IP Library › Granted Patent US 12660788
Granted Patent B2
US 12660788 · App. 17/799,398 · Granted Jun 23, 2026

Tobamovirus-resistant tomato plant, method for producing Tobamovirus-resistant tomato plant, method for imparting Tobamovirus resistance in tomato plant, method for screening for Tobamovirus-resistant tomato plant, and method for detecting Tobamovirus resistance in tomato plant

Inventors: Masayuki Ishikawa (Tsukuba, JP); Kazuhiro Ishibashi (Tsukuba, JP); Akihito Kano (Kyoto, JP)
Assignees: National Agriculture and Food Research Organization; Takii & Company Limited
A01H6/825A01H1/126A01H5/08C07K14/415
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Quick Facts
Patent No.
US 12660788
App. No.
17/799,398
Granted
Jun 23, 2026
Kind
B2
Abstract

The present invention provides a tomato plant which is resistant to ToBRFV. A Tobamovirus resistant tomato plant of the present invention is with loss of function for a SlTOM1a gene, a SlTOM1c gene, and a SlTOM1d gene.

Claims (80)

1 . A method for producing a Tobamovirus resistant tomato plant, comprising the following step (a):

(a) crossing a Tobamovirus resistant tomato plant with another tomato plant,

wherein the Tobamovirus resistant tomato plant comprises a loss-of-function for a Solanum lycopersicum TOM1a (SITOM1a) gene, a Solanum lycopersicum TOM1c (SITOM1c) gene, and a Solanum lycopersicum TOM1d (SITOM1d) gene, wherein

the SITOM1a gene is a Tobamovirus resistance control gene comprising the following polynucleotide (NA):

(NA) any of the following polynucleotides (NA1) to (NA3) and (NA5) to (NA7):

(NA1) a polynucleotide consisting of a base sequence of SEQ ID NO: 1 or 2;

(NA2) a polynucleotide consisting of a base sequence obtained by deletion, substitution, insertion, and/or addition of 1 to 26 bases in a base sequence of the polynucleotide (NA1), and encoding a protein having Tobamovirus resistance control activity;

(NA3) a polynucleotide consisting of a base sequence having at least 98% sequence identity to the base sequence of the polynucleotide (NA1), and encoding a protein having Tobamovirus resistance control activity;

(NA5) a polynucleotide encoding a protein consisting of an amino acid sequence of SEQ ID NO: 3;

(NA6) a polynucleotide encoding a protein consisting of an amino acid sequence obtained by deletion, substitution, insertion, and/or addition of 1 to 6 amino acids in the amino acid sequence of SEQ ID NO: 3, and having Tobamovirus resistance control activity; and

(NA7) a polynucleotide encoding a protein consisting of an amino acid sequence having at least 98% sequence identity to the amino acid sequence of SEQ ID NO: 3, and having Tobamovirus resistance control activity,

the SITOM1c gene is a Tobamovirus resistance control gene comprising the following polynucleotide (NC):

(NC) any of the following polynucleotides (NC1) to (NC3) and (NC5) to (NC7):

(NC1) a polynucleotide consisting of a base sequence of SEQ ID NO:7 or 8;

(NC2) a polynucleotide consisting of a base sequence obtained by deletion, substitution, insertion, and/or addition of 1 to 26 bases in a base sequence of the polynucleotide (NC1), and encoding a protein having Tobamovirus resistance control activity;

(NC3) a polynucleotide consisting of a base sequence having at least 98% sequence identity to the base sequence of the polynucleotide (NC1), and encoding a protein having Tobamovirus resistance control activity;

(NC5) a polynucleotide encoding a protein consisting of an amino acid sequence of SEQ ID NO: 9;

(NC6) a polynucleotide encoding a protein consisting of an amino acid sequence obtained by deletion, substitution, insertion, and/or addition of 1 to 6 amino acids in the amino acid sequence of SEQ ID NO: 9, and having Tobamovirus resistance control activity; and

(NC7) a polynucleotide encoding a protein consisting of an amino acid sequence having at least 98% sequence identity to the amino acid sequence of SEQ ID NO: 9, and having Tobamovirus resistance control activity,

the SITOM1d gene is a Tobamovirus resistance control gene comprising the following polynucleotide (ND):

(ND) any of the following polynucleotides (ND1) to (ND3) and (ND5) to (ND7):

(ND1) a polynucleotide consisting of a base sequence of SEQ ID NO: 10;

