73. Thibivilliers, S., Farmer, A., Schroeder, S., & Libault, M*. (2023). Plant Single-Cell/Nucleus RNA-seq Workflow. Single Cell Transcriptomics Methods and Protocols (Clifton, N.J.), MIMB, volume 2584, 165–181.


72. Sergio Alan Cervantes-Pérez, Sandra Thibivilliers, Carole Laffont, Andrew D. Farmer, Florian Frugier, Marc Libault*. Cell-specific pathways recruited for symbiotic nodulation in the Medicago truncatula legume. Molecular Plant. Vol. 15, Issue 12, 2022, Pages 1868-1888, ISSN 1674-2052,

71. Cervantes-Pérez SA, Thibivillliers S, Tennant S, Libault M*. Review: Challenges and perspectives in applying single nuclei RNA-seq technology in plant biology. Plant Sci. 2022 Oct 3;325:111486. doi: 10.1016/j.plantsci.2022.111486. PMID: 36202294.

70. Cervantes-Pérez SA, Libault M*. Cell-Type-Specific Profiling of the Arabidopsis thaliana Membrane Protein-Encoding Genes. Membranes (Basel). 2022 Sep 10;12(9):874. doi: 10.3390/membranes12090874. PMID: 36135893; PMCID: PMC9506093.

69. Rice SL, Lazarus E, Anderton C, Birnbaum K, Brophy J, Cole B, Dickel D, Ehrhardt D, Fahlgren N, Frank M, Haswell E, Huang SC, Leiboff S, Libault M, Otegui MS, Provart N, Uhrig RG, Rhee SY; Plant Cell Atlas Consortium. First Plant Cell Atlas symposium report. Plant Direct. 2022 Jun 8;6(6):e406. doi: 10.1002/pld3.406. PMID: 35774620; PMCID: PMC9219010.

68. Han L, Jara CP, Wang O, Shi Y, Wu X, Thibivilliers S, Wóycicki RK, Carlson MA, Velander WH, Araújo EP, Libault M, Zhang C, Lei Y. Isolating and cryopreserving pig skin cells for single-cell RNA sequencing study. PLoS One. 2022 Feb 17;17(2):e0263869. doi: 10.1371/journal.pone.0263869. PMID: 35176067; PMCID: PMC8853494.


67. Thibivilliers SB, Anderson DK, Libault MY*. Isolation of Plant Nuclei Compatible with Microfluidic Single-nucleus ATAC-sequencing. Bio Protoc. 2021 Dec 5;11(23):e4240. doi: 10.21769/BioProtoc.4240. PMID: 35005085; PMCID: PMC8678553.

66. Plant Cell Atlas Consortium, Suryatapa Ghosh Jha, Alexander T. Borowsky, Benjamin J. Cole, Noah Fahlgren, Andrew Farmer, Shao-shan Carol Huang, Marc Libault, Nicholas J. Provart, Selena L. Rice, Maria Saura-Sanchez, Pinky Agarwal, Amir H. Ahkami, Christopher R. Anderton, Steven P. Briggs, Jennifer A.N. Brophy, Peter Denolf, Luigi F. Di Costanzo, Moises Exposito-Alonso, Stefania Giacomello, Fabio Gomez-Cano, Purva Karia, Kerstin Kaufmann, Dae Kwan Ko, Sagar Kumar, Andrey V. Malkovskiy, Naomi Nakayama, Toshihiro Obata, Marisa Otegui, Gergo Palfalvi, Elsa H. Quezada-Rodríguez, Rajveer Singh, R. Glen Uhrig, Jamie Waese, Klaas Van Wijk, Clay Wright, David W. Ehrhardt, Kenneth D. Birnbaum, Seung Y. Rhee (2021) Science Forum: Vision, challenges and opportunities for a Plant Cell Atlas. eLife. 2021;10:e66877. doi: 10.7554/eLife.66877.

65. Thibivilliers S, Libault M* (2021) Enhancing Our Understanding of Plant Cell-to-Cell Interactions Using Single-Cell Omics. Front Plant Sci. Aug 5;12:696811. doi: 10.3389/fpls.2021.696811. eCollection 2021.

64. Thibivilliers S, Libault M* (2021) Plant Single-Cell Multiomics: Cracking the Molecular Profiles of Plant Cells. Trends Plant Sci. Mar 18:S1360-1385(21)00060-1. doi: 10.1016/j.tplants.2021.03.001.

