GENOMIC

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Cotton2035:From genomics research to optimized breeding
《Molecular Plant》2025年第2期298-312,共15页Wang Kun He Shoupu Zhu Yuxian 
supported by the National Key Research and Development Program of China(2022YFF1001400 and 2021YFF1000101);the National Natural Science Foundation of China(32470433 and 32122062);the Foundation of Hubei Hongshan Laboratory(2021hszd014),and the Hubei Provincial Research Center of Basic Discipline of Biology.
Cotton is the world’s most important natural fiber crop and serves as an ideal model for studying plant genome evolution,cell differentiation,elongation,and cell wall biosynthesis.The first draft genome assembly for ...
关键词：cotton genomics cotton ENCODE project cotton breeding genomics-to-breeding(G2B) 
Maize2035:A decadal vision for intelligent maize breeding
《Molecular Plant》2025年第2期313-332,共20页Hai-Jun Liu Jie Liu Zhiwen Zhai Mingqiu Dai Feng Tian Yongrui Wu Jihua Tang Yanli Lu Haiyang Wang David Jackson Xiaohong Yang Feng Qin Mingliang Xu Alisdair R.Fernie Zuxin Zhang Jianbing Yan 
supported by the National Natural Science Foundation of China(32321005);the National Key R&D Program of China(2022 YFD1201502);the Science and Technology Major Program of Hubei Province(2021ABA011);the 111 Project Crop Genomics and Molecular Breeding(B20051).
Maize,a cornerstone of global food security,has undergone remarkable transformations through breeding,yet further increase in global maize production faces mounting challenges in a changing world.In this Perspective p...
关键词：food security Zea mays genomic prediction synthetic biology multi-omics hologenomics 
Harmonizing metabolic blueprint of flavor using complementary genomic insights
《Molecular Plant》2025年第1期19-21,共3页Rhowell N.Tiozon Jr Nese Sreenivasulu 
A key component of the sensory experience is flavor, which reflects preferred customer desires for higher-quality fruits, vegetables, and cereals. However, breeders are currently facing difficulty in capturing flavor ...
关键词：COMPLEMENTARY INSIGHT DESIRED 
Genomic and metabolomic insights into the selection and differentiation of bioactive compounds in citrus
《Molecular Plant》2024年第11期1753-1772,共20页Xiao Liang Yue Wang Wanxia Shen Bin Liao Xiaojuan Liu Zimeng Yang Jiebiao Chen Chenning Zhao Zhenkun Liao Jinping Cao Ping Wang Peng Wang Fuzhi Ke Jianguo Xu Qiong Lin Wanpeng Xi Lishu Wang Juan Xu Xiaochun Zhao Chongde Sun 
supported by the National Key Research and Development Program of China(2023YFD2300604);the National Natural Science Foundation of China(32072132,32101932);the Hangzhou Joint Fund of the Zhejiang Provincial Natural Science Foundation of China(LHZSD24C150001);the Fundamental Research Funds for the Zhejiang Provincial Universities(226-2024-00211);the Fundamental Research Funds for the Central Universities(226-2024-00235).
Bioactive compounds play an increasingly prominent role in breeding functional and nutritive fruit crops such as citrus.However,the genomic and metabolic bases for the selection and differentiation underlying bioactiv...
关键词：CITRUS METABOLOME genome-wide association study bioactive compounds 
The super-pangenome of Populus unveils genomic facets for its adaptation and diversification in widespread forest trees被引量：1
《Molecular Plant》2024年第5期725-746,共22页Tingting Shi Xinxin Zhang Yukang Hou Changfu Jia Xuming Dan Yulin Zhang Yuanzhong Jiang Qiang Lai Jiajun Feng Jianju Feng Tao Ma Jiali Wu Shuyu Liu Lei Zhang Zhiqin Long Liyang Chen Nathaniel R.Street Par K.Ingvarsson Jianquan Liu Tongming Yin Jing Wang 
supported by the National Key Research and Development Program of China(2022YFD2201200 to J.W.and 2021YFD2200202 to T.Y.and J.L.);National Natural Science Foundation of China(32371695 and 31971567 to J.W.);Fundamental Research Funds for the Central Universities(2023SCUNL105 and SCU2022D003 to J.W.).
Understanding the underlying mechanisms and links between genome evolution and adaptive innovations stands as a key goal in evolutionary studies.Poplars,among the world’s most widely distributed and cultivated trees,...
