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Zheng X, Ratnasekera D, Fan J, Henry RJ, Song BK, Olsen KM, Joshi BK, Banaticla-Hilario MCN, Pusadee T, Melaku AG, Estelle Loko YL, Vilayheuang K, Oppong GK, Poku SA, Wambugu PW, Ge S, Junior AM, Aung OM, Venuprasad R, Kohli A, Zhou W, Qian Q. Global wild rice germplasm resources conservation alliance: World Wild-Rice Wiring. Mol Plant 2024; 17:516-518. [PMID: 38444157 DOI: 10.1016/j.molp.2024.03.001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/13/2024] [Revised: 03/01/2024] [Accepted: 03/02/2024] [Indexed: 03/07/2024]
Affiliation(s)
- Xiaoming Zheng
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Sanya National Research Institute of Breeding in Hainan, Chinese Academy of Agricultural Sciences, Beijing 100081, China; International Rice Research Institute, DAPO Box 7777, Metro Manila 4031, Philippines.
| | - Disna Ratnasekera
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Sanya National Research Institute of Breeding in Hainan, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Department of Agricultural Biology, Faculty of Agriculture, University of Ruhuna, Matara 81000, Sri Lanka
| | - Jiayu Fan
- Yazhouwan National Laboratory, No. 8 Huanjin Road, Yazhou District, Sanya City, Hainan Province 572024, China; Hainan University, Haikou 570228, China
| | - Robert J Henry
- ARC Centre of Excellence for Plant Success in Nature and Agriculture, University of Queensland, Brisbane, QLD 4072, Australia
| | - Beng-Kah Song
- School of Science, Monash University Malaysia, 47500 Bandar Sunway, Selangor 47500, Malaysia
| | - Kenneth M Olsen
- Department of Biology, Washington University in St. Louis, St. Louis, MO 63130-4899, USA
| | - Bal Krishna Joshi
- National Agriculture Genetic Resources Center (Genebank), Khumaltar, PO Box 3055, Kathmandu, Nepal
| | - Maria Celeste N Banaticla-Hilario
- Plant Biology Division, Institute of Biological Sciences, University of the Philippines Los Baños, Los Baños, Laguna 4031, Philippines
| | - Tonapha Pusadee
- Division of Agronomy, Department of Plant and Soil Sciences, Faculty of Agriculture, Chiang Mai University, Chiang Mai 50200, Thailand
| | | | - Yêyinou Laura Estelle Loko
- National University of Sciences, Technologies, Engineering and Mathematics (UNSTIM), Dassa-Zoumé BP 14, Benin
| | - Koukham Vilayheuang
- National Genebank, Rice and Cash Crops Research Center, NAFRI, Vientiane 0605, Lao PDR
| | - Gavers K Oppong
- Plant Sciences and the Bioeconomy, Rothamsted Research, Harpenden AL5 2JQ, UK; UK Future Food Beacon of Excellence and School of Biosciences and University of Nottingham, Nottingham LE12 5RD, UK
| | - Samuel Aduse Poku
- Department of Plant and Environmental Biology, University of Ghana, Accra, Ghana
| | - Peterson W Wambugu
- Kenya Agricultural and Livestock Research Organization, Genetic Resources Research Institute, Nairobi 00200, Kenya
| | - Song Ge
- Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China
| | - Aldo Merotto Junior
- Federal University of Rio Grande do Sul, UFRGS, Porto Alegre 91501-970, RS, Brazil
| | - Ohn Mar Aung
- Department of Agricultural Research, Yezin, Zayarthiri Township, Nay Pyi Taw, Myanmar
| | | | - Ajay Kohli
- International Rice Research Institute (IRRI), Los Baños, Philippines
| | - Wenbin Zhou
- State Key Laboratory of Crop Gene Resources and Breeding, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Qian Qian
- Sanya National Research Institute of Breeding in Hainan, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Yazhouwan National Laboratory, No. 8 Huanjin Road, Yazhou District, Sanya City, Hainan Province 572024, China; State Key Laboratory of Crop Gene Resources and Breeding, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
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Huang Y, Guo L, Xie L, Shang N, Wu D, Ye C, Rudell EC, Okada K, Zhu QH, Song BK, Cai D, Junior AM, Bai L, Fan L. A reference genome of Commelinales provides insights into the commelinids evolution and global spread of water hyacinth (Pontederia crassipes). Gigascience 2024; 13:giae006. [PMID: 38486346 PMCID: PMC10938897 DOI: 10.1093/gigascience/giae006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2023] [Revised: 11/20/2023] [Accepted: 02/08/2024] [Indexed: 03/18/2024] Open
