PAN-GENOME

作品数：39被引量：97H指数：6
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相关领域：生物学农业科学更多>>
相关机构：南京农业大学吉林大学更多>>
相关期刊：《Journal of Animal Science and Biotechnology》《Science China(Life Sciences)》《Plant Communications》《Bulletin of the Chinese Academy of Sciences》更多>>
相关基金：国家自然科学基金国家重点基础研究发展计划河北省自然科学基金国家教育部博士点基金更多>>
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Pangenome analysis of Rummeliibacillus sp.strains reveals their unexpected diversity and potential for industrial application
《微生物学报》2025年第2期781-795,共15页ZOU Wei YANG Lingling LIU Chaojie ZHENG Jia ZHANG Kaizheng QIAO Zongwei 
中国轻工业浓香型白酒固态发酵重点实验室开放基金(2021JJ017)。
[Objective]Rummeliibacillus,a genus encompassing three known species,R.stabekisii,R.pycnus,and R.suwonensis,has a wide range of potential applications in biodegradation,probiotics,animal feed,and production of arginin...
关键词：average nucleotide identity Bacterial pan-genome analysis(BPGA) genomic islands pangenome Rummeliibacillus 
The goat pan‑genome reveals patterns of gene loss during domestication
《Journal of Animal Science and Biotechnology》2025年第1期49-58,共10页Jiaxin Liu Yilong Shi Dongxin Mo Lingyun Luo Songsong Xu Fenghua Lv 
Strategic Priority Research Program of Chinese Academy of Sciences(No.XDA24030205);National Natural Science Foundation of China(Nos.U21A20246,32102511);National Key Research and Development Program-Key Projects(2021YFD1200900 and 2021YFD1300904);Second Tibetan Plateau Scientific Expedition and Research Program(STEP)(No.2019QZKK0501);Biological Breeding-National Science and Technology Major Project(2023ZD0407106);Chinese Universities Scientific Fund(2024TC162).
Background Unveiling genetic diversity features and understanding the genetic mechanisms of diverse goat pheno-types are pivotal in facilitating the preservation and utilization of these genetic resources.However,the ...
关键词：DOMESTICATION GOAT Improvement PAN-GENOME Presence/absence variation 
Pan-genome analyses add ~1000 genes to the“complete”genome assemblyof chicken
《Journal of Genetics and Genomics》2025年第1期116-119,共4页Jilong Ren Wenyan Kou Yuan Xu Meixuan Lu Mian Gong Xinmiao Zhang Zhenyu Liu Hengkuan Li Qimeng Yang Ali Mujtaba Shah Feng Zhu Zhuocheng Naiyi Xu Yu Jiang Fei Wang 
supported by the National Key Research and Development Program of China(2022YFD1301600);Shaanxi Livestock and Poultry Breeding Double-chain Fusion Key Project(2022GD-TSLD-46-0401);Natural Science Basic Research Program of Shaanxi(2022JQ-171).
Chicken(Gallus gallus)is a vital living organism and plays a crucial role in food requirements.Complete and accurate chicken genomes are critical for insights into chicken breeding,avian evolution,and comparative geno...
关键词：BREEDING comprehensive CHICKEN 
A haplotype-resolved genome for Rhododendron×pulchrum and the expression analysis of heat shock genes
《Journal of Systematics and Evolution》2024年第3期489-504,共16页Jian-Shuang Shen Lan Lan Sheng-Long Kan He-Feng Cheng Dan Peng Zi-Yun Wan Yue Hu Xiao-Ling Huang Xue-Qin Li Yuan-Jun Ye Luke R.Tembrock Zhi-Qiang Wu Song-Heng Jin 
funded by the National Key Research and Development Project (2019YFEo118900);the National Natural Science Foundation of China (31971641,32201608);the Zhejiang Provincial Natural Science Foundation of China (LY16C160011).
Rhododendron is the largest genus in Ericaceae and is well known for its diversity and beauty of flowers present in different species,making it a much-revered lineage of ornamental plants.Many species of Rhododendron ...
关键词：ERICACEAE genome evolution heat shock proteins HORTICULTURE PAN-GENOME 
A pan-TE map highlights transposable elements underlying domestication and agronomic traits in Asian rice被引量：2
《National Science Review》2024年第6期98-111,共14页Xiaoxia Li Xiaofan Dai Huiying He Yang Lv Longbo Yang Wenchuang He Congcong Liu Hua Wei Xiangpei Liu Qiaoling Yuan Xianmeng Wang Tianyi Wang Bintao Zhang Hong Zhang Wu Chen Yue Leng Xiaoman Yu Hongge Qian Bin Zhang Mingliang Guo Zhipeng Zhang Chuanlin Shi Qianqian Zhang Yan Cui Qiang Xu Xinglan Cao Dandan Chen Yongfeng Zhou Qian Qian Lianguang Shang 
supported by the National Natural Science Foundation of China(32188102 and 32101718);the Guangdong Basic andApplied BasicResearch Foundation(2023B1515020053);the Innovation Program of Chinese Academy of Agricultural Sciences(CAAS-CSIAF-202303);the Youth Innovation of the Chinese Academy of Agricultural Sciences(Y2023QC36)。
Transposable elements (TEs) are ubiquitous genomic components and hard to study due to being highlyrepetitive. Here we assembled 232 chromosome-level genomes based on long-read sequencing data.Coupling the 232 genomes...
关键词：transposable element super pan-genome pan-TE RICE 
Pan-genome analysis reveals a highly plastic genome and extensive secreted protein polymorphism in Puccinia striformis f.sp.tritici
《Journal of Genetics and Genomics》2024年第5期574-577,共4页Jierong Wang Yuxi Peng Yiwen Xu Zhiru Li Gangming Zhan Zhensheng Kang Jing Zhao 
the National Key Research and Development Program of China(2021YFD1401001);Shaanxi Province Postdoctoral Science Foundation(2023BSHEDZZ121);the National"111 plan"of China(BP0719026).
