Genomic structure of the NtPDR1 gene, harboring the two miniature inverted-repeat transposable elements, NtToya1 and NtStowaway101

Dirk Schenke, Michiko Sasabe, Kazuhiro Toyoda, Yoshi Shige Inagaki, Tomonori Shiraishi, Yuki Ichinose

Research output: Contribution to journalArticle

19 Citations (Scopus)

Abstract

Here we report the genomic structure including the promoter sequence and coding region of NtPDR1 (Nicotiana tabacum Pleiotropic Drug Resistance 1), which is an elicitor-responsive gene encoding an ATP binding cassette (ABC) transporter that might be involved in the defense response in tobacco, as we reported recently. The NtPDR1 gene consists of 20 exons and 19 introns. Among the introns, the first and fifth are much larger than the others and harbor typical miniature inverted-repeat transposable elements (MITEs). One of the MITE elements in the first intron, termed NtToya1, belongs to the Toya family that was recently described in rice, while the other element in the fifth intron, termed NtStowaway101, shows high homology with the Stowaway elements of the IS630-Tc1-mariner family. Many of the genes we found to harbor Toya and Stowaway elements in Nicotiana species by BLAST search are also involved in stress responses or plant-pathogen interactions. The existence of putative cis-elements (a GCC box, three W boxes, and several JA-responsive elements) in the promoter region supports our previous finding that this gene is strongly inducible by elicitation and methyljasmonate, and that this ABC transporter might be essential for plant defense responses. Furthermore, Southern blot analysis and PCR amplification of the introns harboring the MITE-like elements from genomic DNA of three Nicotiana species suggests that NtPDR1 originated from N. sylvestris.

Original languageEnglish
Pages (from-to)409-418
Number of pages10
JournalGenes and Genetic Systems
Volume78
Issue number6
DOIs
Publication statusPublished - Dec 2003

Fingerprint

miniature inverted repeat transposable elements
DNA Transposable Elements
drug resistance
Drug Resistance
Nicotiana tabacum
Introns
Tobacco
introns
Genes
genomics
ABC transporters
ATP-Binding Cassette Transporters
Pharmaceutical Preparations
Nicotiana
Ports and harbors
genes
promoter regions
Nicotiana sylvestris
Gene encoding
Pathogens

Keywords

  • ABC transporter
  • Genomic structure
  • MITE
  • Nicotiana tabacum
  • NtPDR1

ASJC Scopus subject areas

  • Agricultural and Biological Sciences(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Biochemistry
  • Genetics
  • Genetics(clinical)

Cite this

Genomic structure of the NtPDR1 gene, harboring the two miniature inverted-repeat transposable elements, NtToya1 and NtStowaway101. / Schenke, Dirk; Sasabe, Michiko; Toyoda, Kazuhiro; Inagaki, Yoshi Shige; Shiraishi, Tomonori; Ichinose, Yuki.

In: Genes and Genetic Systems, Vol. 78, No. 6, 12.2003, p. 409-418.

Research output: Contribution to journalArticle

@article{a909cefbbd0547648d336577b801523c,
title = "Genomic structure of the NtPDR1 gene, harboring the two miniature inverted-repeat transposable elements, NtToya1 and NtStowaway101",
abstract = "Here we report the genomic structure including the promoter sequence and coding region of NtPDR1 (Nicotiana tabacum Pleiotropic Drug Resistance 1), which is an elicitor-responsive gene encoding an ATP binding cassette (ABC) transporter that might be involved in the defense response in tobacco, as we reported recently. The NtPDR1 gene consists of 20 exons and 19 introns. Among the introns, the first and fifth are much larger than the others and harbor typical miniature inverted-repeat transposable elements (MITEs). One of the MITE elements in the first intron, termed NtToya1, belongs to the Toya family that was recently described in rice, while the other element in the fifth intron, termed NtStowaway101, shows high homology with the Stowaway elements of the IS630-Tc1-mariner family. Many of the genes we found to harbor Toya and Stowaway elements in Nicotiana species by BLAST search are also involved in stress responses or plant-pathogen interactions. The existence of putative cis-elements (a GCC box, three W boxes, and several JA-responsive elements) in the promoter region supports our previous finding that this gene is strongly inducible by elicitation and methyljasmonate, and that this ABC transporter might be essential for plant defense responses. Furthermore, Southern blot analysis and PCR amplification of the introns harboring the MITE-like elements from genomic DNA of three Nicotiana species suggests that NtPDR1 originated from N. sylvestris.",
keywords = "ABC transporter, Genomic structure, MITE, Nicotiana tabacum, NtPDR1",
author = "Dirk Schenke and Michiko Sasabe and Kazuhiro Toyoda and Inagaki, {Yoshi Shige} and Tomonori Shiraishi and Yuki Ichinose",
year = "2003",
month = "12",
doi = "10.1266/ggs.78.409",
language = "English",
volume = "78",
pages = "409--418",
journal = "Genes and Genetic Systems",
issn = "1341-7568",
publisher = "Genetics Society of Japan",
number = "6",

