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Yang J, Lan PX, Wang Y, Li JM, Li R, Wylie S, Chen XJ, Yang GH, Cai H, Li F. Virome Analysis of Aconitum carmichaelii Reveals Infection by Eleven Viruses, including Two Potentially New Species. Int J Mol Sci 2023; 24:15558. [PMID: 37958540 PMCID: PMC10650655 DOI: 10.3390/ijms242115558] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2023] [Revised: 10/20/2023] [Accepted: 10/21/2023] [Indexed: 11/15/2023] Open
Abstract
Aconitum carmichaelii is a herbaceous herb indigenous to China that has been cultivated for traditional medicine for centuries. Virus-like symptoms of A. carmichaelii plants were observed on leaves in some A. carmichaelii plantations in Zhanyi and Wuding Counties, Yunnan Province, southwest China. High-throughput sequencing (HTS) was performed on 28 symptomatic plants, and the results revealed infection with 11 viruses, including 2 novel viruses and 9 previously described viruses: Aconitum amalgavirus 1 (AcoAV-1), aconite virus A (AcVA), cucumber mosaic virus (CMV), currant latent virus (CuLV), apple stem grooving virus (ASGV), chilli veinal mottle virus (ChiVMV), tomato spotted wilt orthotospovirus (TSWV), tobacco vein distorting virus (TVDV), and potato leafroll virus (PLRV). Two novel viruses tentatively named Aconitum potyvirus 1 and Aconitum betapartitivirus 1, were supported by sequence and phylogenetic analysis results of their genomes. We proposed the names Potyvirus aconiti and Betapartitivirus aconiti. RT-PCR assays of 142 plants revealed the predominance and widespread distribution of CMV, AcVA, and AcoPV-1 in plantations. The detection of isolates of CuLV, ASGV, ChiVMV, TSWV, TVDV, and PLRV infections for the first time in A. carmichaelii expands their known host ranges.
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Affiliation(s)
- Jie Yang
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming 650201, China
| | - Ping-Xiu Lan
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming 650201, China
| | - Yun Wang
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming 650201, China
| | - Jin-Ming Li
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming 650201, China
| | - Ruhui Li
- USDA-ARS, National Germplasm Resources Laboratory, Beltsville, MD 20705, USA
| | - Steve Wylie
- Plant Biotechnology Research Group (Virology), Western Australian State Agricultural Biotechnology Centre, Murdoch University, Murdoch, WA 6150, Australia
| | - Xiao-Jiao Chen
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming 650201, China
| | - Gen-Hua Yang
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming 650201, China
| | - Hong Cai
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming 650201, China
| | - Fan Li
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming 650201, China
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Puthanveed V, Singh K, Poimenopoulou E, Pettersson J, Siddique AB, Kvarnheden A. Milder Autumns May Increase Risk for Infection of Crops with Turnip Yellows Virus. PHYTOPATHOLOGY 2023; 113:1788-1798. [PMID: 36802872 DOI: 10.1094/phyto-11-22-0446-v] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
Climate change has increased the risk for infection of crops with insect-transmitted viruses. Mild autumns provide prolonged active periods to insects, which may spread viruses to winter crops. In autumn 2018, green peach aphids (Myzus persicae) were found in suction traps in southern Sweden that presented infection risk for winter oilseed rape (OSR; Brassica napus) with turnip yellows virus (TuYV). A survey was carried out in spring 2019 with random leaf samples from 46 OSR fields in southern and central Sweden using DAS-ELISA, and TuYV was detected in all fields except one. In the counties of Skåne, Kalmar, and Östergötland, the average incidence of TuYV-infected plants was 75%, and the incidence reached 100% for nine fields. Sequence analyses of the coat protein gene revealed a close relationship between TuYV isolates from Sweden and other parts of the world. High-throughput sequencing for one of the OSR samples confirmed the presence of TuYV and revealed coinfection with TuYV-associated RNA. Molecular analyses of seven sugar beet (Beta vulgaris) plants with yellowing, collected in 2019, revealed that two of them were infected by TuYV, together with two other poleroviruses: beet mild yellowing virus and beet chlorosis virus. The presence of TuYV in sugar beet suggests a spillover from other hosts. Poleroviruses are prone to recombination, and mixed infection with three poleroviruses in the same plant poses a risk for the emergence of new polerovirus genotypes. [Formula: see text] Copyright © 2023 The Author(s). This is an open access article distributed under the CC BY 4.0 International license.
