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Watermelon domestication was shaped by stepwise selection and regulation of the metabolome

Science China(Life Sciences) 2023年第3期66卷 579-594页

作者： Pingli Yuan Congping Xu Nan He Xuqiang Lu Xingping Zhang Jianli Shang Hongju Zhu Chengsheng Gong hanhui kuang Tang Tang Yong Xu Shuangwu Ma Dexi Sun Weiqin Zhang Muhammad J.Umer Jian Shi Alisdair R.Fernie Wenge Liu Jie Luo Henan Joint International Research Laboratory of South Asian Fruits and Cucurbits Zhengzhou Fruit Research InstituteChinese Academy of Agricultural SciencesZhengzhou 450009China Hainan Yazhou Bay Seed Laboratory Sanya Nanfan Research Institute of Hainan UniversitySanya 572025China Peking University Institute of Advanced Agricultural Sciences Weifang 261325China College of Horticulture and Forestry Sciences Huazhong Agricultural UniversityWuhan 430070China Wuhan Metware Biotechnology Co. Ltd.Wuhan 430070China National Watermelon and Melon Improvement Center Beijing Academy of Agricultural and Forestry SciencesBeijing 100097China Max-Planck-Institute of Molecular Plant Physiology Potsdam-Golm 144776Germany College of Tropical Crops Hainan UniversityHaikou 572208China

Although crop domestication has greatly aided human civilization,the sequential domestication and regulation of most quality traits remain poorly ***,we report the stepwise selection and regulation of major fruit quality traits that occurred during watermelon *** levels of fruit cucurbitacins and flavonoids were negatively selected during speciation,whereas sugar and carotenoid contents were positively selected during ***,fruit malic acid and citric acid showed the opposite selection trends during the *** identified a novel gene cluster(CGC1,cucurbitacin gene cluster on chromosome 1)containing both regulatory and structural genes involved in cucurbitacin biosynthesis,which revealed a cascade of transcriptional regulation operating *** the CGC1,an allele caused a single nucleotide change in Cl ERF1 binding sites(GCC-box)in the promoter of Cl Bh1,which resulted in reduced expression of Cl Bh1 and inhibition of cucurbitacin synthesis in cultivated *** analysis revealed that a rare insertion of 244 amino acids,which arose in *** and became fixed in sweet watermelon,in Cl OSC(oxidosqualene cyclase)was critical for the negative selection of cucurbitacins during watermelon *** research provides an important resource for metabolomics-assisted breeding in watermelon and for exploring metabolic pathway regulation mechanisms.

关键词： metabolome mGWAS gene cluster domestication cucurbitacin biosynthesis

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Frequent Gain and Loss of Resistance against Tobacco Mosaic Virus in Nicotiana Species

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Molecular Plant 2015年第12期8卷 1813-1815页

作者： Yuan, Xinjie Yan, Chenghuan Wu, Zhujun Ren, Feihong Zhang, Hui Baker, Barbara Chen, Jiongjiong kuang, hanhui Huazhong Agr Univ Key Lab Hort Plant Biol Minist EducMOAColl Hort & Forestry Sci Key Lab Hort Crop Biol & Genet Improvement Cent R Wuhan 430070 Peoples R China Univ Calif Berkeley Dept Plant & Microbial Biol Berkeley CA 94720 USA USDA ARS Ctr Plant Gene Express Albany CA 94710 USA

Dear Editor Resistance （R） genes represent one of the most divergent gene families in plants. Novel resistance function might arise through point mutations or sequence exchanges between paralogues （kuang et al., 20... 详细信息

关键词： EVOLUTION FAMILY GENES

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Unstable Allotetraploid Tobacco Genome due to Frequent Homeologous Recombination, -. Segmental Deletion, and Chromosome Loss

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Molecular Plant 2018年第7期11卷 914-927页

作者： Shumin Chen Feihong Ren Lei Zhang Yong Liu Xuejun Chen Yuanmei Li Liang Zhang Bin Zhu Pan.Zeng Zaiyun Li Robert M. Larkin hanhui kuang Key Laboratory of Horticultural Plant Biology Ministry of Education Key Laboratory of Horticultural Crop Biology and Genetic Improvement (Central Region) MOA College of Horticulture and Forestry Sciences Huazhong Agricultural University Wuhan 430070 People's Republic of China Yunan Academy of Tobacco Agricultural Science Kunming Yunnan Province People's Republic of China College of Plant Science Huazhong Agricultural University Wuhan 430070 People's Republic of China These authors contributed equally to this article.

The types of mutations and their corresponding frequencies are difficult to measure in complex genomes. In this study, a high-throughput method was developed to identify spontaneous loss-of-function alleles for the resistance gene N and the transgenic avirulence gene P50 in allotetraploid tobacco. A total of 2134 loss- of-function alleles of the N gene were identified after screening 14 million F1 hybrids. Analysis of these mutants revealed striking evolutionary patterns for genes in polyploids. Only 14 of the loss-of-function mutations were caused by spontaneous point mutations or indels, while the others were caused by home- ologous recombination （with a frequency of 1/12 000） or chromosome loss （1/15 000）. Loss of the chromosome with the PS0 insertion occurred at a similar frequency （1/13 000）, and the frequency of spon- taneous segmental deletion in this chromosome was 1/16 000. Both homeologous recombination and chromosome loss considerably decreased the viability of the mutants. Our data suggest that the high mutation rate in polyploids is probably due to the occurrence of homeologous recombination and the toler- ance of large mutations such as chromosome loss in polyploid genomes. Frequent mutations tend to drive polyploids to extinction unless a novel mutation helps the polyploid to effectively compete with diploids or find a new ecological niche.

