ppGpp coordinates nucleotide and amino-acid aynthesis in E. coli during starvation.

Wang B., Grant R.A., Laub M.T.

(2020) Mol Cell, S1097-2765: 30548-7

Stress can induce transcription of toxin-antitoxin systems without activating toxin.

LeRoux M., Culviner P.H., Liu Y.J., Littlehale M.L., Laub M.T.

(2020) Mol Cell, 79: 280-292.

 

Constraints on the expansion of paralogous protein families.

McClune C.J., Laub M.T.

(2020) Curr Biol, 30: R460-R464

A simple, cost-effective, and robust method for rRNA depletion in RNA-sequencing studies.

Culviner P.H., Guegler C.K., Laub M.T.

(2020) mBio, 11: e000010-20

A CRISPR interference system for efficient and rapid gene knockdown in Caulobacter crescentus.

Guzzo M., Castro L.K., Reisch C.R., Guo M.S., Laub M.T.

(2020) mBio, 11: e02415-19

An interbacterial toxin inhibits target cell growth by synthesizing (p)ppApp.

Ahmad S., Wang B., Walker M.D., Tran H.R., Stogios P.J., Savchenko A., Grant R.A., McArthur A.G., Laub M.T., Whitney J.C.

(2019) Nature, 575: 674-678

Engineering orthogonal signalling pathways reveals the sparse occupancy of sequence space.

McClune C.J., Alvarez-Buylla A., Voigt C.A., Laub M.T.

(2019) Nature, 574: 702-706

The stringent response inhibits DNA replication initiation in E. coli by modulating supercoiling of oriC.

Kraemer J.A., Sanderlin A.G., Laub M.T.

(2019) MBio, 10: e01330-19

Unique patterns and biogeochemical relevance of two-component sensing in marine bacteria.

Held N.A., McIlvin M.R., Moran D.M., Laub M.T., Saito M.A.

(2019) mSystems, 4: e00317-18

Mechanisms of resistance to the contact-fependent bacteriocin CdzC/D in Caulobacter crescentus.

García-Bayona L., Gozzi K., Laub M.T.

(2019) J Bacteriol, 201: e00538-18

Affinity-based capture and identification of protein effectors of the growth regulator ppGpp.

Wang B., Dai P., Ding D., Del Rosario A., Grant R.A., Pentelute B.L., Laub M.T.

(2019) Nat Chem Biol, 15: 141-50

Flexibility and constraint: Evolutionary remodeling of the sporulation initiation pathway in Firmicutes.

Davidson P., Eutsey R., Redler B., Hiller N.L., Laub M.T., Durand D.

(2018) PLOS Genetics, 14: e1007470.

A bacterial chromosome structuring protein binds overtwisted DNA to stimulate type II topoisomerases and enable DNA replication.

Guo M.S., Haakonsen D.L., Zeng W., Schumacher M.A., Laub M.T.

(2018) Cell, 175: 583-597

 

Constriction rate modulation can drive cell size control and homeostasis in C. crescentus.

Lambert A., Vanhecke A., Archetti A., Holden S, Schaber F., Pincus Z., Laub M.T., Goley E., Manley S.

(2018) iScience, 4: 180-189.

 

Global analysis of the E. coli toxin MazF reveals widespread cleavage of mRNA and the inhibition of rRNA maturation and ribosome biogenesis.

Culviner P.H., Laub M.T.

(2018) Molecular Cell, 70: 868-80.

 

Structural insights into the unique mechanism of transcription activation by Caulobacter crescentus GcrA.

Wu X., Haakonsen D.L., Sanderlin A.G., Liu Y.J., Shen L., Zhuang N., Laub M.T., Zhang Y.

(2018) Nucleic Acids Research, 46: 3245-56.

 

SMC progressively aligns chromosomal arms in Caulobacter crescentus but is antagonized by convergent Ttanscription.

Tran N.T., Laub M.T., Le T.B.K.

(2017) Cell Reports, 20: 2057-71

Unsupervised extraction of stable expression signatures from public compendia with an ensemble of neural networks.

Tan J., Doing G., Lewis K.A., Price C.E., Chen K.M., Cady K.C., Perchuk B., Laub M.T., Hogan D.A., Greene C.S.

(2017) Cell Systems, 5: 63-71.

