Genome Engineering Zebrafish

The role of Gdf5 in the development of the zebrafish fin endoskeleton.

Waldmann L, Leyhr J, Zhang H, ..., Öhman-Mägi C, Haitina T

Dev. Dyn. 251 (9) 1535-1549 [2022-09-00; online 2021-07-29]

BioImage Informatics [Collaborative] Genome Engineering Zebrafish [Service]

mafba and mafbb differentially regulate lymphatic endothelial cell migration in topographically distinct manners.

Arnold H, Panara V, Hußmann M, ..., Schulte-Merker S, Koltowska K

Cell Rep 39 (12) 110982 [2022-06-21; online 2022-06-23]

BioImage Informatics [Collaborative] Genome Engineering Zebrafish [Service]

A new transgenic reporter line reveals expression of protocadherin 9 at a cellular level within the zebrafish central nervous system.

Habicher J, Manuel R, Pedroni A, ..., Ampatzis K, Boije H

Gene Expr Patterns 44 (-) 119246 [2022-06-00; online 2022-04-12]

Real-time evaluation of glioblastoma growth in patient-specific zebrafish xenografts.

Almstedt E, Rosén E, Gloger M, ..., Krona C, Nelander S

Neuro-oncology 24 (5) 726-738 [2022-05-04; online 2021-12-18]

Interleukin-10 regulates goblet cell numbers through Notch signaling in the developing zebrafish intestine.

Morales RA, Rabahi S, Diaz OE, ..., Hernández PP, Villablanca EJ

Mucosal Immunol 15 (5) 940-951 [2022-05-00; online 2022-07-15]

Year 2021

The broad role of Nkx3.2 in the development of the zebrafish axial skeleton.

Waldmann L, Leyhr J, Zhang H, ..., Allalou A, Haitina T

PLoS ONE 16 (8) e0255953 [2021-08-19; online 2021-08-19]

BioImage Informatics [Collaborative] Genome Engineering Zebrafish [Service]

Transcriptional study reveals a potential leptin-dependent gene regulatory network in zebrafish brain.

Ahi EP, Tsakoumis E, Brunel M, Schmitz M

Fish Physiol Biochem 47 (4) 1283-1298 [2021-08-00; online 2021-07-08]

Characterization of Individual Projections Reveal That Neuromasts of the Zebrafish Lateral Line are Innervated by Multiple Inhibitory Efferent Cells.

Manuel R, Iglesias Gonzalez AB, Habicher J, Koning HK, Boije H

Front Neuroanat 15 (-) 666109 [2021-06-21; online 2021-06-21]

Increased apoptosis, reduced Wnt/β-catenin signaling, and altered tail development in zebrafish embryos exposed to a human-relevant chemical mixture.

Smirnova A, Mentor A, Ranefall P, ..., Mattsson A, Jönsson M

Chemosphere 264 (1) 128467 [2021-02-00; online 2020-09-30]

BioImage Informatics [Collaborative] Genome Engineering Zebrafish [Service]

Heparan Sulfate Biosynthesis in Zebrafish.

Filipek-Górniok B, Habicher J, Ledin J, Kjellén L

J. Histochem. Cytochem. 69 (1) 49-60 [2021-01-00; online 2020-11-20]

Year 2020

Lysophosphatidic Acid-Mediated GPR35 Signaling in CX3CR1+ Macrophages Regulates Intestinal Homeostasis.

Kaya B, Doñas C, Wuggenig P, ..., Villablanca EJ, Niess JH

Cell Rep 32 (5) 107979 [2020-08-04; online 2020-08-07]

zOPT: an open source optical projection tomography system and methods for rapid 3D zebrafish imaging.

