News Release

Researchers advance in the development of 'papaya sugarcane'

Description of genes involved in sugarcane root cell separation could lead to the development of varieties with softened cell walls similar to those of papaya, boosting the production of second-generation etanol.

Peer-Reviewed Publication

Fundação de Amparo à Pesquisa do Estado de São Paulo

Papaya Sugarcane

image: Sugarcane root aerenchyma seen under a microscope. Description of genes involved in sugarcane root cell separation could lead to the development of varieties with softened cell walls similar to those of papaya, boosting the production of second-generation etanol. view more 

Credit: Débora Chaves Coelho Leite

During the period in which the papaya (Carica papaya) is ripening, its cell walls separate, making the tissue softer and more digestible because the cell contents become accessible and the sucrose in the fruit is more easily extracted.

Sugarcane roots have recently been found to undergo a similar process. Their cell walls are modified during development to form gas-filled intercellular spaces in a type of tissue known as aerenchyma.

"Aerenchyma is very common in crops grown in flooded fields, such as rice, since it supports them or enables them to float in water while also allowing the submerged parts of the plant to breathe in oxygen and breathe out carbon gas," said Marcos Buckeridge, a professor in the University of São Paulo's Bioscience Institute (IB-USP) in Brazil.

In recent years, Buckeridge and collaborators have focused on studying the genes involved in sugarcane root cell separation with the aim of developing transgenic varieties of sugarcane in which the process occurs in other parts of the plant, such as the stem, where biomass and sucrose accumulate. The cell walls in these varieties would be as soft as in a papaya - hence the nickname "papaya sugarcane" - and could more easily be degraded to produce second-generation bioethanol (obtained from biomass) on a large scale.

Researchers affiliated with Brazil's National Institute of Science and Technology of Bioethanol (INCT Bioethanol, one of several such research centers supported by São Paulo Research Foundation - FAPESP in São Paulo State in partnership with the National Council for Scientific and Technological Development (CNPq), have now taken an important step in this direction.

Partnering with colleagues from other universities and research institutions in Brazil and abroad, they described the first gene sequences involved in sugarcane root cell separation and elucidated their functions in this process. The results of the study were published, in the Journal of Experimental Botany.

"If we succeed in promoting cell wall separation in the sugarcane stem, it will be possible not only to reduce the amount of enzyme cocktails used for enzymatic hydrolysis [degradation of the carbohydrates in sugarcane trash and bagasse and their conversion into fermentable sugar] to obtain second-generation ethanol but also to increase sucrose extraction," Buckeridge, principal investigator for INCT Bioethanol, told.

The researchers sequenced two genes considered essential to the initial stages of aerenchyma development in sugarcane roots. The first was scRAV1, which encodes the RAV transcription factor that controls plant leaf aging. The second was scEPG1, which encodes endopolygalacturonase (EPG), an enzyme that degrades the pectin that keeps cells together, thereby contributing to cell separation and the softening of fruit tissue via aerenchyma formation.

Owing to the complexity of the sugarcane genome, which has several copies of each chromosome and numerous variants of each gene, the two genes were sequenced from 17 artificial bacterial chromosome clones containing genomic regions homologous to those of the R570 sugarcane variety.

The gene sequences were compared with those of the corresponding regions of Sorghum bicolor (the sorghum genome closely resembles the sugarcane genome). A similar sequence from each of the two genes was expressed in tobacco leaves for transactivation assays to see which other genes they activated.

"Tobacco is easy to transform genetically and serves as a model to demonstrate how mechanisms like this actually work," Buckeridge said.

Analysis of the genomic regions and the transactivation assays showed that scRAV1 controls early pectin degradation during sugarcane root aerenchyma formation and that the protein produced by scRAV1 binds to the scEPG1 promoter, blocking transcription of this gene.

"Our findings pave the way for using biotechnology for the genetic manipulation of sugarcane to boost the production of second-generation ethanol," Buckeridge said. First step

The researchers developed a sugarcane variety with enhanced expression of scRAV1. They also discovered a microRNA (a molecule that regulates gene expression) capable of specifically inhibiting scRAV1 and stimulating the expression of scEPG1throughout the plant.

"In this genetically transformed variety, we're starting to see what seems to be a softening of the sugarcane cell wall, similar to the effect we want. The stems of some of the plants, for example, are unable to stay erect. This could be the first step toward the development of papaya sugarcane," Buckeridge said.


A video showing a CT scan of sugarcane root aerenchyma formation can be observed at

About São Paulo Research Foundation (FAPESP)

The São Paulo Research Foundation (FAPESP) is a public institution with the mission of supporting scientific research in all fields of knowledge by awarding scholarships, fellowships and grants to investigators linked with higher education and research institutions in the State of São Paulo, Brazil. FAPESP is aware that the very best research can only be done by working with the best researchers internationally. Therefore, it has established partnerships with funding agencies, higher education, private companies, and research organizations in other countries known for the quality of their research and has been encouraging scientists funded by its grants to further develop their international collaboration. You can learn more about FAPESP at and visit FAPESP news agency at to keep updated with the latest scientific breakthroughs FAPESP helps achieve through its many programs, awards and research centers. You may also subscribe to FAPESP news agency at

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