Publications

Kraus D, Kikinderova P, Abaffy P, Kadlcikova D, Naraine R, Sindelka R. Regulation of Embryonic Wound Healing by Matrix Metalloproteinases in Xenopus laevis Tailbud Stage. Wound Repair Regen. 2026 Jan-Feb;34(1):e70134.

Cihakova K, Naraine R, Hantzsch V, Franek R, Psenicka M, Sindelka R. RNA redistribution driven by alterations in transcription during early embryogenesis of rainbow trout. Dev Biol. 2025 Nov 14;530:21-37. doi: 10.1016/j.ydbio.2025.11.004.

Dzubanova M, Ferencakova M, Nguyen DK, Bardova K, Golovina E, Fehervary H, Benova A, Odabaşı Y, Naraine R, Sindelka R, Spoutil F, Prochazka J, Cajka T, van Lenthe GH, Sarkis R, Naveiras O, Rossmeisl M, Kopecky J, Tencerova M. Glutamine: A novel player in maintaining skeletal strength and body fitness in obese mice. Clin Nutr. 2025 Nov;54:162-176. doi: 10.1016/j.clnu.2025.09.018. Epub 2025 Oct 9.

Vyhnánková S, Lacina L, Chovanec M, Plzák J, Smetana K Jr, Netušil J, Kolář M, Šindelka R. Cold, Hot, and Lethal-The Tumour Microenvironment and the Immunology of Head and Neck Squamous Cell Carcinoma. Int J Mol Sci. 2025 Sep 11;26(18):8844. doi: 10.3390/ijms26188844.

Gao L, Franěk R, Tichopád T, Rodina M, Gela D, Šindelka R, Saito T, Pšenička M. Mitochondria as indispensable yet replaceable components of germ plasm: insights into PGCs specification in sturgeons. Reproduction. 2025 Mar 14;169(4):e240441. doi: 10.1530/REP-24-0441.

Pennucci J, et al. Technical Considerations of Pharmacokinetic Assays for LNP-mRNA Drug Products by RT-qPCR. AAPS J. 2025 Sep 18;27(6):144. doi: 10.1208/s12248-025-01122-w.

Dykstra W, Matusova Z, Battaglia RA, Abaffy P, Goya-Iglesias N, Pérez-Sala D, Ahlenius H, Kubista M, Pasterkamp RJ, Li L, Chao J, Shi Y, Valihrach L, Pekny M, Hol EM. Mutations in GFAP Alter Early Lineage Commitment of Organoids. Glia. 2025 Nov;73(11):2167-2188. doi: 10.1002/glia.70049.

Bustin SA, Ruijter JM, van den Hoff MJB, Kubista M, Pfaffl MW, Shipley GL, Tran N, Rödiger S, Untergasser A, Mueller R, Nolan T, Milavec M, Burns MJ, Huggett JF, Vandesompele J, Wittwer CT. MIQE 2.0: Revision of the Minimum Information for Publication of Quantitative Real-Time PCR Experiments Guidelines. Clin Chem. 2025 Apr 24:hvaf043. doi: 10.1093/clinchem/hvaf043.

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.