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Affiliation(s)
- Vinitha Puthanveed
- Department of Plant Biology, Linnean Center for Plant Biology, Swedish University of Agricultural Sciences, 750 07 Uppsala, Sweden
| | - Khushwant Singh
- Department of Plant Biology, Linnean Center for Plant Biology, Swedish University of Agricultural Sciences, 750 07 Uppsala, Sweden
- Division of Crop Protection and Plant Health, Crop Research Institute, Prague 161 06, Czech Republic
| | - Efstratia Poimenopoulou
- Department of Plant Biology, Linnean Center for Plant Biology, Swedish University of Agricultural Sciences, 750 07 Uppsala, Sweden
| | - Josefin Pettersson
- Department of Plant Biology, Linnean Center for Plant Biology, Swedish University of Agricultural Sciences, 750 07 Uppsala, Sweden
| | - Abu Bakar Siddique
- Department of Plant Biology, Linnean Center for Plant Biology, Swedish University of Agricultural Sciences, 750 07 Uppsala, Sweden
| | - Anders Kvarnheden
- Department of Plant Biology, Linnean Center for Plant Biology, Swedish University of Agricultural Sciences, 750 07 Uppsala, Sweden
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Schönegger D, Marais A, Babalola BM, Faure C, Lefebvre M, Svanella-Dumas L, Brázdová S, Candresse T. Carrot populations in France and Spain host a complex virome rich in previously uncharacterized viruses. PLoS One 2023; 18:e0290108. [PMID: 37585477 PMCID: PMC10431682 DOI: 10.1371/journal.pone.0290108] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2023] [Accepted: 08/01/2023] [Indexed: 08/18/2023] Open
Abstract
High-throughput sequencing (HTS) has proven a powerful tool to uncover the virome of cultivated and wild plants and offers the opportunity to study virus movements across the agroecological interface. The carrot model consisting of cultivated (Daucus carota ssp. sativus) and wild carrot (Daucus carota ssp. carota) populations, is particularly interesting with respect to comparisons of virus communities due to the low genetic barrier to virus flow since both population types belong to the same plant species. Using a highly purified double-stranded RNA-based HTS approach, we analyzed on a large scale the virome of 45 carrot populations including cultivated, wild and off-type carrots (carrots growing within the field and likely representing hybrids between cultivated and wild carrots) in France and six additional carrot populations from central Spain. Globally, we identified a very rich virome comprising 45 viruses of which 25 are novel or tentatively novel. Most of the identified novel viruses showed preferential associations with wild carrots, either occurring exclusively in wild populations or infecting only a small proportion of cultivated populations, indicating the role of wild carrots as reservoir of viral diversity. The carrot virome proved particularly rich in viruses involved in complex mutual interdependencies for aphid transmission such as poleroviruses, umbraviruses and associated satellites, which can be the basis for further investigations of synergistic or antagonistic virus-vector-host relationships.
