Publications

Limb regeneration and development

Retina, spinal cord, ovaries, lungs, and skin

Research tool development

Retinoic acid

Genomics and genetic engineering

Reviews

Book chapters

Limb regeneration and development

Voss, S. R., Murrugarra, D., Jensen, T. B., & Monaghan, J. R.  Transcriptional correlates of proximal-distal identify and regeneration timing in axolotl limbs. Comparative Biochemistry and Physiology Part C: Toxicology & Pharmacology.  2017 Oct 26. PMID: 29107037

Márquez-Flórez KM, Monaghan JR, Shefelbine SJ, Ramirez-Martínez A, Garzón-Alvarado DA. A computational model for the joint onset and development. Journal of Theoretical Biology. 2018 Oct 7;454:345-356. PMID: 29653160

Bryant DM, Sousounis D, Farkas JE, Rakhimova AS, Thao N, Guzikowski AR, Monaghan JR, Levin M, and Whited JL. 2017. Repeated removal of developing limb buds permanently reduces appendage size in the highly-regenerative axolotl. Developmental Biology. 424(1):1-9. PMID: 28235582

Farkas JE, Freitas PD, Bryant DM, Whited JL, and Monaghan JR. 2016. Neuregulin-1 signaling is essential for nerve-dependent axolotl limb regeneration. Development. 143:2724-2731. PMID: 27317805

Athipopozhy A, Lehrberg J, Monaghan JR, Gardiner DM, Voss SR. 2014. Characterization of in vitro transcriptional responses of dorsal root ganglia cultured in the presence and absence of blastema cells from regenerating salamander limbs. Regeneration. 1(2):1-10. PMID: 25750744

Monaghan JR, Stier A, Michonneau F, Pasch B, Smith M, Maden M, Seifert AW. 2014. Experimentally induced metamorphosis in axolotls reduces regenerative rate and fidelity. Regeneration. 1(1):2-14. PMID: 27499857

Monaghan JR, Athippozhy A, Seifert AW, Putta S, Stromberg A, Maden M, Gardiner DM, and Voss SR. 2012. Gene expression patterns specific to the regenerating limb of the Mexican axolotl. Biology Open. 1(10):937-948. PMID: 23213371

Zhu W, Pao GM, Satoh A, Cummings G, Monaghan JR, Harkins TT, Bryant SV, Randal Voss S, Gardiner DM, Hunter T. 2012. Activation of germline-specific genes is required for limb regeneration in the Mexican axolotl. Developmental Biology. Oct 1;370(1):42-51. PMID: 22841627

Monaghan JR, Epp L, Putta S, Page RB, Walker JA, Beachy CK, Zhu W, Pao GM, Verma IM, Hunter T, Bryant SV, Gardiner DM, Harkins TT, Voss SR. 2009. Microarray and cDNA sequence analysis of transcription during nerve-dependent limb regeneration. BMC Biology. PMID: 19144100

Other organs

Kim SY, Kundu J, Williams A, Yandulskaya AS, Monaghan JR, Carrier RL, Linhardt RJ. Glycosaminoglycans compositional analysis of Urodele axolotl (Ambystoma mexicanum) and Porcine Retina. Glycoconjugate Journal. 2019 Apr 8. PMID: 30963354

Freitas PD, Lovely AM, Monaghan JR. Investigating Nrg1 signaling in the regenerating axolotl spinal cord using multiplexed FISH. Developmental neurobiology. 2019 Feb 22. PMID: 30793850

Tyler B Jensen, Peter Giunta, Natalie Grace Schulz, Yaa Kyeremateng, Hilary Wong, Adeleso Adesina, James R Monaghan. Neuregulin-1 exerts molecular control over axolotl lung regeneration through ErbB family receptors. 2018 bioRxiv, 258517. Link

Erler P, Sweeney A, and Monaghan JR. 2017. Regulation of injury-induced ovarian regeneration by activation of oogonial stem cells. Stem Cells. 35(1):236-247. PMID:28028909

Lopez D, Lin L, Monaghan JR, Cogle CR, Bova FJ, Maden M, Scott EW. 2014. Mapping hematopoiesis in a fully regenerative vertebrate: the axolotl. Blood. 124(8):1232-1241. PMID: 24802774

Hui SP, Monaghan JR, Voss SR, Ghosh S. 2013. Expression pattern of Nogo-A, MAG, and NgR in regenerating urodele spinal cord. Developmental Dynamics. 242(7):847-860. PMID: 23592243

