Publications
We believe in disseminating research products of all kinds. We pre-print all work before publication and we highlight pre-printed work that is under review, when appropriate. We share our slide decks and posters, and we collect slides from workshops that Jordan has chaired and publish them to increase accessibility (with permission). We also like to share other things we’ve learned along the way with the hope that it will be useful to others.
Ward Lab publications in National Library of Medicine's PubMed database
Peer reviewed publications (* denotes equal contribution)
Vo AA, Levenson MT, Ragle JM, Ward JD. 2021. Efficient generation of a single-copy eft-3p::TIR1::F2A:: BFP::AID*::NLS allele in the C. elegans ttTi5605 insertion site through recombination-mediated cassette exchange. MicroPubl Biol doi: 10.17912/micropub.biology.000425 [Pubmed]
Morrison KN, Uyehara CM, Ragle JM, Ward JD, Shakes DC. 2021. MFP1/MSD-1 and MFP2/NSPH-2 co-localize with MSP during C. elegans spermatogenesis. MicroPubl Biol doi: 10.17912/micropub.biology.000427. [Pubmed]
Ashley GE, Duong T, Levenson MT, Martinez MAQ, Johnson LC, Hibshman JD, Saeger HN, Palmisano NJ, Doonan R, Martinez-Mendez R, Davidson BR, Zhang W, Ragle JM, Medwig-Kinney TN, Sirota SS, Goldstein B, Matus DQ, Dickinson DJ, Reiner DJ, Ward JD. 2021. An expanded auxin-inducible degron toolkit for Caenorhabditis elegans. Genetics Mar 31;217(3). doi: 10.1093/genetics/iyab006 [Pubmed]
Ragle JM, Aita AL, Morrison KN, Martinez-Mendez R, Saeger HN, Ashley GA, Johnson LC, Schubert KA, Shakes DC, Ward JD. 2020. The conserved molting/circadian rhythm regulator NHR-23/NR1F1 serves as an essential co-regulator of C. elegans spermatogenesis. Development. 147(22):dev193862 [Pubmed]
Martinez MAQ, Kinney BA, Medwig-Kinney TN, Ashley G, Ragle JM, Johnson L, Aguilera J, Hammell CM, Ward JD, Matus DQ. Rapid Degradation of Caenorhabditis elegans Proteins at Single-Cell Resolution with a Synthetic Auxin. 2020. G3 (Bethesda). Jan 7;10(1):267-280. doi: 10.1534/g3.119.400781 [Pubmed]
Monsalve GC, Yamamoto KR, Ward JD. 2019. A New Tool for Inducible Gene Expression in Caenorhabditis elegans. Genetics 211(2):419-430 [Pubmed]
Ratnappan R, Ward JD, Yamamoto KR, Ghazi A. 2016. Nuclear hormone receptors as mediators of metabolic adaptability following reproductive perturbations. Worm. 5(1):e1151609. doi: 10.1080/21624054.2016.1151609 [Pubmed]
Zhang L, Ward JD, Cheng Z, Dernburg AF. 2015. The auxin-inducible degradation (AID) system enables versatile conditional protein depletion in C. elegans. Development 142(24):4374-84 [Pubmed]