(ND2) a polynucleotide consisting of a base sequence obtained by deletion, substitution, insertion, and/or addition of 1 to 26 bases in a base sequence of the polynucleotide (ND1), and encoding a protein having Tobamovirus resistance control activity;

(ND3) a polynucleotide consisting of a base sequence having at least 98% sequence identity to the base sequence of the polynucleotide (ND1), and encoding a protein having Tobamovirus resistance control activity;

(ND5) a polynucleotide encoding a protein consisting of an amino acid sequence of SEQ ID NO: 11;

(ND6) a polynucleotide consisting of an amino acid sequence obtained by deletion, substitution, insertion, and/or addition of 1 to 6 amino acids in the amino acid sequence of SEQ ID NO: 11, and encoding a protein having Tobamovirus resistance control activity; and

(ND7) a polynucleotide consisting of an amino acid sequence having at least 98% sequence identity to the amino acid sequence of SEQ ID NO: 11, and encoding a protein having Tobamovirus resistance control activity,

the Tobamovirus is Tomato mosaic virus (ToMV), or Tomato brown rugose fruit virus (ToBRFV), and

the loss of function for the SITOM1a gene, the SITOM1c gene, and the SITOM1d gene is caused by introducing deletion, substitution, insertion, and/or addition of nucleotides into said genes itself.

2 . The production method according to claim 1 , comprising the following step (b):

(b) selecting for a Tobamovirus resistant tomato plant from one or more tomato plants obtained in the step (a) or one or more progeny lines thereof.

3 . The production method according to claim 1 , further comprising the following step (x) prior to the step (a):

(x) selecting for the Tobamovirus resistant tomato plant from one or more tomato plants to be examined.

4 . A method for screening a Tobamovirus resistant tomato plant, comprising the step of:

selecting for a tomato plant to be examined with loss of function for a SITOM1a gene, a SITOM1c gene, and a SITOM1d gene from one or more tomato plants to be examined as a Tobamovirus resistant tomato plant, wherein

the SITOM1a gene is a Tobamovirus resistance control gene comprising the following polynucleotide (NA):

(NA) any of the following polynucleotides (NA1) to (NA3) and (NA5) to (NA7):

(NA1) a polynucleotide consisting of a base sequence of SEQ ID NO: 1 or 2;

(NA2) a polynucleotide consisting of a base sequence obtained by deletion, substitution, insertion, and/or addition of 1 to 26 bases in a base sequence of the polynucleotide (NA1), and encoding a protein having Tobamovirus resistance control activity;

(NA3) a polynucleotide consisting of a base sequence having at least 98% sequence identity to the base sequence of the polynucleotide (NA1), and encoding a protein having Tobamovirus resistance control activity;

(NA5) a polynucleotide encoding a protein consisting of an amino acid sequence of SEQ ID NO: 3;

(NA6) a polynucleotide encoding a protein consisting of an amino acid sequence obtained by deletion, substitution, insertion, and/or addition of 1 to 6 amino acids in the amino acid sequence of SEQ ID NO: 3, and having Tobamovirus resistance control activity; and

(NA7) a polynucleotide encoding a protein consisting of an amino acid sequence having at least 98% sequence identity to the amino acid sequence of SEQ ID NO: 3, and having Tobamovirus resistance control activity,

the SITOM1c gene is a Tobamovirus resistance control gene comprising the following polynucleotide (NC):

(NC) any of the following polynucleotides (NC1) to (NC3) and (NC5) to (NC7):

(NC1) a polynucleotide consisting of a base sequence of SEQ ID NO:7 or 8;

(NC2) a polynucleotide consisting of a base sequence obtained by deletion, substitution, insertion, and/or addition of 1 to 26 bases in a base sequence of the polynucleotide (NC1), and encoding a protein having Tobamovirus resistance control activity;

(NC3) a polynucleotide consisting of a base sequence having at least 98% sequence identity to the base sequence of the polynucleotide (NC1), and encoding a protein having Tobamovirus resistance control activity;

(NC5) a polynucleotide encoding a protein consisting of an amino acid sequence of SEQ ID NO: 9;

(NC6) a polynucleotide encoding a protein consisting of an amino acid sequence obtained by deletion, substitution, insertion, and/or addition of 1 to 6 amino acids in the amino acid sequence of SEQ ID NO: 9, and having Tobamovirus resistance control activity; and

(NC7) a polynucleotide encoding a protein consisting of an amino acid sequence having at least 98% sequence identity to the amino acid sequence of SEQ ID NO: 9, and having Tobamovirus resistance control activity, and

the SITOM1d gene is a Tobamovirus resistance control gene comprising the following polynucleotide (ND):