关键词：POPULUS pangenomes whole-genome duplication structural variation genome evolution 
Genomic selection in plant breeding:Key factors shaping two decades of progress被引量：3
《Molecular Plant》2024年第4期552-578,共27页Admas Alemu Johanna Astrand Osval A.Montesinos-López Julio Isidro y Sanchez Javier Fernandez-Gónzalez Wuletaw Tadesse Ramesh R.Vetukuri Anders S.Carlsson Alf Ceplitis JoséCrossa Rodomiro Ortiz Aakash Chawade 
supported by SLU Grogrund(#SLU-LTV.2020.1.1.1-654);an Einar and Inga Nilsson Foundation grant.J.I.y.S.was supported by grant PID2021-123718OB-I00;funded by MCIN/AEI/10.13039/501100011033;by“ERDF A way of making Europe,”CEX2020-000999-S.R.R.V.;supported by Novo Nordisk Fonden(0074727);SLU’s Centre for Biological Control;In addition,J.I.y.S.and J.F.-G.were supported by the Beatriz Galindo Program BEAGAL 18/00115.
Genomic selection,the application of genomic prediction(GP)models to select candidate individuals,has significantly advanced in the past two decades,effectively accelerating genetic gains in plant breeding.This articl...
关键词：genomic selection genetic gain genomic prediction optimization deep learning training population optimization 
Genomic insights into the genetic basis of cotton breeding in China被引量：2
《Molecular Plant》2023年第4期662-677,共16页Yiqian Li Zhanfeng Si Guoping Wang Zhuolin Shi Jinwen Chen Guoan Qi Shangkun Jin Zegang Han Wenhao Gao Yue Tian Yun Mao Lei Fang Yan Hu Hong Chen Xiefei Zhu Tianzhen Zhang 
supported by grants from the NSFC(32172008);the Xinjiang Production and Construction Corps(2019AB021,2021AB008,and 2020CB003);project of Hainan Yazhou Bay Seed Lab(B21HJ0223);the Leading Innovative and Entrepreneur Team Introduction Program of Zhejiang(2019R01002);the Fundamental Research Funds for the Central Universities(226-2022-00100,2020XZZX004-03,and 226-2022-00153).
The excellent Upland cotton(Gossypium hirsutum)cultivars developed since 1949 have made a huge contribution to cotton production in China,the world's largest producer and consumer of cotton.However,the genetic and gen...
关键词：cotton MAGiC population GWAS whole-genome sequencing pleiotropic loci breeding history 
The boys are back in town: Rethinking the function of ribosomal DNA repeats in the genomic era
《Molecular Plant》2023年第3期514-516,共3页Francesca B.Lopez Peter C.McKeown Antoine Fort Galina Brychkova Charles Spillane 
supported by a Science Foundation Ireland Principal Investigator Grant(13/IAV/1820)to C.S.F.L.is supported by the Irish Research Council Postgraduate Fellowship GOIPG/2018/1960.F.L.and this work were partially funded by Cost Action CA16212“lmpacts of Chromatin Domains on Plant Phenotypes(INDEPTH)”(F.L.,F.P.,and A.V.P.are members of INDEPTH).F.L.was partly supported by EMBO Short Term Fellowship 8312.No conflict of interest is declared.
Next-generation sequencing technological advances,affording high-throughput,scalable,and fast assemblies,have enabled genome editing techniques that allow us to remove,insert,and modify genes for rapid and precise fun...
关键词：REMOVE precise function 
Genomic footprints of Kam Sweet Rice domestication indicate possible migration routes of theDongpeople inChina andprovide resources for future rice breeding被引量：6
《Molecular Plant》2023年第2期415-431,共17页Chunhui Liu Tianyi Wang Huicha Chen Xiaoding Ma Chengzhi Jiao Di Cui Bing Han Xiaobing Li Aixia Jiao Renchao Ruan Dayuan Xue Yanjie Wang Longzhi Han 
supported by the National Key Research and Development Program of China(2021YFD1200500);the National Natural Science Foundation of China(31901487);the CAAS Science and Technology Innovation Program,the Protective Program of Crop Germplasm of China(19200385-1);the Third National Survey and Collection Action on Crop Germplasm Resource(19210859,19210860);the National Crop Germplasm Resources Center(NCGRC-2021-02).
The Dong people are one of China’s 55 recognized ethnic minorities,but there has been a long-standing debate about their origins.In this study,we performed whole-genome resequencing of Kam Sweet Rice(KSR),a valuable,...
关键词：Dong ethnic group Kam Sweet Rice genomic evolution population genetics 
DNNGP, a deep neural network-based method for genomic prediction using multi-omics data in plants被引量：19
《Molecular Plant》2023年第1期279-293,共15页Kelin Wang Muhammad Ali Abid Awais Rasheed Jose Crossa Sarah Hearne Huihui Li 
National Key R&D Program of China(2021YFD1201200);National Science Foundation of China(32022064);Project of Hainan Yazhou Bay Seed Lab(B21HJ0223);Innovation Program of the Chinese Academy of Agricultural Sciences.
Genomic prediction is an effective way to accelerate the rate of agronomic trait improvement in plants.Traditional methods typically use linear regression models with clear assumptions;such methods are unable to captu...
关键词：deep learning genomic selection multi-omics data prediction method 
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