Ward JD. Importing a genetic toolkit from C. elegans into parasitic nematodes. 2015. Genetics. 201(4):1279-94 [Pubmed]
Ward JD. 2015. Rapid and Precise Engineering of the Caenorhabditis elegans Genome with Lethal Mutation Co-conversion and Inactivation of NHEJ Repair. Genetics 199(2):363-77 [Pubmed]
Taylor MRG, Špírek M, Chaurasiya KR, Ward JD, Carzaniga R, Yu X, Egelman EH, Collinson LM, Rueda D, Krejci L, Boulton SJ. 2015. Rad51 Paralogs Remodel Pre-synaptic Rad51 Filaments to Stimulate Homologous Recombination. Cell 162(2):271-286 [Pubmed]
Ratnappan R, Amrit FR, Chen SW, Gill H, Holden K, Ward J, Yamamoto KR, Olsen CP, Ghazi A. 2014. Germline Signals Deploy NHR-49 to Modulate Fatty-Acid β-Oxidation and Desaturation in Somatic Tissues of C. elegans. PLoS Genetics 2014 10(12):e1004829 [Pubmed]
Ward JD, Yamamoto KR, Asahina M. 2014. SUMO as a nuclear hormone receptor effector: New insights into combinatorial transcriptional regulation. Worm doi: 10.4161/worm.29317 [Pubmed]
Ward JD, Mullaney B, Schiller BJ, He LD, Petnic SE, Couillault C, Pujol N, Bernal TU, Van Gilst MR, Ashrafi K, Ewbank JJ, Yamamoto KR. 2014. Defects in the C. elegans acyl‑CoA synthase, acs‑3, and nuclear hormone receptor, nhr‑25, cause sensitivity to distinct, but overlapping stresses. PLoS ONE 9(3):e92552 [Pubmed]
Ward JD, Bojanala N, Bernal T, Ashrafi K, Asahina M, Yamamoto KR. 2013. Sumoylated NHR-25/NR5A regulates cell fate during C. elegans vulval development. PLoS Genetics. 9(12), e1003992 [Pubmed]
Dickinson DJ, Ward JD, Reiner DJ, Goldstein B. 2013. Engineering the Caenorhabditis elegans genome using Cas9-triggered homologous recombination. Nat Methods 10(10):1028-34 [Pubmed]
O'Neil NJ, Martin JS, Youds JL, Ward JD, Petalcorin MI, Rose AM, Boulton SJ. 2013. Joint molecule resolution requires the redundant activities of MUS-81 and XPF-1 during C. elegans meiosis. PLoS Genet (7):e1003582 [Pubmed]
Taubert S, Ward JD, Yamamoto KR. 2011. Nuclear hormone receptors in nematodes: Evolution and function. Mol Cell Endocrinol 334(1-2): 49-55 [Pubmed]
Ward JD, Muzzini DM, Petalcorin MI, Martinez-Perez E, Martin JS, Plevani P, Cassata G, Marini F, Boulton SJ.
2010. Overlapping Mechanisms Promote Postsynaptic RAD-51 Filament Disassembly during Meiotic Double-Strand Break Repair. Mol Cell 37(2): 259-272 [Pubmed]
*Article highlighted in Mol Cell (2010) 37(2):157-8
Youds JL, Mets DG, McIlwraith MJ, Martin JS, Ward JD, ONeil NJ, Rose AM, West SC, Meyer BJ, Boulton SJ.
2010. RTEL-1 Enforces Meiotic Crossover Interference and Homeostasis. Science 327(5970): 1254-8 [Pubmed]
Adamo A, Collis SJ, Adelman CA, Silva N, Horejsi Z, Ward JD, Martinez-Perez E, Boulton SJ, La Volpe A.
