ArticleNature communications2014
Cassava genome from a wild ancestor to cultivated varieties.
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Article in Nature communications, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 137 papers.
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137 citing papers in PubMed, 289 citations in OpenAlex.
- Adaptive Responses of Tropical Crops: A Multi-Scale Omics Integrated Perspective.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Review
- CassavaMDB: an integrated multi-omics database for functional genomics and molecular breeding in cassava.Science China. Life sciences · 2026Article
- Genomic divergence, adaptation, and the genetic basis of quality traits in ancient walnut landraces and wild relatives.Horticulture research · 2026Article
- Phenotypic and genetic resistance to Septoria blotch disease in European wheat varieties.The plant genome · 2026Article
- CassavaDB: An integrated multi-omics resource for functional genomics and molecular breeding of cassava.Innovation (Cambridge (Mass.)) · 2026Review
- Cassava root and leaf meal as alternatives to energy and protein sources in broiler diets: Impacts on growth, carcass traits, blood biochemistry, meat quality.Open veterinary journal · 2026Article
- Progress and Impacts of "Omics" Technologies in Understanding the Drought Response in Cassava: Adoption for Food Security in Africa.Plant-environment interactions (Hoboken, N.J.) · 2025Review
- Chromosome-level genome assemblies of Thai cassava ecotypes (Manihot esculenta & Manihot glaziovii).Scientific data · 2025Article
- Chromosome-scale genome assembly of Phyllanthus emblica L. 'Yingyu'.DNA research : an international journal for rapid publication of reports on genes and genomes · 2025Article
- TropiCODB: A multi-omics resource for supporting biodesign in tropical crops.Biodesign research · 2025Article
- Advancements and strategies of genetic improvement in cassava (Horticulture research · 2025Article
- Evolutionary signatures of the erosion of sexual reproduction genes in domesticated cassava (Manihot esculenta).G3 (Bethesda, Md.) · 2025Article
- Is polyphagy of a specific crypticJournal of pest science · 2025Article
- Integrating genomics and genome editing for orphan crop improvement: a bridge between orphan crops and modern agriculture system.GM crops & food · 2023Review
- Metabolic GWAS-based dissection of genetic basis underlying nutrient quality variation and domestication of cassava storage root.Genome biology · 2023Article
- Isolation and Identification of Endophytic BacteriaBiology · 2023Article
- Phylogenetic Analysis of thePlants (Basel, Switzerland) · 2023Article
- Development of cassava common mosaic virus-based vector for protein expression and gene editing in cassava.Plant methods · 2023Article
- Fully sequencing the cassava full-length cDNA library reveals unannotated transcript structures and alternative splicing events in regions with a high density of single nucleotide variations, insertions-deletions, and heterozygous sequences.Plant molecular biology · 2023Article
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77 more citing papers are in PubMed but not listed here.
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Authors and funding
80 authors at 18 institutions in 5 countries.
Wenquan WangInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Binxiao Feng1] Institute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China [2] Tropical Crop Genetic Resources Institute, CATAS, Danzhou 571700, China.
Jingfa XiaoBeijing Institute of Genomics, Chinese Academy of Sciences (CAS), Beijing 100101, China.
Zhiqiang XiaInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Xincheng ZhouInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Pinghua LiInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Weixiong Zhang1] Department of Computer Science and Engineering and Department of Genetics, Washington University, Saint Louis, Missouri 63130, USA [2] Institute for Systems Biology, Jianghan University, Wuhan 430056, China.
Ying WangSouth China Botanical Garden, CAS, Guangzhou 510650, China.
Birger Lindberg MøllerPlant Biochemistry Laboratory, Department of Plant and Environmental Sciences, University of Copenhagen, Copenhagen 1165, Denmark.
Peng ZhangInstitute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences of CAS, Shanghai 200032, China.
Ming-Cheng LuoDepartment of Plant Sciences, University of California, Davis, California 95616, USA.
Gong XiaoSouth China Botanical Garden, CAS, Guangzhou 510650, China.
Jingxing LiuBeijing Institute of Genomics, Chinese Academy of Sciences (CAS), Beijing 100101, China.