Global analysis of double-strand break processing reveals in vivo properties of the helicase-nuclease complex AddAB.

Badrinarayanan A., Le T.B.K., Spille J.H., Cisse I.I., Laub M.T.

(2017) PLOS Genetics, 13: e1006783.

Contact-dependent killing by Caulobacter crescentus via cell surface-associated, glycine zipper proteins. 

Garcia-Bayona L., Guo M.S., Laub M.T.

(2017) eLife, 6: e24869.

 

Bacillus subtilis SMC complexes juxtapose chromosome arms as they travel from origin to terminus.

Wang X., Brandão H.B., Le T.B., Laub M.T., Rudner D.Z.

(2017) Science, 355: 524-7.

ClpAP is an auxiliary protease for DnaA degradation in Caulobacter crescentus.

Liu J., Francis L.I., Jonas K., Laub M.T., Chien P. 

(2016) Molecular Microbiology, 102: 1075-85.

 

The small membrane protein MgrB regulates PhoQ bifunctionality to control PhoP target gene expression dynamics.

Salazar M.E., Podgornaia A.I., Laub M.T.

(2016) Molecular Microbiology, 102: 430-45.

Keeping Signals Straight: How Cells Process Information and Make Decisions.

Laub, M.T.

(2016) PLOS Biology, 14: e1002519

Transcription rate and transcript length drive formation of chromosomal interaction domain boundaries.

Le, T.B., Laub, M.T.

(2016) EMBO, 35:1582-95.

Bacterial chromosome organization and segregation 

Badrinarayanan, A., Le, T.B., Laub, M.T. 

(2015) Annual Review of Cell and Developmental Biology, 31: 171-99. 

The bacterial cell cycle regulator GcrA is a σ70 cofactor that drives gene expression from a subset of methylated promoters

Haakonsen, D.L., Yuan, A.H., Laub, M.T.

(2015) Genes & Development, 29: 2272-86. 

Identification of the PhoB regulon and role of PhoU in the phosphate-starvation response of Caulobacter crescentus

Lubin, E.A., Henry, J.T., Fiebig, A., Crosson, S., Laub, M.T.  

(2015) Journal of Bacteriology, 198: 187-200. 

 

Evolving new protein-protein interaction specificity through promiscuous intermediates

Aakre, C.D., Herrou, J., Phung, T.N., Perchuk, B.S., Crosson, S., Laub, M.T. 

(2015) Cell, 163: 594-606. 

 

Condensin promotes the juxtaposition of DNA flanking its loading site in Bacillus subtilis

Wang, X., Le, T.B., Lajoie, B.R., Dekker, J., Laub, M.T., Rudner, D.Z.

(2015)  Genes & Development, 29: 1661-75. 

 

Rapid pairing and resegregation of distant homologous loci enables double-strand break repair in bacteria

Badrinayanan, A., Le, T.B., Laub, M.T. 

(2015) Journal of Cell Biology, 3: 385-400. 

 

Nutritional control of DNA replication initiation through the proteolysis and regulated translation of DnaA

Leslie, D.J., Heinen, C., Schramm, F.D., Thüring, M., Aakre, C.D., Murray, S.M., Laub, M.T., Jonas, K. 

(2015) PLOS Genetics, 11: e1005342. 

 

Protein evolution. Pervasive degeneracy and epistasis in a protein-protein interface

Podgornaia, A.I., Laub, M.T. 

(2015) Science, 347: 673-7. 

 

Temporal and evolutionary dynamics of two-component signaling pathways

Salazar, M.E., Laub, M.T. 

(2015) Current Opinion in Microbiology, 24: 7-14. PMC4380680. 

 

A DNA damage-induced, SOS-independent checkpoint regulates cell division in Caulobacter crescentus

Modell, J.W., Kambara, T.K., Perchuk, B.S., Laub, M.T. 

(2014) PLOS Biology, 12: e1001977.  

 

Permanent genetic memory with >1-byte capacity

Yang, L., Nielsen, A.A., Fernandez-Rodriguez, J., McClune, C.J., Laub, M.T., Lu, T.K., Voigt, C.A.

(2014) Nature Methods, 11: 1261-66. ​

 

New approaches to understanding the spatial organization of bacterial genomes

Le, T.B., Laub, M.T.

