Michael Shapira

Emergence of dauer larvae in Caenorhabditis elegans disrupts continuity of host-microbiome interactions

Rahul Bodkhe, Kenneth Trang, Sabrina Hammond, Da Kyung Jung, Michael Shapira

FEMS Microbiology Ecology (2024) | Article

Video Summery of Choi et al.,: Investigating the Role of Gut Microbes in Aging and Disease Using Tiny Worms

Rebecca Choi, Rahul Bodkhe, Barbara Pees, Dan Kim, Maureen Berg, David Monnin, Juhyun Cho, Vivek Narayan, Ethan Deller, Cathy Savage-Dunn and Michael Shapira

SciTube (2024) | Article

An Enterobacteriaceae bloom in aging animals is restrained by the gut microbiome

Rebecca Choi, Rahul Bodkhe, Barbara Pees, Dan Kim, Maureen Berg, David Monnin, Juhyun 3 Cho, Vivek Narayan, Ethan Deller, Cathy Savage-Dunn and Michael Shapira

Aging Biology 2: (2024) | Article

Identification of intestinal mediators of Caenorhabditis elegans DBL-1/BMP immune signaling shaping gut microbiome composition

Kenneth Trang, Barbara Pees, Siavash Karimzadegan, Rahul Bodkhe, Sabrina Hammond, Michael Shapira

BioRXiv /2023.10.26.564221: (2023) Abstract | Article

[ Request by emailing mshapira@berkeley.edu ]

Microbiome remodeling through bacterial competition and host behavior enables rapid adaptation to environmental toxins

Dan J Kim, Olga Maria Pérez-Carrascal, Catherin DeSousa, Da Kyung Jung, Seneca Bohley, Lila Wijaya, Kenneth Trang, Sarah El Khoury, Michael Shapira

BioXiv (2023) | Article

Compost microcosms as microbially diverse natural-like environments for microbiome research in C. elegans.

Trang, K., Bodkhe, R. and Shapira, M.

Journal of Visualized Experiments 187: (2022) Abstract | Article

[ Request by emailing mshapira@berkeley.edu ]

Host Preference of Beneficial Commensals in a Microbially-Diverse Environment

Olga M Pérez-Carrascal, Rebecca Choi, Méril Massot, Barbara Pees, Vivek Narayan and Michael Shapira

Frontiers in Cellular and Infection Microbiology 12: 795343 (2022) Abstract | Article

mir-71 mediates age-dependent opposing contributions of the stress-activated kinase KGB-1 in Caenorhabditis elegans

Cyrus Ruediger, Siavash Karimzadegan, Sonya Lin, Michael Shapira

Genetics (2021) Abstract | Article

Interactions with a Complex Microbiota Mediate a Trade-Off between the Host Development Rate and Heat Stress Resistance

Samuel Slowinski, Isabella Ramirez, Vivek Narayan, Medha Somayaji, Maya Para, Sarah Pi, Niharika Jadeja, Siavash Karimzadegan, Barbara Pees and Michael Shapira

Microorganisms 8: 1781 (2020) Abstract | Article

[ Request by emailing mshapira@berkeley.edu ]

CeMbio - The Caenorhabditis elegans Microbiome Resource

Philipp Dirksen, Adrien Assié, Johannes Zimmermann, Fan Zhang, Adina-Malin Tietje, Sarah Arnaud Marsh, Marie-Anne Félix, Michael Shapira, Christoph Kaleta, Hinrich Schulenburg, Buck Samuel

G3 (2020) Abstract | Article

[ Request by emailing mshapira@berkeley.edu ]

Extra-intestinal regulation of the gut microbiome: The case of C. elegans TGFβ/SMA signalling

Rebecca Choi, Dan Kim, Stacy Li, Meril Massot, Vivek Narayan, Samuel Slowinski, Hinrich Schulenburg, Michael Shapira

Book chapter in Cellular Dialogues in the Holobiont, in press (2020)

[ Request by emailing mshapira@berkeley.edu ]

TGFβ/BMP signaling determines abundance and contributions of C. elegans gut commensals

Maureen Berg, David Monnin, Juhyun Cho, Lydia Nelson, Alex Crits-Christoph, and Michael Shapira

Nature Communications 10(1): 604 (2019) Abstract | Article

Integration of Stress Signaling in Caenorhabditis elegans Through Cell Non-autonomous Contributions of the JNK Homolog KGB-1

Limeng Liu, Cyrus Ruediger and Michael Shapira

Genetics 210(4): 1317-1328 (2018) Abstract | Article

Caenorhabditis elegans as a Model for Microbiome Research

Zhang F, Berg M, Dierking K, Félix MA, Shapira M, Samuel BS, Schulenberg H.

Frontiers in Microbiology 8: 485 (2017) Abstract | Article

Host-microbiota interactions in Caenorhabditis elegans and their significance

Shapira, M.

Current Opinion in Microbiology 38: 142-147 (2017) Abstract | Article

Adaptation from Within or from Without: A Reply to Rodrigo et al.

Shapira, M.

Trends in Ecology and Evolution 32(2): 85 (2017) Abstract | Article

FOS-1 functions as a transcriptional activator downstream of the C. elegans JNK homolog KGB-1

Zhang Z, Liu L, Twumasi-Boateng K, Block DH, Shapira M.

