Tomato geminivirus 1

Basic Information

Genus Topilevirus
Isolate Brazil
Host
Download Genome |GFF3 |PEP |CDS

Genomic Organization

JBrowse

Genome

MF072688
ACGGATGTGGCCCCAGTTGCGAGCGCTTTAGCGCGAGCCTTTAATAAAGTGATAAAGTGAAACGCTACTTTTGACGTGGCACAATGTGAGCCGTAAAACGTGCAGAAAAAAAATAAAAAAAGCCGACAAGCAAATAACGTGGGCCCCACTAAATAAAGACATCGGAAAAAGGTAACATACTATATTATTCTTGCCTTCGTCCCTAAGTTTTGACTGGTCAAAACTTGCGGCGTACTCTATACGCTTCTTATTTGGTATATAAAGTGGTGTATTTTATACGCATTATGGAGTGGTCTTTTAACGCAGTGGTGTACATTATTGTGTACATTTGTACGCTATTCGTTACGCTCGTTAATGGATATTCCGTTATACGAAGTGAACGACTATCCCGGCGTCTACAATCAATTTCTACAGACTTGCGCCAATCGTCTAATTTCTTGGCAATTATCGAAGGTTCAATTGGAGCTCGACGTGAAAGGAATTTCAATCGACCGGAAGGAGCAGCTTCTGAAACTCCAGTAGTTCCTCGAGGAGTTCAAGAAGTTTAATCGGGTTATATCTTATCAACGCAATCATCTAGTGAAGTGTTGTTTGTATTCTACTTTCATTGCCAAATTTAGGTATGGCGGAGCGGAAGAGGAAGATGGAATGGTCGAAAGCGAATCGGAAGAGGAGTCGTACGACTCTGCCGAGGAATTCTAGGGTGTATGCTAGAAAACGACCTATATTGCGAGGTCCTAAATTGACTAGCAGGGATAAGGTTTATACGTATACGAAATACGAGACACTTACTACAGCGGGTGCGGTTTATCATCTCAATAGTTTTAGTCAGGGTTTAGCTAATAATCAACGTGCGACTTCCGTTGATATTGTTCATAATGTTCAGCTTAGGTTTTCTGTTGAGTTACCTACTGGTGCTATGGTTTTTTGTCGTCGTTACAAGATGTCATGGGCTGTTGTTCAAGATATGATGCCGGGAGATAGTATGCCAGCGGTCAGCGATATTTTTAGTATGACTTCTCCTCCTATTGAAGGTTTGGAGTATATTGCTGATGATAATCATCGCAGATTTCAAGTTAAAAAATTTGGAATTTTGTACTTGGAATCTGGTGGTGCTGACTACTCTGTTAATACTGGAAAGCAGACGTACAACGTACAAGATGCTTTGAAAAGGGTCTTCGTGAAGTGCAATACACGCGGTGTGTATGATAGTAACAGCTCTGCTGGTTCTATCAGTGCTATGAATTCTGGGGCTTTGTATTTTGTTGTAAATCCCACTTTCGCTGGGTATTTGGGTTTCAACATTACTGTGTATCATAATTCACCTGTTTAATACAGGTTTTTATTAATAAAGAAGTATTCTACATTTTGTTGTGACCATTCATAGATATCGCTATTCTGTATAGCTGTTTCGTATGATTGATCAGAATTACATAGGATAATAGATGGTATTCCTCCCTTTATTCTACATTTTTTCTTATATTTTTCGTTTACTGTGAAATCCTTTTGTGCTCCTAGGATTTCTTTTTTACATGGTAAAAACTGGAAAGGAATATCATCGAATACATTATATAACGCCGTGTTGTCATAGTTTGACCAGTCGACTCCTCCGCAGTAGTAATTATGTTTTCCCAAGCTTCTTGCCCATGCTGTTTTTCCACATCTCGTTGGACCTTCAATTATTGCGGTGGTGGGTCGGTCTGGTACCAGTTCTGGTTCCTATAAACAAAATATGAAGGTGACTCAGCTTGGTTTTCCCATGCTTCACGAATTTCCATTTTCGTTGTTTCTGATGCCCAGACCAAGTCTGAAAAATCAGCAGTAGGATTGATGTGAAGATAGGTATCGAAGCTTACGCAGTAGAGGTTTTGATCTGCCCAGTGTTGTAAGGACTCTGGAATGCCAATAAAATTTGTCCATCTGGGTTGATAACTCTCAGGGGGTGTGGGCCATTGTTTATCAGCCATGTATTCGAGGTTTCTATAGTTGTTGGCATACGTGTAGGGCTGTTCGGCCAGTACTCTGGTGAGGAAGTCAGACTTGGATGTGGATTCTGAGAGAATTCTTGTCCAGATAGCGTCTCTATTCTTCTTCGGACTTCTTCGGGAAGCTCTAAGAATACCTCTCTCCTCAAAGGTACCCCCCTTGGAAATGTAGTCCGCAACATCTGCATCCCTTCTTGGGATCTGGATGTTTGGATGATAAATTCCCGATCCGTTAGGGTCGGTGATGTCGAAGAACCTCTGGTTCTGCGTCTGAAACCTCTTCTCAGTCTGTACCAGACAGTGGATGTGTGGCTCTCCATCTTGATGGTTTTCCGTACAAGCTCTAACGTATGTGACGTTATAATCTTTTAGTAATTGAAAAAAGTAATCGATAATGAAAATTGGAATTAGAGGACACTTTGGATAGGTTAGAAAAAAGGATTTGCCCTGGATTTTAAAGGAAGAGGGTTGGCGAGGCATAGCTGCTGGCGCTACAGTGCTTTCTATTGTTTATTGTATTACAAGGATGGTGATCAGTTGATCAGTTATATACTAAATTAAATGGGCCGAATAGTGTTGGGCCGATTTATTGGGCTTCGTCAACTGGGGCACATCCTTTTAATATT