(2014) Current Opinion in Microbiology, 22: 15-21. 

 

A bacterial toxin inhibits DNA replication elongation through a direct interaction with the β sliding clamp

Aakre C.D., Phung T.N., Huang D., Laub, M.T.

(2013) Molecular Cell, 52:617-28. 

 

High-resolution mapping of the spatial organization of a bacterial chromosome

Le, T.B., Imakaev, M.V., Mirny, L.A., Laub, M.T. 

(2013) Science, 342: 731-4. 

 

Structural basis of a rationally rewired protein-protein interface critical to bacterial signaling

Podgornaia, A., Casino, P., Marina, A., Laub, M.T. 

(2013) Structure, 21: 1636-47. 

 

Proteotoxic stress induces a cell cycle arrest by stimulating Lon to degrade the replication initiator DnaA

Jonas, K., Liu, J., Chien, P., Laub, M.T. 

(2013) Cell, 154: 623-36. 

 

Using analyses of amino acid coevolution to understand protein structure and function

Ashenberg, O., Laub, M.T. 

(2013) Methods in Enzymology, 523:191-212. 

 

Regulated proteolysis of a transcription factor complex is critical to cell cycle progression in Caulobacter crescentus

Gora, K.G., Cantin, A., Wohlever, M., Joshi, K.K., Perchuk, B.S., Chien, P., Laub, M.T.

(2013) Molecular Microbiology: 87: 1277-89. 

 

Determinants of specificity in two-component signal transduction

Podgornaia, A.I., Laub, M.T. 

(2013) Current Opinion in Microbiology, 16: 156-62. 

 

Helix bundle loops determine whether histidine kinases autophosphorylate in cis or in trans

Ashenberg, O., Keating, A.E., Laub, M.T. 

(2013) Journal of Molecular Biology, 425: 1198-209. 

 

Polarity and cell fate asymmetry in Caulobacter crescentus

Tsokos, C.G, Laub, M.T. 

(2012) Current Opinion in Microbiology, 15: 744-50. 

 

Spatial tethering of kinases to their substrates relaxes evolutionary constraints on specificity 

Capra, E.J., Perchuk, B.S., Ashenberg, O., Seid, C.A., Snow, H.R., Skerker, J.M., Laub, M.T. 

(2012) Molecular Microbiology, 86: 1393-403. 

 

Adaptive mutations that prevent cross-talk enable the expansion of paralogous signaling protein families

Capra, E.J., Perchuk, B.S., Skerker, J.M., Laub, M.T. 

(2012) Cell, 150: 222-32.

 

The evolution of two-component signal transduction systems

Capra, E.J., Laub, M.T. 

(2012) Annual Review of Microbiology, 66: 325-47. 

 

Asymmetric cell division: a persistent issue?

Aakre, C.D., Laub, M.T. 

(2012) Developmental Cell, 22: 235-36. 

 

Regulatory cohesion of cell cycle and cell differentiation through interlinked phosphorylation and second messenger networks

Abel, S., Chien, P., Wassmann, P., Schirmer, T., Kaever, V., Laub, M.T., Baker, T.A., Jenal, U.

(2011) Molecular Cell, 43: 550-60. 

 

Determinants of homodimerization specificity in histidine kinases

Ashenberg, O., Rozen-Gagnon, K., Laub, M.T., Keating, A.E. 

(2011) Journal of Molecular Biology, 413: 222-35. 

 

A DNA damage checkpoint in Caulobacter crescentus inhibits cell division through a direct interaction with FtsW

Modell, J.W., Hopkins, A.C., Laub, M.T. 

(2011) Genes and Development, 25: 328-43. 

 

Modularity of the bacterial cell cycle enables independent spatial and temporal control of DNA replication

Jonas, K., Chen, Y.E., Laub, M.T. 

(2011) Current Biology, 21: 1092-1101. 

 

A dynamic complex of signaling proteins uses polar localization to regulate cell fate asymmetry in Caulobacter crescentus 

 Tsokos, C.G., Perchuk, B.S., Laub, M.T. 

(2011) Developmental Cell, 20: 329-41. 

 

A spatial gradient of protein phosphorylation underlies replicative asymmetry in a bacterium

Chen, Y.E., Tropini, C., Jonas K., Tsokos, C.T., Huang, K.C., Laub, M.T. 

