Rice Science
  • 首页
  • 期刊介绍
  • 编委会
  • 学术伦理
  • 投稿指南
  • 期刊订阅
  • 联系我们
  • English

Rice Science ›› 2025, Vol. 32 ›› Issue (1): 44-51.DOI: 10.1016/j.rsci.2024.12.004

• • 上一篇    下一篇

  • 收稿日期:2024-08-18 接受日期:2024-12-05 出版日期:2025-01-28 发布日期:2025-03-25

RichHTML

PDF

补充材料

1

可视化

0
  • 1. Supplemental Data.pdf(1240KB)

摘要/Abstract

引用本文

. [J]. Rice Science, 2025, 32(1): 44-51.

使用本文

推荐

导出引用管理器 EndNote|Ris|BibTeX

链接本文: http://www.ricesci.org/CN/10.1016/j.rsci.2024.12.004

               http://www.ricesci.org/CN/Y2025/V32/I1/44

参考文献 67

[1] Aguiar E R G R, Olmo R P, Paro S, et al. 2015. Sequence- independent characterization of viruses based on the pattern of viral small RNAs produced by the host. Nucleic Acids Res, 43(13): 6191-6206.
[2] Bernardo P, Charles-Dominique T, Barakat M, et al. 2018. Geometagenomics illuminates the impact of agriculture on the distribution and prevalence of plant viruses at the ecosystem scale. ISME J, 12(1): 173-184.
[3] Bexfield N, Kellam P. 2011. Metagenomics and the molecular identification of novel viruses. Vet J, 190(2): 191-198.
[4] Bonning B C, Miller W A. 2010. Dicistroviruses. Annu Rev Entomol, 55: 129-150.
[5] Cadenas-Castrejón E, Verleyen J, Boukadida C, et al. 2023. Evaluation of tools for taxonomic classification of viruses. Brief Funct Genomics, 22(1): 31-41.
[6] Cantalupo P G, Pipas J M. 2019. Detecting viral sequences in NGS data. Curr Opin Virol, 39: 41-48.
[7] Chao S F, Wang H R, Yan Q, et al. 2021. Metatranscriptomic sequencing suggests the presence of novel RNA viruses in rice transmitted by brown planthopper. Viruses, 13(12): 2464.
[8] Chao S F, Wang H R, Zhang S, et al. 2022. Novel RNA viruses discovered in weeds in rice fields. Viruses, 14(11): 2489.
[9] Datta S, Budhauliya R, Das B, et al. 2015. Next-generation sequencing in clinical virology: Discovery of new viruses. World J Virol, 4(3): 265-276.
[10] Elena S F, Fraile A, García-Arenal F. 2014. Evolution and emergence of plant viruses. Adv Virus Res, 88: 161-191.
[11] Gilmer D, Ratti C, Consortium I R. 2017. ICTV virus taxonomy profile: Benyviridae. J Gen Virol, 98(7): 1571-1572.
[12] Hamilton A J, Baulcombe D C. 1999. A species of small antisense RNA in posttranscriptional gene silencing in plants. Science, 286: 950-952.
[13] Hasiów-Jaroszewska B, Boezen D, Zwart M P. 2021. Metagenomic studies of viruses in weeds and wild plants: A powerful approach to characterise variable virus communities. Viruses, 13(10): 1939.
[14] Hibino H. 1978. Association of two types of virus particles with penyakit habang (tungro disease) of rice in Indonesia. Phytopathology, 68(10): 1412.
[15] Hibino H. 1996. Biology and epidemiology of rice viruses. Annu Rev Phytopathol, 34: 249-274.
[16] Horiuchi H, Moriyama H, Fukuhara T. 2003. Inheritance of Oryza sativa endornavirus in F1 and F2 hybrids between japonica and indica rice. Genes Genet Syst, 78(3): 229-234.
[17] Hubert J G, Pinel-Galzi A, Dibwe D, et al. 2013. First report of rice yellow mottle virus on rice in the Democratic Republic of Congo. Plant Dis, 97(12): 1664.
[18] Inoue-Nagata A K, Jordan R, Kreuze J, et al. 2022. ICTV virus taxonomy profile: Potyviridae 2022. J Gen Virol, 103(5): 001738.
[19] Jia D S, Luo G Z, Shi W, et al. 2022. Rice gall dwarf virus promotes the propagation and transmission of rice stripe mosaic virus by co-infected insect vectors. Front Microbiol, 13: 834712.
[20] Li C X, Shi M, Tian J H, et al. 2015. Unprecedented genomic diversity of RNA viruses in arthropods reveals the ancestry of negative-sense RNA viruses. eLife, 4: e05378.
[21] Li D, Duan W J, Liu Q E, et al. 2024. Gapless genome assembly of ZH8015 and preliminary multi-omics analysis to investigate ZH8015’s responses against brown planthopper infestation. Rice Sci, 31(3): 317-327.
