Publications

A practical guide to spatial transcriptomics. Valihrach L, Zucha D, Abaffy P, Kubista M. Mol Aspects Med. 2024 Jun;97:101276. doi: 10.1016/j.mam.2024.101276.

Sturgeon gut development: a unique yolk utilization strategy among vertebrates. Shah MA, Xie X, Rodina M, Stundl J, Braasch I, Šindelka R, Rzepkowska M, Saito T, Pšenička M. Front Cell Dev Biol. 2024 May 30;12:1358702. doi: 10.3389/fcell.2024.1358702.

Reprogramming of the developing heart by Hif1a-deficient sympathetic system and maternal diabetes exposure. Kolesova H, Hrabalova P, Bohuslavova R, Abaffy P, Fabriciova V, Sedmera D, Pavlinkova G. Front Endocrinol (Lausanne). 2024 Mar 5;15:1344074. doi: 10.3389/fendo.2024.1344074.

The deletion of AQP4 and TRPV4 affects astrocyte swelling/volume recovery in response to ischemia-mimicking pathologies. Hermanova Z, Valihrach L, Kriska J, Maheta M, Tureckova J, Kubista M, Anderova M. Front Cell Neurosci. 2024 May 15;18:1393751. doi: 10.3389/fncel.2024.1393751.

HIF-1α limits myocardial infarction by promoting mitophagy in mouse hearts adapted to chronic hypoxia. Alanova P, Alan L, Opletalova B, Bohuslavova R, Abaffy P, Matejkova K, Holzerova K, Benak D, Kaludercic N, Menabo R, Di Lisa F, Ostadal B, Kolar F, Pavlinkova G. Acta Physiol (Oxf). 2024 Sep;240(9):e14202. doi: 10.1111/apha.14202.

Spatiotemporal transcriptomic map of glial cell response in a mouse model of acute brain ischemia. Zucha D, Abaffy P, Kirdajova D, Jirak D, Kubista M, Anderova M, Valihrach L. Proc Natl Acad Sci U S A. 2024 Nov 12;121(46):e2404203121. doi: 10.1073/pnas.2404203121.

Aberrant neurodevelopment in human iPS cell-derived models of Alexander disease. Matusova Z, Dykstra W, de Pablo Y, Zetterdahl OG, Canals I, van Gelder CAGH, Vos HR, Pérez-Sala D, Kubista M, Abaffy P, Ahlenius H, Valihrach L, Hol EM, Pekny M. Glia. 2024 Sep 23. doi: 10.1002/glia.24618.

Species-specific differences in DNA damage sensitivity at early developmental stage: A comparative study of sterlet (Acipenser ruthenus) and common carp (Cyprinus carpio). Dey A, Nayak R, Prchal M, Gonzalez-Cid A, Pšenička M, Šindelka R, Flajšhans M, Gazo I. Environ Toxicol Pharmacol. 2024 Sep;110:104501. doi: 10.1016/j.etap.2024.104501.

Characterization of regeneration initiating cells during Xenopus laevis tail regeneration. Sindelka R, Naraine R, Abaffy P, Zucha D, Kraus D, Netusil J, Smetana K Jr, Lacina L, Endaya BB, Neuzil J, Psenicka M, Kubista M. Genome Biol. 2024 Oct 1;25(1):251. doi: 10.1186/s13059-024-03396-3.

Single-cell transcriptomic resolution of osteogenesis during craniofacial morphogenesis. Hudacova E, Abaffy P, Kaplan MM, Krausova M, Kubista M, Machon O. Bone. 2024 Oct 24;190:117297. doi: 10.1016/j.bone.2024.117297.

RNA localization during early development of the axolotl. Simková K, Naraine R, Vintr J, Soukup V, Sindelka R. Frontiers in Cell and Developmental Biology. 2023. 11, 10.3389/fcell.2023.1260795.

Human bone marrow stromal cells: the impact of anticoagulants on stem cell properties. Ferencakova M, Benova A, Raska I, Abaffy P, Sindelka R, Dzubanova M, Pospisilova E, Kolostova K, Cajka T, Paclik A, Zikan V, Tencerova M. Frontiers in Cell and Developmental Biology. 2023. 11. 10.3389/fcell.2023.1255823

NEUROD1 reinforces endocrine cell fate acquisition in pancreatic development. Bohuslavova R, Fabriciova V, Smolik O, Lebrón-Mora L, Abaffy P, Benesova S, Zucha D, Valihrach L, Berkova Z, Saudek F, Pavlinkova G. Nat Commun. 2023 Sep 9;14(1):5554. doi: 10.1038/s41467-023-41306-6.

Cortical glia in SOD1(G93A) mice are subtly affected by ALS-like pathology. Filipi T, Matusova Z, Abaffy P, Vanatko O, Tureckova J, Benesova S, Kubiskova M, Kirdajova D, Zahumensky J, Valihrach L, Anderova M.Sci Rep. 2023 Apr 21;13(1):6538. doi: 10.1038/s41598-023-33608-y.

Reactive astrogliosis in the era of single-cell transcriptomics. Matusova Z, Hol EM, Pekny M, Kubista M, Valihrach L. Front Cell Neurosci. 2023 Apr 20;17:1173200. doi: 10.3389/fncel.2023.1173200.

Dysregulation of hypoxia-inducible factor 1α in the sympathetic nervous system accelerates diabetic cardiomyopathy. Hrabalova P, Bohuslavova R, Matejkova K, Papousek F, Sedmera D, Abaffy P, Kolar F, Pavlinkova G. Cardiovasc Diabetol. 2023 Apr 18;22(1):88. doi: 10.1186/s12933-023-01824-5.

