Kimberly D. Tremblay

Kimberly D. Tremblay, Ph.D.


Honors Program Director

Photo of Kimberly Tremblay

Pronouns: she, her, hers

Office phone: 413-545-5560

Lab phone: 413-545-2339

Fax: 413-545-6326

Email: kdtrembl [at] vasci [dot] umass [dot] edu

Office location: 427C ISB

A.B.: Smith College, 1992

Ph.D.: University of Pennsylvania, 1998 (Marisa Bartolomei’s lab)

Postdoctoral Training:
Harvard University, 1998- 2001
(Liz Robertson’s Lab)
Fox Chase Cancer Center
(Ken Zaret’s Lab, 2001-2004)

Postdoctoral Awards: NRSA Postdoctoral Fellowship 1998-2001, NIH K01 Mentored Research Award 2003-2006

- Animal Genetics

ANIMLSCI 494TI - Departmental Honors Thesis IE

ANIMLSCI 697J - Genes, Cells and Development

Goal: Understanding endoderm differentiation and development

Our lab focuses on understanding how the murine definitive endoderm (DE or endoderm), one of the 3 primary germ layers that arise during gastrulation, emerges and differentiates. The endoderm gives rise to the epithelial component of the entire gastrointestinal tract and associated organs including the thyroid, parathyroid, lung liver and pancreas.  Understanding how this tissue layer develops normally is key to gaining a deeper understanding of any of the pathological conditions affecting these organs. Furthermore, understanding how mammalian organs form during development in vivo can be used to design more effective protocols aimed at creating endoderm-derived organs or cell types in vitro.

I. Identify the Mechanisms that Support Endoderm Formation and Organogenesis.

To begin to understand how organs emerge from the endoderm, we have used prospective

and retrospective fate mapping of ex vivo and in vivo developing mouse embryos, respectively. We have established conditions that allow us to routinely dissect and manipulate early somite mouse embryos that have yet to initiate endoderm organogenesis (Fig 1; E8.25 embryo) and culture them through the onset of organogenesis (Fig 1; E9.5 embryo).  We have used a variety of prospective approaches in this system to create a fate map of the foregut-derived organs, identify the morphological mechanisms used to close the gut tube and to demonstrate that the liver is produced by 2 distinct endoderm progenitor populations that contribute uniquely to the liver (Fig. 1).  Recent genetic fate mapping has been used to confirm and establish new foregut organ progenitor relationships and to demonstrate that single hepatoblasts contribute to both hepatocytes and cholangiocytes in vivo.

We hypothesize that the two liver progenitors are supported by different inductive mesenchyme and a future goal of this project is to identify the mesoderm progenitors that support the liver.

II Assessing Heterogeneity in the Nascent Liver.

A goal of our lab is to define the signals and interactions required to initiate and maintain organogenesis from the endoderm. Knowing the answer is critical to the creation of clinically relevant cell types and tissues such as hepatocytes and pancreatic b-cells. While there are many protocols designed to create such cell types in vitro, all are based on cues from normal development.  Such in-vitro protocols have failed to re-create the full functionality of the in-vivo derived cell types. We believe that these failures are due in part to the static one-dimensional nature of in vitro protocols while the conditions faced by differentiating cells during development is far more complex, occurring in the context of a dynamic 3-D embryo. To begin to elucidate the role specific pathways play during organogenesis in the context of the embryo, we have manipulated distinct pathways required for early liver and or pancreas development using small molecules. Such an approach has allowed us to uncover a previously unappreciated heterogeneity in the developing liver.

III Annotation of the Mammalian Genome: the Knock-out Mouse Project and Beyond.

Although the mammalian genome has been sequenced for over 15 years, significant gaps remain in the functional annotation of the coding region. These gaps have led to surprising trends in funding and research of human genes: of the estimated 19,000 genes only 2000 are characterized as well studied. Most funded research and drug discovery has been limited to these 2000 genes and their protein product. The reasons for these limitations include when work on the gene was first published (the older the citation, the more likely the gene is well-studied) and if the gene has been studied in an animal model. To overcome these deficits in understanding the mammalian genome, to ultimately widen the drug discovery pipeline and to understand the role particular genes play in human health and development the Knock-Out Mouse Project (KOMP), run by the NIH, is part of an international consortium designed to knock-out each gene in the mouse genome.

Of the 5000+ genes that have been knocked out so far by the consortium, ~25% result in early embryonic lethality. Over the last 5 years I have been an active collaborator on an NIH funded KOMP project designed to phenotypically characterize the homozygous knock-out of understudied genes that result in embryonic loss by E9.5 (PI- Mager lab).

Fig. 3: Our strategy for analysis of 20 novel organogenesis lethal KOMP-generated mouse lines.

Future Directions: Because of our expertise in early mouse development and our success in our collaborative KOMP project, my lab was recently awarded a KOMP grant from NICHD (R01). The goal of this grant is to characterize novel KOMP alleles that exhibit lethality during organogenesis (after E9.5 but prior to E12.5). We will use our expertise in post-gastrulation and early organogenesis to characterize and identify the phenotypic onset of at least 20 KOMP alleles (Fig. 3). We expect that many of the defects will be present at E8.5 and will result in extra-embryonic defects.