[22] Liu S J, Vijayendran D, Bonning B C. 2011. Next generation sequencing technologies for insect virus discovery. Viruses, 3(10): 1849-1869.
[23] Liu S J, Chen Y T, Bonning B C. 2015. RNA virus discovery in insects. Curr Opin Insect Sci, 8: 54-61.
[24] Ma Y X, Marais A, Lefebvre M, et al. 2020. Metagenomic analysis of virome cross-talk between cultivated and wild. Virology, 540: 38-44.
[25] Matthijnssens J, Attoui H, Bányai K, et al. 2022a. ICTV virus taxonomy profile: Sedoreoviridae 2022. J Gen Virol, 103(10): 001782.
[26] Matthijnssens J, Attoui H, Bányai K, et al. 2022b. ICTV virus taxonomy profile: Spinareoviridae 2022. J Gen Virol, 103(11): 001781.
[27] Moubset O, François S, Maclot F, et al. 2022. Virion-associated nucleic acid-based metagenomics: A decade of advances in molecular characterization of plant viruses. Phytopathology, 112(11): 2253-2272.
[28] Murakami R, Suetsugu Y, Kobayashi T, et al. 2013. The genome sequence and transmission of an iflavirus from the brown planthopper, Nilaparvata lugens. Virus Res, 176(1/2): 179-187.
[29] Murakami R, Suetsugu Y, Nakashima N. 2014. Complete genome sequences of two iflaviruses from the brown planthopper, Nilaparvata lugens. Arch Virol, 159(3): 585-588.
[30] Nouri S, Salem N, Nigg J C, et al. 2016. Diverse array of new viral sequences identified in worldwide populations of the Asian Citrus psyllid (Diaphorina citri) using viral metagenomics. J Virol, 90(5): 2434-2445.
[31] Oludare A, Sow M, Afolabi O, et al. 2015. First report of rice stripe necrosis virus infecting rice in Benin. Plant Dis, 99(5): 735.
[32] Power A G, Mitchell C E. 2004. Pathogen spillover in disease epidemics. Am Nat, 164: S79-S89.
[33] Power A G, Borer E T, Hosseini P, et al. 2011. The community ecology of barley/cereal yellow dwarf viruses in Western US grasslands. Virus Res, 159(2): 95-100.
[34] Prendeville H R, Ye X H, Morris T J, et al. 2012. Virus infections in wild plant populations are both frequent and often unapparent. Am J Bot, 99(6): 1033-1042.
[35] Qin P, Lu H W, Du H L, et al. 2021. Pan-genome analysis of 33 genetically diverse rice accessions reveals hidden genomic variations. Cell, 184(13): 3542-3558.e16.
[36] Roossinck M J. 2017. Deep sequencing for discovery and evolutionary analysis of plant viruses. Virus Res, 239: 82-86.
[37] Roossinck M J, García-Arenal F. 2015. Ecosystem simplification, biodiversity loss and plant virus emergence. Curr Opin Virol, 10: 56-62.
[38] Sasaya T, Palacios G, Briese T, et al. 2023. ICTV virus taxonomy profile: Phenuiviridae 2023. J Gen Virol, 104(9). 001893.
[39] Schoelz J E, Stewart L R. 2018. The role of viruses in the phytobiome. Annu Rev Virol, 5(1): 93-111.
[40] Schopman N C T, Willemsen M, Liu Y P, et al. 2012. Deep sequencing of virus-infected cells reveals HIV-encoded small RNAs. Nucleic Acids Res, 40(1): 414-427.
[41] Shi M, Lin X D, Tian J H, et al. 2016. Redefining the invertebrate RNA virosphere. Nature, 540: 539-543.
[42] Shi M, Neville P, Nicholson J, et al. 2017. High-resolution metatran- scriptomics reveals the ecological dynamics of mosquito- associated RNA viruses in western Australia. J Virol, 91(17): e00680-17.
[43] Simmons H E, Dunham J P, Stack J C, et al. 2012. Deep sequencing reveals persistence of intra- and inter-host genetic diversity in natural and greenhouse populations of zucchini yellow mosaic virus. J Gen Virol, 93: 1831-1840.
[44] Sõmera M, Fargette D, Hébrard E, et al. 2021. ICTV virus taxonomy profile: Solemoviridae 2021. J Gen Virol, 102(12): 001707.
[45] Sparks M E, Gundersen-Rindal D E, Harrison R L. 2013. Complete genome sequence of a novel iflavirus from the transcriptome of Halyomorpha halys, the brown marmorated stink bug. Genome Announc, 1(6): e00910-13.
