997","DOI":"10.7554\/eLife.14997","article-title":"Hipposeq: A comprehensive RNA-seq data-base of gene expression in hippocampal principal neurons","volume":"5","author":"Cembrowski","year":"2016","journal-title":"Elife"},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"168","DOI":"10.1038\/nature05453","article-title":"Genome-wide atlas of gene expression in the adult mouse brain","volume":"445","author":"Lein","year":"2007","journal-title":"Nature"},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"e45","DOI":"10.1093\/nar\/29.9.e45","article-title":"A new mathematical model for relative quantification in real-time RT-PCR","volume":"29","author":"Pfaffl","year":"2001","journal-title":"Nucleic Acids Res."},{"key":"ref_15","doi-asserted-by":"crossref","first-page":"29","DOI":"10.1016\/0165-6147(88)90239-8","article-title":"Data normalization before statistical analysis: Keeping the horse before the cart","volume":"9","author":"Hancock","year":"1988","journal-title":"Trends Pharmacol. Sci."},{"key":"ref_16","doi-asserted-by":"crossref","unstructured":"Chiu, K., Lau, W.M., Lau, H.T., So, K.-F., and Chang, R.C.-C. (2007). Micro-dissection of Rat Brain for RNA or Protein Extraction from Specific Brain Region. J. Vis. Exp., e269.","DOI":"10.3791\/269"},{"key":"ref_17","first-page":"e1543","article-title":"Dissection of Hippocampal Dentate Gyrus from Adult Mouse","volume":"33","author":"Hagihara","year":"2009","journal-title":"J. Vis. Exp."},{"key":"ref_18","first-page":"e2330","article-title":"Preparation of Acute Hippocampal Slices from Rats and Transgenic Mice for the Study of Synaptic Alterations during Aging and Amyloid Pathology","volume":"49","author":"Mathis","year":"2011","journal-title":"J. Vis. Exp."},{"key":"ref_19","doi-asserted-by":"crossref","first-page":"e955","DOI":"10.21769\/BioProtoc.955","article-title":"Dissection of Different Areas from Mouse Hippocampus","volume":"3","author":"Sultan","year":"2013","journal-title":"Bio.-Protocol."},{"key":"ref_20","first-page":"e50483","article-title":"Improved Preparation and Preservation of Hippocampal Mouse Slices for a Very Stable and Reproducible Recording of Long-term Potentiation","volume":"76","author":"Villers","year":"2013","journal-title":"J. Vis. Exp."},{"key":"ref_21","first-page":"e61941","article-title":"Microdissection of Mouse Brain into Functionally and Anatomically Different Regions","volume":"168","author":"Meyerhoff","year":"2021","journal-title":"J. Vis. Exp."},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"13","DOI":"10.1007\/978-1-61779-111-6_2","article-title":"Dissection of Rodent Brain Regions","volume":"57","author":"Spijker","year":"2011","journal-title":"Neuromethods"},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"453","DOI":"10.1016\/0091-3057(80)90254-3","article-title":"A rapid method for the regional dissection of the rat brain","volume":"13","author":"Heffner","year":"1980","journal-title":"Pharmacol. Biochem. Behav."},{"key":"ref_24","first-page":"e60474","article-title":"Collection of Frozen Rodent Brain Regions for Downstream Analyses","volume":"158","author":"Green","year":"2020","journal-title":"J. Vis. Exp."},{"key":"ref_25","first-page":"e61753","article-title":"Horizontal Hippocampal Slices of the Mouse Brain","volume":"163","author":"Philippaert","year":"2020","journal-title":"J. Vis. Exp."},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"243","DOI":"10.1007\/978-1-0716-0818-0_12","article-title":"Preparation of Rat Organotypic Hippocampal Slice Cultures Using the Mem-brane-Interface Method","volume":"2188","author":"Church","year":"2021","journal-title":"Methods Mol. Biol."},{"key":"ref_27","doi-asserted-by":"crossref","first-page":"331","DOI":"10.3389\/fnmol.2017.00331","article-title":"Dorsal and Ventral Hippocampus Differentiate in Functional Pathways and Differentially Associate with Neurological Disease-Related Genes during Postnatal Development","volume":"10","author":"Lee","year":"2017","journal-title":"Front. Mol. Neurosci."},{"key":"ref_28","doi-asserted-by":"crossref","first-page":"531","DOI":"10.1016\/j.biopsych.2018.02.003","article-title":"Distinct Proteomic, Transcriptomic, and Epigenetic Stress Responses in Dorsal and Ventral Hippocampus","volume":"84","author":"Stalder","year":"2018","journal-title":"Biol. Psychiatry"},{"key":"ref_29","first-page":"e3125","article-title":"Non-laser capture microscopy approach for the microdissec-tion of discrete mouse brain regions for total RNA isolation and downstream next-generation sequencing and gene expres-sion profiling","volume":"57","author":"Atkins","year":"2011","journal-title":"J. Vis. 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