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Affiliation(s)
- Deborah Schönegger
- INRAE &, UMR 1332 Biology du Fruit et Pathologie, Univ. Bordeaux, Villenave d’Ornon Cedex, France
| | - Armelle Marais
- INRAE &, UMR 1332 Biology du Fruit et Pathologie, Univ. Bordeaux, Villenave d’Ornon Cedex, France
| | - Bisola Mercy Babalola
- Centro de Biotecnología y Genómica de Plantas (CBGP), Universidad Politécnica de Madrid (UPM) and E.T.S.I. Agronómica, Alimentaria y de Biosistemas, Campus de Montegancedo, Madrid, Spain
| | - Chantal Faure
- INRAE &, UMR 1332 Biology du Fruit et Pathologie, Univ. Bordeaux, Villenave d’Ornon Cedex, France
| | - Marie Lefebvre
- INRAE &, UMR 1332 Biology du Fruit et Pathologie, Univ. Bordeaux, Villenave d’Ornon Cedex, France
| | - Laurence Svanella-Dumas
- INRAE &, UMR 1332 Biology du Fruit et Pathologie, Univ. Bordeaux, Villenave d’Ornon Cedex, France
| | - Sára Brázdová
- INRAE &, UMR 1332 Biology du Fruit et Pathologie, Univ. Bordeaux, Villenave d’Ornon Cedex, France
| | - Thierry Candresse
- INRAE &, UMR 1332 Biology du Fruit et Pathologie, Univ. Bordeaux, Villenave d’Ornon Cedex, France
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Yan D, Han K, Chen Y, Ma C, Hu S, Zhao W, Wang F. Complete genome sequence of triticum yellow stripe virus, a new polerovirus infecting wheat (triticum aestivum) in China. Arch Virol 2023; 168:146. [PMID: 37083847 DOI: 10.1007/s00705-023-05758-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2023] [Accepted: 03/13/2023] [Indexed: 04/22/2023]
Abstract
Wheat plants with yellow stripes on their leaves were collected in the city of Tai'an (Shandong province, China). High-throughput sequencing analysis of the collected plants showed that they were coinfected with wheat leaf yellowing-associated virus (WLYaV) and an unidentified polerovirus. The genome of the unidentified virus, tentatively named "triticum yellow stripe virus" (TriYSV), comprises 5,595 nucleotides and contains seven open reading frames (ORFs), with a typical polerovirus genome structure. Analysis by sequence alignment showed that TriYSV had the highest sequence similarity to wheat yellow dwarf virus (WYDV, a tentative member of the genus Polerovirus), with 87.3% nucleotide sequence identity over the whole genome. Except for P3a and the coat protein (CP), all of the proteins encoded by TriYSV showed < 90% amino acid identity to those of other poleroviruses. Phylogenetic analysis based on RNA-dependent RNA polymerase and CP amino acid sequences and complete genome nucleotide sequences showed that the poleroviruses WYDV, cereal yellow dwarf virus RPS (CYDV-RPS), CYDV-RPV, and barley yellow dwarf virus GPV are the most closely related to TriYSV. Thus, TriYSV is proposed to be a new member of the genus Polerovirus.
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Affiliation(s)
- Dankan Yan
- Institute of Plant Protection and Agro-Products Safety, Anhui Academy of Agricultural Sciences, 230031, Hefei, Anhui, China
| | - Kelei Han
- Institute of Plant Protection and Agro-Products Safety, Anhui Academy of Agricultural Sciences, 230031, Hefei, Anhui, China
| | - Ying Chen
- Institute of Plant Protection and Agro-Products Safety, Anhui Academy of Agricultural Sciences, 230031, Hefei, Anhui, China
| | - Chao Ma
- Institute of Plant Protection and Agro-Products Safety, Anhui Academy of Agricultural Sciences, 230031, Hefei, Anhui, China
| | - Shuzhen Hu
- Institute of Plant Protection and Agro-Products Safety, Anhui Academy of Agricultural Sciences, 230031, Hefei, Anhui, China
| | - Wei Zhao
- Institute of Plant Protection and Agro-Products Safety, Anhui Academy of Agricultural Sciences, 230031, Hefei, Anhui, China.
| | - Fang Wang
- Institute of Plant Protection and Agro-Products Safety, Anhui Academy of Agricultural Sciences, 230031, Hefei, Anhui, China.