}

TY - JOUR

T1 - Genomic structure of the NtPDR1 gene, harboring the two miniature inverted-repeat transposable elements, NtToya1 and NtStowaway101

AU - Schenke, Dirk

AU - Sasabe, Michiko

AU - Toyoda, Kazuhiro

AU - Inagaki, Yoshi Shige

AU - Shiraishi, Tomonori

AU - Ichinose, Yuki

PY - 2003/12

Y1 - 2003/12

N2 - Here we report the genomic structure including the promoter sequence and coding region of NtPDR1 (Nicotiana tabacum Pleiotropic Drug Resistance 1), which is an elicitor-responsive gene encoding an ATP binding cassette (ABC) transporter that might be involved in the defense response in tobacco, as we reported recently. The NtPDR1 gene consists of 20 exons and 19 introns. Among the introns, the first and fifth are much larger than the others and harbor typical miniature inverted-repeat transposable elements (MITEs). One of the MITE elements in the first intron, termed NtToya1, belongs to the Toya family that was recently described in rice, while the other element in the fifth intron, termed NtStowaway101, shows high homology with the Stowaway elements of the IS630-Tc1-mariner family. Many of the genes we found to harbor Toya and Stowaway elements in Nicotiana species by BLAST search are also involved in stress responses or plant-pathogen interactions. The existence of putative cis-elements (a GCC box, three W boxes, and several JA-responsive elements) in the promoter region supports our previous finding that this gene is strongly inducible by elicitation and methyljasmonate, and that this ABC transporter might be essential for plant defense responses. Furthermore, Southern blot analysis and PCR amplification of the introns harboring the MITE-like elements from genomic DNA of three Nicotiana species suggests that NtPDR1 originated from N. sylvestris.

AB - Here we report the genomic structure including the promoter sequence and coding region of NtPDR1 (Nicotiana tabacum Pleiotropic Drug Resistance 1), which is an elicitor-responsive gene encoding an ATP binding cassette (ABC) transporter that might be involved in the defense response in tobacco, as we reported recently. The NtPDR1 gene consists of 20 exons and 19 introns. Among the introns, the first and fifth are much larger than the others and harbor typical miniature inverted-repeat transposable elements (MITEs). One of the MITE elements in the first intron, termed NtToya1, belongs to the Toya family that was recently described in rice, while the other element in the fifth intron, termed NtStowaway101, shows high homology with the Stowaway elements of the IS630-Tc1-mariner family. Many of the genes we found to harbor Toya and Stowaway elements in Nicotiana species by BLAST search are also involved in stress responses or plant-pathogen interactions. The existence of putative cis-elements (a GCC box, three W boxes, and several JA-responsive elements) in the promoter region supports our previous finding that this gene is strongly inducible by elicitation and methyljasmonate, and that this ABC transporter might be essential for plant defense responses. Furthermore, Southern blot analysis and PCR amplification of the introns harboring the MITE-like elements from genomic DNA of three Nicotiana species suggests that NtPDR1 originated from N. sylvestris.

KW - ABC transporter

KW - Genomic structure

KW - MITE

KW - Nicotiana tabacum

KW - NtPDR1

UR - http://www.scopus.com/inward/record.url?scp=1542378140&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=1542378140&partnerID=8YFLogxK

U2 - 10.1266/ggs.78.409

DO - 10.1266/ggs.78.409

M3 - Article

C2 - 14973342

AN - SCOPUS:1542378140

VL - 78

SP - 409

EP - 418

JO - Genes and Genetic Systems

JF - Genes and Genetic Systems

SN - 1341-7568

IS - 6

ER -