Zhang H, Waldmann L, Manuel R, ..., Haitina T, Allalou A

Biomed. Opt. Express 11 (8) 4290-4305 [2020-08-01; online 2020-07-15]

BioImage Informatics [Technology development] Bioinformatics Support for Computational Resources [Service] Genome Engineering Zebrafish [Service]

Translating GWAS-identified loci for cardiac rhythm and rate using an in vivo image- and CRISPR/Cas9-based approach

von der Heyde B, Emmanouilidou A, Mazzaferro E, ..., Brooke HL, den Hoed M

Sci Rep 10 (1) 11831 [2020-07-16; online 2020-07-16]

BioImage Informatics [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Genome Engineering Zebrafish [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service]

Amyloid precursor protein-b facilitates cell adhesion during early development in zebrafish.

Banote RK, Chebli J, Şatır TM, ..., Abramsson A, Zetterberg H

Sci Rep 10 (1) 10127 [2020-06-23; online 2020-06-23]

Genome Engineering Zebrafish [Collaborative] Integrated Microscopy Technologies Gothenburg [Service]

In-plate toxicometabolomics of single zebrafish embryos.

Ribbenstedt A, Posselt M, Brunius C, Benskin JP

Mol Omics 16 (3) 185-194 [2020-06-01; online 2020-03-19]

Bioinformatics Support for Computational Resources [Service] Genome Engineering Zebrafish [Service]

Behavioral Characterization of dmrt3a Mutant Zebrafish Reveals Crucial Aspects of Vertebrate Locomotion through Phenotypes Related to Acceleration.

Del Pozo A, Manuel R, Iglesias Gonzalez AB, ..., Kullander K, Boije H

eNeuro 7 (3) ENEURO.0047-20.2020 [2020-05-18; online 2020-05-18]

BioImage Informatics [Service] Bioinformatics Support for Computational Resources [Service] Genome Engineering Zebrafish [Service]

Trade-off between somatic and germline repair in a vertebrate supports the expensive germ line hypothesis.

Chen HY, Jolly C, Bublys K, Marcu D, Immler S

Proc. Natl. Acad. Sci. U.S.A. 117 (16) 8973-8979 [2020-04-21; online 2020-04-03]

Bioinformatics Support for Computational Resources [Service] Genome Engineering Zebrafish [Service]

Low concentrations of the benzodiazepine drug oxazepam induce anxiolytic effects in wild-caught but not in laboratory zebrafish.

Vossen LE, Červený D, Sen Sarma O, ..., Brodin T, Winberg S

Sci. Total Environ. 703 (-) 134701 [2020-02-10; online 2019-11-01]

Integrative discovery of treatments for high-risk neuroblastoma.

Almstedt E, Elgendy R, Hekmati N, ..., Krona C, Nelander S

Nat Commun 11 (1) 71 [2020-01-03; online 2020-01-03]

Developmental exposure to a human relevant mixture of endocrine disruptors alters metabolism and adipogenesis in zebrafish (Danio rerio).

Mentor A, Brunström B, Mattsson A, Jönsson M

Chemosphere 238 (-) 124584 [2020-01-00; online 2019-08-13]

Circadian regulation of phosphodiesterase 6 genes in zebrafish differs between cones and rods: Implications for photopic and scotopic vision.

Abalo XM, Lagman D, Heras G, ..., Eggert J, Larhammar D

Vision Res. 166 (-) 43-51 [2020-01-00; online 2019-12-16]

Year 2019

Transcriptional study of appetite regulating genes in the brain of zebrafish (Danio rerio) with impaired leptin signalling.

Ahi EP, Brunel M, Tsakoumis E, Schmitz M

Sci Rep 9 (1) 20166 [2019-12-27; online 2019-12-27]

Zebrafish embryo as a replacement model for initial biocompatibility studies of biomaterials and drug delivery systems.

Rothenbücher TSP, Ledin J, Gibbs D, ..., Persson C, Hulsart-Billström G

Acta Biomater 100 (-) 235-243 [2019-12-00; online 2019-10-01]

Boldness in Male and Female Zebrafish ( Danio rerio) Is Dependent on Strain and Test.

