Limb regeneration and development
Genomics and genetic engineering
Limb regeneration and development
Lovely, A. M., Duerr, T. J., Qiu, Q., Galvan, S., Voss, S. R., & Monaghan, J. R. (2022). Wnt Signaling Coordinates the Expression of Limb Patterning Genes During Axolotl Forelimb Development and Regeneration. Frontiers in Cell and Developmental Biology, 10, 814250-814250. PMID: 35531102
Duerr, Timothy J., et al. “A constitutively expressed fluorescent ubiquitination-based cell-cycle indicator (FUCCI) in axolotls for studying tissue regeneration.” Development 149.6 (2022): dev199637. PMID: 35266986
Duerr, Timothy J., and James R. Monaghan. “Regeneration: A matter of nerves.” Elife 10 (2021): e75629. PMID: 34939564
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
May-Zhang AA, Tycksen E, Southard-Smith AN, Deal KK, Benthal JT, Buehler DP, Adam M, Simmons AJ, Monaghan JR, Matlock BK, Flaherty DK. Combinatorial transcriptional profiling of mouse and human enteric neurons identifies shared and disparate subtypes in situ. Gastroenterology. 2021 Feb 1;160(3):755-70. PMID: 33010250
Jensen, T. B., Giunta, P., Schultz, N. G., Griffiths, J., Duerr, T. J., Kyeremateng, Y., … & Monaghan, J. R. (2021). Lung injury in axolotl salamanders induces an organ‐wide proliferation response. Developmental Dynamics.
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
Xia, J., Yang, H., Mu, M., Micovic, N., Poskanzer, K. E., Monaghan, J. R., & Clark, H. A. (2021). Imaging in vivo acetylcholine release in the peripheral nervous system with a fluorescent nanosensor. Proceedings of the National Academy of Sciences, 118(14). PMID: 33795516
Duerr TJ, Comellas E, Jeon EK, Farkas JE, Joetzjer M, Garnier J, Shefelbine SJ, Monaghan JR. 3D visualization of macromolecule synthesis. Elife. 2020 Oct 14;9:e60354. doi: 10.7554/eLife.60354. PMID: 33051003
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 and editorials
Duerr, T. J., & Monaghan, J. R. (2021). Regeneration: A matter of nerves. Elife, 10, e75629. PMID: 34939564
McCusker, C., Monaghan, J., & Whited, J. (2021). Salamander models for elucidating mechanisms of developmental biology, evolution, and regeneration: Part one. Developmental Dynamics, 250(6), 750-752. PMID: 34060711
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