Abstract
Commelinales belongs to the commelinids clade, which also comprises Poales that includes the most important monocot species, such as rice, wheat, and maize. No reference genome of Commelinales is currently available. Water hyacinth (Pontederia crassipes or Eichhornia crassipes), a member of Commelinales, is one of the devastating aquatic weeds, although it is also grown as an ornamental and medical plant. Here, we present a chromosome-scale reference genome of the tetraploid water hyacinth with a total length of 1.22 Gb (over 95% of the estimated size) across 8 pseudochromosome pairs. With the representative genomes, we reconstructed a phylogeny of the commelinids, which supported Zingiberales and Commelinales being sister lineages of Arecales and shed lights on the controversial relationship of the orders. We also reconstructed ancestral karyotypes of the commelinids clade and confirmed the ancient commelinids genome having 8 chromosomes but not 5 as previously reported. Gene family analysis revealed contraction of disease-resistance genes during polyploidization of water hyacinth, likely a result of fitness requirement for its role as a weed. Genetic diversity analysis using 9 water hyacinth lines from 3 continents (South America, Asia, and Europe) revealed very closely related nuclear genomes and almost identical chloroplast genomes of the materials, as well as provided clues about the global dispersal of water hyacinth. The genomic resources of P. crassipes reported here contribute a crucial missing link of the commelinids species and offer novel insights into their phylogeny.
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Affiliation(s)
- Yujie Huang
- Institute of Crop Sciences & Institute of Bioinformatics, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
- Zhongyuan Institute of Zhejiang University, Zhengzhou 450000, China
| | - Longbiao Guo
- State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, China
| | - Lingjuan Xie
- Institute of Crop Sciences & Institute of Bioinformatics, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
| | - Nianmin Shang
- Institute of Crop Sciences & Institute of Bioinformatics, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
| | - Dongya Wu
- Institute of Crop Sciences & Institute of Bioinformatics, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
| | - Chuyu Ye
- Institute of Crop Sciences & Institute of Bioinformatics, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
| | - Eduardo Carlos Rudell
- Department of Crop Sciences, Agricultural School, Federal University of Rio Grande do Sul, Porto Alegre, RS 68011, Brazil
| | - Kazunori Okada
- Agro-Biotechnology Research Center (AgTECH), University of Tokyo, Tokyo 113-8657, Japan
| | - Qian-Hao Zhu
- CSIRO Agriculture and Food, Black Mountain Laboratories, Canberra, ACT 2601, Australia
| | - Beng-Kah Song
- School of Science, Monash University Malaysia, Bandar Sunway, Selangor 46150, Malaysia
| | - Daguang Cai
- Department of Molecular Phytopathology and Biotechnology, Christian Albrechts University of Kiel, Kiel D-24118, Germany
| | - Aldo Merotto Junior
- Department of Crop Sciences, Agricultural School, Federal University of Rio Grande do Sul, Porto Alegre, RS 68011, Brazil
| | - Lianyang Bai
- Hunan Weed Science Key Laboratory, Hunan Academy of Agriculture Science, Changsha 410125, China
| | - Longjiang Fan
- Institute of Crop Sciences & Institute of Bioinformatics, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
- Zhongyuan Institute of Zhejiang University, Zhengzhou 450000, China
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Lima MPO, Couto SCF, Ribeiro PDAC, Silva VJ, Lemos IAP, Ros FA, Oliveira TGM, Ramos RN, Junior AM, Rocha V. COMPARISON OF DIFFERENT METHODOLOGIES FOR EXPANSION OF NATURAL KILLER CELLS FROM PERIPHERAL BLOOD AND UMBILICAL CORD BLOOD FOR IMMUNOTHERAPY APPLICATIONS. Hematol Transfus Cell Ther 2022. [DOI: 10.1016/j.htct.2022.09.500] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022] Open
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