Mustafa A, Roman E, Winberg S

Front. Behav. Neurosci. 13 (-) 248 [2019-11-19; online 2019-11-19]

The ALK-1/SMAD/ATOH8 axis attenuates hypoxic responses and protects against the development of pulmonary arterial hypertension.

Morikawa M, Mitani Y, Holmborn K, ..., Heldin CH, Miyazono K

Sci Signal 12 (607) eaay4430 [2019-11-12; online 2019-11-12]

Skeletal Mineralization in Association with Type X Collagen Expression Is an Ancestral Feature for Jawed Vertebrates.

Debiais-Thibaud M, Simion P, Ventéo S, ..., Mazan S, Haitina T

Mol. Biol. Evol. 36 (10) 2265-2276 [2019-10-01; online 2019-07-05]

Bioinformatics Support for Computational Resources [Service] Genome Engineering Zebrafish [Service]

TAF1, associated with intellectual disability in humans, is essential for embryogenesis and regulates neurodevelopmental processes in zebrafish.

Gudmundsson S, Wilbe M, Filipek-Górniok B, ..., Annerén G, Bondeson M

Sci Rep 9 (1) 10730 [2019-07-24; online 2019-07-24]

BioImage Informatics [Collaborative] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] Clinical Genomics Uppsala [Collaborative] Genome Engineering Zebrafish [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

The effects of male social environment on sperm phenotype and genome integrity.

Silva WTAF, Sáez-Espinosa P, Torijo-Boix S, ..., Gómez-Torres MJ, Immler S

J. Evol. Biol. 32 (6) 535-544 [2019-06-00; online 2019-03-25]

Selection for longer lived sperm within ejaculate reduces reproductive ageing in offspring.

Alavioon G, Cabrera Garcia A, LeChatelier M, Maklakov AA, Immler S

Evolution Letters 3 (2) 198-206 [2019-04-00; online 2019-02-14]

Peri-arterial specification of vascular mural cells from naïve mesenchyme requires Notch signaling.

Ando K, Wang W, Peng D, ..., Mochizuki N, Betsholtz C

Development 146 (2) dev165589 [2019-01-25; online 2019-01-25]

Year 2017

Haploid selection within a single ejaculate increases offspring fitness

Alavioon G, Hotzy C, Nakhro K, ..., Maklakov AA, Immler S

Proc Natl Acad Sci USA 114 (30) 8053-8058 [2017-07-25; online 2017-07-11]

Genome Engineering Zebrafish [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

Paternal personality and social status influence offspring activity in zebrafish.

Zajitschek S, Herbert-Read JE, Abbasi NM, Zajitschek F, Immler S

BMC Evol. Biol. 17 (1) 157 [2017-07-03; online 2017-07-03]

The Influence of Hydroxyapatite Nanoparticle Morphology on Embryonic Development in a Zebrafish Exposure Model.

Pujari-Palmer S, Lu X, Karlsson Ott M

Nanomaterials (Basel) 7 (4) - [2017-04-22; online 2017-04-22]

Year 2016

Zebrafish (Danio rerio) behaviour is largely unaffected by elevated pCO2.

Vossen LE, Jutfelt F, Cocco A, Thörnqvist P, Winberg S

Conserv Physiol 4 (1) cow065 [2016-12-29; online 2016-12-29]

A high-throughput functional genomics workflow based on CRISPR/Cas9-mediated targeted mutagenesis in zebrafish.

Varshney GK, Carrington B, Pei W, ..., Sood R, Burgess SM

Nat Protoc 11 (12) 2357-2375 [2016-12-00; online 2016-10-27]

Genome Engineering Zebrafish [Technology development]

Developmental exposure to progestins causes male bias and precocious puberty in zebrafish (Danio rerio).

Svensson J, Mustafa A, Fick J, Schmitz M, Brunström B

Aquat. Toxicol. 177 (-) 316-323 [2016-08-00; online 2016-06-14]

Evolution and expression of the phosphodiesterase 6 genes unveils vertebrate novelty to control photosensitivity.