2010. Preventing nonhomologous end joining suppresses DNA repair defects of Fanconi anemia. Mol Cell 39(1): 25-35 [Pubmed]
Macritchie DM, Ward JD, Nevesinjac AZ, Raivio TL. 2008. Activation of the Cpx Envelope Stress Response Down-regulates Expression of Several LEE-encoded genes in Enteropathogenic Escherichia coli. Infection and Immunity 76:1465-75 [Pubmed]
Barber LJ, Youds JL, Ward JD, McIlwraith MJ, O'Neil NJ, Petalcorin MI, Martin JS, Collis SJ, Cantor SB, Auclair M, Tissenbaum H, West SC, Rose AM, Boulton SJ. 2008. RTEL1 maintains genomic stability by suppressing homologous recombination. Cell. 135(2):261-71 [Pubmed]
Adamo A, Montemauri P, Silva N, Ward JD, Boulton SJ, La Volpe A. 2008. BRC-1 acts in the inter-sister pathway of meiotic double strand break repair EMBO Reports 9: 287-292 [Pubmed]
Youds JL, Barber LJ, Ward JD, Collis SJ, O'Neil NJ, Boulton SJ, Rose AM. 2008. DOG-1 is the Caenorhabditis elegans BRIP1/FANCJ homolog and functions in interstrand cross-link repair. Molecular and Cellular Biology 28:1470-9 [Pubmed]
Goodyer W, Kaitna S, Couteau F, Ward JD, Boulton SJ, Zetka M. 2008. Distinct requirements for HTP-3 in the transition to a meiotic chromosome structure competent for DSB formation and homolog pairing In C. elegans. Developmental Cell 14:263-74 [Pubmed]
Hobson N, Price NL, Ward JD, Raivio TL. 2008. Generation of a restriction minus enteropathogenic Escherichia coli E2348/69 strain that is efficiently transformed with large, low copy plasmids. BMC Microbiol 8, 134 [Pubmed]
Ward JD, Barber LJ, Petalcorin MI, Yanowitz J, Boulton SJ. 2007. Replication blocking lesions present a unique substrate for homologous recombination. EMBO Journal 14: 3384-96 [Pubmed]
Collis SJ, Barber LJ, Clark AJ, Martin JS, Ward JD, Boulton SJ. 2007. HCLK2 is essential for the mammalian S-phase checkpoint and impacts on Chk1 stability. Nature Cell Biology 4: 391-401 [Pubmed]
Collis SJ, Barber LJ, Ward JD, Martin JS, Boulton SJ. 2006. C. elegans FANCD2 responds to replication stress and functions in interstrand cross-link repair. DNA Repair 11: 1398-406 [Pubmed]
Other publications
Ward JD. 2016. Spotlight on CRISPR in Strongyloides Parasitic Nematodes. Trends in Parasitology. doi: 10.1016/j.pt.2017.11.005 PDF
Calarco J, Chiu H, Dickinson DJ, Friedland AE, Lee J, Lo TW, Schwartz H, Tzur Y, Ward JD. 2013. Workshop review: Engineered nucleases for genome editing in nematodes. Worm Breeder’s Gazette. 19(3): 26 PDF
Peer reviewed publications (* denotes equal contribution)
Vo AA, Levenson MT, Ragle JM, Ward JD. 2021. Efficient generation of a single-copy eft-3p::TIR1::F2A:: BFP::AID*::NLS allele in the C. elegans ttTi5605 insertion site through recombination-mediated cassette exchange. MicroPubl Biol doi: 10.17912/micropub.biology.000425 [Pubmed]
Morrison KN, Uyehara CM, Ragle JM, Ward JD, Shakes DC. 2021. MFP1/MSD-1 and MFP2/NSPH-2 co-localize with MSP during C. elegans spermatogenesis. MicroPubl Biol doi: 10.17912/micropub.biology.000427. [Pubmed]
Ashley GE, Duong T, Levenson MT, Martinez MAQ, Johnson LC, Hibshman JD, Saeger HN, Palmisano NJ, Doonan R, Martinez-Mendez R, Davidson BR, Zhang W, Ragle JM, Medwig-Kinney TN, Sirota SS, Goldstein B, Matus DQ, Dickinson DJ, Reiner DJ, Ward JD. 2021. An expanded auxin-inducible degron toolkit for Caenorhabditis elegans. Genetics Mar 31;217(3). doi: 10.1093/genetics/iyab006 [Pubmed]
