Cannabis sativa is a well-known plant species that has great economic and ecological significance.An incomplete genome of cloned C.sativa was obtained by using SOAPdenovo software in 2011.To further explore the utiliz...Cannabis sativa is a well-known plant species that has great economic and ecological significance.An incomplete genome of cloned C.sativa was obtained by using SOAPdenovo software in 2011.To further explore the utilization of this plant resource,we generated an updated draft genome sequence for wild-type varieties of C.sativa in China using PacBio single-molecule sequencing and Hi-C technology.Our assembled genome is approximately 808 Mb,with scaffold and contig N50 sizes of 83.00 Mb and 513.57 kb,respectively.Repetitive elements account for 74.75%of the genome.A total of 38,828 protein-coding genes were annotated,98.20%of which were functionally annotated.We provide the first comprehensive de novo genome of wild-type varieties of C.sativa distributed in Tibet,China.Due to long-term growth in the wild environment,these varieties exhibit higher heterozygosity and contain more genetic information.This genetic resource is of great value for future investigations of cannabinoid metabolic pathways and will aid in promoting the commercial production of C.sativa and the effective utilization of cannabinoids.The assembled genome is also a valuable resource for intensively and effectively investigating the C.sativa genome further in the future.展开更多
The fruits of Physalis(Solanaceae)have a unique structure,a lantern-like fruiting calyx known as inflated calyx syndrome(ICS)or the Chinese lantern,and are rich in steroid-related compounds.However,the genetic variati...The fruits of Physalis(Solanaceae)have a unique structure,a lantern-like fruiting calyx known as inflated calyx syndrome(ICS)or the Chinese lantern,and are rich in steroid-related compounds.However,the genetic variations underlying the origin of these characteristic traits and diversity in Physalis remain largely unknown.Here,we present a high-quality chromosome-level reference genome assembly of Physalis floridana(~1.40Gb in size)with a contig N50 of~4.87Mb.Through evolutionary genomics and experimental approaches,we found that the loss of the SEP-like MADS-box gene MBP21 subclade is likely a key mutation that,together with the previously revealed mutation affecting floral MPF2 expression,might have contributed to the origination of ICS in Physaleae,suggesting that the origination of a morphological novelty may have resulted from an evolutionary scenario in which one mutation compensated for another deleterious mutation.Moreover,the significant expansion of squalene epoxidase genes is potentially associated with the natural variation of steroid-related compounds in Physalis fruits.The results reveal the importance of gene gains(duplication)and/or subsequent losses as genetic bases of the evolution of distinct fruit traits,and the data serve as a valuable resource for the evolutionary genetics and breeding of solanaceous crops.展开更多
基金The National Key R&D Program of China(Grant 2018YFC0807401)provided financial support for this study.
文摘Cannabis sativa is a well-known plant species that has great economic and ecological significance.An incomplete genome of cloned C.sativa was obtained by using SOAPdenovo software in 2011.To further explore the utilization of this plant resource,we generated an updated draft genome sequence for wild-type varieties of C.sativa in China using PacBio single-molecule sequencing and Hi-C technology.Our assembled genome is approximately 808 Mb,with scaffold and contig N50 sizes of 83.00 Mb and 513.57 kb,respectively.Repetitive elements account for 74.75%of the genome.A total of 38,828 protein-coding genes were annotated,98.20%of which were functionally annotated.We provide the first comprehensive de novo genome of wild-type varieties of C.sativa distributed in Tibet,China.Due to long-term growth in the wild environment,these varieties exhibit higher heterozygosity and contain more genetic information.This genetic resource is of great value for future investigations of cannabinoid metabolic pathways and will aid in promoting the commercial production of C.sativa and the effective utilization of cannabinoids.The assembled genome is also a valuable resource for intensively and effectively investigating the C.sativa genome further in the future.
基金This work was supported by grants from the National Natural Science Foundation of China(31525003,31930007)to C.Y.H.grants(31970346)to H.Z.W.+1 种基金the Strategic Priority Research Program of the Chinese Academy of Sciences(XDB27010106)to C.Y.H.grants from the National Natural Science Foundation of China(31470407)to H.Z.W.
文摘The fruits of Physalis(Solanaceae)have a unique structure,a lantern-like fruiting calyx known as inflated calyx syndrome(ICS)or the Chinese lantern,and are rich in steroid-related compounds.However,the genetic variations underlying the origin of these characteristic traits and diversity in Physalis remain largely unknown.Here,we present a high-quality chromosome-level reference genome assembly of Physalis floridana(~1.40Gb in size)with a contig N50 of~4.87Mb.Through evolutionary genomics and experimental approaches,we found that the loss of the SEP-like MADS-box gene MBP21 subclade is likely a key mutation that,together with the previously revealed mutation affecting floral MPF2 expression,might have contributed to the origination of ICS in Physaleae,suggesting that the origination of a morphological novelty may have resulted from an evolutionary scenario in which one mutation compensated for another deleterious mutation.Moreover,the significant expansion of squalene epoxidase genes is potentially associated with the natural variation of steroid-related compounds in Physalis fruits.The results reveal the importance of gene gains(duplication)and/or subsequent losses as genetic bases of the evolution of distinct fruit traits,and the data serve as a valuable resource for the evolutionary genetics and breeding of solanaceous crops.