Lagman D, Franzén IE, Eggert J, Larhammar D, Abalo XM

BMC Evol. Biol. 16 (1) 124 [2016-06-13; online 2016-06-13]

Genome Engineering Zebrafish [Technology development]

Fish from Head to Tail: The 9th European Zebrafish Meeting in Oslo.

Griffiths G, Müller F, Ledin J, ..., Press CM, Aleström P

Zebrafish 13 (2) 132-137 [2016-04-00; online 2016-02-09]

BMP Sustains Embryonic Stem Cell Self-Renewal through Distinct Functions of Different Krüppel-like Factors.

Morikawa M, Koinuma D, Mizutani A, ..., Heldin CH, Miyazono K

Stem Cell Reports 6 (1) 64-73 [2016-01-12; online 2016-01-16]

Characterization and Expression of the Zebrafish qki Paralogs.

Radomska KJ, Sager J, Farnsworth B, ..., Jazin E, Emilsson LS

PLoS ONE 11 (1) e0146155 [2016-01-04; online 2016-01-04]

CRISPRz: a database of zebrafish validated sgRNAs.

Varshney GK, Zhang S, Pei W, ..., Sood R, Burgess SM

Nucleic Acids Res. 44 (D1) D822-D826 [2016-01-04; online 2015-10-04]

Genome Engineering Zebrafish [Technology development]

Year 2015

Zebrafish: A possible tool to evaluate bioactive ions.

Montazerolghaem M, Nyström L, Engqvist H, Karlsson Ott M

Acta Biomater 19 (-) 10-14 [2015-06-00; online 2015-03-17]

Combination effects of AHR agonists and Wnt/β-catenin modulators in zebrafish embryos: Implications for physiological and toxicological AHR functions.

Wincent E, Stegeman JJ, Jönsson ME

Toxicol. Appl. Pharmacol. 284 (2) 163-179 [2015-04-15; online 2015-02-21]

Defects of CRB2 cause steroid-resistant nephrotic syndrome.

Ebarasi L, Ashraf S, Bierzynska A, ..., Hildebrandt F, Majumdar A

Am. J. Hum. Genet. 96 (1) 153-161 [2015-01-08; online 2015-01-06]

Year 2014

Short-term variation in sperm competition causes sperm-mediated epigenetic effects on early offspring performance in the zebrafish.

Zajitschek S, Hotzy C, Zajitschek F, Immler S

Proc. Biol. Sci. 281 (1785) 20140422 [2014-06-22; online 2014-05-03]

Year 2013

Spinal deformity in aged zebrafish is accompanied by degenerative changes to their vertebrae that resemble osteoarthritis.

Hayes AJ, Reynolds S, Nowell MA, ..., Caterson B, Hammond CL

PLoS ONE 8 (9) e75787 [2013-09-24; online 2013-09-24]

Expression of chondroitin/dermatan sulfate glycosyltransferases during early zebrafish development.

Filipek-Górniok B, Holmborn K, Haitina T, ..., Kreuger J, Ledin J

Dev. Dyn. 242 (8) 964-975 [2013-08-00; online 2013-06-18]

Circadian regulation of melanization and prokineticin homologues is conserved in the brain of freshwater crayfish and zebrafish.

Noonin C, Watthanasurorot A, Winberg S, Söderhäll I

Dev. Comp. Immunol. 40 (2) 218-226 [2013-06-00; online 2013-03-19]

Genome Engineering Zebrafish NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure

Year 2012

On the roles and regulation of chondroitin sulfate and heparan sulfate in zebrafish pharyngeal cartilage morphogenesis.

Holmborn K, Habicher J, Kasza Z, ..., Kreuger J, Ledin J

J. Biol. Chem. 287 (40) 33905-33916 [2012-09-28; online 2012-08-06]