Finally we will use KOMP generated conditional ready ES cells to create conditional alleles for up to 5 genes that play putative roles in early embryonic endoderm development, but also play an essential early role in extra-embryonic endoderm development.


Cui W, Cheong A, Wang Y, Tsuchida Y, Liu Y, Tremblay KD, Mager J.  2020.  MCRS1 is essential for epiblast development during early mouse embryogenesis. Reproduction. 159:1–13.
Cheong A, Archambault D, Degani R, Iverson E, Tremblay K, Mager J.  2020.  Nuclear encoded mitochondrial ribosomal proteins are required to initiate gastrulation. Development.
Tellier AP, Archambault D, Tremblay KD, Mager J.  2019.  The elongation factor Elof1 is required for mammalian gastrulation. PLoS One. 14:e0219410.
Cheong A, Degani R, Tremblay KD, Mager J.  2019.  A null allele of Dnaaf2 displays embryonic lethality and mimics human ciliary dyskinesia. Human Molecular Genetics.
Cui W, Cheong A, Wang Y, Tsuchida Y, Liu Y, Tremblay KD, Mager J.  2019.  MCRS1 is essential for epiblast development during early mouse embryogenesis. Reproduction.
Sebae GEK, Malatos JM, Cone M-KE, Rhee S, Angelo JR, Mager J, Tremblay KD.  2018.  Single-cell murine genetic fate mapping reveals bipotential hepatoblasts and novel multi-organ endoderm progenitors. Development. 145:dev168658.
Palaria A, Angelo JR, Guertin TM, Mager J, Tremblay KD.  2018.  Patterning of the hepato-pancreatobiliary boundary by BMP reveals heterogeneity within the murine liver bud. Hepatology. 68:274–288.
Cui W, Marcho C, Wang Y, Degani R, Golan M, Tremblay KD, Rivera-Pérez J, Mager J.  2018.  Med20 is essential for early embryogenesis and regulates Nanog expression. Reproduction.
Cui W, Dai X, Marcho C, Han Z, Zhang K, Tremblay KD, Mager J.  2016.  Towards Functional Annotation of the Preimplantation Transcriptome: An RNAi Screen in Mammalian Embryos. Scientific Reports. 6
Marcho C, Bevilacqua A, Tremblay KD, Mager J.  2015.  Tissue-specific regulation of Igf2r/Airn imprinting during gastrulation.. Epigenetics Chromatin. 8:10.
Rhee S, Guerrero-Zayas M-I, Wallingford MC, Ortiz-Pineda P, Mager J, Tremblay KD.  2013.  Visceral endoderm expression of Yin-Yang1 (YY1) is required for VEGFA maintenance and yolk sac development.. PLoS One. 8(3):e58828.
Tremblay KD.  2011.  Inducing the liver: understanding the signals that promote murine liver budding.. Journal of cellular physiology. 226(7):1727-31.
Griffith GJ, Trask MC, Hiller J, Walentuk M, Pawlak JB, Tremblay KD, Mager J.  2011.  Yin-yang1 is required in the mammalian oocyte for follicle expansion.. Biology of reproduction. 84(4):654-63.
Nicholls SB, Chu J, Abbruzzese G, Tremblay KD, Hardy JA.  2011.  Mechanism of a genetically encoded dark-to-bright reporter for caspase activity.. The Journal of biological chemistry. 286(28):24977-86.
Tremblay KD.  2010.  Formation of the murine endoderm: lessons from the mouse, frog, fish, and chick.. Progress in molecular biology and translational science. 96:1-34.
Malcuit C, Trask MC, Santiago L, Beaudoin E, Tremblay KD, Mager J.  2009.  Identification of novel oocyte and granulosa cell markers.. Gene expression patterns : GEP. 9(6):404-10.
Calmont A, Wandzioch E, Tremblay KD, Minowada G, Kaestner KH, Martin GR, Zaret KS.  2006.  An FGF response pathway that mediates hepatic gene induction in embryonic endoderm cells.. Developmental cell. 11(3):339-48.
Bort R, Signore M, Tremblay K, Martinez Barbera JP, Zaret KS.  2006.  Hex homeobox gene controls the transition of the endoderm to a pseudostratified, cell emergent epithelium for liver bud development.. Developmental biology. 290(1):44-56.
Tremblay KD, Dunn NR, Robertson EJ.  2001.  Mouse embryos lacking Smad1 signals display defects in extra-embryonic tissues and germ cell formation.. Development (Cambridge, England). 128(18):3609-21.
Tremblay KD, Hoodless PA, Bikoff EK, Robertson EJ.  2000.  Formation of the definitive endoderm in mouse is a Smad2-dependent process.. Development (Cambridge, England). 127(14):3079-90.
Name Phone Office
Guertin , Taylor Graduate Student, MCB program 413-545-7372 ISB 455
Macrorie , Olivia Graduate Student, MCB program 413-545-7372 ISB 455
Sampaio Viana , Ana Clara Negreiros Parente Capela Ph.D. candidate, ABBS 413-545-7372 ISB 455
Rodriguez , Dulce Research Fellow 413-545-7372 ISB 455
Urbano , Catherine Research Fellow 413-545-7372 ISB 455
Nawaid , Hiba Undergraduate student 413-545-7372 ISB 455