Jun YangInstitute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences of CAS, Shanghai 200032, China.
Songbi ChenTropical Crop Genetic Resources Institute, CATAS, Danzhou 571700, China.
Pablo D RabinowiczInstitute for Genome Sciences, University of Maryland School of Medicine, Baltimore, Maryland 21201, USA.
Xin ChenInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Hong-Bin ZhangDepartment of Soil and Crop Sciences, Texas A&M University, College Station, Texas 77843, USA.
Henan CeballosInternational Center for Tropical Agriculture (CIAT), Cali 6713, Colombia.
Qunfeng LouState Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China.
Meiling ZouInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Luiz J C B CarvalhoBrazilian Enterprise for Agricultural Research (EMBRAPA), Genetic Resources and Biotechnology, Brasilia 70770, Brazil.
Changying ZengInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Jing Xia1] Department of Computer Science and Engineering and Department of Genetics, Washington University, Saint Louis, Missouri 63130, USA [2] Institute for Systems Biology, Jianghan University, Wuhan 430056, China.
Shixiang SunBeijing Institute of Genomics, Chinese Academy of Sciences (CAS), Beijing 100101, China.
Yuhua FuInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Haiyan WangInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Cheng LuInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Mengbin RuanInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Shuigeng ZhouShanghai Key Lab of Intelligent Information Processing, and School of Computer Science, Fudan University, Shanghai 200433, China.
Zhicheng WuShanghai Key Lab of Intelligent Information Processing, and School of Computer Science, Fudan University, Shanghai 200433, China.
Hui LiuShanghai Key Lab of Intelligent Information Processing, and School of Computer Science, Fudan University, Shanghai 200433, China.
Rubini Maya KannangaraPlant Biochemistry Laboratory, Department of Plant and Environmental Sciences, University of Copenhagen, Copenhagen 1165, Denmark.
Kirsten JørgensenPlant Biochemistry Laboratory, Department of Plant and Environmental Sciences, University of Copenhagen, Copenhagen 1165, Denmark.
Rebecca Louise NealePlant Biochemistry Laboratory, Department of Plant and Environmental Sciences, University of Copenhagen, Copenhagen 1165, Denmark.
Maya BondePlant Biochemistry Laboratory, Department of Plant and Environmental Sciences, University of Copenhagen, Copenhagen 1165, Denmark.
Nanna HeinzPlant Biochemistry Laboratory, Department of Plant and Environmental Sciences, University of Copenhagen, Copenhagen 1165, Denmark.
Wenli ZhuTropical Crop Genetic Resources Institute, CATAS, Danzhou 571700, China.
Shujuan WangInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Yang ZhangInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Kun PanInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Mingfu WenInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Ping-An MaInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Zhengxu LiInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Meizhen HuInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Wenbin LiaoInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Wenbin HuInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Shengkui ZhangInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Jinli PeiInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Anping GuoInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Jianchun GuoInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Jiaming ZhangInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Zhengwen ZhangTropical Crop Genetic Resources Institute, CATAS, Danzhou 571700, China.
Jianqiu YeTropical Crop Genetic Resources Institute, CATAS, Danzhou 571700, China.
Wenjun OuTropical Crop Genetic Resources Institute, CATAS, Danzhou 571700, China.
Yaqin MaDepartment of Plant Sciences, University of California, Davis, California 95616, USA.
Xinyue LiuInstitute for Genome Sciences, University of Maryland School of Medicine, Baltimore, Maryland 21201, USA.
Luke J TallonInstitute for Genome Sciences, University of Maryland School of Medicine, Baltimore, Maryland 21201, USA.
Kevin GalensInstitute for Genome Sciences, University of Maryland School of Medicine, Baltimore, Maryland 21201, USA.
Sandra OttInstitute for Genome Sciences, University of Maryland School of Medicine, Baltimore, Maryland 21201, USA.
Jie HuangTropical Crop Genetic Resources Institute, CATAS, Danzhou 571700, China.
Jingjing XueTropical Crop Genetic Resources Institute, CATAS, Danzhou 571700, China.