(2011) Proc Natl Acad Sci USA, 108: 1052-7. 

 

Evolving a robust signal transduction pathway from weak cross-talk 

Siryaporn, A., Perchuk, B.S., Laub, M.T., Goulian, M.

(2010) Molecular Systems Biology, 6: 452. 

 

Systematic dissection and trajectory-scanning mutagenesis of the molecular interface that ensures specificity of two-component signaling pathways

Capra, E.J., Perchuk, B.S., Lubin, E.A., Ashenberg, O., Skerker, J.M., Laub, M.T. 

(2010)  PLOS Genetics, 6: e1001220. 

 

A cell type-specific protein-protein interaction modulates transcriptional activity of a master regulator in Caulobacter crescentus

Gora, K.G., Tsokos, C.G., Chen, Y.E., Srinivasan, B.S., Perchuk, B.S., Laub, M.T. 

(2010) Molecular Cell, 39: 455-67. 

 

Global regulation of gene expression and cell differentiation in Caulobacter crescentus in response to nutrient availability 

England, J.C., Perchuk, B.S., Laub, M.T., Gober, J.W.

(2010) Journal of Bacteriology, 192: 819-33. 

 

​The role of two-component signal transduction systems in bacterial stress responses 

Laub, M.T. 

(2010) Microbial Stress Responses (G. Storz and R. Hengge, editors, ASM Press). 

 

Dynamics of two phosphorelays controlling cell cycle progression in Caulobacter crescentus

Chen, Y.E., Tsokos, C.G., Biondi, E.G., Perchuk, B.S., Laub, M.T. 

(2009) Journal of Bacteriology, 191: 7417-29. 

 

Overexpression of VpsS, a hybrid sensor kinase, enhances biofilm formation in Vibrio cholerae

Shikuma, N.J., Fong, J.C., Odell, L.S., Perchuk, B.S., Laub, M.T., Yildiz, F.H.

(2009) Journal of Bacteriology, 191, 5147-58. 

 

Rewiring the specificity of two-component signal transduction systems

Skerker, J.M., Perchuk, B.S., Siryaporn, A., Lubin, E., Ashenberg, O., Goulian, M., Laub, M.T. 

(2008) Cell, 133: 1043-54. 

 

Allosteric regulation of histidine kinases by their cognate response regulator determines cell fate

Paul, R., Jaeger, T., Abel, S., Wiederkehr, I., Folcher, M., Biondi, E.G., Laub, M.T., Jenal, U.

(2008) Cell, 133: 452-61. 

 

Specificity in two-component signal transduction pathways.

Laub, M.T., Goulian, M.

(2007) Annual Review of Genetics, 41: 121-45. 

 

Systems biology of Caulobacter.

Laub, M.T., Shapiro, L., McAdams, H.H. 

(2007) Annual Review of Genetics, 41: 429-41. 

 

The ECF sigma factor sT is involved in osmotic and oxidative stress responses in Caulobacter crescentus 

Alvarez-Martinez, C.E., Lourenço, R.F., Baldini, R.L., Laub, M.T., Gomes, S.L.

(2007) Molecular Microbiology, 66: 1240-55. 

 

Direct and adaptor-mediated substrate recognition by an essential AAA+ protease 

Chien, P., Perchuk, B.S., Laub, M.T., Sauer, R.T., Baker, T.A.

(2007) Proc Natl Acad Sci USA, 104: 6590-95. 

 

Phosphotransfer profiling:  systematic mapping of two-component signal transduction pathways and phosphorelays 

Laub, M.T., Biondi, E.G., Skerker, J.M.

(2007) Methods in Enzymology, 423: 531-48. 

 

Regulation of the bacterial cell cycle by an integrated genetic circuit

Biondi, E.G., Reisinger, S.J., Skerker, J.M., Arif, M., Perchuk, B.S., Ryan, K.R., Laub, M.T. 

(2006) Nature, 444: 899-904. 

 

Comparative genomic evidence for a close relationship between the dimorphic prosthecate bacteria Hyphomonas neptunium and 

Caulobacter crescentus

Badger, J.H., Hoover, T.R., Brun, Y.V., Weiner, R.M., Laub, M.T., et al. 

(2006) Journal of Bacteriology, 188: 6841-50. 