关键词： polyploid genome evolution homeologous recombination chromosome loss spontaneous mutation

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Evolution of the Resistance against TMV in Nicotiana spp.

Evolution of the Resistance against TMV in Nicotiana spp.

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第十三届全国植物基因组学大会

作者： Shumin Chen,Jiongjiong Chen,Feihong Ren,Zhujun Wu,,Hui Zhang,Chenhuan Yan, hanhui kuang~* Dept of Vegetable Crops,Huazhong Agricultural University,Wuhan 430070,China

The resistance gene N against TMV is alternatively spliced and its two transcripts are required for its full *** alternative exon is provided by a miniature invertedrepeat transposable element(MITE).The insertion of the MITE in intron 3 was found only in the Ngene but not in any other N *** better understand the evolution of the N gene,its avirulence gene(p50) in TMV was transformed into a

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Miniature Inverted-repeat Transposable Elements(MITEs) Have Been Accumulated through Amplification Bursts and Play Important Roles on Gene Expression and Species Diversity in Oryza sativa

Miniature Inverted-repeat Transposable Elements(MITEs) Have ...

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第十二届全国植物基因组学大会

作者： Chen Lu~#,Jiongjiong Chen~#,Yu Zhang,Qun Hu,Wenqing Su,hanhui kuang~* Key Laboratory of Horticulture Biology,Ministry of Education,and Department of Vegetable Crops,College of Horticulture and Forestry,Huazhong Agricultural University,Wuhan 430070,China

Miniature inverted-repeat transposable elements(MITEs) are predicted to play important roles on genome *** developed a BLASTN-based approach for de novo identification of MITEs and systematically analyzed MITEs in rice *** genome of rice cultivar Nipponbare(Oryza sativa ssp. japonica) harbors 179,195 MITE-related sequences classified into 338 *** nucleotide diversity and phylogenetic tree analysis indicated that individual MITE families were resulted from one or multiple

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Genome sequence and evolution of Betula platyphylla

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Horticulture Research 2021年第1期8卷 496-507页

作者： Su Chen Yucheng Wang Lili Yu Tao Zheng Sui Wang Zhen Yue Jing Jiang Sapna Kumari Chunfang Zheng Haibao Tang Jun Li Yuqi Li Jiongjiong Chen Wenbo Zhang hanhui kuang Jon SRobertson Patrick XZhao Huiyu Li Shengqiang Shu Yordan SYordanov Haijiao Huang David MGoodstein Ying Gai Qi Qi JiuMeng Min ChunYan Xu SongBo Wang Guan-Zheng Qu Andrew HPaterson David Sankoff Hairong Wei Guifeng Liu Chuanping Yang State Key Laboratory of Tree Genetics and Breeding(Northeast Forestry University) HarbinChina BGI-Qingdao BGI-ShenzhenQingdaoChina BGI-Tech BGI-ShenzhenShenzhenChina College of Forest Resources and Environmental Science Institute of Computing and CybersystemsMichigan Technological UniversityHoughtonMIUSA Department of Mathematics and Statistics University of OttawaOttawaONCanada Center for Genomics and Biotechnology Fujian Agriculture and Forestry UniversityFuzhouFujian ProvinceChina School of Plant Sciences University of ArizonaTucsonAZUSA Noble Research Institute 2510 Sam Noble ParkwayArdmoreOKUSA Department of Vegetable Crops College of Horticulture and ForestryHuazhong Agricultural UniversityWuhanP.R.China Plant Genome Mapping Laboratory University of GeorgiaAthensGeorgia US Department of Energy Joint Genome Institute Walnut CreekCAUSA Department of Biological Sciences Eastern Illinois UniversityCharlestonILUSA College of Biological Sciences and Biotechnology Beijing Forestry UniversityBeijingP.R.China

Betula L.(birch)is a pioneer hardwood tree species with ecological,economic,and evolutionary importance in the Northern *** sequenced the Betula platyphylla genome and assembled the sequences into 14 *** Betula genome lacks evidence of recent whole-genome duplication and has the same paleoploidy level as Vitis vinifera and Prunus *** analysis of lignin pathway genes coupled with tissue-specific expression patterns provided clues for understanding the formation of higher ratios of syringyl to guaiacyl lignin observed in Betula *** transcriptome analysis of leaf tissues under a time-series cold stress experiment revealed the presence of the MEKK1–MKK2–MPK4 cascade and six additional mitogen-activated protein kinases that can be linked to a gene regulatory network involving many transcription factors and cold tolerance *** genomic and transcriptome analyses provide insight into the structures,features,and evolution of the *** *** chromosome-level genome and gene resources of *** obtained in this study will facilitate the identification of important and essential genes governing important traits of trees and genetic improvement of ***.

关键词： evolution platyphylla insight

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Contrasting evolutionary patterns of the Rp1 resistance gene family in different species of Poaceae

Contrasting evolutionary patterns of the Rp1 resistance gene...

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第十一届全国植物基因组学大会

作者： Sha Luo~(1,3),Junhua Peng~(2,3),Kunpeng Li~1,Min Wang~1,hanhui kuang~(1*) 1 Key Laboratory of Horticulture Biology,Ministry of Education,and Department of Vegetable Crops,College of Horticulture and Forestry,Huazhong Agriculture University,Wuhan,P.R.China,430070 2 Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture,and Wuhan Botanic Garden, Chinese Academy of Science,Wuhan,Hubei 430074,P.R.China

Disease resistance genes(R-genes) in plants show complex evolutionary *** investigated the evolution of the Rp1 R-gene family in Poaceae,and 409 Rp1 fragments were sequenced from 21 *** data showed that the common anc...

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