Feifei AnTropical Crop Genetic Resources Institute, CATAS, Danzhou 571700, China.
Qingqun YaoTropical Crop Genetic Resources Institute, CATAS, Danzhou 571700, China.
Xiaojing LuTropical Crop Genetic Resources Institute, CATAS, Danzhou 571700, China.
Martin FregeneInternational Center for Tropical Agriculture (CIAT), Cali 6713, Colombia.
L Augusto Becerra López-LavalleInternational Center for Tropical Agriculture (CIAT), Cali 6713, Colombia.
Jiajie WuDepartment of Plant Sciences, University of California, Davis, California 95616, USA.
Frank M YouDepartment of Plant Sciences, University of California, Davis, California 95616, USA.
Meili ChenBeijing Institute of Genomics, Chinese Academy of Sciences (CAS), Beijing 100101, China.
Songnian HuBeijing Institute of Genomics, Chinese Academy of Sciences (CAS), Beijing 100101, China.
Guojiang WuSouth China Botanical Garden, CAS, Guangzhou 510650, China.
Silin ZhongState Key Laboratory of Agrobiotechnology, School of Life Sciences, Chinese University of Hong Kong, Hong Kong, China.
Peng LingCitrus Research and Education Center (CREC), University of Florida, Gainesville, Florida 32611, USA.
Yeyuan ChenTropical Crop Genetic Resources Institute, CATAS, Danzhou 571700, China.
Qinghuang WangInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Guodao LiuTropical Crop Genetic Resources Institute, CATAS, Danzhou 571700, China.
Bin LiuState Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Biogeography and Bioresources in Arid Land, Center of Systematic Genomics, Xinjiang Institute of Ecology and Geography, Urumqi 830011, China.
Kaimian LiTropical Crop Genetic Resources Institute, CATAS, Danzhou 571700, China.
Ming PengInstitute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou 571101, China.
Chinese Academy of Tropical Agricultural Sciences · CNTropical Crops Genetic Resources Institute · CNUniversity of Copenhagen · DKUniversity of Maryland, Baltimore · USBeijing Institute of Genomics · CNUniversity of California, Davis · USFudan University · CNInternational Center for Tropical Agriculture · COSouth China Botanical Garden · CNCenter for Excellence in Molecular Plant Sciences · CNBrazilian Agricultural Research Corporation · BRChinese Academy of Sciences · CNChinese University of Hong Kong · CNNanjing Agricultural University · CNTexas A&M University · USUniversity of Florida · USWashington University in St. Louis · USXinjiang Institute of Ecology and Geography · CN
Funding
A NOVEL CO-EXPRESSION NETWORK APPROACH THAT IS ROBUST TO GENETIC HETEROGENEITY ANR01GM100364 · NIGMS · WASHINGTON UNIVERSITY · PI ZHANG, WEIXIONG · 2012 to 2015
$1.2MNIGMS NIH HHS R01 GM100364
Abstract
Cassava is a major tropical food crop in the Euphorbiaceae family that has high carbohydrate production potential and adaptability to diverse environments. Here we present the draft genome sequences of a wild ancestor and a domesticated variety of cassava and comparative analyses with a partial inbred line. We identify 1,584 and 1,678 gene models specific to the wild and domesticated varieties, respectively, and discover high heterozygosity and millions of single-nucleotide variations. Our analyses reveal that genes involved in photosynthesis, starch accumulation and abiotic stresses have been positively selected, whereas those involved in cell wall biosynthesis and secondary metabolism, including cyanogenic glucoside formation, have been negatively selected in the cultivated varieties, reflecting the result of natural selection and domestication. Differences in microRNA genes and retrotransposon regulation could partly explain an increased carbon flux towards starch accumulation and reduced cyanogenic glucoside accumulation in domesticated cassava. These results may contribute to genetic improvement of cassava through better understanding of its biology.
Indexed as
Evolution, MolecularGenome, PlantGenetic VariationManihotMolecular Sequence DataPhotosynthesisPhylogenyPlant ProteinsSelection, GeneticStarchPlant ProteinsStarch
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