(ND) any of the following polynucleotides (ND1) to (ND3) and (ND5) to (ND7):

(ND1) a polynucleotide consisting of a base sequence of SEQ ID NO: 10;

(ND2) a polynucleotide consisting of a base sequence obtained by deletion, substitution, insertion, and/or addition of 1 to 26 bases in a base sequence of the polynucleotide (ND1), and encoding a protein having Tobamovirus resistance control activity;

(ND3) a polynucleotide consisting of a base sequence having at least 98% sequence identity to the base sequence of the polynucleotide (ND1), and encoding a protein having Tobamovirus resistance control activity;

(ND5) a polynucleotide encoding a protein consisting of an amino acid sequence of SEQ ID NO: 11;

(ND6) a polynucleotide consisting of an amino acid sequence obtained by deletion, substitution, insertion, and/or addition of 1 to 6 amino acids in the amino acid sequence of SEQ ID NO: 11, and encoding a protein having Tobamovirus resistance control activity; and

(ND7) a polynucleotide consisting of an amino acid sequence having at least 98% sequence identity to the amino acid sequence of SEQ ID NO: 11, and encoding a protein having Tobamovirus resistance control activity,

the Tobamovirus is Tomato mosaic virus (ToMV), or Tomato brown rugose fruit virus (ToBRFV), and

the loss of function for the SITOM1a gene, the SITOM1c gene, and the SITOM1d gene is caused by introducing deletion, substitution, insertion, and/or addition of nucleotides into said genes itself.

5 . The method according to claim 1 , wherein the Tobamovirus resistant tomato plant comprises the loss-of-function gene for a SITOM1a gene, the loss-of-function gene for a SITOM1c gene, and the loss-of-function gene for a SITOM1d gene in a homozygous form.

6 . The method according to claim 1 , wherein the Tobamovirus resistant tomato plant is a plant body or a part thereof.

7 . The method according to claim 1 , wherein the Tobamovirus resistant tomato plant is a seed.

8 . The method according to claim 1 , wherein the Tobamovirus is Tomato mosaic virus (ToMV).

9 . The method according to claim 1 , wherein the Tobamovirus is Tomato brown rugose fruit virus (ToBRFV).

10 . The method according to claim 1 , wherein the Tobamovirus resistant tomato plant comprises a loss-of-function for a Solanum lycopersicum TOM1b (SITOM1b) gene,

wherein the SITOM1b gene is a Tobamovirus resistance control gene comprising the following polynucleotide (NB):

(NB) any of the following polynucleotides (NB1) to (NB3) and (NB5) to (NB7):

(NB1) a polynucleotide consisting of a base sequence of SEQ ID NO: 4 or 5;

(NB2) a polynucleotide consisting of a base sequence obtained by deletion, substitution, insertion, and/or addition of 1 to 26 bases in a base sequence of the polynucleotide (NB1), and encoding a protein having Tobamovirus resistance control activity;

(NB3) a polynucleotide consisting of a base sequence having at least 98% sequence identity to the base sequence of the polynucleotide (NB1), and encoding a protein having Tobamovirus resistance control activity;

(NB5) a polynucleotide encoding a protein consisting of an amino acid sequence of SEQ ID NO: 6;

(NB6) a polynucleotide encoding a protein consisting of an amino acid sequence obtained by deletion, substitution, insertion, and/or addition of 1 to 6 amino acids in the amino acid sequence of SEQ ID NO: 6, and encoding a protein having Tobamovirus resistance control activity; and

(NB7) a polynucleotide encoding a protein consisting of an amino acid sequence having at least 98% sequence identity to the amino acid sequence of SEQ ID NO: 6, and encoding a protein having Tobamovirus resistance control activity, and

the loss of function for the SITOM1b gene is caused by introducing deletion, substitution, insertion, and/or addition of nucleotides into said genes itself.

11 . The method according to claim 10 , wherein the Tobamovirus resistant tomato plant comprises the loss-of-function gene for a SITOM1b gene in a homozygous form.

12 . The method according to claim 10 , wherein the Tobamovirus resistant tomato plant comprises:

the loss-of-function gene for a SITOM1a gene, the loss-of-function gene for a SITOM1b gene, and the loss-of-function gene for a SITOM1c gene in a homozygous form, and

the loss-of-function gene for a SITOM1d gene in a heterozygous form.