 

A phosphorelay system controls stalk biogenesis during cell cycle progression in Caulobacter crescentus 

Biondi, E.G., Skerker, J.M., Perchuk, B., Prasol, M., Laub, M.T. 

(2006) Molecular Microbiology, 59: 386-401. 

 

Two-component signal transduction pathways regulating growth and cell cycle progression in a bacterium: a system-level analysis

Skerker, J.M., Prasol, M., Perchuk, B., Biondi, E., Laub, M.T.  

(2005) PLOS Biology, 3: 334-53. ​

 

Cell cycle progression and the generation of asymmetry in Caulobacter crescentus

Skerker, J.M., Laub, M.T. 

(2004) Nature Reviews Microbiology, 2: 325-37. 

 

Global approaches to the bacterial cell as an integrated system

Laub, M.T., Shapiro, L., McAdams, H.H.

(2004) The Bacterial Chromosome (N. Patrick Higgins, editor, ASM Press). 

 

Genomic analysis of the bacterial cell cycle

Laub, M.T., McAdams, H.H., Shapiro, L.

(2004) Microbial Genomes (C. M. Fraser, K. E. Nelson, T. D. Read, editors, Humana Press), 127-40. 

 

Functions of the CckA histidine kinase in Caulobacter cell cycle control

Jacobs, C., Ausmees, N., Cordwell, S.J., Shapiro, L., Laub, M.T. 

(2003) Molecular Microbiology, 47: 1279-90. 

 

Microbial Genomics:  All That You Can’t Leave Behind

Stephens, C., Laub, M.T. 

(2003) Current Biology, 13: R571-73. 

 

​Transcriptional profiling in bacteria using microarrays

Laub, M.T., Rosenzweig, R.F.

(2003) Methods and Tools in Biosciences and Medicine:  Prokaryotic Genomics and Genetics (M. Blot, editor, Birkhauser Verlag Press), 131-44. 

 

Genes directly controlled by CtrA, a master regulator of the Caulobacter cell cycle

Laub, M.T., Chen, S.L., Shapiro, L., McAdams, H.H.

(2002) Proceedings of the National Academy of Sciences, USA, 99: 4632-37. 

 

Complete genome sequence of Caulobacter crescentus strain CB15

Nierman, W.C., Feldblyum, T.V., Laub, M.T., et al. 

(2001) Proceedings of the National Academy of Sciences, USA, 98: 4136-41. 

 

Expression patterns of cell-type-specific genes in Dictyostelium

Iranfar, N., Fuller, D., Sasik, R., Hwa, T., Laub, M.T., Loomis, W.F.

(2001) Molecular Biology of the Cell, 12: 2590-600. 

 

Global analysis of the genetic network controlling a bacterial cell cycle 

Laub, M.T., McAdams, H.H., Feldblyum, T., Fraser, C.M., Shapiro, L.

(2000) Science, 290: 2144-48. 

 

Toggles and oscillators: new genetic circuit designs 

Judd, E.M., Laub, M.T., and McAdams, H.H.

(2000) Bioessays, 22: 507-9. 

 

Functional Characterization of the S. cerevisiae genome by gene deletion and parallel analysis

Winzeler, E.A., Shoemaker, D.D., Astromoff, A., Liang, H., Anderson, K., Andre, B., Bangham, R., Benito, R., Boeke, J.D., Bussey, H., Chu, A.M., Connelly, C., Davis, K., Dietrich, F., Dow, S.W., El Bakkoury, M., Foury, F., Friend, S.H., Gentalen, E., Giaever, G., Hegemann, J.H., Jones, T., Laub, M., Liao, H., Davis, R.W., et al.

(1999) Science, 285: 901-6. 

 

tip genes act in parallel pathways of early Dictyostelium development 

Stege, J.T., Laub, M.T., and Loomis, W.F.

(1999) Developmental Genetics, 25: 64-77. ​

 

A molecular network that produces spontaneous oscillations in excitable cells of Dictyostelium

Laub, M.T., and Loomis, W.F.

(1998) Molecular Biology of the Cell, 9: 3521-32. 

 

Finding intron/exon splice junctions using INFO, INterruption Finder and Organizer

Laub, M.T., and Smith, D.W.

(1998) Journal of Computational Biology, 5: 307-21.  

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