ISL1 controls pancreatic alpha cell fate and beta cell maturation. Bohuslavova R, Fabriciova V, Lebrón-Mora L, Malfatti J, Smolik O, Valihrach L, Benesova S, Zucha D, Berkova Z, Saudek F, Evans SM, Pavlinkova G. Cell Biosci. 2023 Mar 10;13(1):53. doi: 10.1186/s13578-023-01003-9.

Enhancement of zebrafish sperm production via a large body-sized surrogate with germ cell transplantation. Nayak R, Franěk R, Šindelka R, Pšenička M. Commun Biol. 2023 Apr 14;6(1):412. doi: 10.1038/s42003-023-04800-7.

Disclosing quantitative RT-PCR raw data during manuscript submission: a call for action. Untergasser A, Hellemans J, Pfaffl MW, Ruijter JM, van den Hoff MJB, Dragomir MP, Adamoski D, Dias SMG, Reis RM, Ferracin M, Dias-Neto E, Marsh I, Kubista M, Fabbri M, Goel A, Slabý O, Knutsen E, Chen B, Negrini M, Mimori K, Pichler M, Papatriantafyllou M, Anfossi S, Schmittgen TD, Huggett J, Bustin S, Vandesompele J, Calin GA; HEROIC Consortium. Mol Oncol. 2023 Mar 14. doi: 10.1002/1878-0261.13418.

β-Lactoglobulin affects the oxidative status and viability of equine endometrial progenitor cells via lncRNA-mRNA-miRNA regulatory associations. Data K, Marcinkowska K, Buś K, Valihrach L, Pawlak E, Śmieszek A.J Cell Mol Med. 2023 Mar 1. doi: 10.1111/jcmm.17694.

Glioblastoma and cerebral organoids: development and analysis of an in vitro model for glioblastoma migration. Fedorova V, Pospisilova V, Vanova T, Cerna KA, Abaffy P, Sedmik J, Raska J, Vochyanova S, Matusova Z, Houserova J, Valihrach L, Hodny Z, Bohaciakova D.Mol Oncol. 2023 Feb 6. doi: 10.1002/1878-0261.13389.

Mujahid Ali Shah, Effrosyni Fatira, Viktoriia Iegorova, Xuan Xie, David Gela, Marek Rodina, Roman Franěk, Martin Pšenička, Taiju Saito. Blastomeres derived from the vegetal pole provide extra-embryonic nutrition to sturgeon (Acipenser) embryos: Transition from holoblastic to meroblastic cleavage. Aquaculture (2022). 551, 737899. https://doi.org/10.1016/j.aquaculture.2022.737899.

Valihrach L, Matusova Z, Zucha D, Klassen R, Benesova S, Abaffy P, Kubista M and Anderova M (2022) Recent advances in deciphering oligodendrocyte heterogeneity with single-cell transcriptomics. Front. Cell. Neurosci. 16:1025012. doi: 10.3389/fncel.2022.1025012

Iegorova V, Naraine R, Psenicka M, Zelazowska M and Sindelka R (2022) Comparison of RNA localization during oogenesis within Acipenser ruthenus and Xenopus laevis. Front. Cell Dev. Biol. 10:982732. doi: 10.3389/fcell.2022.982732

ISL1 is necessary for auditory neuron development and contributes toward tonotopic organization. Filova I, Pysanenko K, Tavakoli M, Vochyanova S, Dvorakova M, Bohuslavova R, Smolik O, Fabriciova V, Hrabalova P, Benesova S, Valihrach L, Cerny J, Yamoah EN, Syka J, Fritzsch B, Pavlinkova G. Proc Natl Acad Sci U S A. 2022 Sep 13;119(37):e2207433119. doi: 10.1073/pnas.2207433119.

Naraine R, Iegorova V, Abaffy P, Franek R, Soukup V, Psenicka M, Sindelka R. Evolutionary conservation of maternal RNA localization in fishes and amphibians revealed by TOMO-Seq. Dev Biol. 2022 Jun 22:S0012-1606(22)00130-0. doi: 10.1016/j.ydbio.2022.06.013.

Gazo I, Naraine R, Lebeda I, Tomčala A, Dietrich M, Franěk R, Pšenička M, Šindelka R. Transcriptome and Proteome Analyses Reveal Stage-Specific DNA Damage Response in Embryos of Sturgeon (Acipenser ruthenus). International Journal of Molecular Sciences. 2022; 23(12):6392. https://doi.org/10.3390/ijms23126392

Smieszek A, Marcinkowska K, Pielok A, Sikora M, Valihrach L, Carnevale E, Marycz K. Obesity Affects the Proliferative Potential of Equine Endometrial Progenitor Cells and Modulates Their Molecular Phenotype Associated with Mitochondrial Metabolism. Cells. 2022; 11(9):1437. https://doi.org/10.3390/cells11091437

Small RNA-Sequencing for Analysis of Circulating miRNAs: Benchmark Study. Androvic P, Benesova S, Rohlova E, Kubista M, Valihrach L. J Mol Diagn. 2022 Jan 23:S1525-1578(22)00011-3. doi: 10.1016/j.jmoldx.2021.12.006.

Mitochondrial respiration supports autophagy to provide stress resistance during quiescence. Magalhaes-Novais S, Blecha J, Naraine R, Mikesova J, Abaffy P, Pecinova A, Milosevic M, Bohuslavova R, Prochazka J, Khan S, Novotna E, Sindelka R, Machan R, Dewerchin M, Vlcak E, Kalucka J, Stemberkova Hubackova S, Benda A, Goveia J, Mracek T, Barinka C, Carmeliet P, Neuzil J, Rohlenova K, Rohlena J. Autophagy. 2022 Mar 8:1-18. doi: 10.1080/15548627.2022.2038898.