Gene Information

NCBI Accession ASU08499.1
Location 285-548
Protein Name hypothetical protein
Coding Region ATGGAGTGGTCTTTTAACGCAGTGGTGTACATTATTGTGTACATTTGTACGCTATTCGTTACGCTCGTTAATGGATATTCCGTTATACGAAGTGAACGACTATCCCGGCGTCTACAATCAATTTCTACAGACTTGCGCCAATCGTCTAATTTCTTGGCAATTATCGAAGGTTCAATTGGAGCTCGACGTGAAAGGAATTTCAATCGACCGGAAGGAGCAGCTTCTGAAACTCCAGTAGTTCCTCGAGGAGTTCAAGAAGTTTAA
Protein Sequence MEWSFNAVVYIIVYICTLFVTLVNGYSVIRSERLSRRLQSISTDLRQSSNFLAIIEGSIGARRERNFNRPEGAASETPVVPRGVQEV

NCBI Accession ASU08500.1
Location 355-522
Protein Name hypothetical protein
Coding Region ATGGATATTCCGTTATACGAAGTGAACGACTATCCCGGCGTCTACAATCAATTTCTACAGACTTGCGCCAATCGTCTAATTTCTTGGCAATTATCGAAGGTTCAATTGGAGCTCGACGTGAAAGGAATTTCAATCGACCGGAAGGAGCAGCTTCTGAAACTCCAGTAG
Protein Sequence MDIPLYEVNDYPGVYNQFLQTCANRLISWQLSKVQLELDVKGISIDRKEQLLKLQ

NCBI Accession ASU08496.1
Location 623-1333
Protein Name capsid protein
Coding Region ATGGCGGAGCGGAAGAGGAAGATGGAATGGTCGAAAGCGAATCGGAAGAGGAGTCGTACGACTCTGCCGAGGAATTCTAGGGTGTATGCTAGAAAACGACCTATATTGCGAGGTCCTAAATTGACTAGCAGGGATAAGGTTTATACGTATACGAAATACGAGACACTTACTACAGCGGGTGCGGTTTATCATCTCAATAGTTTTAGTCAGGGTTTAGCTAATAATCAACGTGCGACTTCCGTTGATATTGTTCATAATGTTCAGCTTAGGTTTTCTGTTGAGTTACCTACTGGTGCTATGGTTTTTTGTCGTCGTTACAAGATGTCATGGGCTGTTGTTCAAGATATGATGCCGGGAGATAGTATGCCAGCGGTCAGCGATATTTTTAGTATGACTTCTCCTCCTATTGAAGGTTTGGAGTATATTGCTGATGATAATCATCGCAGATTTCAAGTTAAAAAATTTGGAATTTTGTACTTGGAATCTGGTGGTGCTGACTACTCTGTTAATACTGGAAAGCAGACGTACAACGTACAAGATGCTTTGAAAAGGGTCTTCGTGAAGTGCAATACACGCGGTGTGTATGATAGTAACAGCTCTGCTGGTTCTATCAGTGCTATGAATTCTGGGGCTTTGTATTTTGTTGTAAATCCCACTTTCGCTGGGTATTTGGGTTTCAACATTACTGTGTATCATAATTCACCTGTTTAA
Protein Sequence MAERKRKMEWSKANRKRSRTTLPRNSRVYARKRPILRGPKLTSRDKVYTYTKYETLTTAGAVYHLNSFSQGLANNQRATSVDIVHNVQLRFSVELPTGAMVFCRRYKMSWAVVQDMMPGDSMPAVSDIFSMTSPPIEGLEYIADDNHRRFQVKKFGILYLESGGADYSVNTGKQTYNVQDALKRVFVKCNTRGVYDSNSSAGSISAMNSGALYFVVNPTFAGYLGFNITVYHNSPV

NCBI Accession ASU08498.1
Location NA
Protein Name replication-associated protein
Coding Region ATGCCTCGCCAACCCTCTTCCTTTAAAATCCAGGGCAAATCCTTTTTTCTAACCTATCCAAAGTGTCCTCTAATTCCAATTTTCATTATCGATTACTTTTTTCAATTACTAAAAGATTATAACGTCACATACGTTAGAGCTTGTACGGAAAACCATCAAGATGGAGAGCCACACATCCACTGTCTGGTACAGACTGAGAAGAGGTTTCAGACGCAGAACCAGAGGTTCTTCGACATCACCGACCCTAACGGATCGGGAATTTATCATCCAAACATCCAGATCCCAAGAAGGGATGCAGATGTTGCGGACTACATTTCCAAGGGGGGTACCTTTGAGGAGAGAGGTATTCTTAGAGCTTCCCGAAGAAGTCCGAAGAAGAATAGAGACGCTATCTGGACAAGAATTCTCTCAGAATCCACATCCAAGTCTGACTTCCTCACCAGAGTACTGGCCGAACAGCCCTACACGTATGCCAACAACTATAGAAACCTCGAATACATGGCTGATAAACAATGGCCCACACCCCCTGAGAGTTATCAACCCAGATGGACAAATTTTATTGGCATTCCAGAGTCCTTACAACACTGGGCAGATCAAAACCTCTACTGCGAACCAGAACTGGTACCAGACCGACCCACCACCGCAATAATTGAAGGTCCAACGAGATGTGGAAAAACAGCATGGGCAAGAAGCTTGGGAAAACATAATTACTACTGCGGAGGAGTCGACTGGTCAAACTATGACAACACGGCGTTATATAATGTATTCGATGATATTCCTTTCCAGTTTTTACCATGTAAAAAAGAAATCCTAGGAGCACAAAAGGATTTCACAGTAAACGAAAAATATAAGAAAAAATGTAGAATAAAGGGAGGAATACCATCTATTATCCTATGTAATTCTGATCAATCATACGAAACAGCTATACAGAATAGCGATATCTATGAATGGTCACAACAAAATGTAGAATACTTCTTTATTAATAAAAACCTGTATTAA
Protein Sequence MPRQPSSFKIQGKSFFLTYPKCPLIPIFIIDYFFQLLKDYNVTYVRACTENHQDGEPHIHCLVQTEKRFQTQNQRFFDITDPNGSGIYHPNIQIPRRDADVADYISKGGTFEERGILRASRRSPKKNRDAIWTRILSESTSKSDFLTRVLAEQPYTYANNYRNLEYMADKQWPTPPESYQPRWTNFIGIPESLQHWADQNLYCEPELVPDRPTTAIIEGPTRCGKTAWARSLGKHNYYCGGVDWSNYDNTALYNVFDDIPFQFLPCKKEILGAQKDFTVNEKYKKKCRIKGGIPSIILCNSDQSYETAIQNSDIYEWSQQNVEYFFINKNLY

NCBI Accession ASU08497.1
Location 1680-2465
Protein Name RepA
Coding Region ATGCCTCGCCAACCCTCTTCCTTTAAAATCCAGGGCAAATCCTTTTTTCTAACCTATCCAAAGTGTCCTCTAATTCCAATTTTCATTATCGATTACTTTTTTCAATTACTAAAAGATTATAACGTCACATACGTTAGAGCTTGTACGGAAAACCATCAAGATGGAGAGCCACACATCCACTGTCTGGTACAGACTGAGAAGAGGTTTCAGACGCAGAACCAGAGGTTCTTCGACATCACCGACCCTAACGGATCGGGAATTTATCATCCAAACATCCAGATCCCAAGAAGGGATGCAGATGTTGCGGACTACATTTCCAAGGGGGGTACCTTTGAGGAGAGAGGTATTCTTAGAGCTTCCCGAAGAAGTCCGAAGAAGAATAGAGACGCTATCTGGACAAGAATTCTCTCAGAATCCACATCCAAGTCTGACTTCCTCACCAGAGTACTGGCCGAACAGCCCTACACGTATGCCAACAACTATAGAAACCTCGAATACATGGCTGATAAACAATGGCCCACACCCCCTGAGAGTTATCAACCCAGATGGACAAATTTTATTGGCATTCCAGAGTCCTTACAACACTGGGCAGATCAAAACCTCTACTGCGTAAGCTTCGATACCTATCTTCACATCAATCCTACTGCTGATTTTTCAGACTTGGTCTGGGCATCAGAAACAACGAAAATGGAAATTCGTGAAGCATGGGAAAACCAAGCTGAGTCACCTTCATATTTTGTTTATAGGAACCAGAACTGGTACCAGACCGACCCACCACCGCAATAA
Protein Sequence MPRQPSSFKIQGKSFFLTYPKCPLIPIFIIDYFFQLLKDYNVTYVRACTENHQDGEPHIHCLVQTEKRFQTQNQRFFDITDPNGSGIYHPNIQIPRRDADVADYISKGGTFEERGILRASRRSPKKNRDAIWTRILSESTSKSDFLTRVLAEQPYTYANNYRNLEYMADKQWPTPPESYQPRWTNFIGIPESLQHWADQNLYCVSFDTYLHINPTADFSDLVWASETTKMEIREAWENQAESPSYFVYRNQNWYQTDPPPQ

References More References in PubMed

1

Tomato leaf curl Palampur virus: an emerging begomovirus threatening tomato and cucurbit production.

Roy A, et al.  Mol Biol Rep. 2026 Apr 24;53(1):658. doi: 10.1007/s11033-026-11845-4.

PMID: 42029785
2

Characterization of a recombinant tomato leaf curl New Delhi Virus (ToLCNDV) in a perennial medicinal climber host (Ipomoea cairica (L.) Sweet).

Rauniyar N, et al.  3 Biotech. 2023 Jan;13(1):3. doi: 10.1007/s13205-022-03418-6. Epub 2022 Dec 10.

PMID: 36514482
3

A dominant mutation in tomato DNA POLYMERASE DELTA 1 causes geminivirus DNA replication catastrophe.

Gustian D, et al.  Proc Natl Acad Sci U S A. 2026 Sep;123(35):e2531841123. doi: 10.1073/pnas.2531841123. Epub 2026 Aug 24.

PMID: 42636372
4

Resistance gene Ty-1 restricts TYLCV infection in tomato by increasing RNA silencing.

Ma X, et al.  Virol J. 2024 Oct 16;21(1):256. doi: 10.1186/s12985-024-02508-6.

PMID: 39415211
5

Breakdown of Ty-1-Based Resistance to Tomato Yellow Leaf Curl Virus in Tomato Plants at High Temperatures.

Koeda S, et al.  Phytopathology. 2024 Jan;114(1):294-303. doi: 10.1094/PHYTO-04-23-0119-R. Epub 2024 Feb 12.

PMID: 37321561
6

Tomato auxin biosynthesis/signaling is reprogrammed by the geminivirus to enhance its pathogenicity.

Vinutha T, et al.  Planta. 2020 Sep 17;252(4):51. doi: 10.1007/s00425-020-03452-9.

PMID: 32940767
7

Crinivirus Tomato Chlorosis Virus Compromises the Control of Tomato Yellow Leaf Curl Virus in Tomato Plants by the Ty-1 Gene.

Fortes IM, et al.  Phytopathology. 2023 Jul;113(7):1347-1359. doi: 10.1094/PHYTO-09-22-0334-R. Epub 2023 Aug 29.

PMID: 36690608
8

Cy-1, a major QTL for tomato leaf curl New Delhi virus resistance, harbors a gene encoding a DFDGD-Class RNA-dependent RNA polymerase in cucumber (Cucumis sativus).

Koeda S, et al.  BMC Plant Biol. 2024 Oct 2;24(1):879. doi: 10.1186/s12870-024-05591-7.

PMID: 39358692
9

Sucrose Nonfermenting 1-Related Protein Kinase 1 Phosphorylates a Geminivirus Rep Protein to Impair Viral Replication and Infection.

Shen W, et al.  Plant Physiol. 2018 Sep;178(1):372-389. doi: 10.1104/pp.18.00268. Epub 2018 Jul 13.

PMID: 30006378
10

Deciphering gene specific molecular characterization and partial gene sequence for combined resistance to tomato leaf curl virus (ToLCV) (Ty-1, Ty-2 and Ty-3), fusarium wilt (I-2) and root- knot nematode (Mi-1) in selected fresh market breeding line of tomato (Solanum lycopersicom L.).

Nithyanandam A, et al.  Mol Biol Rep. 2024 Dec 18;52(1):59. doi: 10.1007/s11033-024-10150-2.

PMID: 39692918