Cell Signal (2016) Abstract

Host-Specific Functional Significance of Caenorhabditis Gut Commensals

Berg M, Zhou XY, Shapira M.

Frontiers in Microbiology 7: 1622 (2016) Abstract | Article

Gut Microbiotas and Host Evolution: Scaling Up Symbiosis

Shapira, M.

Trends in Ecology and Evolution 31(7): 539-549 (2016) Abstract | Article

The nematode Caenorhabditis elegans survives subfreezing temperatures in an isochoric system

Mikus H, Miller A, Nastase G, Serban A, Shapira M, Rubinsky B

Biochem Biophys Res Commun 477(3): 410-405 (2016) Abstract | Article

Assembly of the Caenorhabditis elegans gut microbiota from diverse soil microbial environments

Berg M, Stenuit B, Ho J, Wang A, Parke C, Knight M, Alvarez-Cohen L, Shapira M.

ISME J 10(8): 1998-2009 (2016) Abstract | Article

GATA transcription factors as tissue-specific master regulators for induced responses

Block, D.H. and Shapira, M.

Worm 4(4): e1118607 (2015) Abstract | Article

The Developmental Intestinal Regulator ELT-2 Controls p38-Dependent Immune Responses in Adult C. elegans

Block DH, Twumasi-Boateng K, Kang HS, Carlisle JA, Hanganu A, Lai TY, Shapira M.

Plos Genetics 11(5): e1005265 (2015) Abstract | Article

Automated separation of C. elegans variably colonized by a bacterial pathogen

Twumasi-Boateng, K., Berg, M., and Shapira, M

J Vis Exp Mar 21: 85 (2014) Abstract | Article

Association with soil bacteria enhances p38-dependent infection resistance in C. elegans

Montalvo-Katz, S., Huang, H. Appel, M.D., Berg, M. and Shapira, M

Infection and Immunity 81(2): 514-20 (2013) Abstract | Article

An age-dependent reversal in the protective capacities of JNK signaling shortens C. elegans lifespan

Twumasi-Boateng, K., Wang, T., Tsai, L., Lee, K.L., Salehpour, A., Bhat, S., Tan, M.W. and Shapira, M.

Aging Cell 11(4): 659-67 (2012) Abstract | Article

Dissociation of immune responses from pathogen colonization supports pattern recognition in C. elegans

Twumasi-Boateng, K. and Shapira, M.

Plos ONE 7(4): e35400 (2012) Abstract | Article

Genetic and molecular analysis of nematode-microbe interactions

Tan, M.W. and Shapira, M.

Cell Microbiol 11(4): 497-507 (2011) Abstract | Article

Stress effects on immunity in vertebrates and invertebrates. In Stress: from molecules to behavior. A comprehensive analysis of the neurobiology of stress responses

Shapira M.

Book. Wiley Publishing (2010)

Genetic analysis of C. elegans innate immunity

Shapira, M. and Tan, M.W.

Methods in Molecular Biology 415: 429-42 (2008) Abstract | Article

C. elegans pgp-5 is involved in resistance to bacterial infection and heavy metal and its regulation requires TIR-1 and a p38 MAP kinase cascade

Kurz, C.L., Shapira, M., Chen, K., Baillie, D.L. and Tan, M.W.

Biochem. Biophys. Res. Commun. 363(2): 438-43 (2007) Abstract | Article

A conserved role for a GATA transcription factor in regulating epithelial innate immune responses

Shapira, M. Hamlin, B.J., Rong, J., Chen, K., Ronen, M. and Tan, M.W.

PNAS 103: 14086-14091 (2006) Abstract | Article

Disruption of yeast forkhead-associated cell cycle transcription by oxidative stress

Shapira, M. Segal, E. and Botstein, D.

Mol. Biol. Cell 15: 5659-5669 (2004) | Article

Module Networks: Discovering Regulatory Modules and their Condition Specific Regulators from Gene Expression Data

Segal, E., Shapira, M., Regev, A., Pe’er, D., Botstein, D., Koller, D and Friedman, N.

Nature Genetics 34(2): 166-176 (2003) Abstract

Changes in neuronal acetylcholinesterase gene expression and division of labor in honey bee colonies

Shapira, M, Thompson, C.K., Soreq, H. and Robinson, G.

J Mol Neurosc 17: 1-12 (2001) Abstract | Article

A transcription-activating polymorphism in the ACHE promoter associated with acute sensitivity to anti-acetylcholinesterases

Shapira, M., Tur-Kaspa, I., Bosgraaf, L., Livni, N., Grant, A.D., Grisaru, D., Korner, M., Ebstein, R.P. and Soreq, H.

Hum Mol Gen 9(9): 1273-81 (2000) Abstract | Article

Transgenic engineering of neuromuscular junctions in Xenopus laevis embryos transiently overexpressing key cholinergic proteins

Shapira, M., Seidman, S., Sternfeld, M., Timberg, R., Kaufer, D., Patrick J. and Soreq, H

PNAS 91: 9072-6 (1994) | Article

Selected Publications

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