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Vidal AH, Lacorte C, Sanches MM, Alves-Freitas DMT, Abreu EFM, Pinheiro-Lima B, Rosa RCC, Jesus ON, Campos MA, Felix GP, Abreu ACR, Santos YS, Lacerda ALM, Varsani A, Melo FL, Ribeiro SG. Characterization of Cucurbit Aphid-Borne Yellows Virus (CABYV) from Passion Fruit in Brazil: Evidence of a Complex of Species within CABYV Isolates. Viruses 2023; 15:v15020410. [PMID: 36851624 PMCID: PMC9965994 DOI: 10.3390/v15020410] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2022] [Revised: 01/25/2023] [Accepted: 01/28/2023] [Indexed: 02/05/2023] Open
Abstract
High-throughput sequencing (HTS) has been an important tool for the discovery of plant viruses and their surveillance. In 2015, several virus-like symptoms were observed in passion fruit (PF) plants in Bahia state, Brazil. Using HTS technology, bioinformatics tools, RT-PCR, and Sanger sequencing, we identified the cucurbit aphid-borne yellows virus (CABYV, Polerovirus, Solemoviridae) in co-infection with cowpea aphid-borne mosaic virus (CABMV, Potyvirus, Potyviridae) in PF, in green manure, and spontaneous plants in several localities in Bahia. Complete genomes of CABYV-PF isolates were determined and analyzed with other CABYV isolates available in GenBank that have been identified in various countries. Phylogenetic analysis and pairwise identity comparison with CABYV isolates showed that CABYV-PFs are more closely related to French and Spanish isolates. Overall, analyses of all the CABYV genomes revealed that these could represent ten distinct species, and we thus proposed reclassifying these CABYV as isolates into ten species, tentatively named "Polerovirus curcubitaeprimum" to "Polerovirus curcubitaenonum", and "Polerovirus melo". CABYV-PF is a member of "Polerovirus curcubitaeprimum".
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Affiliation(s)
- Andreza H. Vidal
- Embrapa Recursos Genéticos e Biotecnologia, Brasília 70770-917, DF, Brazil
- Instituto de Ciências Biológicas—IB, PPG BIOMOL, Universidade de Brasília, Brasília 70910-900, DF, Brazil
| | - Cristiano Lacorte
- Embrapa Recursos Genéticos e Biotecnologia, Brasília 70770-917, DF, Brazil
| | - Marcio M. Sanches
- Embrapa Recursos Genéticos e Biotecnologia, Brasília 70770-917, DF, Brazil
- Embrapa Gado de Corte, Campo Grande 79106-550, MS, Brazil
| | | | | | - Bruna Pinheiro-Lima
- Embrapa Recursos Genéticos e Biotecnologia, Brasília 70770-917, DF, Brazil
- Instituto de Ciências Biológicas—IB, PPG BIOMOL, Universidade de Brasília, Brasília 70910-900, DF, Brazil
| | | | - Onildo N. Jesus
- Embrapa Mandioca e Fruticultura, Cruz das Almas 44380-000, BA, Brazil
| | - Magnólia A. Campos
- Centro de Educação e Saúde, Universidade Federal de Campina Grande, Cuité 58175-000, PB, Brazil
| | - Gustavo P. Felix
- Embrapa Recursos Genéticos e Biotecnologia, Brasília 70770-917, DF, Brazil
- Instituto de Ciências Biológicas—IB, Universidade de Brasília, Brasília 70910-900, DF, Brazil
| | - Ana Clara R. Abreu
- Embrapa Recursos Genéticos e Biotecnologia, Brasília 70770-917, DF, Brazil
- Instituto de Ciências Biológicas—IB, Universidade de Brasília, Brasília 70910-900, DF, Brazil
| | - Yam S. Santos
- Embrapa Recursos Genéticos e Biotecnologia, Brasília 70770-917, DF, Brazil
- Departamento de Microbiologia, Instituto de Biotecnologia Aplicada à Agropecuária, Universidade Federal de Viçosa (UFV), Viçosa 36570-900, MG, Brazil
| | | | - Arvind Varsani
- The Biodesign Center for Fundamental and Applied Microbiomics, Center for Evolution and Medicine, School of Life Sciences, Arizona State University, Tempe, AZ 85287, USA
| | - Fernando L. Melo
- Instituto de Ciências Biológicas—IB, PPG BIOMOL, Universidade de Brasília, Brasília 70910-900, DF, Brazil
| | - Simone G. Ribeiro
- Embrapa Recursos Genéticos e Biotecnologia, Brasília 70770-917, DF, Brazil
- Instituto de Ciências Biológicas—IB, PPG BIOMOL, Universidade de Brasília, Brasília 70910-900, DF, Brazil
- Correspondence:
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Survey of Viruses Infecting Tomato, Cucumber and Mung Bean in Tajikistan. HORTICULTURAE 2022. [DOI: 10.3390/horticulturae8060505] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Viral diseases are major constraints to tomato, cucumber and mung bean production in most areas where these crops are grown. To identify the viruses on the crops in Tajikistan, a field survey was conducted in 2019. Samples of cucumber, mung bean and tomato with virus-like symptoms were collected and the viruses present were diagnosed by RT-PCR and PCR. Across all the samples, a very high proportion of the samples were infected with viruses from the genera Cucumovirus and Potyvirus. Cucumber mosaic virus (CMV; Cucumovirus) was very common in the collected samples of the three crops. As for Potyvirus, Potato virus Y (PVY) was detected in the collected tomato samples, Zucchini yellow mosaic virus (ZYMV) was identified in the collected cucumber samples, and Bean common mosaic virus (BCMV) was detected in 53% of the mung bean samples. Over 68% of the collected samples were infected with two or more viruses, suggesting that mixed infections are common for the three crops. Due to the results that the most identified viruses for the three crops are transmitted by aphids, the management of aphids is extremely important for the production of tomato, cucumber and mung bean in Tajikistan.