63. Andrew Farmer, Sandra Thibivilliers, Kook Hui Ryu, John Schiefelbein, Marc Libault* (2021). Single-nucleus RNA and ATAC sequencing reveals the impact of chromatin accessibility on gene expression in Arabidopsis roots at the single-cell level. Molecular Plant. 2021 Jan 7;S1674-2052(21)00001-0. doi: 10.1016/j.molp.2021.01.001


62. Thibivilliers S,  Anderson D,  Libault M* (2020). Isolation of Plant Root Nuclei for Single Cell RNA Sequencing. Current Protocols in Plant Biology. 5(4).

61. Thibivilliers S, Farmer A, Libault M* (2020) Biological and Cellular Functions of the Microdomain-Associated FWL/CNR Protein Family in Plants. Plants (Basel). 9(3):377. doi: 10.3390/plants9030377.

60. Luo M, Ríos G, Sarnowski TJ, Zhang S, Mantri N, Charron JB, Libault M* (2020) New Insights Into Mechanisms of Epigenetic Modifiers in Plant Growth and Development Front Plant Sci. 10:1661. doi: 10.3389/fpls.2019.01661.


59.  Qiao Z, Zogli P, Libault M* Plant Hormones Differentially Control the Sub-Cellular Localization of Plasma Membrane Microdomains During the Early Stage of Soybean Nodulation. Genes (Basel). 10(12):1012. doi: 10.3390/genes10121012.


58. Isidra-Arellano MC, del Rocio Reyero-Saavedra M, del Socorro Sánchez-Correa M, Pingault L, Sen S, Joshi T, Girard L, Castro-Guerrero NA, Mendoza-Cozatl DG, Libault M, Valdés-López1 O (2018) Phosphate deficiency negatively affects early steps of the symbiosis between common bean and rhizobia. Genes (Basel) 9(10). pii: E498. doi: 10.3390/genes9100498.

57. Libault M* (2018) Transcriptional reprogramming of legume genomes: perspective and challenges associated to single cell and single cell-type approaches during nodule development. Frontiers in Plant Science 9:1600. doi: 10.3389/fpls.2018.01600.

56. Pingault L, Zogli P, Brooks J, and Libault M(2018) Enhancing phenotyping and molecular analysis of plant root system using ultrasound aeroponic technology. Current Protocols in Plant Biology Dec;3(4):e20078.

55. Pingault L, Qiao Z and Libault M(2018) “Comparative genomic and transcriptomic analyses of legume genes controlling the nodulation process” In: “The Model Legume Medicago truncatula” (Frans de Bruijn), Wiley, USA.


54. Reyero-Saavedra MDR, Qiao Z, Sánchez-Correa MDS, Díaz-Pineda ME, Reyes JL, Covarrubias AA, Libault M*, Valdés-López O* (2017) Gene Silencing of Argonaute5 Negatively Affects the Establishment of the Legume-Rhizobia Symbiosis. Genes (Basel). 8(12). pii: E352. doi: 10.3390/genes8120352.

53. Libault M*, Pingault L, Zogli P, and Schiefelbein J (2017) Plant Systems Biology at the Single-Cell Level. Trends in Plant Science. doi: 10.1016/j.tplants.2017.08.006.

52. Qiao Z and Libault M* (2017) Function of Plasma Membrane Microdomain-Associated Proteins during Legume Nodulation. Plant Signaling & Behavior. e1365215.

51. Zogli P and Libault M* (2017) Plant response to stress: How does the epigenome influence pathogenic and symbiotic interactions? Plant Science. 263:89-93.

50. Qiao Z, Pingault L·, Zogli P·, Langevin M·, Rech N·, Farmer A and Libault M* (2017) A Comparative Genomic and Transcriptomic Analysis at the Level of Isolated Root Hair Cells Reveals New Conserved Root Hair Regulatory Elements. Plant Molecular Biology. 94(6):641:655.

49. Qiao Z, Brechenmacher L, Smith B, Strout GW, Mangin W·, Taylor T, Russell SD, Stacey G and Libault M* (2017) The GmFWL1 (FW2-2-like) nodulation gene encodes a plasma membrane microdomain-associated protein. protein. Plant, Cell & Environment. 40:1442-1455.

48. Valdes-Lopez O, Zogli P, Qiao Z· and Libault M* (2017) “Genomics of the fixation, uptake and assimilation of nitrogen in legume” (Scott Jackson and Rajeev Varshney Eds.), Springer Nature, USA.

47. Zogli P, Pingault L· and Libault M* (2017) “Physiological and molecular mechanisms and adaptation strategies in soybean (Glycine max) under phosphate deficiency” (Lam-Son Tran and Saad Sulieman Eds.), Springer, USA. 