Ragle JM, Aita AL, Morrison KN, Martinez-Mendez R, Saeger HN, Ashley GA, Johnson LC, Schubert KA, Shakes DC, Ward JD. 2020. The conserved molting/circadian rhythm regulator NHR-23/NR1F1 serves as an essential co-regulator of C. elegans spermatogenesis. Development. 147(22):dev193862 [Pubmed]
Martinez MAQ, Kinney BA, Medwig-Kinney TN, Ashley G, Ragle JM, Johnson L, Aguilera J, Hammell CM, Ward JD, Matus DQ. Rapid Degradation of Caenorhabditis elegans Proteins at Single-Cell Resolution with a Synthetic Auxin. 2020. G3 (Bethesda). Jan 7;10(1):267-280. doi: 10.1534/g3.119.400781 [Pubmed]
Monsalve GC, Yamamoto KR, Ward JD. 2019. A New Tool for Inducible Gene Expression in Caenorhabditis elegans. Genetics 211(2):419-430 [Pubmed]
Ratnappan R, Ward JD, Yamamoto KR, Ghazi A. 2016. Nuclear hormone receptors as mediators of metabolic adaptability following reproductive perturbations. Worm. 5(1):e1151609. doi: 10.1080/21624054.2016.1151609 [Pubmed]
Zhang L, Ward JD, Cheng Z, Dernburg AF. 2015. The auxin-inducible degradation (AID) system enables versatile conditional protein depletion in C. elegans. Development 142(24):4374-84 [Pubmed]
Ward JD. Importing a genetic toolkit from C. elegans into parasitic nematodes. 2015. Genetics. 201(4):1279-94 [Pubmed]
Ward JD. 2015. Rapid and Precise Engineering of the Caenorhabditis elegans Genome with Lethal Mutation Co-conversion and Inactivation of NHEJ Repair. Genetics 199(2):363-77 [Pubmed]
Taylor MRG, Špírek M, Chaurasiya KR, Ward JD, Carzaniga R, Yu X, Egelman EH, Collinson LM, Rueda D, Krejci L, Boulton SJ. 2015. Rad51 Paralogs Remodel Pre-synaptic Rad51 Filaments to Stimulate Homologous Recombination. Cell 162(2):271-286 [Pubmed]
Ratnappan R, Amrit FR, Chen SW, Gill H, Holden K, Ward J, Yamamoto KR, Olsen CP, Ghazi A. 2014. Germline Signals Deploy NHR-49 to Modulate Fatty-Acid β-Oxidation and Desaturation in Somatic Tissues of C. elegans. PLoS Genetics 2014 10(12):e1004829 [Pubmed]
Ward JD, Yamamoto KR, Asahina M. 2014. SUMO as a nuclear hormone receptor effector: New insights into combinatorial transcriptional regulation. Worm doi: 10.4161/worm.29317 [Pubmed]
Ward JD, Mullaney B, Schiller BJ, He LD, Petnic SE, Couillault C, Pujol N, Bernal TU, Van Gilst MR, Ashrafi K, Ewbank JJ, Yamamoto KR. 2014. Defects in the C. elegans acyl‑CoA synthase, acs‑3, and nuclear hormone receptor, nhr‑25, cause sensitivity to distinct, but overlapping stresses. PLoS ONE 9(3):e92552 [Pubmed]
Ward JD, Bojanala N, Bernal T, Ashrafi K, Asahina M, Yamamoto KR. 2013. Sumoylated NHR-25/NR5A regulates cell fate during C. elegans vulval development. PLoS Genetics. 9(12), e1003992 [Pubmed]
Dickinson DJ, Ward JD, Reiner DJ, Goldstein B. 2013. Engineering the Caenorhabditis elegans genome using Cas9-triggered homologous recombination. Nat Methods 10(10):1028-34 [Pubmed]
O'Neil NJ, Martin JS, Youds JL, Ward JD, Petalcorin MI, Rose AM, Boulton SJ. 2013. Joint molecule resolution requires the redundant activities of MUS-81 and XPF-1 during C. elegans meiosis. PLoS Genet (7):e1003582 [Pubmed]
Taubert S, Ward JD, Yamamoto KR. 2011. Nuclear hormone receptors in nematodes: Evolution and function. Mol Cell Endocrinol 334(1-2): 49-55 [Pubmed]
Ward JD, Muzzini DM, Petalcorin MI, Martinez-Perez E, Martin JS, Plevani P, Cassata G, Marini F, Boulton SJ.