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Chen X, Luo H, Zhang J, Ma Y, Li K, Xiong F, Yang Y, Yang J, Lan P, Wei T, Xu Y, Chen H, Li F. Synergism Among the Four Tobacco Bushy Top Disease Casual Agents in Symptom Induction and Aphid Transmission. Front Microbiol 2022; 13:846857. [PMID: 35444628 PMCID: PMC9014100 DOI: 10.3389/fmicb.2022.846857] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2021] [Accepted: 03/01/2022] [Indexed: 11/13/2022] Open
Abstract
Tobacco bushy top disease (TBTD), caused by multiple pathogens including tobacco bushy top virus (TBTV), tobacco vein distorting virus (TVDV), TBTV satellite RNA (TBTVsatRNA), and TVDV-associated RNA (TVDVaRNA), is a destructive disease in tobacco fields. To date, how these causal agents are co-transmitted by aphid vectors in field and their roles in disease symptom induction remain largely unknown, due mainly to the lack of purified causal agents. In this study, we have constructed four full-length infectious clones, representing the Yunnan Kunming isolates of TVDV, TBTV, TBTVsatRNA, and TVDVaRNA (TVDV-YK, TBTV-YK, TBTVsatRNA-YK, and TVDVaRNA-YK), respectively. Co-inoculation of these four causal agents to tobacco K326 plants caused typical TBTD symptoms, including smaller leaves, necrosis, and plant stunting. In addition, inoculation of tobacco K326 plants with TBTV alone caused necrosis in systemic leaves by 7 dpi. Tobacco K326 and Nicotiana benthamiana plants infected by single virus or multiple viruses showed very different disease symptoms at various dpi. RT-PCR results indicated that co-infection of TVDVaRNA-YK could increase TVDV-YK or TBTV-YK accumulation in N. benthamiana plants, suggesting that TVDVaRNA-YK can facilitate TVDV-YK and TBTV-YK replication and/or movement in the infected plants. Aphid transmission assays showed that the successful transmission of TBTV-YK, TBTVsatRNA-YK, and TVDVaRNA-YK by Myzus persicae depended on the presence of TVDV-YK, while the presence of TBTVsatRNA-YK increased the aphid transmission efficiency of TBTV and TVDV. We consider that these four new infectious clones will allow us to further dissect the roles of these four causal agents in TBTD induction as well as aphid transmission.
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Affiliation(s)
- Xiaojiao Chen
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
| | - Hengming Luo
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
| | - Jingyi Zhang
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
| | - Yan Ma
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
| | - Kehua Li
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
| | - Feng Xiong
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
| | - Yahui Yang
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
| | - Jiazhen Yang
- Key Laboratory of Agricultural Biotechnology of Yunnan Province, Institute of Biotechnology and Germplasm Resources, Yunnan Academy of Agricultural Sciences, Kunming, China
| | - Pingxiu Lan
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
| | - Taiyun Wei
- Institute of Plant Virology, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Yi Xu
- Department of Plant Pathology, Nanjing Agricultural University, Nanjing, China
| | - Hairu Chen
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
| | - Fan Li
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
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