Faculty & Research
Program in Neuroscience
- Contact Information
- Contact Justin Kumar by jkumar [at] indiana [dot] edu
- By telephone: 812-856-2621/6-2702(lab)
- By fax: 812-856-1566
- MY 202A / MY 202 (lab)
- Genome, Cell & Developmental Biology
- Research Areas
- Chromatin, Chromosomes, and Genome Integrity
- Developmental Mechanisms and Regulation in Eukaryotic Systems
- Eukaryotic Cell Biology, Cytoskeleton and Signaling
Ph.D., Purdue University, 1996
Postdoctoral Fellow, University of Southern California, 1996-1997
Postdoctoral Fellow, Emory University School of Medicine, 1998-2002
IU Trustees Teaching Award, 2015
The compound eye of the fruit fly, Drosophila melanogaster, is an excellent model system for studying such diverse topics as tissue determination, compartment boundary establishment, cell fate specification, cell proliferation and apoptosis, planar cell polarity, signal transduction and cell-cell communication. The retina is a particularly good experimental model in part because it contains a limited number of cell types that follow a precise and stereotyped mode of development. Additionally, more than thirty years of study by dozens of laboratories has produced a detailed survey of the eye's cellular, molecular and morphological development.
Eye formation begins during embryogenesis when two groups of cells within the developing head delaminate from the surface ectoderm, proliferate rapidly and organize themselves into monolayer epithelial sheets called eye-antennal imaginal discs. During the earliest stages of retinal development, cells within the eye imaginal disc, to our inspection, are completely unpatterned and undifferentiated. However, as each disc serves as the template from which the adult eye is created, over the course of several days, the imaginal discs are transformed into the adult compound eyes each of which contains approximately 800 unit eyes or ommatidia.
My research group is focused on a number of questions (described below) that are central to understanding how tissues in general, and the eye in particular, are initially specified and then patterned. We use a wide range of molecular, biochemical and cellular methods to analyze the genes and proteins that control each step in retinal development. We also make extensive use of scanning, light and confocal microscopy to analyze the cellular and developmental consequences to eye development in instances in which genes critical to retinal formation have been disrupted.
Regulation of Tissue Specification
In addition to the retina, nearly all structures of the adult fly are derived from imaginal discs. Each type of disc must initiate a unique developmental program that will set it aside and down a path that is molecularly distinct from the other discs. Approximately fourteen known selector genes govern the process of specifying the retina. These factors are collectively referred to as the eye specification or retinal determination network and each gene encodes a nuclear protein; some of which are DNA binding proteins while others serve as transcriptional co-activators, kinases or phosphatases. Removal of any member of the core eye specification network leads to severe if not total loss of retinal tissue. On the other hand, forced expression of these factors results in the redirection of non-retinal tissues towards an eye fate. We are working towards understanding how this network promotes eye development and what are the cellular and molecular consequences of disrupting this regulatory system
Connecting Specification to Proliferation
The eye primordium initially consists of approximately twenty cells. As the embryo hatches and the emerging larva undergoes consecutive rounds of molting and growth, the eye imaginal disc undergoes dramatic increases in cell proliferation and will eventually reach a size of nearly 20,000 cells. The loss of specific selector genes result not only in the loss of tissue identity but also lead to dramatically lowered rates of cell proliferation and increased numbers of apoptotic cells. We are pursuing potential links between tissue specification and cell proliferation. One potential outcome of these studies is likely to be a better understanding of how tumors initiate their growth.
Establishment of Compartment Boundaries
One of the earliest events to take place in the developing retina is the subdivision of the eye field into dorsal and ventral compartments. Initially, gene expression is relatively uniform throughout the entire tissue. However, during the first larval instar individual selector genes are expressed specifically within either the dorsal or ventral halves of the developing eye field. This has the effect of influencing the direction that photoreceptors will rotate immediately upon their birth. The most visible outcome of this process is the mirror-image orientation of the ommatidia across the equator in the adult retina, which is critical for proper vision. We are interested in identifying the entire gene regulatory network that subdivides the retina into discrete compartments.
Regulation of Pattern Formation
Overt patterning of the retina begins during the final larval instar when a wave of differentiation initiates at the posterior margin of the eye field and subsequently sweeps across the epithelium much like a wave travels across an ocean. The leading edge of this mobile compartment boundary is called the morphogenetic furrow. As the furrow passes cells are organized into clusters that are the rudiments of the future unit eyes. Over the years a number of signaling pathways have been shown to regulate the initiation of pattern formation and the progression of the furrow. It has also been shown that, if unchecked, the furrow actually moves too rapidly across the epithelium. To prevent this from occurring, the eye makes use of a protein sequestration mechanism to functionally inactivate factors that are required for the movement of the furrow. This results in a slowing of pattern formation to a speed that is compatible with the rate of cell proliferation. We are focused on furthering our understanding of how pattern formation is initiated, maintained and regulated within the developing retina.
The developing eye is an excellent system for studying eye development in vertebrate systems including humans because there are functional orthologs in humans for nearly all of the genes that govern each of the processes described above. More importantly, several human retinal disorders are attributed to mutations within the human versions of the fly genes. We believe that these observations will now make it considerably easier to look through the faceted lens of flies and into the eyes of humans.
Spratford, C.M. and Kumar, J.P. (2015) Inhibition of Daughterless by Extramacrochaetae mediates Notch induced cell proliferation. Development 142: 2058-2068
Spratford, C.M. and Kumar, J.P. (2015) Extramacrochaetae functions in dorsal-ventral patterning of Drosophila imaginal discs. Development 142: 1006-1015
Anderson, A.M., Weasner, B.P., Weasner, B.M. and Kumar, J.P. (2014) The Drosophila Wilms’ Tumor 1-Associating Protein (WTAP) homolog is required for eye development. Developmental Biology 390: 170-180
Spratford, C.M. and Kumar, J.P. (2013) Extramacrochaetae imposes order on the Drosophila retina by refining the activity of the Hedgehog signaling gradient. Development 140: 1994-2004
Weasner, B.M. and Kumar, J.P. (2013) Competition amongst gene regulatory networks imposes order within the eye-antennal disc of Drosophila. Development 140: 205-215
Anderson, A.M., Weasner, B.M., Weasner, B.P. and Kumar, J.P. (2012) Dual transcriptional activities of SIX proteins define their roles in normal and ectopic eye development. Development 139: 991-1000