Bottle gourd genome provides insight on evolutionary history and genetic relationships of cucurbit crops

Researchers from the Boyce Thompson Institute (BTI), the United States Department of Agriculture (USDA), and collaborators in China and France have produced the first high-quality genome sequence for the bottle gourd (Lagenaria siceraria) and a reconstructed genome of the most recent Cucurbitaceae ancestor.

The research was supported under an agreement (58-0210-3-012) with USAID as a part of the Feed-the-Future program and under a grant from the USDA National Institute of Food and Agriculture Specialty Crop Research Initiative (2015-51181-24285).

Also known as calabash, the bottle gourd is valued for its numerous practical and culturally-significant uses in food, medicine, and novelties such as musical instruments, utensils, containers, and decorations. As a rootstock for other cucurbit crops, the bottle gourd also serves as a target for genomic research interests.

Despite this, a high-quality sequence of the bottle gourd genome has not been available and much of the evolutionary history of modern cucurbits and their genetic relationships remains largely unknown.

In their findings, researchers compared the sequenced bottle gourd genome to those of other cucurbit species, allowing them to reconstruct the ancient genomic history of the Cucurbitaceae family.

“Using this genome and other available genomes of cucurbit species including watermelon, melon, cucumber and pumpkin, we reconstructed the genome of the most recent common ancestor of Cucurbitaceae, which provides insights into the paleohistory of the Cucurbitaceae genome evolution,” according to Zhangjun Fei, associate professor at BTI.

The high-quality bottle gourd genome sequence also provides a comprehensive collection of the genetic relationships between the bottle gourd and other Cucurbitaceae species, which can be used to accelerate improvements in cucurbit quality and tolerance to stressors such as disease and cold.

“This study will allow researchers to discover novel genes and develop new molecular markers that can be used to breed higher fruit quality and more disease resistant bottle gourd varieties,” said Fei.

Researchers were able to showcase the utility of the genome sequence by locating genes related to one particularly devastating disease: Papaya ring-spot virus (PRSV).

“The high-quality bottle genome has facilitated the mapping of a locus conferring resistance to PRSV, one of the most destructive viruses infecting papaya and cucurbits worldwide,” said Kai-Shu Ling, research plant pathologist at the USDA Agricultural Research Service (USDA-ARS).

“The availability of the genome sequence will undoubtedly facilitate the discovery of additional disease resistance genes and numerous other beneficial traits in bottle gourd,” said Ling.

The team’s results are published in The Plant Journal. The reported bottle gourd genome sequence is accessible online via the Cucurbit Genomics Database.

Partner institutions include the USDA-Agricultural Research Service (U.S. Vegetable Laboratory and Robert W. Holley Center for Agriculture and Health), the National Engineering Research Center for Vegetables (Beijing Academy of Agriculture and Forestry Sciences), the National Institute of Agricultural Research of France, and the Fujian Agriculture and Forestry University.