[46] Teycheney P Y, Geering A D W, Dasgupta I, et al. 2020. ICTV virus taxonomy profile: Caulimoviridae. J Gen Virol, 101(10): 1025-1026.
[47] Uehara-Ichiki T, Shiba T, Matsukura K, et al. 2013. Detection and diagnosis of rice-infecting viruses. Front Microbiol, 4: 289.
[48] Vainio E J, Jurvansuu J, Streng J, et al. 2015. Diagnosis and discovery of fungal viruses using deep sequencing of small RNAs. J Gen Virol, 96: 714-725.
[49] Valles S M, Chen Y, Firth A E, et al. 2017. ICTV virus taxonomy profile: Iflaviridae. J Gen Virol, 98(4): 527-528.
[50] Walker P J, Freitas-Astúa J, Bejerman N, et al. 2022. ICTV virus taxonomy profile: Rhabdoviridae 2022. J Gen Virol, 103(6): 001689.
[51] Wang D, Fu S, Wu H Y, et al. 2022. Discovery and genomic function of a novel rice dwarf-associated bunya-like virus. Viruses, 14(6): 1183.
[52] Wang H R, Chao S F, Yan Q, et al. 2024. Genetic diversity of RNA viruses infecting invertebrate pests of rice. Sci China Life Sci, 67(1): 175-187.
[53] Wang P Y, Liu J J, Lyu Y J, et al. 2022. A review of vector-borne rice viruses. Viruses, 14(10): 2258.
[54] Wang W S, Mauleon R, Hu Z Q, et al. 2018. Genomic variation in 3, 010 diverse accessions of Asian cultivated rice. Nature, 557: 43-49.
[55] Wang Y X, Piao J, Cheng Z B, et al. 2020. Risk assessment of gramineae weeds for rice stripe virus epidemic in the field. J Weed Sci, 38.
[56] Webster C L, Waldron F M, Robertson S, et al. 2015. The discovery, distribution, and evolution of viruses associated with Drosophila melanogaster. PLoS Biol, 13(7): e1002210.
[57] Wei T Y, Li Y. 2016. Rice reoviruses in insect vectors. Annu Rev Phytopathol, 54: 99-120.
[58] Wu N, Zhang L, Ren Y D, et al. 2020. Rice black-streaked dwarf virus: From multiparty interactions among plant-virus-vector to intermittent epidemics. Mol Plant Pathol, 21(8): 1007-1019.
[59] Wu Q F, Wang Y, Cao M J, et al. 2012. Homology-independent discovery of replicating pathogenic circular RNAs by deep sequencing and a new computational algorithm. Proc Natl Acad Sci USA, 109(10): 3938-3943.
[60] Wu Q F, Ding S W, Zhang Y J, et al. 2015. Identification of viruses and viroids by next-generation sequencing and homology-dependent and homology-independent algorithms. Annu Rev Phytopathol, 53: 425-444.
[61] Yan W K, Zhu Y, Liu W C, et al. 2023. Discovery of aphid- transmitted rice tiller inhibition virus from native plants through metagenomic sequencing. PLoS Pathog, 19(3): e1011238.
[62] Zhang T Z, Li C Y, Cao M J, et al. 2021. A novel rice curl dwarf- associated picornavirus encodes a 3C serine protease recognizing uncommon EPT/S cleavage sites. Front Microbiol, 12: 757451.
[63] Zhang Y Z, Shi M, Holmes E C. 2018. Using metagenomics to characterize an expanding virosphere. Cell, 172(6): 1168-1172.
[64] Zhao F M, Baek D, Igori D, et al. 2017. Complete genome sequence of rice virus A, a new member of the family Tombusviridae. Arch Virol, 162(10): 3247-3250.
[65] Zhao M, Liu X X, Wan J, et al. 2024. Host-induced gene silencing of effector AGLIP1 enhanced resistance of rice to Rhizoctonia solani AG1-IA. Rice Sci, 31(4): 463-474.
[66] Zheng Y, Gao S, Padmanabhan C, et al. 2017. VirusDetect: An automated pipeline for efficient virus discovery using deep sequencing of small RNAs. Virology, 500: 130-138.
[67] Zhou G H, Xu D L, Xu D G, et al. 2013. Southern rice black- streaked dwarf virus: A white-backed planthopper-transmitted fijivirus threatening rice production in Asia. Front Microbiol, 4: 270.

相关文章 0

No related articles found!

编辑推荐

Metrics

阅读次数
全文


摘要

  • 摘要
  • 参考文献
  • 相关文章
  • 编辑推荐
  • Metrics
回顶部
浙ICP备05004719号-15   公安备案号:33010302003355
版权所有 © 《Rice Science》编辑部
地址:浙江省杭州市体育场路359号 邮编:310006 电话:0571-63371017 E-mail:crrn@fy.hz.zn.cn; cjrs278@gmail.com
本系统由北京玛格泰克科技发展有限公司设计开发
总访问量: 今日访问: 在线人数: