Chilli leaf curl India virus

Basic Information

Genus Begomovirus
NCBI Assembly GCF_002986345.1
Isolate India:North India
Release date 2018/8/26
Submitter Kumar,Y., Walia,Y., Bhardwaj,P., Negi,A., Hallan,V., Zaidi,A.A.
Host
Download Genome |GFF3 |PEP |CDS

Genomic Organization

JBrowse

Genome

NC_038875
ACCGGATGGCCGCGATTTTTTTTGTGGCCCCCACAACGCGCTAACTGACAATGACATGTGGACCAATGAGAATCGTCCCTCATGGTCTCATTGTTTTGTGGTCCCCCCTATAAATTAGTCCCCAAATATTGGTCTTTATCCACAATGTGGGACCCTTTAGTAAACGAGTTTCCCGAAACCGTTCACGGTTTTAGGTGTATGCTAGCAGTTAAATACCTGCGGTTAGTAGAAAATACGTATTCCCCAGATACTCTGGGCTACGATTTAATTAGGGATTTGATTTCAGTTATTAGGGCTAGAAATTATGTCGAAGCGACCAGCAGATATAATCATTTCCACGCCCGCCTCGAAGGTACGCCGCCGTCTGAACTTCGACAGCCCATATGCGAGCCGTGCTGCTGCCCCCATTGTCCGCGTCACAAAGGCAAGAGCATGGGCGAACAGGCCCATGAACCGAAAGCCCAAGATGTACAGGGTGTACAGAAGCCCAGATGTTCCGAGGGGATGTGAAGGCCCGTGTAAGGTCCAGTCATTTGAGTCCAGACATGATATCCAGCACATTGGTAAAGTAATGTGTGTTAGTGATGTTACTCGTGGTATTGGGCTGACTCACCGGGTTGGCAAGAGGTTCTGTGTGAAGTCCGTTTATGTTTTGGGCAAGATCTGGATGGACGAGAACATCAAGACTAAGAATCATACGAATAGTGTTATGTTTTTCCTTGTTAGAGATCGTAGGCCTGTTGATAAGCCTCAAGATTTTGGTGAGGTTTTTAACATGTTTGATAATGAGCCCAGCACGGCGACTGTGAAGAATGTTCATCGTGATAGGTATCAGGTGCTGAGAAAGTGGCATGCAACTGTCACCGGTGGTCAATATGCATCCAAGGAGCAGGCTCTCGTGAAGAAGTTTATTAGGGTTAATAATTATGTTGTGTATAACCAGCAAGAGGCTGGCAAGTATGAGAATCATACTGAGAATGCGTTGATGTTGTATATGGCGTGTACCCACGCCTCTAACCCTGTGTATGCTACATTGAAGATACGGATCTACTTCTATGATTCAGTATCGAATTAATAAAGATTAAATTTTATTGAATATGATTGTTCTACATATACAACATGATGTAATACATTCCATAATACATGATCAACTGCTCTAACTACATTGTTAATACTGATAACTCCTAAATTATCTAAATACTTAATAACTTGGGTCTTAAAGACCCTTAAGAAACGACCAGTCGGAGGCTGTGAGGTCATCCAGATTCGGAAGGCTATGAAACATTTGTGAATCCCCAACGCTTTCCTCAGGTTGTGGTTGAACTGGACTTGGACGGTTATGATGTCTTTGTTCATCAGGAATGGCCTGTTGTGGTGCTCTGTTATCTTGAAATACAGGGGATTTGGAACCTCCCAGGTATACACGCCATTCTCTGCTTGAGCTGCAGTGATGGGTTCCTCTGTGCGTGAATCCATATTTGTGGCAGTCGATGTGTACGTAGTATGAGCACCCACAGTTTAGATCAACCCTCTTACGCCGGATGGCTCTACGCTTAGCAGCTCTGTGTTGGACCTTGATTGGTACCTGAGTATAGTGGCTCTTCGAGGGTGATGAAGGTTGCATTATGTATTGCCCACGACCTCAGTGCTGAGTTCTTTTCCTCATCGAGGAATTCTTTATAGCTGGAATTGGGCCCAGGATTGCAGAGGAAGATAGTGGGAATGCCCCCTTTAATTTGAACTGGCTTCCCGTACTTGGTGTTGCTTTGCCAGTCCCTTTGGGCCCCCATGAACTCTTTAAAGTGCTTTAGGTAGTGGGGATCTACGTCATCAATGACGTTGTACCAGGCATCATTTGAATATATCTTGGGACTCAGATCTAAATGGCCGCATAAATAATTGTGTGGTCCCAAAGACCTGGCCCACATTGTCTTGCCTGTACGACTATCACCCTCAATGACGATACTTTTAGGTCTCAATGGCCGCGCAGCGGGACCCATCACATTTTCAGAGGCCCATTCCTCTATGGCCTCTGGAACCTGATCGAACGAAGAAGAAAGAAATGGGGGAACATAAACCTCCACTGGAGGTGTAAAAATCCTATCTAAATTAGTTTTTAAATTATGATATTGAAAAATAAAATCTTTCGGGAGTTTCTCCCTAATAATTGCTAGAGCTGCTTCAGCTGAACCTGCATTTAGGGCCTCTGCTGCAGCATCATTAGCTGTCTGTTGACCTCCTCGAGCAGATCGTCCATCGACCTGAAACTGACCCCAGTCGATGTAATCACCGTCCTTCTCGATATAGGACTTGACATCGGAGCTGGACTTTGCTCCCTGGAAGTTTGGGTGGAATTGGGTTGATGTATTAGGGTGAGTGACATCGAAATGTCTGGGGTTTCTGAATTGGGATTTACCTTTGAATTGGATGAGGGCATGGATATGCAGAGACCCATCTTGGTGTTTTTCCTGTGACACTCTGATAAATAATTTATCAGAAGGACAAGAAACGTTTTTTAGGAGTTCGAGCATTTGCTCTTTGGGTATTGGGCATTTTGGATAAGTAAGGAAGATATTTTTGGCTTTAACTTGGAACTGATGAGCACGAGGCATAATGAATTGGGTGCTCTCTAAAACTCTGTGGAATGGGGATCTTTGGGTGCCTATTTATATCGAGCTCCCAAATGGCATTATCGTAATTTGGGGAAATAATTCAAAATCCCCACGCTCCAAAAAGCGGCCATCCGTATAATATT

Gene Information

NCBI Accession YP_009508107.1
Location 145-510
Gene Name AV2
Protein Name pre-coat protein
Coding Region ATGTGGGACCCTTTAGTAAACGAGTTTCCCGAAACCGTTCACGGTTTTAGGTGTATGCTAGCAGTTAAATACCTGCGGTTAGTAGAAAATACGTATTCCCCAGATACTCTGGGCTACGATTTAATTAGGGATTTGATTTCAGTTATTAGGGCTAGAAATTATGTCGAAGCGACCAGCAGATATAATCATTTCCACGCCCGCCTCGAAGGTACGCCGCCGTCTGAACTTCGACAGCCCATATGCGAGCCGTGCTGCTGCCCCCATTGTCCGCGTCACAAAGGCAAGAGCATGGGCGAACAGGCCCATGAACCGAAAGCCCAAGATGTACAGGGTGTACAGAAGCCCAGATGTTCCGAGGGGATGTGA
Protein Sequence MWDPLVNEFPETVHGFRCMLAVKYLRLVENTYSPDTLGYDLIRDLISVIRARNYVEATSRYNHFHARLEGTPPSELRQPICEPCCCPHCPRHKGKSMGEQAHEPKAQDVQGVQKPRCSEGM

NCBI Accession YP_009508108.1
Location 305-1075
Gene Name AV1
Protein Name coat protein
Coding Region ATGTCGAAGCGACCAGCAGATATAATCATTTCCACGCCCGCCTCGAAGGTACGCCGCCGTCTGAACTTCGACAGCCCATATGCGAGCCGTGCTGCTGCCCCCATTGTCCGCGTCACAAAGGCAAGAGCATGGGCGAACAGGCCCATGAACCGAAAGCCCAAGATGTACAGGGTGTACAGAAGCCCAGATGTTCCGAGGGGATGTGAAGGCCCGTGTAAGGTCCAGTCATTTGAGTCCAGACATGATATCCAGCACATTGGTAAAGTAATGTGTGTTAGTGATGTTACTCGTGGTATTGGGCTGACTCACCGGGTTGGCAAGAGGTTCTGTGTGAAGTCCGTTTATGTTTTGGGCAAGATCTGGATGGACGAGAACATCAAGACTAAGAATCATACGAATAGTGTTATGTTTTTCCTTGTTAGAGATCGTAGGCCTGTTGATAAGCCTCAAGATTTTGGTGAGGTTTTTAACATGTTTGATAATGAGCCCAGCACGGCGACTGTGAAGAATGTTCATCGTGATAGGTATCAGGTGCTGAGAAAGTGGCATGCAACTGTCACCGGTGGTCAATATGCATCCAAGGAGCAGGCTCTCGTGAAGAAGTTTATTAGGGTTAATAATTATGTTGTGTATAACCAGCAAGAGGCTGGCAAGTATGAGAATCATACTGAGAATGCGTTGATGTTGTATATGGCGTGTACCCACGCCTCTAACCCTGTGTATGCTACATTGAAGATACGGATCTACTTCTATGATTCAGTATCGAATTAA
Protein Sequence MSKRPADIIISTPASKVRRRLNFDSPYASRAAAPIVRVTKARAWANRPMNRKPKMYRVYRSPDVPRGCEGPCKVQSFESRHDIQHIGKVMCVSDVTRGIGLTHRVGKRFCVKSVYVLGKIWMDENIKTKNHTNSVMFFLVRDRRPVDKPQDFGEVFNMFDNEPSTATVKNVHRDRYQVLRKWHATVTGGQYASKEQALVKKFIRVNNYVVYNQQEAGKYENHTENALMLYMACTHASNPVYATLKIRIYFYDSVSN

NCBI Accession YP_009508109.1
Location 1072-1476
Gene Name AC3
Protein Name replication enhancer protein
Coding Region ATGGATTCACGCACAGAGGAACCCATCACTGCAGCTCAAGCAGAGAATGGCGTGTATACCTGGGAGGTTCCAAATCCCCTGTATTTCAAGATAACAGAGCACCACAACAGGCCATTCCTGATGAACAAAGACATCATAACCGTCCAAGTCCAGTTCAACCACAACCTGAGGAAAGCGTTGGGGATTCACAAATGTTTCATAGCCTTCCGAATCTGGATGACCTCACAGCCTCCGACTGGTCGTTTCTTAAGGGTCTTTAAGACCCAAGTTATTAAGTATTTAGATAATTTAGGAGTTATCAGTATTAACAATGTAGTTAGAGCAGTTGATCATGTATTATGGAATGTATTACATCATGTTGTATATGTAGAACAATCATATTCAATAAAATTTAATCTTTATTAA
Protein Sequence MDSRTEEPITAAQAENGVYTWEVPNPLYFKITEHHNRPFLMNKDIITVQVQFNHNLRKALGIHKCFIAFRIWMTSQPPTGRFLRVFKTQVIKYLDNLGVISINNVVRAVDHVLWNVLHHVVYVEQSYSIKFNLY

NCBI Accession YP_009508110.1
Location 1217-1624
Gene Name AC2
Protein Name transcriptional activator protein
Coding Region ATGCAACCTTCATCACCCTCGAAGAGCCACTATACTCAGGTACCAATCAAGGTCCAACACAGAGCTGCTAAGCGTAGAGCCATCCGGCGTAAGAGGGTTGATCTAAACTGTGGGTGCTCATACTACGTACACATCGACTGCCACAAATATGGATTCACGCACAGAGGAACCCATCACTGCAGCTCAAGCAGAGAATGGCGTGTATACCTGGGAGGTTCCAAATCCCCTGTATTTCAAGATAACAGAGCACCACAACAGGCCATTCCTGATGAACAAAGACATCATAACCGTCCAAGTCCAGTTCAACCACAACCTGAGGAAAGCGTTGGGGATTCACAAATGTTTCATAGCCTTCCGAATCTGGATGACCTCACAGCCTCCGACTGGTCGTTTCTTAAGGGTCTTTAA
Protein Sequence MQPSSPSKSHYTQVPIKVQHRAAKRRAIRRKRVDLNCGCSYYVHIDCHKYGFTHRGTHHCSSSREWRVYLGGSKSPVFQDNRAPQQAIPDEQRHHNRPSPVQPQPEESVGDSQMFHSLPNLDDLTASDWSFLKGL

NCBI Accession YP_009508111.1
Location 1554-2612
Gene Name AC1
Protein Name replication initiator protein
Coding Region ATGCCTCGTGCTCATCAGTTCCAAGTTAAAGCCAAAAATATCTTCCTTACTTATCCAAAATGCCCAATACCCAAAGAGCAAATGCTCGAACTCCTAAAAAACGTTTCTTGTCCTTCTGATAAATTATTTATCAGAGTGTCACAGGAAAAACACCAAGATGGGTCTCTGCATATCCATGCCCTCATCCAATTCAAAGGTAAATCCCAATTCAGAAACCCCAGACATTTCGATGTCACTCACCCTAATACATCAACCCAATTCCACCCAAACTTCCAGGGAGCAAAGTCCAGCTCCGATGTCAAGTCCTATATCGAGAAGGACGGTGATTACATCGACTGGGGTCAGTTTCAGGTCGATGGACGATCTGCTCGAGGAGGTCAACAGACAGCTAATGATGCTGCAGCAGAGGCCCTAAATGCAGGTTCAGCTGAAGCAGCTCTAGCAATTATTAGGGAGAAACTCCCGAAAGATTTTATTTTTCAATATCATAATTTAAAAACTAATTTAGATAGGATTTTTACACCTCCAGTGGAGGTTTATGTTCCCCCATTTCTTTCTTCTTCGTTCGATCAGGTTCCAGAGGCCATAGAGGAATGGGCCTCTGAAAATGTGATGGGTCCCGCTGCGCGGCCATTGAGACCTAAAAGTATCGTCATTGAGGGTGATAGTCGTACAGGCAAGACAATGTGGGCCAGGTCTTTGGGACCACACAATTATTTATGCGGCCATTTAGATCTGAGTCCCAAGATATATTCAAATGATGCCTGGTACAACGTCATTGATGACGTAGATCCCCACTACCTAAAGCACTTTAAAGAGTTCATGGGGGCCCAAAGGGACTGGCAAAGCAACACCAAGTACGGGAAGCCAGTTCAAATTAAAGGGGGCATTCCCACTATCTTCCTCTGCAATCCTGGGCCCAATTCCAGCTATAAAGAATTCCTCGATGAGGAAAAGAACTCAGCACTGAGGTCGTGGGCAATACATAATGCAACCTTCATCACCCTCGAAGAGCCACTATACTCAGGTACCAATCAAGGTCCAACACAGAGCTGCTAA
Protein Sequence MPRAHQFQVKAKNIFLTYPKCPIPKEQMLELLKNVSCPSDKLFIRVSQEKHQDGSLHIHALIQFKGKSQFRNPRHFDVTHPNTSTQFHPNFQGAKSSSDVKSYIEKDGDYIDWGQFQVDGRSARGGQQTANDAAAEALNAGSAEAALAIIREKLPKDFIFQYHNLKTNLDRIFTPPVEVYVPPFLSSSFDQVPEAIEEWASENVMGPAARPLRPKSIVIEGDSRTGKTMWARSLGPHNYLCGHLDLSPKIYSNDAWYNVIDDVDPHYLKHFKEFMGAQRDWQSNTKYGKPVQIKGGIPTIFLCNPGPNSSYKEFLDEEKNSALRSWAIHNATFITLEEPLYSGTNQGPTQSC

NCBI Accession YP_009508112.1
Location 2198-2455
Gene Name AC4
Protein Name AC4 protein
Coding Region ATGGGTCTCTGCATATCCATGCCCTCATCCAATTCAAAGGTAAATCCCAATTCAGAAACCCCAGACATTTCGATGTCACTCACCCTAATACATCAACCCAATTCCACCCAAACTTCCAGGGAGCAAAGTCCAGCTCCGATGTCAAGTCCTATATCGAGAAGGACGGTGATTACATCGACTGGGGTCAGTTTCAGGTCGATGGACGATCTGCTCGAGGAGGTCAACAGACAGCTAATGATGCTGCAGCAGAGGCCCTAA
Protein Sequence MGLCISMPSSNSKVNPNSETPDISMSLTLIHQPNSTQTSREQSPAPMSSPISRRTVITSTGVSFRSMDDLLEEVNRQLMMLQQRP

References More References in PubMed

1

Current status, breeding strategies and future prospects for managing chilli leaf curl virus disease and associated begomoviruses in Chilli (Capsicum spp.).

Nalla MK, et al.  Front Plant Sci. 2023 Oct 23;14:1223982. doi: 10.3389/fpls.2023.1223982. eCollection 2023.

PMID: 37936944
2

Chilli leaf curl disease populations in India are highly recombinant, and rapidly segregated.

Pandey V, et al.  3 Biotech. 2022 Mar;12(3):83. doi: 10.1007/s13205-022-03139-w. Epub 2022 Feb 28.

PMID: 35251885
3

Identification of Chilli leaf curl virus and associated betasatellite infecting Osteospermum fruticosum in Rajasthan, India.

Mishra M, et al.  3 Biotech. 2020 Apr;10(4):169. doi: 10.1007/s13205-020-2159-9. Epub 2020 Mar 16.

PMID: 32206503
4

First Report of Chilli leaf curl India virus Infecting Mentha spicata (Neera) in India.

Saeed ST, et al.  Plant Dis. 2014 Jan;98(1):164. doi: 10.1094/PDIS-07-13-0750-PDN.

PMID: 30708610
5

Role of Diversity and Recombination in the Emergence of Chilli Leaf Curl Virus.

Mishra M, et al.  Pathogens. 2022 Apr 30;11(5):529. doi: 10.3390/pathogens11050529.

PMID: 35631050
6

Molecular characterization of begomovirus and DNA satellites associated with mosaic and leaf curl disease of Jamaica cherry (Muntingia calabura) in India: Uncovering a new host for chilli leaf curl India virus.

Prasad KSUD, et al.  Virusdisease. 2024 Sep;35(3):484-495. doi: 10.1007/s13337-024-00891-w. Epub 2024 Sep 16.

PMID: 39464737
7

Loop-mediated isothermal amplification assay for quicker detection of tomato leaf curl Joydebpur virus infection in chilli.

Krishnan N, et al.  J Virol Methods. 2022 Apr;302:114474. doi: 10.1016/j.jviromet.2022.114474. Epub 2022 Jan 22.

PMID: 35077721
8

Prevalence of chilli leaf curl virus and tomato leaf curl New Delhi virus with chilli leaf curl disease in India.

Krishnan N, et al.  Physiol Mol Biol Plants. 2025 Aug;31(8):1363-1374. doi: 10.1007/s12298-025-01570-w. Epub 2025 Mar 7.

PMID: 41080515
9

Molecular characterization of chilli leaf curl Ahmedabad virus: homology modelling and evaluation of viral proteins interacting with host protein SnRK1 and docking against flavonoids-an in silico approach.

Sravya G, et al.  Theory Biosci. 2023 Feb;142(1):47-60. doi: 10.1007/s12064-022-00383-9. Epub 2023 Jan 6.

PMID: 36607541
10

Chilli leaf curl virus infection downregulates the expression of the genes encoding chloroplast proteins and stress-related proteins.

Kushwaha NK, et al.  Physiol Mol Biol Plants. 2019 Sep;25(5):1185-1196. doi: 10.1007/s12298-019-00693-1. Epub 2019 Aug 22.

PMID: 31564781