46. Nourbakhsh-Rey M, and Libault M* (2016) Decipher the molecular response of plant single cell types to environmental stresses. BioMed Research International. 2016:4182071

45. Libault M* and Chen S (2016) Toward Plant Single Cell Type Systems Biology. Frontiers in Plant Science. 9;7:35.

44. Qiao Z, Pingault L, Nourbakhsh-Rey M, and Libault M* (2016) Comprehensive comparative genomic and transcriptomic analyses of the legume genes controlling the nodulation process. Frontiers in Plant Science. 29;7:34. 


43. Kim KD, El Baidouri M, Abernathy B, Iwata-Otsubo A, Chavarro C, Gonzales M, Libault M, Grimwood J, and Jackson S (2015) A comparative epigenomic analysis of polyploidy-derived genes in soybean and common bean. Plant Physiol. 168(4):1433-47.

42. Muszyński A, O’Neill MA, Ramasamy E, Pattathil S, Avci U, Peña MJ, Libault M, Hossain MS, Brechenmacher L, York WS, Barbosa RM, Hahn MG, Stacey G, Carlson RW (2015) Xyloglucan, galactomannan, glucuronoxylan, and rhamnogalacturonan I do not have identical structures in soybean root and root hair cell walls. Planta. 242(5):1123-38. 

41. Yan Z, Hossain S, Valdés-López O, Hoang N, Zhai J, Wang J, Libault M, Brechenmacher L, Findley S, Joshi T, Qiu L, Sherrier J, Ji T, Meyers B, Xu D and Stacey G (2015) Identification and functional characterization of soybean root hair microRNAs expressed in response to Bradyrhizobium japonicum infection. Plant Biotechnology Journal. 14(1):332-41.

40. Yan Z, Hossain S, Arikit S, Valdés-López O, Zhai J, Wang J, Libault M, Ji T, Tieming, Qiu L, Meyers B and Stacey G (2015) Identification of microRNAs and their mRNA targets during soybean nodule development: Functional analysis of the role of miR393j-3p in soybean nodulation. New Phytologist. 207(3):748-59.

39. Rouached H, Pal S, Rachmilevitch S, Libault M and Tran LSP (2015) Plants Coping Abiotic and Biotic Stresses: A Tale of Diligent Management. BioMed Research International. 2015:754754.


38. Libault M (2014) The Carbon-nitrogen Balance of the Nodule and its Regulation under Elevated Carbon Dioxide Concentration. BioMed Research International2014:507946. 


37. Qiao Z and Libault M (2013) Unleashing the potential of the root hair cell as a single plant cell type model in root systems biology. Frontiers in Plant Systems Biology. 4:484.

36. Yan Z, Valdés-López O Zhai J, Wang J, Libault M, Joshi T, Brechenmacher L, Findley S, Qiu L, Sherrier DJ, Meyers BC, Xu D and Stacey G (2013) Genome-wide identification of soybean root hair microRNAs that respond to Bradyrhizobium japonicum inoculation. Mol Plant-Microbe Interact. 26(12):1371-7.

35. Libault M (2013) “Decipher plant gene regulatory networks using single plant cell types.” International Journal of Plant Biology & Research.

34. Libault M (2013) “The root hair: A single cell model for systems biology.” In: “Biological Nitrogen Fixation” (Frans de Bruijn Ed.), Wiley/Blackwell, USA.

33. Libault M and Dickstein R (2013) “Functional genomic research in legumes” In: “Legumes in the Omic Era” (Nagasamy Nadarajan, Sanjeev Gupta and Debjyoti Sen Gupta Eds.), Springer, USA. 


32. Radwan O, Wu X, Govindarajulu M, Libault M, Neece DJ, Oh M. Berg RH, Stacey G, Taylor CG, Huber SC and Clough S (2012) 14-3-3 proteins SGF14c and SGF14l play critical roles during soybean nodulation. Plant Physiol. 160(4):2125-36.

31. Roulin A, Auer P, Libault M, Schlueter J, Farmer A, May G, Stacey G, Doerge R and Jackson S (2012) The fate of duplicated genes in a polyploid plant genome. The Plant Journal. doi: 10.1111/tpj.12026.

30. Brechenmacher L, Nguyen THN, Hixson K, Libault M, Aldrich J, Pasa-Tolic L and Stacey G (2012) Identification of soybean proteins from a single cell type: the root hair. Proteomics. 12(22):3365-73.