2010. Overlapping Mechanisms Promote Postsynaptic RAD-51 Filament Disassembly during Meiotic Double-Strand Break Repair. Mol Cell 37(2): 259-272 [Pubmed]
*Article highlighted in Mol Cell (2010) 37(2):157-8
Youds JL, Mets DG, McIlwraith MJ, Martin JS, Ward JD, ONeil NJ, Rose AM, West SC, Meyer BJ, Boulton SJ.
2010. RTEL-1 Enforces Meiotic Crossover Interference and Homeostasis. Science 327(5970): 1254-8 [Pubmed]
Adamo A, Collis SJ, Adelman CA, Silva N, Horejsi Z, Ward JD, Martinez-Perez E, Boulton SJ, La Volpe A.
2010. Preventing nonhomologous end joining suppresses DNA repair defects of Fanconi anemia. Mol Cell 39(1): 25-35 [Pubmed]
Macritchie DM, Ward JD, Nevesinjac AZ, Raivio TL. 2008. Activation of the Cpx Envelope Stress Response Down-regulates Expression of Several LEE-encoded genes in Enteropathogenic Escherichia coli. Infection and Immunity 76:1465-75 [Pubmed]
Barber LJ, Youds JL, Ward JD, McIlwraith MJ, O'Neil NJ, Petalcorin MI, Martin JS, Collis SJ, Cantor SB, Auclair M, Tissenbaum H, West SC, Rose AM, Boulton SJ. 2008. RTEL1 maintains genomic stability by suppressing homologous recombination. Cell. 135(2):261-71 [Pubmed]
Adamo A, Montemauri P, Silva N, Ward JD, Boulton SJ, La Volpe A. 2008. BRC-1 acts in the inter-sister pathway of meiotic double strand break repair EMBO Reports 9: 287-292 [Pubmed]
Youds JL, Barber LJ, Ward JD, Collis SJ, O'Neil NJ, Boulton SJ, Rose AM. 2008. DOG-1 is the Caenorhabditis elegans BRIP1/FANCJ homolog and functions in interstrand cross-link repair. Molecular and Cellular Biology 28:1470-9 [Pubmed]
Goodyer W, Kaitna S, Couteau F, Ward JD, Boulton SJ, Zetka M. 2008. Distinct requirements for HTP-3 in the transition to a meiotic chromosome structure competent for DSB formation and homolog pairing In C. elegans. Developmental Cell 14:263-74 [Pubmed]
Hobson N, Price NL, Ward JD, Raivio TL. 2008. Generation of a restriction minus enteropathogenic Escherichia coli E2348/69 strain that is efficiently transformed with large, low copy plasmids. BMC Microbiol 8, 134 [Pubmed]
Ward JD, Barber LJ, Petalcorin MI, Yanowitz J, Boulton SJ. 2007. Replication blocking lesions present a unique substrate for homologous recombination. EMBO Journal 14: 3384-96 [Pubmed]
Collis SJ, Barber LJ, Clark AJ, Martin JS, Ward JD, Boulton SJ. 2007. HCLK2 is essential for the mammalian S-phase checkpoint and impacts on Chk1 stability. Nature Cell Biology 4: 391-401 [Pubmed]
Collis SJ, Barber LJ, Ward JD, Martin JS, Boulton SJ. 2006. C. elegans FANCD2 responds to replication stress and functions in interstrand cross-link repair. DNA Repair 11: 1398-406 [Pubmed]
Other publications
Ward JD. 2016. Spotlight on CRISPR in Strongyloides Parasitic Nematodes. Trends in Parasitology. doi: 10.1016/j.pt.2017.11.005 PDF
Calarco J, Chiu H, Dickinson DJ, Friedland AE, Lee J, Lo TW, Schwartz H, Tzur Y, Ward JD. 2013. Workshop review: Engineered nucleases for genome editing in nematodes. Worm Breeder’s Gazette. 19(3): 26 PDF