The obligate biotrophic basidiomycete fungus Puccinia striformis f.sp.tritici(Pst)is the causative agent of wheat stripe(yellow)rust,a disease that results in severe damage to global wheat production(Chen and Kang,201...
关键词：PUCCINIA OVERCOME wheat 
Analysis of Intraspecies Diversity of Rice Reveals Variation Patterns of Oryza sativa Basic Leucine Zippers
《Phyton-International Journal of Experimental Botany》2024年第5期859-873,共15页Jing Wang Wenqing Xiao Qingnan Wang Xu Wang Bin Jiang Yangchun Han Yang Sun 
The National Natural Science Foundation of China(31871964,31801738,and 32100352);the Major Science and Technology Projects in Anhui Province(202003a06020009);Earmarked Fund for China Agriculture Research System(CARS-01-40);the Special Funds for Supporting Innovation and Entrepreneurship for Returned Oversea-Students in Anhui Province(2020LCX035);Anhui Provincial Natural Science Foundation(Youth Project,2008085QC148).
The basic leucine zipper(bZIP)is an important class of transcription factors in plants,playing a critical role in plant growth and development and responses to biotic and abiotic stress.Due to gene presence/absence va...
关键词：RICE OsbZIP PAN-GENOME structure variation atypical gene bacterial blight 
Uncovering key salt-tolerant regulators through a combined eQTL and GWAS analysis using the super pan-genome in rice被引量：3
《National Science Review》2024年第4期49-63,共15页Hua Wei Xianmeng Wang Zhipeng Zhang Longbo Yang Qianqian Zhang Yilin Li Huiying He Dandan Chen Bin Zhang Chongke Zheng Yue Leng Xinglan Cao Yan Cui Chuanlin Shi Yifan Liu Yang Lv Jie Ma Wenchuang He Xiangpei Liu Qiang Xu Qiaoling Yuan Xiaoman Yu Tianyi Wang Hongge Qian Xiaoxia Li Bintao Zhang Hong Zhang Wu Chen Mingliang Guo Xiaofan Dai Yuexing Wang Xiaoming Zheng Longbiao Guo Xianzhi Xie Qian Qian Lianguang Shang 
supported by the National Natural Science Foundation of China (32188102 and 32372148);Shenzhen Science and Technology Program (RCBS20221008093339096);Innovation Program of Chinese Academy of Agricultural Sciences,Youth Innovation of Chinese Academy of Agricultural Sciences (Y2023QC36);China Postdoctoral Science Foundation (2023M733839);National Key R&D Program of China(2022YFE0139400)
For sessile plants,gene expression plays a pivotal role in responding to salinity stress by activating or suppressing specific genes.However,our knowledge of genetic variations governing gene expression in response to...
关键词：super pan-genome expression quantitative trait loci GWAS salt tolerance RICE 
A graph-based pan-genome of Brassica oleracea provides new insights into its domestication and morphotype diversification被引量：1
《Plant Communications》2024年第2期261-278,共18页Ning Guo Shenyun Wang Tianyi Wang Mengmeng Duan Mei Zong Liming Miao Shuo Han Guixiang Wang Xin Liu Deshuang Zhang Chengzhi Jiao Hongwei Xu Liyang Chen Zhangjun Fei Jianbin Li Fan Liu 
supported by grants from the National Key Research and Development Program of China (2022YFF1003001);the National Natural Science Foundation of China (32072576);the National Modern Agriculture Industry Technology System (CARS-23-G42);the Jiangsu Provincial Key Research and Development Program (BE2021376);the Innovation Program of the Beijing Academy of Agricultural and Forestry Sciences (KJCX20230121);the Collaborative Innovation Program for Leafy and Root Vegetables of the Beijing Vegetable Research Center,Beijing Academy of Agricultural and Forestry Sciences (XTCX202302).
The domestication of Brassica oleracea has resulted in diverse morphological types with distinct patterns of organ development.Here we report a graph-based pan-genome of B.oleracea constructed from high-quality genome...
关键词：Brassica oleracea graph-based pan-genome structural variants SV DOMESTICATION morphotype diversification 
A centromere map based on super pan-genome highlights the structure and function of rice centromeres被引量：1
《Journal of Integrative Plant Biology》2024年第2期196-207,共12页Yang Lv Congcong Liu Xiaoxia Li Yueying Wang Huiying He Wenchuang He Wu Chen Longbo Yang Xiaofan Dai Xinglan Cao Xiaoman Yu Jiajia Liu Bin Zhang Hua Wei Hong Zhang Hongge Qian Chuanlin Shi Yue Leng Xiangpei Liu Mingliang Guo Xianmeng Wang Zhipeng Zhang Tianyi Wang Bintao Zhang Qiang Xu Yan Cui Qianqian Zhang Qiaoling Yuan Noushin Jahan Jie Ma Xiaoming Zheng Yongfeng Zhou Qian Qian Longbiao Guo Lianguang Shang 
supported by the National Natural Science Foundation of China(32188102,32372148);Innovation Program of Chinese Academy of Agricultural Sciences,the Youth Innovation of Chinese Academy of Agricultural Sciences(Y20230C36);Guangdong Basic and Applied Basic Research Foundation(2023B1515020053);the Youth Program of Guangdong Basic and Applied Research(2021A1515111123)。
Rice(Oryza sativa)is a significant crop worldwide with a genome shaped by various evolutionary factors.Rice centromeres are crucial for chromosome segregation,and contain some unreported genes.Due to the diverse and c...
关键词：CENTROMERE super pan-genome CentoO satellite repeat RICE 
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