29. Nguyen THN, Brechenmacher L, Aldrich J, Clauss T, Gritsenko M, Hixson K, Libault M, Tanaka K, Yang F, Yao Q, Pasa-Tolic L, Xu D, Nguyen HT and Stacey G (2012) Quantitative Phosphoproteomic Analysis of Soybean Root Hairs Inoculated with Bradyrhizobium japonicum. Mol Cell Proteomics, 11(11):1140-55.

28. Joshi T, Patil K, Fitzpatrick MR, Franklin LD, Yao Q, Cook JR, Wang Z, Libault M, Brechenmacher L, Valliyodan B, Wu X, Cheng J, Stacey G, Nguyen HT and Xu D (2012) Soybean Knowledge Base (SoyKB): a web resource for soybean translational genomics. BMC Genomics. 13(Suppl 1):S15.

27. Libault M and Stacey G (2012) “Plant root hairs”, McGraw-Hill Yearbook of Science and Technology 2012. 


26. Valdés-López O, Thibivilliers S, Qiu J, Wenzhong Xu W, Nguyen THN, Libault M, H. Le BH, Goldberg RB, Hill CB, Hartman GL, Diers B and Stacey G (2011) Identification of quantitative trait loci controlling gene expression during the innate immunity response of soybean. Plant Physiol. 157(4):1975-86.

25. Libault M, Govindarajulu M, Berg H, Ong YT, Puricelli K, Taylor CG, Xu D and Stacey G. (2011) A dual-targeted soybean protein is essential for Bradyrhizobium japonicum infection of soybean root hair and cortical cells. Mol Plant-Microbe Interact. 24(9):1051-60.

24. Tanaka K, Nguyen C, Libault M, Cheng J and Stacey G. (2011) Enzymatic activity of the soybean ecto-apyrase GS52 is essential for stimulation of nodulation. Plant Physiol. 155(4):1988-98. 


23. Libault M, Brechenmacher L, Cheng J, Xu D and Stacey G. (2010) Root hair systems biology. Trends in Plant Science. 11: 641-50.

22. Brechenmacher L, Lei Z, Libault M, Findley S, Sugawara M, Sadowsky MJ, Sumner LW and Stacey G. (2010) Soybean metabolites regulated in root hairs in response to the symbiotic bacterium Bradyrhizobium japonicum. Plant Physiol. 153(4):1808-22.

21. Libault M, Farmer A, Joshi T, Takahashi K, Langley RJ, Levi FD, He J, Xu D, May GD and Stacey G. (2010) An integrated transcriptome atlas of the crop model Glycine max and its use in comparative analyses in plants. The Plant Journal. 63(1):86-99.

20. Libault M, Zhang XC, Govindarajulu M, Ong YT, Brechenmacher L, Berg H, Hurley-Sommer A, Qiu J, Taylor CG and Stacey G. (2010) A member of the highly conserved FWL (tomato FW2.2-like) gene family is essential for soybean nodule organogenesis. The Plant Journal. 62(5):852-64.

19. Wang Z, Libault M, Joshi J, Valliyodan B, Nguyen HT, Xu D, Stacey G and Cheng J. (2010) SoyDB: A Knowledge Database of Soybean Transcription Factors. BMC Plant Biol. 10(1):14.

18. Libault M, Farmer A, Brechenmacher L, Drnevich J, Langley RJ, Bilgin DD, Radman O, Neece DJ, Clough SJ, May GD and Stacey G. (2010) Complete transcriptome of soybean root hair cell, a single cell model, and its alteration in response to Bradyrhizobium japonicum infection. Plant Physiol. 152(2):541-52. Plant Systems Biology Special Issue 2010.

17. Schmutz J, Cannon SB, Schlueter J, Ma J, Mitros T, Nelson W, Hyten DL, Song Q, Thelen JJ, Cheng J, Xu D, Hellsten U, May GD, Yu Y, Sakurai T, Umezawa T, Bhattacharyya MK, Sandhu D, Valliyodan B, Lindquist E, Peto M, Grant D, Shu S, Goodstein D, Barry K, Futrell-Griggs M, Abernathy B, Du J, Tian Z, Zhu L, Gill N, Joshi T, Libault M, Sethuraman A, Zhang XC, Shinozaki K, Nguyen HT, Wing RA, Cregan P, Specht J, Grimwood J, Rokhsar D, Stacey G, Shoemaker RC and Jackson SA. (2010) Genome sequence of the paleopolyploid soybean (Glycine max (L.) Merr.). Nature. 463(7278):178-83.

16. Joshi T, Yan Z, Libault M, Jeong DH, Park S, Green PJ, Sherrier J, Farmer A, May GD, Meyers B, Xu D and Stacey G. (2010) Prediction of novel miRNAs and associated target genes in Glycine max. BMC Bioinformatics. 11(Suppl 1):S14.
15. Libault M and Stacey G. (2010) Evolution of FW2.2-like (FWL) and PLAC8 genes in eukaryotes. Plant Signal Behav. 5(10). Addenda to ”A member of the highly conserved FWL (tomato FW2.2-like) gene family is essential for soybean nodule organogenesis.” The Plant Journal. 62(5):852-64.

14. Libault M, Farmer A, Brechenmacher L, May GD and Stacey G. (2010) Soybean root hairs: a valuable system to investigate plant biology at the cellular level. Plant Signal Behav. 5(4). Addenda to ”Complete transcriptome of soybean root hair cell, a single cell model, and its alteration in response to Bradyrhizobium japonicum infection.” Plant Physiol. 152(2):541-5. 


13. Libault M, Joshi T, Takahashi K, Hurley-Sommer A, Puricelli K, Blake S, Finger R, Taylor CG, Xu D, Nguyen HT, and Stacey G. (2009) Large scale analysis of soybean transcriptional regulatory genes expression allows the identification of a MYB gene involved in nodule development. Plant Physiol. 151(3):1207-20. Legume Special Issue 2009.

12. Libault M, Joshi T, Benedito V, Xu D, Udvardi M and Stacey G. (2009) Legume transcription factor genes; what makes legumes so special? Plant Physiol. 151(3):991-1001. Legume Special Issue 2009.

11. Brechenmacher L, Lee J, Sachdev S, Song Z, Nguyen THN, Joshi T, Oehrle N, Libault M, Mooney B, Xu D, Cooper B and Stacey G. (2009) Establishment of a protein reference map for soybean root hair cell. Plant Physiol. 149(2):670-82.

10. Govindarajulu M, Kim SY, Libault M, Berg RH, Tanaka K, Stacey G and Taylor CG. (2009) GS52 ecto-apyrase plays a critical role during soybean nodulation. Plant Physiol. 149(2):994-1004. 


9. Libault M, Thibivilliers S, Bilgin DD, Radwan O, Benitez M, Clough SJ, and Stacey G (2008) Identification of four soybean reference genes for gene expression normalization. Plant Gen. 1:44-54.

8. Brechenmacher L, Kim MY, Benitez M, Li M, Joshi T, Calla B, Lee MP, Libault M, Vodkin LO, Xu D, Lee SH, Clough SJ and Stacey G. (2008) Transcription profiling of soybean nodulation by Bradyrhizobium japonicum. Mol Plant-Microbe Interact. 21:631-45.

7. Wan J, Ramonell K, Zhang X, Clough S, Zhang R, Libault M, Stacey M, Hong JC, and Stacey G (2008) “Chitin signaling in Arabidopsis”, Biology of Plant Microbe Interactions, Vol. 6 (Lorito M, Woo SL, and Scala F, eds). The American Phytopathological Society. 


6. Libault M, Wan J, Czechowski T, Udvardi M and Stacey G (2007) Identification of 118 Arabidopsis transcription factor and 30 ubiquitin-ligase genes responding to chitin, a plant-defense elicitor,. Mol Plant-Microbe Interact. 20:900-11.

5. Zhang XC, Wu X, Findley S, Wan J, Libault M, Nguyen HT, Cannon SB, Stacey G (2007) Molecular evolution of LysM type receptor-like kinases in plants. Plant Physiol. 144:623-36.

4. Stacey G, Brechenmacher L, Libault M, Sachdev S (2007) “Functional Genomics of Soybean Root-Hair Infection”, Current Plant Science and Biotechnology in Agriculture. Current Plant Science and Biotechnology in Agriculture 42:181-182. 


3. Stacey G, Libault M, Brechenmacher L, Wan J, May GD (2006) Genetics and functional genomics of legume nodulation. Curr Opin Plant Biol. 9:110-21 


2. Libault M, Tessadori F, Germann S, Snijder B, Fransz P, Gaudin V (2005) The Arabidopsis LHP1 protein is a component of euchromatin. Planta 222:910-25 


1. Gaudin V, Libault M, Pouteau S, Juul T, Zhao G, Lefebvre D, Grandjean O (2001) Mutations in LIKE HETEROCHROMATIN PROTEIN 1 affect flowering time and plant architecture in Arabidopsis. Development 128:4847-4858.