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Carl R. Woese Institute for Genomic Biology

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Any expectant mother will tell you that she wants her baby's organs to develop properly in the womb.

What she may not realize, however, is that a child's internal organs continue to develop for months and years after birth. This critical period is full of cellular changes that transform the organization and function of most tissues. But the exact mechanisms underlying postnatal organ maturation are still a mystery.

Left to right are: Edrees H. Rashan, Auinash Kalsotra (Assistant Professor of Biochemistry and Medical Biochemistry), Waqar Arif, Amruta Bhate, and Sandip Chorghade
Left to right are: Edrees H. Rashan, Auinash Kalsotra (Assistant Professor of Biochemistry and Medical Biochemistry), Waqar Arif, Amruta Bhate, and Sandip Chorghade.

Now researchers report that liver cells utilize a mechanism called "alternative splicing," which alters how genes are translated into the proteins that guide this critical period of development.

"This mechanism is different from simply turning gene expression on or of," said University of Illinois Biochemistry Professor Auinash Kalsotra, who led the study.

"Turning gene expression on or off leads to a quantitative change in gene expression - you make more or less of a particular RNA. Alternative splicing, however, provides means to produce a qualitative change. You are making the same amounts of RNA but of different kinds."

Alternative splicing is a lot like building with LEGOs, where bits and pieces of DNA (called exons) can be pieced together or have parts removed to produce different assortments of proteins.

LEGO model of a liver. Alternative splicing generates mRNA diversity to support liver development.
LEGO model of a liver. Alternative splicing generates mRNA diversity to support liver development.

"The diversity of RNAs and proteins generated in this way allows the liver to acquire new functions tailored for the adult needs," Kalsotra said.

Using a powerful technology called next-generation RNA sequencing, the researchers simultaneously looked at thousands of genes, pinpointing the ones that undergo regulated changes in alternative splicing as the liver develops.

The findings, which appear in the journal Nature Communications, also identified an RNA binding protein, ESRP2, which controls this developmental program in the liver.

"It turns out that ESRP2 is absent in the fetal liver and is only turned on after birth to activate splicing of genes that are particularly important for liver growth and functionality," Kalsotra said.

Working in cell culture, the researchers spurred liver cells to express the ESRP2 protein, and observed that the cells began to display adult-like characteristics.

"We were amazed to see how clean the results were," Kalsotra said. "In the absence of ESRP2, the adult liver remains immature. This tells us how important this RNA binding protein is for optimizing adult functions."

This is the first study to provide a direct link between splicing regulation and liver maturation, he said.

"We are excited to investigate this link further and determine the exact function of these splicing switches in postnatal liver development," said Kalsotra, who also is an affiliate of the Carl R. Woese Institute for Genomic Biology at Illinois.

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Amruta Bhate, a graduate student in the Kalsotra lab, and Darren Parker, an Illinois biochemistry undergraduate student, spearheaded this work. The research team also included Waqar Arif, Edrees H. Rashan, Sandip Chorghade, Anthony Chau and Sayeepriyadarshini Anakk, from the University of Illinois, Urbana-Champaign; Thomas W. Bebee and Russ P. Carstens, from University of Pennsylvania; and Jaegyoon Ahn, Jae-Hyung Lee, and Xinshu Xiao from University of California, Los Angeles. Parker and Chau are currently graduate students at Massachusetts Institute of Technology and University of California, Los Angeles respectively.

The National Institutes of Health, March of Dimes, and Roy J. Carver Charitable Trust funded this research.

Additional coverage available on the School of Molecular and Cellular Biology news page.

The paper "ESRP2 Controls an Adult Splicing Program in Hepatocytes to Support Postnatal Liver Maturation" appears in Nature Communications.

Associated Themes
Gene Networks in Neural & Developmental Plasticity
Omics Nanotechnology for Cancer Precision Medicine
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Auinash Kalsotra.
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Kalsotra lab.