Seifert AW, Monaghan JR, Voss SR, Maden M. 2012. Skin regeneration in adult axolotls: a blueprint for scar-free healing in vertebrates. PLoS ONE 7(4): e32875. PMID: 22485136

Research tool development

Timothy J. Duerr, Ester Comellas, Eun Kyung Jeon, Johanna E. Farkas, Marylou Joetzjer, Julien Garnier, Sandra J. Shefelbine, James R. Monaghan. 2020. 3D Visualization of Macromolecule Synthesis. Link

Rajan SG, Gallik KL, Monaghan JR, Uribe RA, Bronner ME, Saxena A.Tracking neural crest cell cycle progression in vivo. Genesis. 2018 Jun;56 (6-7).  PMID: 29956448

Retinoic acid

Jensen TB, Giunta P, Schulz NG, Kyeremateng Y, Wong H, Adesina A, Monaghan JR. Nguyen M, Singhal P, Maden M, Piet JW, Shefelbine SJ, Voss SR, and Monaghan JR. 2017. Retinoic acid receptor regulation of epimorphic and homeostatic regeneration in the axolotl. Development. 144(4):601-611. PMID: 28087637

Monaghan JR and Maden M. 2012. Visualization of retinoic acid signaling in transgenic axolotls during limb development and regeneration. Developmental Biology. Aug. 368(1):63-75. PMID: 22627291

Theodosiou M, Monaghan JR, Spencer ML, Voss SR, Noonan DJ. 2007. Isolation and characterization of Axolotl NPDC-1 and its effects on retinoic acid receptor signaling. Comparative Biochemistry and Physiology. Part B: Biochemistry and Molecular Biology. 147(2):260-270. PMID: 17331771

Genomics and genetic engineering

Flowers GP, Timberlake AT, Mclean KC, Monaghan JR, Crews CM. 2014. Highly efficient targeted mutagenesis in axolotl using Cas9 RNA-guided nuclease. Development. 141(10):2165-2171. PMID: 24802774

Page RB, Monaghan JR, Samuels AK, Smith JJ, Beachy CK, Voss SR. 2007. Microarray analysis identifies keratin loci as sensitive biomarkers for thyroid hormone disruption in the salamander Ambystoma mexicanum. Comparative Biochemistry and Physiology. Part C: Toxicology and Pharmacology. 145(1):15-27. PMID: 16926121

Smith JJ, … Monaghan JR, … Voss SR. 2005. Sal-Site: integrating new and existing ambystomatid salamander research and informational resources. BMC Genomics. 16, 6:181. PMID: 16359543

Putta S, … Monaghan JR, … Voss SR. 2004. From biomedicine to natural history research: EST resources for ambystomatid salamanders. BMC Genomics. 13(5):54. PMID: 15310388

Reviews

Freitas PD, Yandulskaya AS, Monaghan JR. Spinal Cord Regeneration in Amphibians: A Historical Perspective. Developmental neurobiology. 2019 Feb 6. PMID: 30725532

Farkas JE and Monaghan JR. 2017. A brief history of the study of nerve dependent regeneration. Neurogenesis, Apr 10;4(1):e1302216. PMID: 28459075

Erler P and Monaghan JR. 2015. The link between injury-induced stress and regenerative phenomena: A cellular and genetic synopsis. BBA – Gene Regulatory Mechanisms. Apr;1849(4):454-461. PMID: 25088176

Seifert AW, Monaghan JR, Smith DM, Pasch B, Stier AC, Michonneau F, Maden M. 2012. The influence of fundamental traits on mechanisms controlling limb regeneration. Biological Reviews. 87(2):330-345. PMID: 21929739

Book chapters

Maden M., Chambers D., Monaghan J. 2017. Retinoic acid and the genetics of positional information. Book chapter in Regenerative Engineering and Developmental Biology. CRC Press. 185-204. Link

Farkas JE, Erler P, Freitas PD, Sweeney A, and Monaghan JR. 2016. Organ and appendage regeneration in the axolotl. Book chapter in Regenerative Medicine – from Protocol to Patient, 3rd Edition. Springer Publishers. 223-247. Link

Farkas JE and Monaghan JR. 2015. Housing and maintenance of Ambystoma mexicanum, The Mexican axolotl. Methods in Molecular Biology. In Salamanders in Regeneration Research. Vol 1290: 27-46. PMID: 25740475

Monaghan JR and Maden M. 2013. Cellular plasticity during vertebrate appendage regeneration. Current Topics in Microbiol and Immunology. Vol. 367:53-74. PMID: 23239234